Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01004169.1 Kokia drynarioides strain JFW-HI SEQ_117399, 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: 3224
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Found at i:391 original size:216 final size:214
Alignment explanation
Indices: 13--3224 Score: 2641
Period size: 216 Copynumber: 14.9 Consensus size: 214
3 TTTTATTTTT
* *
13 GTAAACAACTTTTGGTCTTTGAATTGAAAACTTATTTACGCGAGAATTGTTTCTCTCTTGGTT-T
1 GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT
* * *
77 CTGGAAGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAATTA
66 -TGG-CGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * * * * * *
142 TTCAAGCCGATCC-TATCCTTCGACCAGTTTTTCGAACATTCAATGCTCGAAAAATCGCATTATT
129 TTCAAGACGATCCAT-TCCTTTGAGCAATTTTTCGAACATTCCATGCTCG-GAAATCGCATCATT
* *
206 TGGTCTAAATAATTTGTCAATTC
192 TGGTCTAAATAGTTTGTCATTTC
* * * *
229 GTAAACAACTTTTGCTCTTTCAATTAAAAACTTATTTACGTGAGAACTGTTTCTCTCTTTGTTCT
1 GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT
* * *
294 TGGCTGAACTTTCGAACTTGTCAACCTTTTATGAGTTCTTTTATAACTTCAGTTCCTTAAAGTAT
66 TGGC-GAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * * *
359 TCAAGACGATTCATTCCTTCGAGCAATTTTTCGAACATTCTACGCTAGGGAAATCGCATCGTTTG
130 TCAAGACGATCCATTCCTTTGAGCAATTTTTCGAACATTCCATGCT-CGGAAATCGCATCATTTG
* * *
424 GTCTAATTAGTTTTTCATTTT
194 GTCTAAATAGTTTGTCATTTC
* * * * * *
445 GTAATCAACTTTTCGTCTTTAAATTAAAAA--TATTTACATTACAATTGTTTCTCTCTTGGTTCT
1 GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT
* * * *
508 TGGACGAAC-TTCTAAACTTGTCAAACTTTTTATC-AGTTCCTTTATACCTTCGGTTCCTTAAAC
66 TGG-CGAACTTTC-GAACTTGTCAAAC-TTTTA-CGAGTTCTTTTATAACTTCGGTTCCTTAAAG
* ** * * * * *
571 TATTAAAGGTGATTCATTCCTTTGTGCAATTTGT-AAAGCATT-CATGCCCGAGAAAT-GACATC
127 TATTCAAGACGATCCATTCCTTTGAGCAATTTTTCGAA-CATTCCATGCTCG-GAAATCG-CATC
* * *
633 TTTTGGTCTAAATAGGTTATCATTTTC
189 ATTTGGTCTAAATAGTTTGTCA-TTTC
*
660 -TAAACAA-TTATTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCATGGTGT
1 GTAAACAACTT-TTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGT-T
* ** * ** * * ** * *
723 -TTGGACGAACTTTTGTTCTTG-CGGAAA-ATTTAATAGCTCTTTTGTAACTTAAGTTCCTGAGA
64 CTTGG-CGAACTTTCGAACTTGTC--AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAA
* * * * * *
785 GTACTCAAGACGATCCATTCCTTCGACCAATTTTTCGAACTTTCCATGCTCGGGAATCGTATCAT
126 GTATTCAAGACGATCCATTCCTTTGAGCAATTTTTCGAACATTCCATGCTCGGAAATCGCATCAT
* * * *
850 TCGGTCTAAAAACTTTGTCATCAT-
191 TTGGTCTAAATAGTTTGTCAT-TTC
* * * *
874 GTAAACAACTTTTAGTCTTCGAATTAAAAACCTATTTATGTGAGAATTGTTTCTCT-TGTGGTTC
1 GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT-TGGTTC
* * * * * *
938 TAGGACGAACTTACAAACTAGTCGAACTTTTACGAGTTC-------A-TT--G----ATAAAGTA
65 TTGG-CGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * * * * * *
989 TTCAAGACTATCCATTCCTTTAAGCCATTTTTTGAACATTCCATGCTCCGAAAATCGTATCTTTT
129 TTCAAGACGATCCATTCCTTTGAGCAATTTTTCGAACATTCCATGCT-CGGAAATCGCATCATTT
* *
1054 GGTCTAAATAGTTTGTGATTTT
193 GGTCTAAATAGTTTGTCATTTC
* * * *
1076 GCAAACAAATTTTGGTCTTTAAATTAAAAACTAATTTACGTGAGAATTGTTTCTCTCTTGGTT-T
1 GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT
* * * * * * * *
1140 CGGACGAACTTACGGACTAGTCAAACTTTTACGAGTTCTTTTACAACTTTGGTTCCTTACAGTGT
66 TGG-CGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * *
1205 TCAAGACTATCCATTCATTTGAGCCATTTTCCGAGCATTCCATGCTCGAGAAATCGCATCATTTG
130 TCAAGACGATCCATTCCTTTGAGCAATTTTTCGAACATTCCATGCTCG-GAAATCGCATCATTTG
1270 GTCTAAATAGTTTGTCATTTC
194 GTCTAAATAGTTTGTCATTTC
* * * ****
1291 ATAAACAACTTTTGGTCTTTTAATTAAAAAACTTATTTACGAGAGAATTGTTTCTCTCCCAATTC
1 GTAAACAACTTTTGGTCTTTGAATT-AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * ** * **
1356 TTGGATGAAC-TTCTGAACTTTTCAAAAATTTACAAGTTCTTTTATAACTTTTGTTCC-TAATAG
65 TTGG-CGAACTTTC-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAA-AG
* * * * ** * * * *
1419 TATTTAACAAGATGCATTCCTTCAACCAATTTTTCGAACATTCCATTCTCGAAAAATTGCATCAT
127 TATTCAAGACGATCCATTCCTTTGAGCAATTTTTCGAACATTCCATGCTCG-GAAATCGCATCAT
* * *
1484 TTGGTCAAAATAGTTTGGT-ATATG
191 TTGGTCTAAATAGTTT-GTCATTTC
* * * *
1508 GTAAACAACTTTTGGTGTTTGAATTTAAAATTTATTTGCGTGAGAATAT-TTTCTCTCTTGGTTC
1 GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAT-TGTTTCTCTCTTGGTTC
** * * ** * * *
1572 TTGGATTAACTTTCAAACTTTTCAAAAATTTACAAGTTCTTTTATTATAACTTTGGTT-CTTGAG
65 TTGG-CGAACTTTCGAACTTGTCAAACTTTTACGAGTTC--TT-TTATAACTTCGGTTCCTT-AA
* * * *
1636 AGTATTAAAGACGATCCATTCCTTTGTGCAATTTTTCAAACATTCTATGCTCCGGAAATCGCATC
125 AGTATTCAAGACGATCCATTCCTTTGAGCAATTTTTCGAACATTCCATGCT-CGGAAATCGCATC
*
1701 ATTTGGTCTAAATAGTTTGTCATTTT
189 ATTTGGTCTAAATAGTTTGTCATTTC
* *
1727 GTAAA-AACCTTTTGGTCTTTGAATTAAAAAAACTTATTTACATGAGGATTGTTTCTCTCTTGGT
1 GTAAACAA-CTTTTGGTCTTTGAATT--AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGT
* * ** * * *
1791 TCTTGGACGAAC-ATCATAACTTGTCAAA-TATTTACCTGTTCTTTTATAACTTCGGTTTCTGAG
63 TCTTGG-CGAACTTTC-GAACTTGTCAAACT-TTTACGAGTTCTTTTATAACTTCGGTTCCTTAA
* * * * * * * *
1854 AGCATTAAAGATGACCCATTCCTTCGA-CTAATTTTTTGAGCATTCCAGGCTCGGGAAATCGCAT
125 AGTATTCAAGACGATCCATTCCTTTGAGC-AATTTTTCGAACATTCCATGCTC-GGAAATCGCAT
*** * * *
1918 CATTCATTCTAAAT-GTTTTTTAATTTT
188 CATTTGGTCTAAATAG-TTTGTCATTTC
* * *
1945 GTAAACAACTTTTGGTCATTGAATTGAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTTT
1 GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT
* * * *
2010 TGGATGAACTTCCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAACTAT
66 TGG-CGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * ** * * *
2075 TCAAGCCGATCC-TATCCTTCGACCAGTTTTTCGAACATTTAATGCTCGAAAAATTGCATTATTT
130 TCAAGACGATCCAT-TCCTTTGAGCAATTTTTCGAACATTCCATGCTCG-GAAATCGCATCATTT
* *
2139 GGTCTAAATATTTTGTTATTTC
193 GGTCTAAATAGTTTGTCATTTC
* ** *
2161 GCAAACAACTTTTGCACTTTGAATTAAAAACTTATTTACGTGAGAACTGTTTCTCTCTTGGTTCT
1 GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT
* * * *
2226 TGGCTGAAGTTTCGAACTTGTCAAACTTTTTATC-ACTTCCTTTATAACTTCGGTTCCTTAAACT
66 TGGC-GAACTTTCGAACTTGTCAAAC-TTTTA-CGAGTTCTTTTATAACTTCGGTTCCTTAAAGT
* ** * * * **
2290 ATTAAAGGTGATCCATTCCTTTGTGCAATTTCTCGAGCATTCCATGCTCGAGAAATAACATCATT
128 ATTCAAGACGATCCATTCCTTTGAGCAATTTTTCGAACATTCCATGCTCG-GAAATCGCATCATT
* *
2355 TGGTCTAAATAGGTTATCATTTTC
192 TGGTCTAAATAGTTTGTCA-TTTC
* * * *
2379 -TAAACAATTTTTGGTCTTCGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCGTGGTTTT
1 GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT
* * * * * ** * * * * ** * * *
2443 TGGACGACCTTCCGTACTTG-CGGAACATTTAATAGCTCTTTTGTTATTTAAGTTCCTGAGACTA
66 TGG-CGAACTTTCGAACTTGTC-AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * * * * * * *
2507 CTCAAGATGATCCATTCCTTTGA-CAAATTTTTCGAACTTTCCATGCTTGGGAATCGTAGCATTC
129 TTCAAGACGATCCATTCCTTTGAGC-AATTTTTCGAACATTCCATGCTCGGAAATCGCATCATTT
* * *
2571 GGTCTAAAAACTTTGTCATAT-
193 GGTCTAAATAGTTTGTCATTTC
* ** * *
2592 GTAAACAACTTTTAGTCTTCAAATTAAAGACCTATTTACGTGAGAATTGTTTCTCT-TGTGGTT-
1 GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT-TGGTTC
* * * * * * *
2655 TTAGGACGAACTTACTAACTAGTCGAACTATTACGAGTTCTTTTATAACTTTGGTTCCTCAAAGT
65 TT-GG-CGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGT
* * * * *
2720 ATTCAAGACTATCCATTCCTTTGAGCCA-TTTTCTGAACAATCCGA-GCTCCGAAAATCGCATCT
128 ATTCAAGACGATCCATTCCTTTGAGCAATTTTTC-GAACATTCC-ATGCT-CGGAAATCGCATCA
* *
2783 TTTGGTCTAAATAGTTTGTGATTTT
190 TTTGGTCTAAATAGTTTGTCATTTC
* * *
2808 GTAAACAAATTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAATTTTTTCTCTCTTGGTTCT
1 GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT
* * * * * * *
2873 TGGATGAACTTACGAACTAGTCAAACTTTTACGAGTTCTTTTACAACTTTGGTTCCTTACAGTTT
66 TGG-CGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * *
2938 TCAAGACTATCCATTCATTTAAGGC-ATTTTTCGAACTTTCCATGCTCCGGAAATCGCATCATTC
130 TCAAGACGATCCATTCCTTTGA-GCAATTTTTCGAACATTCCATGCT-CGGAAATCGCATCATTT
* *
3002 GGTCTAAAAACTTTGTCATTAT-
193 GGTCTAAATAGTTTGTCATT-TC
* * *
3024 GTGAACAACTTTTAGTCTTCGAATTCAAAAA-TCTATTTACGTGAGAATTGTTTCTCT-TGTGGT
1 GTAAACAACTTTTGGTCTTTGAATT-AAAAACT-TATTTACGTGAGAATTGTTTCTCTCT-TGGT
* * * * * *
3087 TCTCAGACGAACTTACGAACTAGTCGAACTTTTTCGAGTTCTTTTATTATAACTTTC-GTT-CTT
63 TCT-TGGCGAACTTTCGAACTTGTCAAACTTTTACGAGTTC--TT-TTATAAC-TTCGGTTCCTT
* * * * * * *
3150 GAGAGTCTTAAAGACGATCCATTCCTTTGTGCAATTTTTCAAACATTCCATTCTCGGGAAATCAC
123 -AAAGTATTCAAGACGATCCATTCCTTTGAGCAATTTTTCGAACATTCCATGCTC-GGAAATCGC
*
3215 CTCATTTGGT
186 ATCATTTGGT
Statistics
Matches: 2414, Mismatches: 468, Indels: 224
0.78 0.15 0.07
Matches are distributed among these distances:
201 80 0.03
202 82 0.03
203 1 0.00
205 1 0.00
207 2 0.00
208 2 0.00
209 2 0.00
211 1 0.00
213 14 0.01
214 238 0.10
215 374 0.15
216 846 0.35
217 399 0.17
218 122 0.05
219 118 0.05
220 71 0.03
221 61 0.03
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (214 bp):
GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT
TGGCGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATT
CAAGACGATCCATTCCTTTGAGCAATTTTTCGAACATTCCATGCTCGGAAATCGCATCATTTGGT
CTAAATAGTTTGTCATTTC
Found at i:2825 original size:430 final size:427
Alignment explanation
Indices: 10--3200 Score: 2601
Period size: 430 Copynumber: 7.4 Consensus size: 427
1 TTTTTTATT
* * *
10 TTTGTAAACAACTTTTGGTCTTTGAATT-GAAAACTTATTTACGCGAGAATTGTTTCTCTCTTGG
1 TTTGTAAACAACTTTTAGTCTTTGAATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
* * *
74 TT-TCTGGAAGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAA
66 TTCT-TGGACGAAC-TTCTAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAA
* * * * * *
138 ATTATTCAAGCCGATCC-TATCCTTCGA-CCAGTTTTTCGAACATTCAATGCT-CGAAAAATCGC
129 AGTATTAAAGACTATCCAT-TCCTTTGAGCCA-TTTTT-GAACATTCCATGCTCCG-AAAATCGC
* * * * * *
200 AT-TATTTGGTCTAAATAATTTGTCAATTCGTAAACAACTTTTGCTCTTTCAATTAAAAACTTAT
190 ATCT-TTTGGTCTAAATAGTTTGTCATTTTGTAAACAAATTTTGGTCTTTGAATTAAAAACTTAT
* * * * *
264 TTACGTGAGAACTGTTTCTCTCTTTGTTCTTGG-CTGAACTTTCGAACTTGTC-AACCTTTTATG
254 TTACGTGAGAATTGTTTCTCTCTTGGTTTTTGGAC-GAACTTTCGAACTTGTCAAACATTTAAT-
** * * *
327 AGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATTCATTCCTTCGAGCAATTTTTCG
317 AGTTCTTTTATAA-TTTGGTTCCTTAGAGTATTCAAGACGATCCATTCCTTTGA-CAATTTTTCG
* * * * * * * *
392 AACATTCTACGCTAGGGAAATCGCATCGTTTGGTCTAATTAGTTTTTCA
380 AACTTTCCATGCT-CGGAAATCGCATCATTTGGTCTAAATACTTTGTCA
* * * * * *
441 TTTTGTAATCAACTTTTCGTCTTTAAATT-AAAAA--TATTTACATTACAATTGTTTCTCTCTTG
1 -TTTGTAAACAACTTTTAGTCTTTGAATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
* *
503 GTTCTTGGACGAACTTCTAAACTTGTCAAACTTTTTATC-AGTTCCTTTATACCTTCGGTTCCTT
65 GTTCTTGGACGAACTTCT-AACTTGTCAAAC-TTTTA-CGAGTTCTTTTATAACTTCGGTTCCTT
* * * * * * *
567 AAACTATTAAAG-GTGATTCATTCCTTTGTGCAATTTGTAAAGCATT-CATGC-CCGAGAAAT-G
127 AAAGTATTAAAGACT-ATCCATTCCTTTGAGCCATTTTTGAA-CATTCCATGCTCCGA-AAATCG
* * *
628 ACATCTTTTGGTCTAAATAGGTTATCATTTTCTAAAC-AATTATTGGTCTTTGAATTAAAAACTT
189 -CATCTTTTGGTCTAAATAGTTTGTCATTTTGTAAACAAATT-TTGGTCTTTGAATTAAAAACTT
* * * **
692 ATTTACGTGAGAATTGTTTCTCTCATGGTGTTTGGACGAACTTTTGTTCTTG-CGGAAA-ATTTA
252 ATTTACGTGAGAATTGTTTCTCTCTTGGTTTTTGGACGAACTTTCGAACTTGTC--AAACATTTA
* * ** * * *
755 ATAGCTCTTTTGTAACTTAAGTTCCTGAGAGTACTCAAGACGATCCATTCCTTCGACCAATTTTT
315 ATAGTTCTTTTATAA-TTTGGTTCCTTAGAGTATTCAAGACGATCCATTCCTTTGA-CAATTTTT
* * * *
820 CGAACTTTCCATGCTCGGGAATCGTATCATTCGGTCTAAAAACTTTGTCA
378 CGAACTTTCCATGCTCGGAAATCGCATCATTTGGTCTAAATACTTTGTCA
* * * *
870 TCATGTAAACAACTTTTAGTCTTCGAATT-AAAAACCTATTTATGTGAGAATTGTTTCTCT-TGT
1 T-TTGTAAACAACTTTTAGTCTTTGAATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTCT-T
* * * * *
933 GGTTCTAGGACGAACTTACAAACTAGTCGAACTTTTACGAGTTC-------A-TT--G----ATA
64 GGTTCTTGGACGAACTT-CTAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTA
* * *
984 AAGTATTCAAGACTATCCATTCCTTTAAGCCATTTTTTGAACATTCCATGCTCCGAAAATCGTAT
128 AAGTATTAAAGACTATCCATTCCTTTGAGCCA-TTTTTGAACATTCCATGCTCCGAAAATCGCAT
* * * *
1049 CTTTTGGTCTAAATAGTTTGTGATTTTGCAAACAAATTTTGGTCTTTAAATTAAAAACTAATTTA
192 CTTTTGGTCTAAATAGTTTGTCATTTTGTAAACAAATTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * * **
1114 CGTGAGAATTGTTTCTCTCTTGG-TTTCGGACGAACTTACGGACTAGTCAAACTTTTACGAGTTC
257 CGTGAGAATTGTTTCTCTCTTGGTTTTTGGACGAACTTTCGAACTTGTCAAACATTTAATAGTTC
* * * * * * * * *
1178 TTTTACAACTTTGGTTCCTTACAGTGTTCAAGACTATCCATTCATTTGAGCCATTTTCCGAGCAT
322 TTTTATAA-TTTGGTTCCTTAGAGTATTCAAGACGATCCATTCCTTTGA-CAATTTTTCGAACTT
*
1243 TCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCA
385 TCCATGCTCG-GAAATCGCATCATTTGGTCTAAATACTTTGTCA
* * * * ***
1287 TTTCATAAACAACTTTTGGTCTTTTAATTAAAAAACTTATTTACGAGAGAATTGTTTCTCTCCCA
1 TTT-GTAAACAACTTTTAGTCTTTGAATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
* * * ** * **
1352 ATTCTTGGATGAACTTCTGAACTTTTCAAAAATTTACAAGTTCTTTTATAACTTTTGTTCC-TAA
65 GTTCTTGGACGAACTTCT-AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAA
* * ** * * * * *
1416 TAGTATTTAACAAGATGCATTCC-TTCAACCAATTTTTCGAACATTCCATTCT-CGAAAAATTGC
129 -AGTATTAAAGACTATCCATTCCTTTGAGCC-ATTTTT-GAACATTCCATGCTCCG-AAAATCGC
* * * * * * * *
1479 ATCATTTGGTCAAAATAGTTTGGT-ATATGGTAAACAACTTTTGGTGTTTGAATTTAAAATTTAT
190 ATCTTTTGGTCTAAATAGTTT-GTCATTTTGTAAACAAATTTTGGTCTTTGAATTAAAAACTTAT
* * ** * * *
1543 TTGCGTGAGAATAT-TTTCTCTCTTGGTTCTTGGATTAACTTTCAAACTTTTCAAAAATTTACA-
254 TTACGTGAGAAT-TGTTTCTCTCTTGGTTTTTGGACGAACTTTCGAACTTGTCAAACATTTA-AT
* *
1606 AGTTCTTTTATTATAACTTTGGTT-CTTGAGAGTATTAAAGACGATCCATTCCTTTGTGCAATTT
317 AGTTC--TT-TTATAA-TTTGGTTCCTT-AGAGTATTCAAGACGATCCATTCCTTTG-ACAATTT
* * * *
1670 TTCAAACATTCTATGCTCCGGAAATCGCATCATTTGGTCTAAATAGTTTGTCA
376 TTCGAACTTTCCATGCT-CGGAAATCGCATCATTTGGTCTAAATACTTTGTCA
* * *
1723 TTTTGTAAA-AACCTTTTGGTCTTTGAATTAAAAAAACTTATTTACATGAGGATTGTTTCTCTCT
1 -TTTGTAAACAA-CTTTTAGTCTTTGAATT-AAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
* ** *
1787 TGGTTCTTGGACGAACATCATAACTTGTCAAA-TATTTACCTGTTCTTTTATAACTTCGGTTTCT
63 TGGTTCTTGGACGAACTTC-TAACTTGTCAAACT-TTTACGAGTTCTTTTATAACTTCGGTTCCT
* * * * * * * * * *
1851 GAGAGCATTAAAGA-TGACCCATTCCTTCGA-CTAATTTTTTGAGCATTCCAGGCTCGGGAAATC
126 TAAAGTATTAAAGACT-ATCCATTCCTTTGAGC-CA-TTTTTGAACATTCCATGCTCCGAAAATC
* *** * * * * *
1914 GCATCATTCATTCTAAAT-GTTTTTTAATTTTGTAAACAACTTTTGGTCATTGAATTGAAAACTT
188 GCATCTTTTGGTCTAAATAG-TTTGTCATTTTGTAAACAAATTTTGGTCTTTGAATTAAAAACTT
* * *
1978 ATTTACGTGAGAATTGTTTCTCTCTTGGTTTTTGGATGAACTTCCGAACTTGTCAAAC-TTTTAT
252 ATTTACGTGAGAATTGTTTCTCTCTTGGTTTTTGGACGAACTTTCGAACTTGTCAAACATTTAAT
* * * * * *
2042 GAGTTCTTTTATAACTTCGGTTCCTTAAACTATTCAAGCCGATCC-TATCCTTCGACCAGTTTTT
317 -AGTTCTTTTATAA-TTTGGTTCCTTAGAGTATTCAAGACGATCCAT-TCCTTTGA-CAATTTTT
* * * * * *
2106 CGAACATTT-AATGCTCGAAAAATTGCATTATTTGGTCTAAATATTTTGTTA
378 CGAAC-TTTCCATGCTCG-GAAATCGCATCATTTGGTCTAAATACTTTGTCA
* * *
2157 TTTCGCAAACAACTTTT-GCACTTTGAATT-AAAAACTTATTTACGTGAGAACTGTTTCTCTCTT
1 TTT-GTAAACAACTTTTAG-TCTTTGAATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT
* * * *
2220 GGTTCTTGG-CTGAAGTTTCGAACTTGTCAAACTTTTTATC-ACTTCCTTTATAACTTCGGTTCC
64 GGTTCTTGGAC-GAA-CTTCTAACTTGTCAAAC-TTTTA-CGAGTTCTTTTATAACTTCGGTTCC
* * * * * *
2283 TTAAACTATTAAAG-GTGATCCATTCCTTTGTGCAATTTCTCGAGCATTCCATGCT-CGAGAAAT
125 TTAAAGTATTAAAGACT-ATCCATTCCTTTGAGCCATTT-TTGAACATTCCATGCTCCGA-AAAT
** * * * * * *
2346 AACATCATTTGGTCTAAATAGGTTATCATTTTCTAAACAATTTTTGGTCTTCGAATTAAAAACTT
187 CGCATCTTTTGGTCTAAATAGTTTGTCATTTTGTAAACAAATTTTGGTCTTTGAATTAAAAACTT
* * * * *
2411 ATTTACGTGAGAATTGTTTCTCTCGTGGTTTTTGGACGACCTTCCGTACTTG-CGGAACATTTAA
252 ATTTACGTGAGAATTGTTTCTCTCTTGGTTTTTGGACGAACTTTCGAACTTGTC-AAACATTTAA
* * * * * * * *
2475 TAGCTCTTTTGTTATTTAAGTTCCTGAGACTACTCAAGATGATCCATTCCTTTGACAAATTTTTC
316 TAGTTCTTTTATAATTT-GGTTCCTTAGAGTATTCAAGACGATCCATTCCTTTGAC-AATTTTTC
* * * * * *
2540 GAACTTTCCATGCTTGGGAATCGTAGCATTCGGTCTAAAAACTTTGTCA
379 GAACTTTCCATGCTCGGAAATCGCATCATTTGGTCTAAATACTTTGTCA
* ** * *
2589 TATGTAAACAACTTTTAGTCTTCAAATT-AAAGACCTATTTACGTGAGAATTGTTTCTCT-TGTG
1 TTTGTAAACAACTTTTAGTCTTTGAATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTCT-TG
* * * * *
2652 GTT-TTAGGACGAACTTACTAACTAGTCGAACTATTACGAGTTCTTTTATAACTTTGGTTCCTCA
65 GTTCTT-GGACGAACTT-CTAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTA
* *
2716 AAGTATTCAAGACTATCCATTCCTTTGAGCCATTTTCTGAACAATCCGA-GCTCCGAAAATCGCA
128 AAGTATTAAAGACTATCCATTCCTTTGAGCCATTTT-TGAACATTCC-ATGCTCCGAAAATCGCA
* *
2780 TCTTTTGGTCTAAATAGTTTGTGATTTTGTAAACAAATTTTGGTCTTTAAATTAAAAACTTATTT
191 TCTTTTGGTCTAAATAGTTTGTCATTTTGTAAACAAATTTTGGTCTTTGAATTAAAAACTTATTT
* * * * * * **
2845 ACGTGAGAATTTTTTCTCTCTTGGTTCTTGGATGAACTTACGAACTAGTCAAACTTTTACGAGTT
256 ACGTGAGAATTGTTTCTCTCTTGGTTTTTGGACGAACTTTCGAACTTGTCAAACATTTAATAGTT
* * * * * *
2910 CTTTTACAACTTTGGTTCCTTACAGTTTTCAAGACTATCCATTCATTTAAGGC-ATTTTTCGAAC
321 CTTTTATAA-TTTGGTTCCTTAGAGTATTCAAGACGATCCATTCCTTT--GACAATTTTTCGAAC
* *
2974 TTTCCATGCTCCGGAAATCGCATCATTCGGTCTAAAAACTTTGTCA
383 TTTCCATGCT-CGGAAATCGCATCATTTGGTCTAAATACTTTGTCA
* * *
3020 TTATGTGAACAACTTTTAGTCTTCGAATTCAAAAA-TCTATTTACGTGAGAATTGTTTCTCT-TG
1 TT-TGTAAACAACTTTTAGTCTTTGAATTAAAAAACT-TATTTACGTGAGAATTGTTTCTCTCT-
** * * * *
3083 TGGTTCTCAGACGAACTTACGAACTAGTCGAACTTTTTCGAGTTCTTTTATTATAACTTTC-GTT
63 TGGTTCTTGGACGAACTT-CTAACTTGTCAAACTTTTACGAGTTC--TT-TTATAAC-TTCGGTT
* * * * * *
3147 -CTTGAGAGTCTTAAAGACGATCCATTCCTTTGTGCAATTTTTCAAACATTCCAT
123 CCTT-AAAGTATTAAAGACTATCCATTCCTTTGAGCCATTTTT-GAACATTCCAT
3201 TCTCGGGAAA
Statistics
Matches: 2213, Mismatches: 416, Indels: 256
0.77 0.14 0.09
Matches are distributed among these distances:
415 3 0.00
416 113 0.05
417 145 0.07
418 68 0.03
420 1 0.00
422 2 0.00
425 1 0.00
426 2 0.00
428 2 0.00
429 65 0.03
430 462 0.21
431 234 0.11
432 264 0.12
433 330 0.15
434 107 0.05
435 23 0.01
436 161 0.07
437 220 0.10
438 10 0.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (427 bp):
TTTGTAAACAACTTTTAGTCTTTGAATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
TTCTTGGACGAACTTCTAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAG
TATTAAAGACTATCCATTCCTTTGAGCCATTTTTGAACATTCCATGCTCCGAAAATCGCATCTTT
TGGTCTAAATAGTTTGTCATTTTGTAAACAAATTTTGGTCTTTGAATTAAAAACTTATTTACGTG
AGAATTGTTTCTCTCTTGGTTTTTGGACGAACTTTCGAACTTGTCAAACATTTAATAGTTCTTTT
ATAATTTGGTTCCTTAGAGTATTCAAGACGATCCATTCCTTTGACAATTTTTCGAACTTTCCATG
CTCGGAAATCGCATCATTTGGTCTAAATACTTTGTCA
Done.