Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014613.1 Kokia drynarioides strain JFW-HI SEQ_129652, 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: 4140
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Found at i:719 original size:216 final size:213
Alignment explanation
Indices: 1--721 Score: 819
Period size: 215 Copynumber: 3.4 Consensus size: 213
*
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTTTTCTT-GAAAGAACTTTC
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGAAA-AAC-TTC
* * * * *
65 C-AACTTGTCAAACTTTTACTAAATCTTTATAAATTTGAATCGTTAAAGTATTCAACATGATCCA
64 CGAACTTGTCAAACTTTTACTATAT-TTTTTAAATTCG-ATCCTTAAAGTATTCAACAAGATCCA
* * * *
129 TTCCATCA-AGCAATTTTTCGAACATTCCATGC-TCAGAAAATCACAACATTTTGTCTAAATAGT
127 TT-CATTAGAGCAATTTTTCGAACATTCCAT-CATCGGAAAATCACATCATTTGGTCTAAATAGT
192 TAGTCATTTTGCAAACAAGTTTTG
190 TAGTCATTTTGCAAACAAGTTTTG
* *** *
216 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCCCTCTTTGTTCTTGGGTGAACTTTCG
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGAAAAACTTCCG
* * * * *
281 AACTTGTCAAACTTTCACTAAATCTTTTATAAATTTGGATCCTTAAAATATTCAACACGATCCAT
66 AACTTGTCAAACTTTTACTATAT-TTTT-TAAA-TTCGATCCTTAAAGTATTCAACAAGATCCAT
* * * * *
346 TCCTTCGAGCAATTTTT-TAACA-TCCAT-ACTCGGCAAATCACATCATTTGGTCTAAATAGTTC
128 TCATTAGAGCAATTTTTCGAACATTCCATCA-TCGGAAAATCACATCATTTGGTCTAAATAGTTA
* * **
408 GTCTTTTTACAAACAAGTTTCA
192 GTCATTTTGCAAACAAGTTTTG
* ** * ** *
430 GTCTTTGAGTTAAAAACTTA-TTACGTGAGAATCATTTCTCTCTTTGTTCTTTGACGAACTTTCG
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGAAAAACTTCCG
* * * *
494 AACTTGTCAATCTTTTACGAGTTATTTTTTAACTTCGATTCCCTAAAGTATTCAACAAGATCCAT
66 AACTTGTCAAACTTTTACTA--TATTTTTTAAATTCGA-TCCTTAAAGTATTCAACAAGATCCAT
** * * *
559 TTTTTAGAGCAATTTTTCGAACATTCCATCATCGGGAAATCGCATCATTTGGTCTAAATAGTTTG
128 TCATTAGAGCAATTTTTCGAACATTCCATCATCGGAAAATCACATCATTTGGTCTAAATAGTTAG
* *
624 TCATTTTGTAAACAACTTTTG
193 TCATTTTGCAAACAAGTTTTG
* * *
645 GTCGTTGAATTAAAAACTTATTTACGTGTGAATTGTTTCTCTCTTTGTTCTTGGAAAAACTTCCA
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGAAAAACTTCCG
710 AACTTGTCAAAC
66 AACTTGTCAAAC
722 ATTAAATTAA
Statistics
Matches: 427, Mismatches: 65, Indels: 27
0.82 0.13 0.05
Matches are distributed among these distances:
212 4 0.01
213 95 0.22
214 81 0.19
215 156 0.37
216 88 0.21
217 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (213 bp):
GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGAAAAACTTCCG
AACTTGTCAAACTTTTACTATATTTTTTAAATTCGATCCTTAAAGTATTCAACAAGATCCATTCA
TTAGAGCAATTTTTCGAACATTCCATCATCGGAAAATCACATCATTTGGTCTAAATAGTTAGTCA
TTTTGCAAACAAGTTTTG
Found at i:1186 original size:501 final size:497
Alignment explanation
Indices: 248--1200 Score: 1317
Period size: 501 Copynumber: 1.9 Consensus size: 497
238 TACGTGAGAA
**
248 TTGTTTCCCTCTTTGTTCTTGGGTGAACTTTCGAACTTGTCAAACTTTCACTAAATCTTTTATAA
1 TTGTTTCCCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTCACTAAATCTTTTATAA
* *
313 ATTTGGATCCTTAAAATATTCAACACGATCCATTCCTTCGAGCAATTTTTTAACATCCATACTCG
66 ATTCGGATCCTTAAAATATTCAACACGATCCATTCCTTCGAGCAATTTTTGAACATCCATACTCG
* * * * ** *
378 GCAAATCACATCATTTGGTCTAAATAGTTCGTCTTTTTACAAACAAGTTTCAGTCTTTGAGTTAA
131 GCAAATCACATCATTTCGTCTAAACAGTTCCTCATTTTACAAACAAACTTCAGTCTTTGAATTAA
* *
443 AAACTTATTACGTGAGAATCATTTCTCTCTTTGTTCTTTGACGAACTTTCGAACTTGTCAATCTT
196 AAACTTATTACGTGAGAATCATTTCTCTCTTTGTTCTTTGACGAACTTCCGAACTTGTCAAACTT
* *
508 TTACGAGTTATTTTTTAACTTCGATTCCCTAAAGTATTCAACAAGATCCATTTTTTAGAGCAATT
261 TTACGAGTTATTTTATAACTTCGATTCCCTAAAGTATTCAACAAGATCCATTCTTTAGAGCAATT
* ***
573 TTTCGAACATTCCATCATCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
326 TTTCGAACATTCCATCATCAGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTCACAAACA
* * *
638 ACTTTTGGTCGTTGAATTAAAAACTTATTTACGTGTGAATTGTTTCTCTCTTTGTTCTTGGAAAA
391 ACTTTTGGTCGTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTTGTACTTGGAAAA
703 ACTTCCAAACTTGTCAAACATTAAATTAAAAACTTGCCAAAC
456 ACTTCCAAACTTGTCAAACATTAAATTAAAAACTTGCCAAAC
* * **
745 TTGTTTCTCTCTTTGTTCTTGGACGAAC-TTCTGAGCTTGTCAAACTTTTC-CTAGTTCTTTTAT
1 TTGTTTCCCTCTTTGTTCTTGGACGAACTTTC-GAACTTGTCAAAC-TTTCACTAAATCTTTTAT
* * * * *
808 AACTTCGGATCCTTAAAGTATTCAAGACGATCTATTCCTTCGAGCAATTTCTTGAACATTCCATG
64 AAATTCGGATCCTTAAAATATTCAACACGATCCATTCCTTCGAGCAATTT-TTGAACA-TCCATA
* * *
873 CTCGGGAAAT-AGCATCATTTCGTCTAAACAGTTCCTCATTTTGCAAACAAAAACTT-GGTCTTT
127 CTCGGCAAATCA-CATCATTTCGTCTAAACAGTTCCTCATTTTACAAAC--AAACTTCAGTCTTT
* **
936 GAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTTGTTC-TTGCACGAACTTCCGAACTT
189 GAATTAAAAACTTA-TTACGTGAGAATCATTTCTCTCTTTGTTCTTTG-ACGAACTTCCGAACTT
* * * * * * * *
1000 GTCAAACTTTTGCTAGTTCTTTTATAACTTTGGA-TCCTTAAAGTATTCAAGATGATCTATTCTT
252 GTCAAACTTTTACGAGTTATTTTATAAC-TTCGATTCCCTAAAGTATTCAACAAGATCCATTCTT
** *
1064 TCTAGCAATTTTTTGAACATTCCATGC-TCAGGAAATCGCATCATTTGGTCTAAATAGTTTGTCA
316 TAGAGCAATTTTTCGAACATTCCAT-CATCAGGAAATCGCATCATTTGGTCTAAATAGTTTGTCA
*
1128 TTTCACAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTTG
380 TTTCACAAACAACTTTTGGTCGTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTTG
1193 TACTTGGA
445 TACTTGGA
1201 TGAACTGTTT
Statistics
Matches: 396, Mismatches: 49, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
496 3 0.01
497 93 0.23
498 11 0.03
499 45 0.11
500 22 0.06
501 217 0.55
502 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (497 bp):
TTGTTTCCCTCTTTGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTCACTAAATCTTTTATAA
ATTCGGATCCTTAAAATATTCAACACGATCCATTCCTTCGAGCAATTTTTGAACATCCATACTCG
GCAAATCACATCATTTCGTCTAAACAGTTCCTCATTTTACAAACAAACTTCAGTCTTTGAATTAA
AAACTTATTACGTGAGAATCATTTCTCTCTTTGTTCTTTGACGAACTTCCGAACTTGTCAAACTT
TTACGAGTTATTTTATAACTTCGATTCCCTAAAGTATTCAACAAGATCCATTCTTTAGAGCAATT
TTTCGAACATTCCATCATCAGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTCACAAACA
ACTTTTGGTCGTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTTGTACTTGGAAAA
ACTTCCAAACTTGTCAAACATTAAATTAAAAACTTGCCAAAC
Found at i:1561 original size:216 final size:216
Alignment explanation
Indices: 745--4140 Score: 3732
Period size: 216 Copynumber: 15.8 Consensus size: 216
735 CTTGCCAAAC
* * * **
745 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCTGAGCTTGTCAAACTTTTCCTAGTTCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
* * *
810 CTTCGGATCCTTAAAGTATTCAAGACGATCTATTCCTTCGAGCAATTTCTT-GAACATTCCATGC
66 CTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTT-TTCGAACATTCCATGC
* * * ** ***
874 TCGGGAAATAGCATCATTTCGTCTAAACAGTTCCTCATTTTGCAAACAAAAACTTGGTCTTTGAA
130 TCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAAC-AAGTTTTGGTCTTTGAA
*
939 TTAAAAACTTATTTATGTGAGAA
194 TTAAAAACTTATTTACGTGAGAA
* * **
962 TTGTTTCTCTCTTTGTTCTTGCACGAACTTCCGAACTTGTCAAACTTTTGCTAGTTCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
* * * * * * *
1027 CTTTGGATCCTTAAAGTATTCAAGATGATCTATTCTTTCTAGCAATTTTTTGAACATTCCATGCT
66 CTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGCT
* ** *
1092 CAGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTCACAAACAACTTTTGGTCTTTGAATT
131 CGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATT
*
1157 AAAAACTTATTTACATGAGAA
196 AAAAACTTATTTACGTGAGAA
* * ** * * ** *
1178 TTGTTTCTCTCTTTGTACTTGGATGAACTGT-TTAACATGTCAAACTTTTACGAGTTATTTT-TA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACT-TCCGAACTTGTCAAACTTTTACTAAATCTTTTATA
* * * *
1241 ACTTTGGTTCCCTAAAGTATTCAACAAGATCCATTCCTT-AGAGCAA-TTTTCAGAACATTCCAT
65 ACTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCA-AGCAATTTTTC-GAACATTCCAT
* * * * *
1304 GCTCCGAAAATCGTAGCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGA
128 GCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGA
1369 ATTAAAAACTTATTTACGTGAGAA
193 ATTAAAAACTTATTTACGTGAGAA
*
1393 TTGTTTCTCTCTTT-TGTCTTGGACGAACTTCCCAACTTGTCAAACTTTTACTAAATCTTTTATA
1 TTGTTTCTCTCTTTGT-TCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATA
* ** * *
1457 AATTCAAATCGTTAAAGTATTCAACATGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGC
65 ACTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGC
* * *** * * *
1522 TCAGCAAATAAAAACATTTGGTCTAAATAGTTAGTCATTTTGCAAACAAGTTTTGGTTTTTGAAT
130 TCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAAT
1587 TAAAAACTTATTTACGTGAGAA
195 TAAAAACTTATTTACGTGAGAA
* * * * * * *
1609 TTGTTTCCCACTTTGTTCTTGGGCGAATTTTCGAACTTGTCAAACTTTCACTGAATCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
* * * * * * *
1674 ATTCGGATCCTTAAATTATTCTACATGATCCATTCCTTCGAGCAATTTTTCGAACATCCCATACT
66 CTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGCT
* * * * *
1739 CGGCAAATCACATCATTTGGTCTAAATAGTTTGTCTTTTTGCAAACAAGTTTTAGTCTTTGAGTT
131 CGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATT
1804 AAAAACTTA-TTACGTGAGAA
196 AAAAACTTATTTACGTGAGAA
* * * * * * ** * *
1824 TTGTTCCTCTCTTTGTTCTTCGACGAACTTTCGAACATGTCAATCTTTTACGAGTTATTTTTTAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
* * * * * * *
1889 CTTCGGTTCCCTAAAGTATTCAACAAGATCCATT-TTTTAGAGCAATTTTTC-AAAATTTCCATC
66 CTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCA-AGCAATTTTTCGAACA-TTCCATG
** * * * **
1952 CTC-CAAAAGTCGCATCATTTGGTCTAAATAATTTGTCATTTTGTAAACAACTTTTGGTGATTGA
129 CTCGGGAAA-TCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGA
2016 ATTAAAAACTTATTTACGTGAGAA
193 ATTAAAAACTTATTTACGTGAGAA
* * * * **
2040 TTGTTTCTCTCTATGTTCTTGGACGAGCTTCCAAACTTGTCTAAA-TTTTATGTGTTAT-TTTT-
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTC-AAACTTTTA-CT-AAATCTTTTA
* * * ** * * *
2102 TAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTTGAGTAATTTTCCAAACATTCCAT
63 TAACTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCAT
* * * * *
2167 GCTCGGGAAATCGCATCATTTGATCT--A-AGTATGTTATTTTGTAAACAAGTTTTCGTCATTT-
128 GCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTC-TTTG
2228 AATTAAAAACTTATTTACGTGAGAA
192 AATTAAAAACTTATTTACGTGAGAA
* * * **
2253 TTCTTTCTCTCTTTGTTCTTGGACGACCTTCCGAGCTTGTCAAACTTTTACTAGTTCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
* * * * * * *
2318 CTTCAGATCCTTAAAGTGTTCAAGACGATCCATTCCTTCGAGAAATTTTTCAAACATTCCAAGCT
66 CTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGCT
* * * ***
2383 TGGGAAATCGCATCATTAGGTCTAAATAGTTTCTCATTTTGCAAACAAAAACTTGGTCTTTGAAT
131 CGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAAC-AAGTTTTGGTCTTTGAAT
2448 TAAAAACTTATTTACGTGAGAA
195 TAAAAACTTATTTACGTGAGAA
* * **
2470 TTGTTTCTATCTTTGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACTAGTTCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
* * * * * * *
2535 CGTCGGATCCTTAAAGTATTCCAGACGATCTATTCTTTCGAGCAA-TTTTCTGAACATTCCACGC
66 CTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTC-GAACATTCCATGC
* *
2599 TCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCAGTTTGCAAACAAGTTTTGGTCTTTGAAT
130 TCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAAT
* *
2664 TAAACACTTATTGACGTGAGAA
195 TAAAAACTTATTTACGTGAGAA
* * * * *
2686 TAGTTTCCCTCTTTGTTCTTGGACGAACTTCCGATCTTATCAAACTTTTTCTAAATCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
* * * *
2751 ATTTGAATCCTTAAAGTCTTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGCT
66 CTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGCT
* * * *
2816 TGGAAAATCACATCATTTAGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATT
131 CGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATT
2881 AAAAACTTATTTACGTGAGAA
196 AAAAACTTATTTACGTGAGAA
* * * *
2902 TTATTTCTCTCTTTGTTGTTGGACGAACATCCGAACTTGTCAAACTTTTACTGAATCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
* * * * ** * * *
2967 ATTCGGTTCCTTATAGTAGTCAACA-GATCCATTCCTTTGAGCAATATTCCGAACATTCCATACT
66 CTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGCT
* * * ** *
3031 CGGCAAATCACATCATTTGGTCTAAATAGTTTATC-TTTTCGCAAACAAGTTTCAGTCTTTGAGT
131 CGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTT-GCAAACAAGTTTTGGTCTTTGAAT
*
3095 TAAAAACTTA-TTACTTGAGAA
195 TAAAAACTTATTTACGTGAGAA
* ** *
3116 TTGTTTCTCTCTTTGTTCATGGACGAACTTTTGAACTTGTCAAACTTTTAC-AAGTTAT-TTTTT
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAA---ATCTTTTA
* * * * * *
3179 TAACTTCAGTTCCCTT-ATGTATTCAACAAGATCCAATT--TTTAGAGCAA-TTTTCTGAATATT
63 TAACTTCGGAT-CCTTAAAGTATTCAACACGATCC-ATTCCTTCA-AGCAATTTTTC-GAACATT
* * * * *
3240 CCATCCTTGGGAAATCGCGTCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
124 CCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCT
* *
3305 TTGAATTCAGAACTTATTTACGTGAGAA
189 TTGAATTAAAAACTTATTTACGTGAGAA
* * * * * * * * *
3333 TGGTATCTCTCTTTCTTTTTAGATGAACGT-CTAAGCTTGTCAAACTTTCACTATTAA--TTTTA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAA-CTTGTCAAACTTTTACTA--AATCTTTTA
* * * * *
3395 TAACTTCAGATACTTAAAGTATTCAAGACGATCCATTCCTTCGAA--ATATTTTTCAAACATTCG
63 TAACTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTC-AAGCA-ATTTTTCGAACATTCC
* * *
3458 ATTCCCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCTAACAAGTTTTGGTCTTT
126 ATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTT
3523 GAATTAAAAACTTATTTACGTGAGAA
191 GAATTAAAAACTTATTTACGTGAGAA
* * * *
3549 TTGTTTCTCTCTTTGTTCTTGGATGAACTTCCCAACATGTCAAACTTTTATTAAATCTTTTAT-A
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
* * * *
3613 CATTCGAATCCTTAAAGTATTCAACACGATCCATTTCTTCAAGCAATTTTCCGAACATTCTATGC
66 C-TTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGC
* ** *
3678 TCGGCAAATTACATCATTTGGTCTAAAAAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAAT
130 TCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAAT
3743 TAAAAACTTATTTACGTGAGAA
195 TAAAAACTTATTTACGTGAGAA
* * * *
3765 TTATTTCTCTCTTTGTTGTTGGACGAACATCCGAACTTGTCAAACTTTTACTGAATCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
* * * * *
3830 ATTC-AATTCCTTAAAGTATTAAACA-GATTCATTCC-TCTGAGCAATATTTT-GAACATTCCAT
66 CTTCGGA-TCCTTAAAGTATTCAACACGATCCATTCCTTC-AAGCAAT-TTTTCGAACATTCCAT
* * * * **
3891 ACTCGGCAAATCACATCATTTGGTCTAAATAGTTTGTCTTTTTGCAAACAAGTTTCAGTCTTTGA
128 GCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGA
* * *
3956 GTTAAAAACTTA-TTACTTAAGAA
193 ATTAAAAACTTATTTACGTGAGAA
* * * * *
3979 TTG-TT-TCTCTTTGTTCATGGACGAACTTTCGAACTTGTCAAACTTTTAC-AAGTTATTTTTTA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAA-ATCTTTTATA
* * * *
4041 ACTTCAGTTCCCTT-AAGTATTCAACAAGATCCAATT--TTTAGAGCAA-TTTTCTGAACATTCC
65 ACTTCGGAT-CCTTAAAGTATTCAACACGATCC-ATTCCTTCA-AGCAATTTTTC-GAACATTCC
* *
4102 ATCCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGT
126 ATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGT
Statistics
Matches: 2705, Mismatches: 403, Indels: 146
0.83 0.12 0.04
Matches are distributed among these distances:
211 6 0.00
212 71 0.03
213 229 0.08
214 94 0.03
215 577 0.21
216 1288 0.48
217 436 0.16
218 3 0.00
220 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (216 bp):
TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
CTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGCT
CGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATT
AAAAACTTATTTACGTGAGAA
Found at i:1652 original size:431 final size:429
Alignment explanation
Indices: 745--4140 Score: 3697
Period size: 431 Copynumber: 7.9 Consensus size: 429
735 CTTGCCAAAC
* * *
745 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCTGAGCTTGTCAAACTTTTCCTAGTTCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTC-GAACTTGTCAAACTTTTACGAGTT-TTTT-TAA
* * * *
810 CTTCGGATCCTTAAAGTATTCAAGACGATCTATTCCTTCGAGCAA-TTTCTTGAACATTCCATGC
63 CTTCGGATCCTTAAAGTATTCAACAAGATCCATTCCTTCGAGCAATTTTC-AGAACATTCCATGC
* * ** ***
874 TCGGGAAAT-AGCATCATTTCGTCTAAACAGTTCCTCATTTTGCAAACAAAAACTTGGTCTTTGA
127 TCGGGAAATCA-CATCATTTGGTCTAAATAGTTTGTCATTTTGCAAAC-AAGTTTTGGTCTTTGA
* *
938 ATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTTGTTCTTGCACGAACTTCCGAACTTGTC
190 ATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTC
* ** * * * * * *
1003 AAACTTTTGCTAGTTCTTTTATAACTTTGGATCCTTAAAGTATTCAAGATGATCTATTCTTTCTA
255 AAACTTTTACTAAATCTTTTATAACTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAA
* *
1068 GCAATTTTTTGAACATTCCATGCTCAGG-AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTC
320 GCAATTTTTCGAACATTCCATGCTC-GGCAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTT
* *
1132 ACAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAA
384 GCAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
* * ** *
1178 TTGTTTCTCTCTTTGTACTTGGATGAACTGTTTAACATGTCAAACTTTTACGAGTTATTTTTAAC
1 TTGTTTCTCTCTTTGTTCTTGGACGAACT-TCGAACTTGTCAAACTTTTACGAGTT-TTTTTAAC
* * * *
1243 TTTGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTAGAGCAATTTTCAGAACATTCCATGCTC
64 TTCGGATCCTTAAAGTATTCAACAAGATCCATTCCTTCGAGCAATTTTCAGAACATTCCATGCTC
* * ** * *
1308 CGAAAATCGTAGCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTA
129 GGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTA
*
1373 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTT-TGTCTTGGACGAACTTCCCAACTTGTCAAA
194 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGT-TCTTGGACGAACTTCCGAACTTGTCAAA
* ** * *
1437 CTTTTACTAAATCTTTTATAAATTCAAATCGTTAAAGTATTCAACATGATCCATTCCTTCAAGCA
258 CTTTTACTAAATCTTTTATAACTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCA
* *** * *
1502 ATTTTTCGAACATTCCATGCTCAGCAAATAAAAACATTTGGTCTAAATAGTTAGTCATTTTGCAA
323 ATTTTTCGAACATTCCATGCTCGGCAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAA
* *
1567 ACAAGTTTTGGTTTTTGAATTAAAAACTTATTTACGTGAGAA
388 ACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
* * * * * * *
1609 TTGTTTCCCACTTTGTTCTTGGGCGAATTTTCGAACTTGTCAAACTTTCACTGAATCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAA-CTTCGAACTTGTCAAACTTTTAC-GAGT-TTTTTTAA
* * * * * *
1674 ATTCGGATCCTTAAATTATTCTACATGATCCATTCCTTCGAGCAATTTTTC-GAACATCCCATAC
63 CTTCGGATCCTTAAAGTATTCAACAAGATCCATTCCTTCGAGCAA-TTTTCAGAACATTCCATGC
* * * *
1738 TCGGCAAATCACATCATTTGGTCTAAATAGTTTGTCTTTTTGCAAACAAGTTTTAGTCTTTGAGT
127 TCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAAT
* * * *
1803 TAAAAACTTA-TTACGTGAGAATTGTTCCTCTCTTTGTTCTTCGACGAACTTTCGAACATGTCAA
192 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAA
* * ** * * * * * * *
1867 TCTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATT-TTTTAGAG
257 ACTTTTACTAAATCTTTTATAACTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCA-AG
* * *
1931 CAATTTTTC-AAAATTTCCATCCTC--CAAAAGTCGCATCATTTGGTCTAAATAATTTGTCATTT
321 CAATTTTTCGAACA-TTCCATGCTCGGC-AAA-TCGCATCATTTGGTCTAAATAGTTTGTCATTT
* **
1993 TGTAAACAACTTTTGGTGATTGAATTAAAAACTTATTTACGTGAGAA
383 TGCAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
* * * * *
2040 TTGTTTCTCTCTATGTTCTTGGACGAGCTTCCAAACTTGTCTAAA-TTTTATGTGTTATTTTTTA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTT-CGAACTTGTC-AAACTTTTACGAG-T-TTTTTTA
* * * *
2104 ACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTTGAGTAATTTTCCA-AACATTCCATG
62 ACTTCGGATCCTTAAAGTATTCAACAAGATCCATTCCTTCGAGCAATTTT-CAGAACATTCCATG
* * * * * *
2168 CTCGGGAAATCGCATCATTTGATCT--A-AGTATGTTATTTTGTAAACAAGTTTTCGTCATTT-A
126 CTCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTC-TTTGA
* * *
2229 ATTAAAAACTTATTTACGTGAGAATTCTTTCTCTCTTTGTTCTTGGACGACCTTCCGAGCTTGTC
190 ATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTC
** * * * *
2294 AAACTTTTACTAGTTCTTTTATAACTTCAGATCCTTAAAGTGTTCAAGACGATCCATTCCTTCGA
255 AAACTTTTACTAAATCTTTTATAACTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAA
* * * * * * *
2359 GAAATTTTTCAAACATTCCAAGCTTGGGAAATCGCATCATTAGGTCTAAATAGTTTCTCATTTTG
320 GCAATTTTTCGAACATTCCATGCTCGGCAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG
***
2424 CAAACAAAAACTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
385 CAAAC-AACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
* *
2470 TTGTTTCTATCTTTGTTCTTGGACGAACTTCTGAACTTGTCAAACTTTTACTAGTTCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTC-GAACTTGTCAAACTTTTACGAGTT-TTTT-TAA
* * * * * * * *
2535 CGTCGGATCCTTAAAGTATTCCAGACGATCTATTCTTTCGAGCAATTTTCTGAACATTCCACGCT
63 CTTCGGATCCTTAAAGTATTCAACAAGATCCATTCCTTCGAGCAATTTTCAGAACATTCCATGCT
*
2600 CGGGAAATCACATCATTTGGTCTAAATAGTTTGTCAGTTTGCAAACAAGTTTTGGTCTTTGAATT
128 CGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATT
* * * * * *
2665 AAACACTTATTGACGTGAGAATAGTTTCCCTCTTTGTTCTTGGACGAACTTCCGATCTTATCAAA
193 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAA
* * * * *
2730 CTTTTTCTAAATCTTTTATAAATTTGAATCCTTAAAGTCTTCAACACGATCCATTCCTTCAAGCA
258 CTTTTACTAAATCTTTTATAACTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCA
* * * *
2795 ATTTTTCGAACATTCCATGCTTGGAAAATCACATCATTTAGTCTAAATAGTTTGTCATTTTGCAA
323 ATTTTTCGAACATTCCATGCTCGGCAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAA
*
2860 ACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
388 ACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
* * * * *
2902 TTATTTCTCTCTTTGTTGTTGGACGAACATCCGAACTTGTCAAACTTTTACTGAATCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAAC-TTCGAACTTGTCAAACTTTTAC-GAGT-TTTTTTAA
* * * * * * * *
2967 ATTCGGTTCCTTATAGTAGTCAAC-AGATCCATTCCTTTGAGCAATATTCCGAACATTCCATACT
63 CTTCGGATCCTTAAAGTATTCAACAAGATCCATTCCTTCGAGCAATTTTCAGAACATTCCATGCT
* * ** *
3031 CGGCAAATCACATCATTTGGTCTAAATAGTTTATC-TTTTCGCAAACAAGTTTCAGTCTTTGAGT
128 CGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTT-GCAAACAAGTTTTGGTCTTTGAAT
* * **
3095 TAAAAACTTA-TTACTTGAGAATTGTTTCTCTCTTTGTTCATGGACGAACTTTTGAACTTGTCAA
192 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAA
* * * * *
3159 ACTTTTAC-AAGTTAT-TTTTTTAACTTCAGTTCCCTT-ATGTATTCAACAAGATCCAATT--TT
257 ACTTTTACTAA---ATCTTTTATAACTTCGGAT-CCTTAAAGTATTCAACACGATCC-ATTCCTT
* * * * * *
3219 TAGAGCAA-TTTTCTGAATATTCCATCCTTGGGAAATCGCGTCATTTGGTCTAAATAGTTTGTCA
317 CA-AGCAATTTTTC-GAACATTCCATGCTCGGCAAATCGCATCATTTGGTCTAAATAGTTTGTCA
* * *
3283 TTTTGTAAACAACTTTTGGTCTTTGAATTCAGAACTTATTTACGTGAGAA
380 TTTTGCAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
* * * * * * * * * *
3333 TGGTATCTCTCTTTCTTTTTAGATGAACGTCTAAGCTTGTCAAACTTTCACTA-TTAATTTTATA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCGAA-CTTGTCAAACTTTTACGAGTT--TTTT-TA
* * * * * *
3397 ACTTCAGATACTTAAAGTATTCAAGACGATCCATTCCTTCGA-AATATTTTTCA-AACATTCGAT
62 ACTTCGGATCCTTAAAGTATTCAACAAGATCCATTCCTTCGAGCA-A-TTTTCAGAACATTCCAT
* * * *
3460 TCCCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCTAACAAGTTTTGGTCTTTGA
125 GCTCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGA
* * *
3525 ATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGATGAACTTCCCAACATGTC
190 ATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTC
* * *
3590 AAACTTTTATTAAATCTTTTAT-ACATTCGAATCCTTAAAGTATTCAACACGATCCATTTCTTCA
255 AAACTTTTACTAAATCTTTTATAAC-TTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCA
* * ** *
3654 AGCAATTTTCCGAACATTCTATGCTCGGCAAATTACATCATTTGGTCTAAAAAGTTTGTCATTTT
319 AGCAATTTTTCGAACATTCCATGCTCGGCAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTT
*
3719 GCAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
384 GCAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
* * * * *
3765 TTATTTCTCTCTTTGTTGTTGGACGAACATCCGAACTTGTCAAACTTTTACTGAATCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAAC-TTCGAACTTGTCAAACTTTTAC-GAGT-TTTTTTAA
* * * * *
3830 ATTC-AATTCCTTAAAGTATTAAAC-AGATTCATTCC-TCTGAGCAATATTT-TGAACATTCCAT
63 CTTCGGA-TCCTTAAAGTATTCAACAAGATCCATTCCTTC-GAGCAAT-TTTCAGAACATTCCAT
* * * **
3891 ACTCGGCAAATCACATCATTTGGTCTAAATAGTTTGTCTTTTTGCAAACAAGTTTCAGTCTTTGA
125 GCTCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGA
* * * * *
3956 GTTAAAAACTTA-TTACTTAAGAATTG-TT-TCTCTTTGTTCATGGACGAACTTTCGAACTTGTC
190 ATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTC
* * * * * *
4018 AAACTTTTAC-AAGTTATTTTTTAACTTCAGTTCCCTT-AAGTATTCAACAAGATCCAATT--TT
255 AAACTTTTACTAA-ATCTTTTATAACTTCGGAT-CCTTAAAGTATTCAACACGATCC-ATTCCTT
* * * *
4079 TAGAGCAA-TTTTCTGAACATTCCATCCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGT
317 CA-AGCAATTTTTC-GAACATTCCATGCTCGGCAAATCGCATCATTTGGTCTAAATAGTTTGT
Statistics
Matches: 2465, Mismatches: 421, Indels: 159
0.81 0.14 0.05
Matches are distributed among these distances:
427 9 0.00
428 150 0.06
429 174 0.07
430 262 0.11
431 928 0.38
432 593 0.24
433 343 0.14
434 5 0.00
435 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (429 bp):
TTGTTTCTCTCTTTGTTCTTGGACGAACTTCGAACTTGTCAAACTTTTACGAGTTTTTTTAACTT
CGGATCCTTAAAGTATTCAACAAGATCCATTCCTTCGAGCAATTTTCAGAACATTCCATGCTCGG
GAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAA
AACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTT
TTACTAAATCTTTTATAACTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATT
TTTCGAACATTCCATGCTCGGCAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACA
ACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
Found at i:1980 original size:647 final size:645
Alignment explanation
Indices: 745--4140 Score: 3916
Period size: 647 Copynumber: 5.3 Consensus size: 645
735 CTTGCCAAAC
* * * **
745 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCTGAGCTTGTCAAACTTTTCCTAGTTCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
* * *
810 CTTCGGATCCTTAAAGTATTCAAGACGATCTATTCCTTCGAGCAATTTCTT-GAACATTCCATGC
66 CTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTT-TTCGAACATTCCATGC
* * * ** ***
874 TCGGGAAATAGCATCATTTCGTCTAAACAGTTCCTCATTTTGCAAACAAAAACTTGGTCTTTGAA
130 TCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAAC-AAGTTTTGGTCTTTGAA
* *
939 TTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTTGTTCTTGCACGAACTTCCGAACTTGTCA
194 TTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCA
* * * * * * * * *
1004 AACTTTTGCTAGTTCTTTTATAACTTTGGATCCTTAAAGTATTCAAGATGATCTATTCTTTCTAG
259 AACTTTTACTA-ATCTTTTATAAATTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCGAG
* * * **
1069 CAATTTTTTGAACATTCCATGCTCAGG-AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTCA
323 CAATTTTTCGAACATTCCATACTC-GGCAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTG
* * *
1133 CAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTTGTACTT
387 CAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTT
* * * *
1198 GGATGAACTGTT-TAACATGTCAAACTTTTACGAGTTA-TTTTTAACTTTGGTTCCCTAAAGTAT
452 GGACGAACT-TTCGAACTTGTCAAACTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTAT
* * * *
1261 TCAACAAGATCCATTCCTTAGAGCAA-TTTTCAGAACATTCCATGCTCCGAAAATCGTAGCATTT
516 TCAACAAGATCCATTCTTTAGAGCAATTTTTCA-AA-ATTCCATCCTCC-AAAATCGCATCATTT
1325 GGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGA
578 GGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGA
1390 GAA
643 GAA
*
1393 TTGTTTCTCTCTTT-TGTCTTGGACGAACTTCCCAACTTGTCAAACTTTTACTAAATCTTTTATA
1 TTGTTTCTCTCTTTGT-TCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATA
* ** * *
1457 AATTCAAATCGTTAAAGTATTCAACATGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGC
65 ACTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGC
* * *** * * *
1522 TCAGCAAATAAAAACATTTGGTCTAAATAGTTAGTCATTTTGCAAACAAGTTTTGGTTTTTGAAT
130 TCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAAT
* * * * *
1587 TAAAAACTTATTTACGTGAGAATTGTTTCCCACTTTGTTCTTGGGCGAATTTTCGAACTTGTCAA
195 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAA
* * * *
1652 ACTTTCACTGAATCTTTTATAAATTCGGATCCTTAAATTATTCTACATGATCCATTCCTTCGAGC
260 ACTTTTACT-AATCTTTTATAAATTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCGAGC
* *
1717 AATTTTTCGAACATCCCATACTCGGCAAATCACATCATTTGGTCTAAATAGTTTGTCTTTTTGCA
324 AATTTTTCGAACATTCCATACTCGGCAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCA
* * * *
1782 AACAAGTTTTAGTCTTTGAGTTAAAAACTTA-TTACGTGAGAATTGTTCCTCTCTTTGTTCTTCG
389 AACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGG
* *
1846 ACGAACTTTCGAACATGTCAATCTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCA
454 ACGAACTTTCGAACTTGTCAAACTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCA
*
1911 ACAAGATCCATTTTTTAGAGCAATTTTTCAAAATTTCCATCCTCCAAAAGTCGCATCATTTGGTC
519 ACAAGATCCATTCTTTAGAGCAATTTTTCAAAA-TTCCATCCTCCAAAA-TCGCATCATTTGGTC
* * **
1976 TAAATAATTTGTCATTTTGTAAACAACTTTTGGTGATTGAATTAAAAACTTATTTACGTGAGAA
582 TAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
* * * * **
2040 TTGTTTCTCTCTATGTTCTTGGACGAGCTTCCAAACTTGTCTAAA-TTTTATGTGTTAT-TTTT-
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTC-AAACTTTTA-CT-AAATCTTTTA
* * * ** * * *
2102 TAACTTCGGTTCCCTAAAGTATTCAACAAGATCCATTCCTTTGAGTAATTTTCCAAACATTCCAT
63 TAACTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCAT
* * * * *
2167 GCTCGGGAAATCGCATCATTTGATCT--A-AGTATGTTATTTTGTAAACAAGTTTTCGTCATTT-
128 GCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTC-TTTG
* * *
2228 AATTAAAAACTTATTTACGTGAGAATTCTTTCTCTCTTTGTTCTTGGACGACCTTCCGAGCTTGT
192 AATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGT
* * * * *
2293 CAAACTTTTACTAGTTCTTTTATAACTTCAGATCCTTAAAGTGTTCAAGACGATCCATTCCTTCG
257 CAAACTTTTACTA-ATCTTTTATAAATTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCG
* * * * * * *
2358 AGAAATTTTTCAAACATTCCA-AGCTTGGGAAATCGCATCATTAGGTCTAAATAGTTTCTCATTT
321 AGCAATTTTTCGAACATTCCATA-CTCGGCAAATCACATCATTTGGTCTAAATAGTTTGTCATTT
*** *
2422 TGCAAACAAAAACTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTATCTTTGTT
385 TGCAAAC-AAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTT
* * * * * *
2487 CTTGGACGAAC-TTCTGAACTTGTCAAACTTTTACTAGTTCTTTTATAACGTCGGATCCTTAAAG
449 CTTGGACGAACTTTC-GAACTTGTCAAACTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAG
* * * * * * * ** *
2551 TATTCCAGACGATCTATTCTTTCGAGCAATTTTCTGAACATTCCA-CGCTCGGGAAATCACATCA
513 TATTCAACAAGATCCATTCTTTAGAGCAATTTT-TCAAAATTCCATC-CTC-CAAAATCGCATCA
* * * *
2615 TTTGGTCTAAATAGTTTGTCAGTTTGCAAACAAGTTTTGGTCTTTGAATTAAACACTTATTGACG
575 TTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACG
2680 TGAGAA
640 TGAGAA
* * * * *
2686 TAGTTTCCCTCTTTGTTCTTGGACGAACTTCCGATCTTATCAAACTTTTTCTAAATCTTTTATAA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
* * * *
2751 ATTTGAATCCTTAAAGTCTTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGCT
66 CTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGCT
* * * *
2816 TGGAAAATCACATCATTTAGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATT
131 CGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATT
* * *
2881 AAAAACTTATTTACGTGAGAATTATTTCTCTCTTTGTTGTTGGACGAACATCCGAACTTGTCAAA
196 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAA
* * * *
2946 CTTTTACTGAATCTTTTATAAATTCGGTTCCTTATAGTAGTCAACA-GATCCATTCCTTTGAGCA
261 CTTTTACT-AATCTTTTATAAATTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCGAGCA
* * *
3010 ATATTCCGAACATTCCATACTCGGCAAATCACATCATTTGGTCTAAATAGTTTATC-TTTTCGCA
325 ATTTTTCGAACATTCCATACTCGGCAAATCACATCATTTGGTCTAAATAGTTTGTCATTTT-GCA
** * * *
3074 AACAAGTTTCAGTCTTTGAGTTAAAAACTTA-TTACTTGAGAATTGTTTCTCTCTTTGTTCATGG
389 AACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGG
* * * * *
3138 ACGAACTTTTGAACTTGTCAAACTTTTACAAGTTATTTTTTTAACTTCAGTTCCCTTATGTATTC
454 ACGAACTTTCGAACTTGTCAAACTTTTACGAGTTA-TTTTTTAACTTCGGTTCCCTAAAGTATTC
* * *** *
3203 AACAAGATCCAATT-TTTAGAGCAATTTTCTGAATATTCCATCCTTGGGAAATCGCGTCATTTGG
518 AACAAGATCC-ATTCTTTAGAGCAATTTT-TCAAAATTCCATCC-TCCAAAATCGCATCATTTGG
* * *
3267 TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTCAGAACTTATTTACGTGAGA
580 TCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
3332 A
645 A
* * * * * * * * *
3333 TGGTATCTCTCTTTCTTTTTAGATGAACGT-CTAAGCTTGTCAAACTTTCACTATTAA--TTTTA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAA-CTTGTCAAACTTTTACTA--AATCTTTTA
* * * * *
3395 TAACTTCAGATACTTAAAGTATTCAAGACGATCCATTCCTTCGAA--ATATTTTTCAAACATTCG
63 TAACTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTC-AAGCA-ATTTTTCGAACATTCC
* * *
3458 ATTCCCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCTAACAAGTTTTGGTCTTT
126 ATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTT
* * *
3523 GAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGATGAACTTCCCAACATG
191 GAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTG
* * * *
3588 TCAAACTTTTATTAAATCTTTTATACATTCGAATCCTTAAAGTATTCAACACGATCCATTTCTTC
256 TCAAACTTTTACT-AATCTTTTATAAATTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTC
* * * * * *
3653 AAGCAATTTTCCGAACATTCTATGCTCGGCAAATTACATCATTTGGTCTAAAAAGTTTGTCATTT
320 GAGCAATTTTTCGAACATTCCATACTCGGCAAATCACATCATTTGGTCTAAATAGTTTGTCATTT
* *
3718 TGCAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTCTTTGTTG
385 TGCAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTC
* * * * * * ** *
3783 TTGGACGAACATCCGAACTTGTCAAACTTTTACTGA-ATCTTTTATAAATTCAATTCCTTAAAGT
450 TTGGACGAACTTTCGAACTTGTCAAACTTTTAC-GAGTTATTTTTTAACTTCGGTTCCCTAAAGT
* * * * * * *
3847 ATTAAAC-AGATTCATTCCTCT-GAGCAATATTTTGAACATTCCATACTCGGC-AAATCACATCA
514 ATTCAACAAGATCCATT-CTTTAGAGCAAT-TTTTCAAAATTCCATCCTC--CAAAATCGCATCA
* * ** * *
3909 TTTGGTCTAAATAGTTTGTCTTTTTGCAAACAAGTTTCAGTCTTTGAGTTAAAAACTTA-TTACT
575 TTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACG
*
3973 TAAGAA
640 TGAGAA
* * * * *
3979 TTG-TT-TCTCTTTGTTCATGGACGAACTTTCGAACTTGTCAAACTTTTAC-AAGTTATTTTTTA
1 TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAA-ATCTTTTATA
* * * *
4041 ACTTCAGTTCCCTT-AAGTATTCAACAAGATCCAATT--TTTAGAGCAA-TTTTCTGAACATTCC
65 ACTTCGGAT-CCTTAAAGTATTCAACACGATCC-ATTCCTTCA-AGCAATTTTTC-GAACATTCC
* *
4102 ATCCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGT
126 ATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGT
Statistics
Matches: 2322, Mismatches: 365, Indels: 126
0.83 0.13 0.04
Matches are distributed among these distances:
641 1 0.00
642 1 0.00
643 11 0.00
644 303 0.13
645 52 0.02
646 436 0.19
647 956 0.41
648 369 0.16
649 191 0.08
650 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (645 bp):
TTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACTAAATCTTTTATAA
CTTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCAAGCAATTTTTCGAACATTCCATGCT
CGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATT
AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCCGAACTTGTCAAA
CTTTTACTAATCTTTTATAAATTCGGATCCTTAAAGTATTCAACACGATCCATTCCTTCGAGCAA
TTTTTCGAACATTCCATACTCGGCAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCAAA
CAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGAC
GAACTTTCGAACTTGTCAAACTTTTACGAGTTATTTTTTAACTTCGGTTCCCTAAAGTATTCAAC
AAGATCCATTCTTTAGAGCAATTTTTCAAAATTCCATCCTCCAAAATCGCATCATTTGGTCTAAA
TAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
Done.