Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01000165.1 Kokia drynarioides strain JFW-HI SEQ_110835, 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: 2640
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Found at i:412 original size:89 final size:88
Alignment explanation
Indices: 296--1536 Score: 1396
Period size: 89 Copynumber: 14.2 Consensus size: 88
286 ATGTTACACA
* * *
296 TTTAGGTATTAAATAAAATTATGTTTTTTCACCTTTTTTAGTAGTATCATTTATAATATAATACA
1 TTTAGGTATTAAATAAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATACA
* *
361 TTTTCAAACATAAAAGAAAGACTT
66 TTTCCAAACATAAAA-AAAGACAT
* * ** *
385 TTTAGGTATTATA-AAAATTACGTTTTTTCA-CTTTTTTATTAGTGTCATCCATAATATG-ATAT
1 TTTAGGTATTAAATAAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATTTATAATA-GAATAC
447 ATTTCCAAACAT-AAAAAA-ACAT
65 ATTTCCAAACATAAAAAAAGACAT
* * * * * * * *
469 TTTAGATAATAAATAAAATTCCGTTGCTTT-ACTTTTTTTAGTATTGTCATTCATAATATAATAC
1 TTTAGGTATTAAATAAAATTACGTT-TTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATAC
* *
533 ATTTTCAAACATAAAATAAAGACTT
65 ATTTCCAAACATAAAA-AAAGACAT
* * * ** * *
558 TTTAGGAAATAAAGAAAATTACGTTACTTCACCTTTTTTAGTAGTGTTATTTATATTAGAATACA
1 TTTAGGTATTAAATAAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATACA
* *
623 TTTACAAATAT-AAAAAA-ACAT
66 TTTCCAAACATAAAAAAAGACAT
** * * * ** * *
644 TTTAGGTATTAAATAAAACCACGTTACTAT-ACCCTTTTTAACAGTGTCATTCATAATAAAACT-
1 TTTAGGTATTAAATAAAATTACGTT-TTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAA-TA
*
707 CATTTCCAAACATAAAATAAAGATAT
64 CATTTCCAAACATAAAA-AAAGACAT
*
733 TTTAGGTATTAAATAAAATTACGTTTATTCACCTTTTTTAGTAGTGTCATTTATAATAGAATACA
1 TTTAGGTATTAAATAAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATACA
*
798 TTTCCAAACATAAAATAAAGACTT
66 TTTCCAAACATAAAA-AAAGACAT
*
822 TTTAGGTATTAAA-AAAATTACGTTTTTTCACATTTTTTAGTAGTGTCATTTATAATAGAATACA
1 TTTAGGTATTAAATAAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATACA
*
886 TTTCCAAAAAT-AAAAAA-ACAT
66 TTTCCAAACATAAAAAAAGACAT
** * ** * * * *
907 TTTAGGTATTAAATAAAACCACATTACTTCACCTTTTTTAGTAATGTCATTGATAATATAATTCA
1 TTTAGGTATTAAATAAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATACA
972 TTTCCAAACATAAAATAAAGACA-
66 TTTCCAAACATAAAA-AAAGACAT
995 TTTAGGTATTAAATAAAATTACG-TTTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATACA
1 TTTAGGTATTAAATAAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATACA
* *
1059 TTTCCAAACATAAAAGAAAAAAAT
66 TTTCCAAACATAAAA-AAAGACAT
* * *
1083 TTTAGGTATTAAAAAAAATTACGTTTTTTCACCTTTTTTACTAGTGTCATTTATAATAGAATAAA
1 TTTAGGTATTAAATAAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATACA
* * *
1148 TTTCTAAACATAAAAGAAAAACTT
66 TTTCCAAACATAAAA-AAAGACAT
* * * * *
1172 TTTAGGTACTAAA-AAAATTTACGTTTTTTCATCTTTTTTACTAGTGTTATTTATAATAGAATAA
1 TTTAGGTATTAAATAAAA-TTACGTTTTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATAC
* * * *
1236 ATTTTCACACATAAAAGAAAAAAAT
65 ATTTCCAAACATAAAA-AAAGACAT
* * * * *
1261 TTTAGGTATTAAAAAAAATTACATTTTTTCACCTTTTTTAGTAGTATCATTTTTAATAGAATATA
1 TTTAGGTATTAAATAAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATACA
*
1326 TTTCCAAACATAAAATAAAGACTT
66 TTTCCAAACATAAAA-AAAGACAT
* * *
1350 TTTAGGTATTAAA-AAAATTACCTTTTTTCACATTTTTTAGTAGTGTCATTTATATTAGAATACA
1 TTTAGGTATTAAATAAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATACA
*
1414 TTTCCAAACAT-AAAAAA-TCAT
66 TTTCCAAACATAAAAAAAGACAT
* * * * * *
1435 TTTAGGTATTAAATAAAA-CACGTTACTTT-ACCTTTTTTAGTAATGTCATTCATAGTAAAATAC
1 TTTAGGTATTAAATAAAATTACGTT-TTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATAC
* *
1498 ATTTCTAAATAT-AAAAAA-AC-T
65 ATTTCCAAACATAAAAAAAGACAT
1519 TTTAGGTATTAAATAAAA
1 TTTAGGTATTAAATAAAA
1537 CCACGTTACT
Statistics
Matches: 984, Mismatches: 142, Indels: 57
0.83 0.12 0.05
Matches are distributed among these distances:
84 32 0.03
85 95 0.10
86 164 0.17
87 111 0.11
88 193 0.20
89 385 0.39
90 4 0.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (88 bp):
TTTAGGTATTAAATAAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATTTATAATAGAATACA
TTTCCAAACATAAAAAAAGACAT
Found at i:1813 original size:89 final size:89
Alignment explanation
Indices: 1568--2640 Score: 1152
Period size: 89 Copynumber: 12.3 Consensus size: 89
1558 GGTATTAAAG
* ** *
1568 AAAGACTTTTTAGGTATTATA-AAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATCCATAAT
1 AAAGACTTTTTAGGTATTAAATAAAATTACGTTACTTCACCTTTTTTAGTAGTGTCATTCATAAT
* *
1632 ATAATATATTTCCAAACAT-AAA-
66 AGAATACATTTCCAAACATAAAAT
* * * * * * *
1654 AAAG-CATTTTAGGTAATAAATAAAATTCCGTTGCTTTACTTTTTTTAGTATTGTCATTCATAAT
1 AAAGACTTTTTAGGTATTAAATAAAATTACGTTACTTCACCTTTTTTAGTAGTGTCATTCATAAT
*
1718 ATAATACATTTCCAAACATAAAAT
66 AGAATACATTTCCAAACATAAAAT
* * * * * *
1742 AAAGACTTTTTAGGAAATAAAGAAAATTACGTTACTTCACCTTTTTTAGTAGTGTTATTTATATT
1 AAAGACTTTTTAGGTATTAAATAAAATTACGTTACTTCACCTTTTTTAGTAGTGTCATTCATAAT
* * *
1807 AGAATACGTTTACATACAT-AAA-
66 AGAATACATTTCCAAACATAAAAT
* ** * *
1829 AAA-ACATTTTAGGTATTAAATAAAACCACGTTACTAT-ACCCTTTTTAATAGTGTCATTCATAA
1 AAAGACTTTTTAGGTATTAAATAAAATTACGTTACT-TCACCTTTTTTAGTAGTGTCATTCATAA
* *
1892 AAAAATTA-ATTTCCAAACATAAAAT
65 TAGAA-TACATTTCCAAACATAAAAT
** * *
1917 AAAGA-TATTTTAGGTATTAAATAAAATTACGTTTTTTCATCTTTTTTAGTAGTGTCATTTATAA
1 AAAGACT-TTTTAGGTATTAAATAAAATTACGTTACTTCACCTTTTTTAGTAGTGTCATTCATAA
1981 TAGAATACATTTCCAAACATAAAAT
65 TAGAATACATTTCCAAACATAAAAT
* ** *
2006 AAAGACTTTTTAGGTATTATA-AAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATCCATAAT
1 AAAGACTTTTTAGGTATTAAATAAAATTACGTTACTTCACCTTTTTTAGTAGTGTCATTCATAAT
* *
2070 ATAATATATTTCCAAACATAAAA-
66 AGAATACATTTCCAAACATAAAAT
* * * * * * * *
2093 AAACA-TTTTT-GGTAATAAATAAAATTCCGTTGCTTTACTTTTTTTAGTATTGTCATTCGTAAT
1 AAAGACTTTTTAGGTATTAAATAAAATTACGTTACTTCACCTTTTTTAGTAGTGTCATTCATAAT
*
2156 ATAATACATTTCCAAACATAAAAT
66 AGAATACATTTCCAAACATAAAAT
* * * * * * *
2180 AAAGACTTTTTAGGAAATAAAGAAAATTACGTTACTTCACTTTTTTTAGTAGTGTTATTTATATT
1 AAAGACTTTTTAGGTATTAAATAAAATTACGTTACTTCACCTTTTTTAGTAGTGTCATTCATAAT
* *
2245 AGAATACGTTTACAAACAT-AAA-
66 AGAATACATTTCCAAACATAAAAT
* * ** * * *
2267 AAA-ACATTTTAGGTATTAAAAAAAACCACGTTA-TTATACCCTTTTTAATAGTGTCATTCATAA
1 AAAGACTTTTTAGGTATTAAATAAAATTACGTTACTT-CACCTTTTTTAGTAGTGTCATTCATAA
* * *
2330 AAAAATTCATTTCCAAACATAAAAT
65 TAGAATACATTTCCAAACATAAAAT
* ** * *
2355 AAATA-TATTTTAGGTATTAAATAAAATTACGTTTTTTCACTTTTTTTAGTAGTGTCATTTATAA
1 AAAGACT-TTTTAGGTATTAAATAAAATTACGTTACTTCACCTTTTTTAGTAGTGTCATTCATAA
*
2419 TAGAATACATTTTCAAACATAAAAT
65 TAGAATACATTTCCAAACATAAAAT
* *
2444 AAAGACTTTTTAGGTATTAAA-AAAATTTACGATT-TTTCACCTTTTTTAGTAGTGTCATTTATA
1 AAAGACTTTTTAGGTATTAAATAAAA-TTACG-TTACTTCACCTTTTTTAGTAGTGTCATTCATA
*
2507 ATAGAATACATTTCCAAAAAT-AAA-
64 ATAGAATACATTTCCAAACATAAAAT
* ** *
2531 AAA-ACATTTTAGGTATTAAATAAAACCACGTTACTTCACCTTTTTTAGTAATGTCATTCATAAT
1 AAAGACTTTTTAGGTATTAAATAAAATTACGTTACTTCACCTTTTTTAGTAGTGTCATTCATAAT
* *
2595 ATAATTCATTTCCAAACATAAAAT
66 AGAATACATTTCCAAACATAAAAT
*
2619 AAAGAC-ATTTAGGTATTAAATA
1 AAAGACTTTTTAGGTATTAAATA
Statistics
Matches: 825, Mismatches: 131, Indels: 60
0.81 0.13 0.06
Matches are distributed among these distances:
85 24 0.03
86 301 0.36
87 36 0.04
88 110 0.13
89 348 0.42
90 6 0.01
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (89 bp):
AAAGACTTTTTAGGTATTAAATAAAATTACGTTACTTCACCTTTTTTAGTAGTGTCATTCATAAT
AGAATACATTTCCAAACATAAAAT
Found at i:1886 original size:175 final size:178
Alignment explanation
Indices: 1568--2638 Score: 1165
Period size: 175 Copynumber: 6.1 Consensus size: 178
1558 GGTATTAAAG
* * *
1568 AAAGACTTTTTAGGTATTATAAAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATCCATAATA
1 AAAGACTTTTTAGGTATTAAAAAAATTACGTTATTTCACCTTTTTTAGTAGTGTCATTCATAATA
* * * *
1633 TAATATATTTCCAAACAT-AAA-AAAG-CATTTTAGGTAATAAATAAAATTC-CGTTGCTTT-AC
66 GAATACATTTCCAAACATAAAATAAAGACATTTTAGGTATTAAATAAAA-TCACGTTACTTTCAC
* *
1693 TTTTTTTAGTATTGTCATTCATAATATAATACATTTCCAAACATAAAAT
130 CTTTTTTAGTAGTGTCATTCATAATATAATACATTTCCAAACATAAAAT
* * * * * *
1742 AAAGACTTTTTAGGAAATAAAGAAAATTACGTTACTTCACCTTTTTTAGTAGTGTTATTTATATT
1 AAAGACTTTTTAGGTATTAAA-AAAATTACGTTATTTCACCTTTTTTAGTAGTGTCATTCATAAT
* * * * *
1807 AGAATACGTTTACATACAT-AAA-AAA-ACATTTTAGGTATTAAATAAAACCACGTTACTAT-AC
65 AGAATACATTTCCAAACATAAAATAAAGACATTTTAGGTATTAAATAAAATCACGTTACTTTCAC
* * * *
1868 CCTTTTTAATAGTGTCATTCATAAAAAAATTA-ATTTCCAAACATAAAAT
130 CTTTTTTAGTAGTGTCATTCATAATATAA-TACATTTCCAAACATAAAAT
* * *
1917 AAAGA-TATTTTAGGTATTAAATAAAATTACGTTTTTTCATCTTTTTTAGTAGTGTCATTTATAA
1 AAAGACT-TTTTAGGTATTAAA-AAAATTACGTTATTTCACCTTTTTTAGTAGTGTCATTCATAA
* * * *
1981 TAGAATACATTTCCAAACATAAAATAAAGACTTTTTAGGTATTATA-AAAATTACGTT-TTTTCA
64 TAGAATACATTTCCAAACATAAAATAAAGACATTTTAGGTATTAAATAAAATCACGTTACTTTCA
* *
2044 CCTTTTTTAGTAGTGTCATCCATAATATAATATATTTCCAAACATAAAA-
129 CCTTTTTTAGTAGTGTCATTCATAATATAATACATTTCCAAACATAAAAT
* * * * * * *
2093 AAACA-TTTTT-GGTAATAAATAAAATTCCGTTGCTTT-ACTTTTTTTAGTATTGTCATTCGTAA
1 AAAGACTTTTTAGGTATTAAA-AAAATTACGTT-ATTTCACCTTTTTTAGTAGTGTCATTCATAA
* * * * * *
2155 TATAATACATTTCCAAACATAAAATAAAGACTTTTTAGGAAATAAAGAAAATTACGTTAC-TTCA
64 TAGAATACATTTCCAAACATAAAATAAAGACATTTTAGGTATTAAATAAAATCACGTTACTTTCA
* * * * * * *
2219 CTTTTTTTAGTAGTGTTATTTATATTAGAATACGTTTACAAACAT-AAA-
129 CCTTTTTTAGTAGTGTCATTCATAATATAATACATTTCCAAACATAAAAT
* ** * *
2267 AAA-ACATTTTAGGTATTAAAAAAAACCACGTTATTAT-ACCCTTTTTAATAGTGTCATTCATAA
1 AAAGACTTTTTAGGTATT-AAAAAAATTACGTTATT-TCACCTTTTTTAGTAGTGTCATTCATAA
* * * * * * *
2330 AAAAATTCATTTCCAAACATAAAATAAATATATTTTAGGTATTAAATAAAATTACGTT-TTTTCA
64 TAGAATACATTTCCAAACATAAAATAAAGACATTTTAGGTATTAAATAAAATCACGTTACTTTCA
* * * *
2394 CTTTTTTTAGTAGTGTCATTTATAATAGAATACATTTTCAAACATAAAAT
129 CCTTTTTTAGTAGTGTCATTCATAATATAATACATTTCCAAACATAAAAT
*
2444 AAAGACTTTTTAGGTATTAAAAAAATTTACGATT-TTTCACCTTTTTTAGTAGTGTCATTTATAA
1 AAAGACTTTTTAGGTATTAAAAAAA-TTACG-TTATTTCACCTTTTTTAGTAGTGTCATTCATAA
* *
2508 TAGAATACATTTCCAAAAAT-AAA-AAA-ACATTTTAGGTATTAAATAAAACCACGTTAC-TTCA
64 TAGAATACATTTCCAAACATAAAATAAAGACATTTTAGGTATTAAATAAAATCACGTTACTTTCA
* *
2569 CCTTTTTTAGTAATGTCATTCATAATATAATTCATTTCCAAACATAAAAT
129 CCTTTTTTAGTAGTGTCATTCATAATATAATACATTTCCAAACATAAAAT
*
2619 AAAGAC-ATTTAGGTATTAAA
1 AAAGACTTTTTAGGTATTAAA
2639 TA
Statistics
Matches: 757, Mismatches: 115, Indels: 50
0.82 0.12 0.05
Matches are distributed among these distances:
173 1 0.00
174 127 0.17
175 464 0.61
176 23 0.03
177 68 0.09
178 72 0.10
179 2 0.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (178 bp):
AAAGACTTTTTAGGTATTAAAAAAATTACGTTATTTCACCTTTTTTAGTAGTGTCATTCATAATA
GAATACATTTCCAAACATAAAATAAAGACATTTTAGGTATTAAATAAAATCACGTTACTTTCACC
TTTTTTAGTAGTGTCATTCATAATATAATACATTTCCAAACATAAAAT
Found at i:2383 original size:438 final size:438
Alignment explanation
Indices: 296--2638 Score: 851
Period size: 438 Copynumber: 5.4 Consensus size: 438
286 ATGTTACACA
* ** * * * * *
296 TTTAGGTATTAAATAAAATTATGTT-TTTTCACCTTTTTTAGTAGTATCATTTATAATATAATAC
1 TTTAGGTAATAAATAAAATTCCGTTGCTTT-ACTTTTTTTAGTATTGTCATTCATAATATAATAC
* * * * * **
360 ATTTTCAAACATAAAAGAAAGACTTTTTAGGTATTATA-AAAATTACGTTTTTTCA-CTTTTTTA
65 ATTTCCAAACATAAAATAAAGACTTTTTAGGAAATAAAGAAAATTACGTTACTTCACCTTTTTTA
* * ** * * * *
423 TTAGTGTCATCCATAATATGATATA--TTTCCAAACATAAAAAAACATTTTAGATAATAAATAAA
130 GTAGTGTTATTTATATTA-GA-ATACGTTTACAAACATAAAAAAACATTTTAGGTATTAAA-AAA
** * * ** * * * * *
486 ATTC-CGTTGCTTTACTTTTTTTAGTATTGTCATTCATAATATAA-TACATTTTCAAACATAAAA
192 AACCACGTTACTATACCCTTTTTAATAGTGTCATTCATAAAAAAATTA-ATTTCCAAACATAAAA
* * * ** * *
549 TAAAGACT-TTTTAGGAAATAAAGAAAATTACGTTACTTCACCTTTTTTAGTAGTGTTATTTATA
256 TAAAGA-TATTTTAGGTATTAAATAAAATTACGTTTTTTCACTTTTTTTAGTAGTGTCATTTATA
* * * * * ** * *
613 TTAGAATACATTTACAAATAT-AAA-AAA-ACATTTTAGGTATTAAATAAAACCACGTTACTAT-
320 ATAGAATACATTTCCAAACATAAAATAAAGACTTTTTAGGTATTATA-AAAATTACGTT-TTTTC
* ** * *
674 ACCCTTTTTAACAGTGTCATTCATAATA-AA-ACTCATTTCCAAACATAAAATAAAGATAT
383 ACCTTTTTTAGTAGTGTCATCCATAATATAATA-T-ATTTCCAAACAT-AAA-AAA-ACAT
* * ** * * * * *
733 TTTAGGTATTAAATAAAATTACGTTTATTCACCTTTTTTAGTAGTGTCATTTATAATAGAATACA
1 TTTAGGTAATAAATAAAATTCCGTTGCTTTACTTTTTTTAGTATTGTCATTCATAATATAATACA
* * ** *
798 TTTCCAAACATAAAATAAAGACTTTTTAGGTATTAAA-AAAATTACGTTTTTTCACATTTTTTAG
66 TTTCCAAACATAAAATAAAGACTTTTTAGGAAATAAAGAAAATTACGTTACTTCACCTTTTTTAG
* * * * * *
862 TAGTGTCATTTATAATAGAATACATTTCCAAAAATAAAAAAACATTTTAGGTATTAAATAAAACC
131 TAGTGTTATTTATATTAGAATACGTTTACAAACATAAAAAAACATTTTAGGTATTAAAAAAAACC
* * * * * * * *
927 ACATTACT-TCACCTTTTTTAGTAATGTCATTGATAATATAATTCATTTCCAAACATAAAATAAA
196 ACGTTACTAT-ACCCTTTTTAATAGTGTCATTCATAAAAAAATTAATTTCCAAACATAAAATAAA
* *
991 GACA-TTTAGGTATTAAATAAAATTACG-TTTTTCACCTTTTTTAGTAGTGTCATTTATAATAGA
260 GATATTTTAGGTATTAAATAAAATTACGTTTTTTCACTTTTTTTAGTAGTGTCATTTATAATAGA
* * ** *
1054 ATACATTTCCAAACATAAAAGAAAAAAATTTTAGGTATTAAAAAAAATTACGTTTTTTCACCTTT
325 ATACATTTCCAAACATAAAATAAAGACTTTTTAGGTATT-ATAAAAATTACGTTTTTTCACCTTT
* ** * * * *
1119 TTTACTAGTGTCATTTATAATAGAATAAATTTCTAAACATAAAAGAAAAACTT
389 TTTAGTAGTGTCATCCATAATATAATATATTTCCAAACAT--AA-AAAAACAT
* * * * * * * *
1172 TTTAGGTACTAAA-AAAATTTACGTT--TTTTCATCTTTTTTACTAGTGTTATTTATAATAGAAT
1 TTTAGGTAATAAATAAAA-TTCCGTTGCTTTAC-T-TTTTTTAGTATTGTCATTCATAATATAAT
* * * * * ** * * * * **
1234 AAATTTTCACACATAAAAGAAAAAAATTTTAGGTATTAAAAAAAATTACATTTTTTCACCTTTTT
63 ACATTTCCAAACATAAAATAAAGACTTTTTAGGAAATAAAGAAAATTACGTTACTTCACCTTTTT
* * * * ** * *
1299 TAGTAGTATCATTTTTAATAGAATATATTTCCAAACATAAAATAAAGACTTTTTAGGTATT-AAA
128 TAGTAGTGTTATTTATATTAGAATACGTTTACAAACAT-AAA-AAA-ACATTTTAGGTATTAAAA
** * * * ** * * ** *
1363 AAAATTACCTT-TTTTCACATTTTTTAGTAGTGTCATTTATATTAGAA-TACATTTCCAAACAT-
190 AAAACCACGTTACTAT-ACCCTTTTTAATAGTGTCATTCATAAAAAAATTA-ATTTCCAAACATA
* * * *
1425 -AA-AAA-ATCATTTTAGGTATTAAATAAAA-CACGTTACTTT-ACCTTTTTTAGTAATGTCATT
253 AAATAAAGAT-ATTTTAGGTATTAAATAAAATTACGTT-TTTTCACTTTTTTTAGTAGTGTCATT
* * * * * * ** **
1485 CATAGTAAAATACATTTCTAAATAT-AAA-AAA-AC-TTTTAGGTATTAAATAAAACCACGTTAC
316 TATAATAGAATACATTTCCAAACATAAAATAAAGACTTTTTAGGTATTATA-AAAATTACGTTTT
* * *
1546 TTCA-C-ATTTT--TAG-G---T--AT--TA-AAGA-A-----AGAC-T---------T
380 TTCACCTTTTTTAGTAGTGTCATCCATAATATAATATATTTCCAAACATAAAAAAACAT
* * * ** * * * * *
1576 TTTAGGTATTATA-AAAATTACGTTTTTTCACCTTTTTTAGTAGTGTCATCCATAATATAATATA
1 TTTAGGTAATAAATAAAATTCCGTTGCTTTACTTTTTTTAGTATTGTCATTCATAATATAATACA
* * * * * * *
1640 TTTCCAAACAT-AAA-AAAG-CATTTTAGGTAATAAATAAAATTCCGTTGCTTTACTTTTTTTAG
66 TTTCCAAACATAAAATAAAGACTTTTTAGGAAATAAAGAAAATTACGTTACTTCACCTTTTTTAG
* * * * * * * * * * *
1702 TATTGTCATTCATAATATAATACATTTCCAAACATAAAATAAAGACTTTTTAGGAAATAAAGAAA
131 TAGTGTTATTTATATTAGAATACGTTTACAAACAT-AAA-AAA-ACATTTTAGGTATTAAAAAAA
** * * * * ** * * * *
1767 ATTACGTTACT-TCACCTTTTTTAGTAGTGTTATTTATATTAGAA-TACGTTTACATACAT-AAA
193 ACCACGTTACTAT-ACCCTTTTTAATAGTGTCATTCATAAAAAAATTA-ATTTCCAAACATAAAA
* ** * * ** * *
1829 -AAA-ACATTTTAGGTATTAAATAAAACCACGTTACTAT-ACCCTTTTTAATAGTGTCATTCATA
256 TAAAGATATTTTAGGTATTAAATAAAATTACGTT-TTTTCACTTTTTTTAGTAGTGTCATTTATA
* * *
1891 AAAAAATTA-ATTTCCAAACATAAAATAAAGA-TATTTTAGGTATTAAATAAAATTACGTTTTTT
320 ATAGAA-TACATTTCCAAACATAAAATAAAGACT-TTTTAGGTATTATA-AAAATTACGTTTTTT
* ** * * *
1954 CATCTTTTTTAGTAGTGTCATTTATAATAGAATACATTTCCAAACATAAAATAAAGACTT
382 CACCTTTTTTAGTAGTGTCATCCATAATATAATATATTTCCAAACAT-AAA-AAA-ACAT
* * * * * * * *
2014 TTTAGGTATTATA-AAAATTACGTT-TTTTCACCTTTTTTAGTAGTGTCATCCATAATATAATAT
1 TTTAGGTAATAAATAAAATTCCGTTGCTTT-ACTTTTTTTAGTATTGTCATTCATAATATAATAC
* * * * * * *
2077 ATTTCCAAACATAAAA-AAACA-TTTTT-GGTAATAAATAAAATTCCGTTGCTTTACTTTTTTTA
65 ATTTCCAAACATAAAATAAAGACTTTTTAGGAAATAAAGAAAATTACGTTACTTCACCTTTTTTA
* * ** * * * * * * * *
2139 GTATTGTCATTCGTAATATAATACATTTCCAAACATAAAATAAAGACTTTTTAGGAAATAAAGAA
130 GTAGTGTTATTTATATTAGAATACGTTTACAAACAT-AAA-AAA-ACATTTTAGGTATTAAAAAA
** ** * * * ** * * *
2204 AATTACGTTACT-TCACTTTTTTTAGTAGTGTTATTTATATTAGAA-TACGTTTACAAACAT-AA
192 AACCACGTTACTAT-ACCCTTTTTAATAGTGTCATTCATAAAAAAATTA-ATTTCCAAACATAAA
* * ** * ** * *
2266 A-AAA-ACATTTTAGGTATTAAAAAAAACCACGTTATTAT-ACCCTTTTTAATAGTGTCATTCAT
255 ATAAAGATATTTTAGGTATTAAATAAAATTACGTT-TTTTCACTTTTTTTAGTAGTGTCATTTAT
* * * * *
2328 AAAAAAATTCATTTCCAAACATAAAATAAATA-TATTTTAGGTATTAAATAAAATTACGTTTTTT
319 AATAGAATACATTTCCAAACATAAAATAAAGACT-TTTTAGGTATTATA-AAAATTACGTTTTTT
* ** * * * *
2392 CACTTTTTTTAGTAGTGTCATTTATAATAGAATACATTTTCAAACATAAAATAAAGACTT
382 CACCTTTTTTAGTAGTGTCATCCATAATATAATATATTTCCAAACAT-AAA-AAA-ACAT
* * * * * *
2452 TTTAGGTATTAAA-AAAATTTACGATT--TTTCACCTTTTTTAGTAGTGTCATTTATAATAGAAT
1 TTTAGGTAATAAATAAAA-TTCCG-TTGCTTT-ACTTTTTTTAGTATTGTCATTCATAATATAAT
* * * * * **
2514 ACATTTCCAAAAAT-AAA-AAA-ACATTTTAGGTATTAAATAAAACCACGTTACTTCACCTTTTT
63 ACATTTCCAAACATAAAATAAAGACTTTTTAGGAAATAAAGAAAATTACGTTACTTCACCTTTTT
* * * * * * * *
2576 TAGTAATGTCATTCATAATATAATTCATTTCCAAACATAAAATAAAGACA-TTTAGGTATTAAA
128 TAGTAGTGTTATTTATATTAGAATACGTTTACAAACAT-AAA-AAA-ACATTTTAGGTATTAAA
2639 TA
Statistics
Matches: 1639, Mismatches: 184, Indels: 165
0.82 0.09 0.08
Matches are distributed among these distances:
400 85 0.05
401 78 0.05
402 56 0.03
403 47 0.03
404 19 0.01
405 4 0.00
406 28 0.02
407 1 0.00
408 4 0.00
410 3 0.00
411 1 0.00
414 1 0.00
416 3 0.00
417 3 0.00
418 2 0.00
419 3 0.00
420 1 0.00
422 1 0.00
423 3 0.00
424 2 0.00
425 3 0.00
426 3 0.00
428 1 0.00
431 1 0.00
432 3 0.00
434 4 0.00
435 4 0.00
436 73 0.04
437 147 0.09
438 567 0.35
439 282 0.17
440 130 0.08
441 10 0.01
442 53 0.03
443 13 0.01
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (438 bp):
TTTAGGTAATAAATAAAATTCCGTTGCTTTACTTTTTTTAGTATTGTCATTCATAATATAATACA
TTTCCAAACATAAAATAAAGACTTTTTAGGAAATAAAGAAAATTACGTTACTTCACCTTTTTTAG
TAGTGTTATTTATATTAGAATACGTTTACAAACATAAAAAAACATTTTAGGTATTAAAAAAAACC
ACGTTACTATACCCTTTTTAATAGTGTCATTCATAAAAAAATTAATTTCCAAACATAAAATAAAG
ATATTTTAGGTATTAAATAAAATTACGTTTTTTCACTTTTTTTAGTAGTGTCATTTATAATAGAA
TACATTTCCAAACATAAAATAAAGACTTTTTAGGTATTATAAAAATTACGTTTTTTCACCTTTTT
TAGTAGTGTCATCCATAATATAATATATTTCCAAACATAAAAAAACAT
Done.