Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01006576.1 Kokia drynarioides strain JFW-HI SEQ_121162, 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: 2613
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Found at i:1203 original size:216 final size:215
Alignment explanation
Indices: 788--2612 Score: 1926
Period size: 216 Copynumber: 8.5 Consensus size: 215
778 GCTCGCATCA
** * * ** *
788 ACAAGTTCAAAAGTTTGTCCAAGAACCAAGAGAGAAACAATTTTCACATAAAAAAAGTTTTTAAA
1 ACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGT-AAAAAAGTTTTTAAT
* * *
853 TCAAAGACCAAAAATTGTTTACAAAATGACAAACTTTTTAGACCAACTGATCGTGACTTCCAAAG
65 TCAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGACCAAATGAT-GTGATTTCC-AAG
* * ** * ** * * *
918 CATGAAATGTTCGGAAAATAAGTCGAAGGAATGGATCACCTTAAATACTCTTAGGAAACGAAGTT
128 CATGGAATGTTCAGAAAATTGGTCAAAGGAATGGATCGTCTTGAATACTCTCAGGAACCGAAGTT
* * *
983 ATAAAATAACTTGTAAATGGTTG
193 ATAAAAGAACTAGTAAATGTTTG
* ** *
1006 ACAAGTTCGGAAGTTCGTACAAGAACCAAGAGAGTGACAATTCTCATGTAAATAAGTTTTTAATT
1 ACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAAAAAGTTTTTAATT
* * * * *
1071 CAAAGGCCAAAAGTTGTTTACAAATTGACAGACTTTTTAGACCAAATTATGCGATTTCCTAAGCA
66 CAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGTGATTTCC-AAGCA
* * * * * * * **
1136 TAGAATGTTTAGAAAATTTGTCGAAGGAATAGATCATCTTGAATACTCTTAGGAACAAAAGTTAT
130 TGGAATGTTCAGAAAATTGGTCAAAGGAATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTAT
* * *
1201 AAAAGAACTCGTAACTGTTAG
195 AAAAGAACTAGTAAATGTTTG
* * * * *
1222 ACAAGTTCGGAAGTTCATCCACGAACCAAGAGAAAAATAATTCTCATGTAAATAAGTTTTTAATT
1 ACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAAAAAGTTTTTAATT
* * * * * ** *
1287 TAAAGA-AAAAAGGTTGTTTACAAAAGGACAAACTATTTAAACCAAATGATGCAATTTCCCAGCA
66 CAAAGACCAAAA-GTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGTGATTTCCAAGCA
* * * * * * * * *
1351 AGGAATGTTCAAAAAATTGCTCAAAGTAATGGATCTTCTTGAATACTTTAAGGAACGGAAGCTAT
130 TGGAATGTTCAGAAAATTGGTCAAAGGAATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTAT
* **
1416 AAAAGAACTTGTAAAACTTTG
195 AAAAGAACTAGTAAATGTTTG
* * * * * * * * * ** *
1437 ACTAGGTCGTATGTTCATCCAAGAACCAAGAGAGAAATAATTCTCATGTCAATATGTACTTAGTT
1 ACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAAAAAGTTTTTAATT
* * * * *
1502 CAGAG-CACAAAAGTTATTTACAAAATTACAAACTTTTTAGACCAAATGATGCGATTTTCCAGGC
66 CAAAGAC-CAAAAGTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGTGA-TTTCCAAGC
* * ** *
1566 ATGGAAAGTT-TGAAAAATTGGTTGAAGGAATGGATTGTCTTGAATACTCTCAGGAACCGAAGTT
129 ATGGAATGTTCAG-AAAATTGGTCAAAGGAATGGATCGTCTTGAATACTCTCAGGAACCGAAGTT
1630 ATAAAAGAACTAGTAAATGTTTG
193 ATAAAAGAACTAGTAAATGTTTG
* * * *
1653 ACGAGTTCGGAAGTTCGTCCAAGAACCAATAGAGAAACAATTGTCACGTAAAAAAGTTTTTAATT
1 ACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAAAAAGTTTTTAATT
* * * * * *
1718 CAAAGACCAAAGGTTATATATAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCTAGCAT
66 CAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGTGATTTCCAAGCAT
* * * * * * * * *
1783 GGAATGTTCAAAAAATTGCTAAAATGAATGCATCGTCTTTAATACTTTCATGAATCGAAGTTATA
131 GGAATGTTCAGAAAATTGGTCAAAGGAATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATA
* *
1848 AAAGAACTCGTAAATGTTTA
196 AAAGAACTAGTAAATGTTTG
* * * **
1868 ACCAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTC-TCATAAAAAA-AATTTAAT
1 ACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCAT-GTAAAAAAGTTTTTAAT
* * * * *
1931 TCAAAGACCAAAAGTTGTTTACAAGATGACAAAC-TATTATACCAAATGATGTGATTTCCCGATC
65 TCAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGTGATTT-CCAAGC
* * * *
1995 ATGGAATGTT-TGACAAATTGGTCAAAGGAATGGATCGTCTTGACTACTATCAAGAACCGAAGTT
129 ATGGAATGTTCAGA-AAATTGGTCAAAGGAATGGATCGTCTTGAATACTCTCAGGAACCGAAGTT
*
2059 ATTAAAGAACTAGTAAATGTTTG
193 ATAAAAGAACTAGTAAATGTTTG
* * * * * * *
2082 ACAAGTTCAGAACTTCATCAAAGAACCAAGAGAGGAATAATTCTCACGTAAAAAAGTTTTTAATT
1 ACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAAAAAGTTTTTAATT
* * * *
2147 CAAAGACCAAAAGTTATTTACAAAATGACGAACTATTTT-GACCAAATGATGTGATTTTCCGATC
66 CAAAGACCAAAAGTTGTTTACAAAATGACAAACT-TTTTAGACCAAATGATGTGA-TTTCCAAGC
* * * * *
2211 ATGGAATCTTCGGAAAATTGGTCAAAGGAATGGATCATCTTTAATACTCTCAGGAACCAAAGTTA
129 ATGGAATGTTCAGAAAATTGGTCAAAGGAATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTA
*
2276 TAAAAGAACTCGTAAATGTTT-
194 TAAAAGAACTAGTAAATGTTTG
* *
2297 ATCAAGTTCTGAAGTTCGTCCAAGAACCAAGAGAGAAAAAATTCTC-TCGTAAAAAAGTTTTTAA
1 A-CAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCAT-GTAAAAAAGTTTTTAA
* * * * * * *
2361 CTCAAATACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGAGATTTCCTGAT
64 TTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGTGATTTCC-AAG
* * *
2426 CATGGAATGTT-AGAAAAATTGGTCAAAGGAATGGATCGTCTTGATTACTATCAAGAACCGAAGT
128 CATGGAATGTTCAG-AAAATTGGTCAAAGGAATGGATCGTCTTGAATACTCTCAGGAACCGAAGT
2490 TATAAAAGAACTAGTAAATGTTTG
192 TATAAAAGAACTAGTAAATGTTTG
* * * * ** * *
2514 ACAACTTCAGAAGTTAGTCCAAGAACTAAGAGAGAAGGAATTCTAACGTAAAAAAGTTTTTAATT
1 ACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAAAAAGTTTTTAATT
* *
2579 CAAAGACCAAAAGTTATTTACAAAATGACTAACT
66 CAAAGACCAAAAGTTGTTTACAAAATGACAAACT
2613 A
Statistics
Matches: 1338, Mismatches: 246, Indels: 48
0.82 0.15 0.03
Matches are distributed among these distances:
213 21 0.02
214 156 0.12
215 340 0.25
216 713 0.53
217 68 0.05
218 40 0.03
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (215 bp):
ACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAAAAAGTTTTTAATT
CAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGTGATTTCCAAGCAT
GGAATGTTCAGAAAATTGGTCAAAGGAATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATA
AAAGAACTAGTAAATGTTTG
Found at i:1732 original size:431 final size:431
Alignment explanation
Indices: 788--2613 Score: 2053
Period size: 431 Copynumber: 4.2 Consensus size: 431
778 GCTCGCATCA
* * * * *
788 ACAAGTTCAAAAGTTTGTCCAAGAACCAAGAGAGAAACAATTTTCACATAAAAAAAGTTTTTAAA
1 ACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGT-AAAAAAGTTTTTAAT
* * * * * *
853 TCAAAGACCAAAAATTGTTTACAAAATGACAAACTTTTTAGACCAACTGATCGTGACTTCCAAAG
65 TCAAAGACCAAAAGTTATTTACAAAATGACAAACTATTTAGACCAAATGAT-GTAATTTCC-AAG
* ** * * * *
918 CATGAAATGTTCGGAAAATAAG-TCGAAGGAATGGATCACCTTAAATACTCTT-AGGAAACGAAG
128 CATGGAATGTTCAAAAAAT-TGCTCAAAGGAATGGATCATCTTTAATACT-TTCAGG-AACGAAG
* * * * * **
981 TTATAAAATAACTTGTAAATGGTTGACAAGTTCGGAAGTTCGTACAAGAACCAAGAGAGTGACAA
190 TTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAA
* * * * *
1046 TTCTCAT-GTAAATAAGTTTTTAATTCAAAG-GCCAAAAGTTGTTTACAAATTGACAGACTTTTT
255 TTCTC-TCGTAAAAAAGTATTTAATTCAAAGCACCAAAAGTTGTTTACAAAATGACAAACTTTTT
* * * * * *
1109 AGACCAAATTATGCGATTTCCTA-AGCATAGAATGTTT-AGAAAATTTGTCGAAGGAATAGATCA
319 AGACCAAATGATGCGATTTCC-AGAGCATGGAATGTTTGA-AAAATTGGTCAAAGGAATGGATCG
* * * ** * * *
1172 TCTTGAATACTCTTAGGAACAAAAGTTATAAAAGAACTCGTAACTGTTAG
382 TCTTGAATACTATCAAGAACCGAAGTTATAAAAGAACTAGTAAATGTTTG
* * * * * * *
1222 ACAAGTTCGGAAGTTCATCCACGAACCAAGAGAAAAATAATTCTCATGTAAATAAGTTTTTAATT
1 ACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTAATT
* * * * * * *
1287 TAAAGA-AAAAAGGTTGTTTACAAAAGGACAAACTATTTAAACCAAATGATGCAATTTCCCAGCA
66 CAAAGACCAAAA-GTTATTTACAAAATGACAAACTATTTAGACCAAATGATGTAATTTCCAAGCA
* * * * * *
1351 AGGAATGTTCAAAAAATTGCTCAAAGTAATGGATCTTCTTGAATACTTTAAGGAACGGAAGCTAT
130 TGGAATGTTCAAAAAATTGCTCAAAGGAATGGATCATCTTTAATACTTTCAGGAAC-GAAGTTAT
* ** * * * * *
1416 AAAAGAACTTGTAAAACTTTGACTAGGTCGTATGTTCATCCAAGAACCAAGAGAGAAATAATTCT
194 AAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCT
* * * * * * * *
1481 CAT-GTCAATATGTACTTAGTTCAGAGCA-CAAAAGTTATTTACAAAATTACAAACTTTTTAGAC
259 C-TCGTAAAAAAGTATTTAATTCAAAGCACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGAC
* ** *
1544 CAAATGATGCGATTTTCCAG-GCATGGAAAGTTTGAAAAATTGGTTGAAGGAATGGATTGTCTTG
323 CAAATGATGCGA-TTTCCAGAGCATGGAATGTTTGAAAAATTGGTCAAAGGAATGGATCGTCTTG
* *
1608 AATACTCTCAGGAACCGAAGTTATAAAAGAACTAGTAAATGTTTG
387 AATACTATCAAGAACCGAAGTTATAAAAGAACTAGTAAATGTTTG
* * * *
1653 ACGAGTTCGGAAGTTCGTCCAAGAACCAATAGAGAAACAATTGTCACGTAAAAAAGTTTTTAATT
1 ACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTAATT
* * * * *
1718 CAAAGACCAAAGGTTATATATAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCTAGCAT
66 CAAAGACCAAAAGTTATTTACAAAATGACAAACTATTTAGACCAAATGATGTAATTTCCAAGCAT
* * * * *
1783 GGAATGTTCAAAAAATTGCTAAAATGAATGCATCGTCTTTAATACTTTCATGAATCGAAGTTATA
131 GGAATGTTCAAAAAATTGCTCAAAGGAATGGATCATCTTTAATACTTTCAGGAA-CGAAGTTATA
* *
1848 AAAGAACTCGTAAATGTTTAACCAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTC
195 AAAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTC
* * * * *
1913 TCATAAAAAA-AATTTAATTCAAAG-ACCAAAAGTTGTTTACAAGATGACAAAC-TATTATACCA
260 TCGTAAAAAAGTATTTAATTCAAAGCACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGACCA
* * * * *
1975 AATGATGTGATTTCCCGATCATGGAATGTTTGACAAATTGGTCAAAGGAATGGATCGTCTTGACT
325 AATGATGCGATTTCCAGAGCATGGAATGTTTGAAAAATTGGTCAAAGGAATGGATCGTCTTGAAT
*
2040 ACTATCAAGAACCGAAGTTATTAAAGAACTAGTAAATGTTTG
390 ACTATCAAGAACCGAAGTTATAAAAGAACTAGTAAATGTTTG
* * * * *
2082 ACAAGTTCAGAACTTCATCAAAGAACCAAGAGAGGAATAATTCTCACGTAAAAAAGTTTTTAATT
1 ACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTAATT
* * * * *
2147 CAAAGACCAAAAGTTATTTACAAAATGACGAACTATTTTGACCAAATGATGTGATTTTCCGATCA
66 CAAAGACCAAAAGTTATTTACAAAATGACAAACTATTTAGACCAAATGATGT-AATTTCCAAGCA
* ** * * *
2212 TGGAATCTTCGGAAAATTGGTCAAAGGAATGGATCATCTTTAATACTCTCAGGAACCAAAGTTAT
130 TGGAATGTTCAAAAAATTGCTCAAAGGAATGGATCATCTTTAATACTTTCAGGAA-CGAAGTTAT
* * *
2277 AAAAGAACTCGTAAATGTTT-ATCAAGTTCTGAAGTTCGTCCAAGAACCAAGAGAGAAAAAATTC
194 AAAAGAACTCGTAAATGTTTGA-CAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTC
* * * * *
2341 TCTCGTAAAAAAGTTTTTAACTCAAA-TACCAAAACTTGTTTACAAAATGACAAACTATTTAGAC
258 TCTCGTAAAAAAGTATTTAATTCAAAGCACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGAC
* * * *
2405 CAAATGATGAGATTTCCTGATCATGGAATGTTAGAAAAATTGGTCAAAGGAATGGATCGTCTTGA
323 CAAATGATGCGATTTCCAGAGCATGGAATGTTTGAAAAATTGGTCAAAGGAATGGATCGTCTTGA
*
2470 TTACTATCAAGAACCGAAGTTATAAAAGAACTAGTAAATGTTTG
388 ATACTATCAAGAACCGAAGTTATAAAAGAACTAGTAAATGTTTG
* * * ** *
2514 ACAACTTCAGAAGTTAGTCCAAGAACTAAGAGAGAAGGAATTCTAACGTAAAAAAGTTTTTAATT
1 ACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTAATT
*
2579 CAAAGACCAAAAGTTATTTACAAAATGACTAACTA
66 CAAAGACCAAAAGTTATTTACAAAATGACAAACTA
Statistics
Matches: 1178, Mismatches: 196, Indels: 38
0.83 0.14 0.03
Matches are distributed among these distances:
428 6 0.01
429 201 0.17
430 170 0.14
431 493 0.42
432 217 0.18
433 52 0.04
434 39 0.03
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (431 bp):
ACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTAATT
CAAAGACCAAAAGTTATTTACAAAATGACAAACTATTTAGACCAAATGATGTAATTTCCAAGCAT
GGAATGTTCAAAAAATTGCTCAAAGGAATGGATCATCTTTAATACTTTCAGGAACGAAGTTATAA
AAGAACTCGTAAATGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCT
CGTAAAAAAGTATTTAATTCAAAGCACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGACCAA
ATGATGCGATTTCCAGAGCATGGAATGTTTGAAAAATTGGTCAAAGGAATGGATCGTCTTGAATA
CTATCAAGAACCGAAGTTATAAAAGAACTAGTAAATGTTTG
Found at i:2192 original size:645 final size:643
Alignment explanation
Indices: 808--2613 Score: 2087
Period size: 645 Copynumber: 2.8 Consensus size: 643
798 AAGTTTGTCC
* * * * * *
808 AAGAACCAAGAGAGAAACAATTTTCACATAAAAAAAGTTTTTAAATCAAAGACCAAAAATTGTTT
1 AAGAACCAAGAGAGAAATAATTCTCACGT-AAAAAAGTTTTTAATTCAAAGACCAAAAGTTATTT
* * *
873 ACAAAATGACAAACTTTTTAGACCAACTGATCGTGA-CTTCCAAAGCAT-GAAATGTTCGGAAAA
65 ACAAAATGACAAACTTTTTAGACCAAATGAT-GTGATTTTCC-AGGCATGGAAA-GTTCGGAAAA
** * * * * *
936 TAAGTCGAAGGAATGGATCACCTTAAATACTCTTAGGAAACGAAGTTATAAAATAACTTGTAAAT
127 TTGGTCGAAGGAATGGATCATCTTAAATACTCTCAGGAACCGAAGTTATAAAAGAACTAGTAAAT
* * ** * *
1001 GGTTGACAAGTTCGGAAGTTCGTACAAGAACCAAGAGAGTGACAATTCTCATGTAAATAAGTTTT
192 GTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTT
* * * * * *
1066 TAATTCAAAGGCCAAAAGTTGTTTACAAATTGACAGACTTTTTAGACCAAATTATGCGATTTCCT
257 TAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGAGATTTCCT
* * * * * *
1131 AAGCATAGAATGTTTAGAAAATTTGTCGAAGGAATAGATCATCTTGAATACTCTT-AGGAACAAA
322 AAGCATGGAATG-TTAGAAAAATTGTCAAAGGAAT-GATCGTCTTGAATACT-TTCAAGAAC-GA
* * *
1195 AGTTATAAAAGAACTCGTAACTG-TTAGACAAGTTCGGAAGTTCATCCACGAACCAAGAGAAAAA
383 AGTTATAAAAGAACTCGTAAATGTTTA-ACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAA
* * * * *
1259 TAATTCTCAT-GTAAATAAGTTTTTAATTTAAAGA-AAAAAGGTTGTTTACAAAAGGACAAACTA
447 CAATTCTC-TCGTAAA-AAATTTTTAATTCAAAGACCAAAA-GTTGTTTACAAAATGACAAACTA
* *
1322 TTTAAACCAAATGATGCAATTTCCCAGCAAGGAATGTTCAAAAAATTGCTCAAAGTAATGGATCT
509 TTTAAACCAAATGATGCAATTTCCCAGCAAGGAATGTTCAAAAAATTGCTCAAAGGAATGGATCG
* * * * **
1387 TCTTGAATACTTTAAGGAACGGAAGCTATAAAAGAACTTGTAAAACTTTGACTAGGTCGTATGTT
574 TCTTGAATACTTCAAGGAACCGAAGCTATAAAAGAACTAGTAAAACTTTGACAAGGTCGTAACTT
*
1452 CATCC
639 CATCA
* * * * ** * *
1457 AAGAACCAAGAGAGAAATAATTCTCATGTCAATATGTACTTAGTTCAGAG-CACAAAAGTTATTT
1 AAGAACCAAGAGAGAAATAATTCTCACGTAAAAAAGTTTTTAATTCAAAGAC-CAAAAGTTATTT
* * * *
1521 ACAAAATTACAAACTTTTTAGACCAAATGATGCGATTTTCCAGGCATGGAAAGTTTGAAAAATTG
65 ACAAAATGACAAACTTTTTAGACCAAATGATGTGATTTTCCAGGCATGGAAAGTTCGGAAAATTG
* ** *
1586 GTTGAAGGAATGGATTGTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAACTAGTAAATGTT
130 GTCGAAGGAATGGATCATCTTAAATACTCTCAGGAACCGAAGTTATAAAAGAACTAGTAAATGTT
* * *
1651 TGACGAGTTCGGAAGTTCGTCCAAGAACCAATAGAGAAACAATTGTCACGTAAAAAAGTTTTTAA
195 TGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTAA
* * * * *
1716 TTCAAAGACCAAAGGTTATATATAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCT-AG
260 TTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGAGATTTCCTAAG
* * * *
1780 CATGGAATGTTCA-AAAAATTGCTAAAATGAATGCATCGTCTTTAATACTTTCATGAATCGAAGT
325 CATGGAATGTT-AGAAAAATTG-TCAAAGGAATG-ATCGTCTTGAATACTTTCAAGAA-CGAAGT
*
1844 TATAAAAGAACTCGTAAATGTTTAACCAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAAT
386 TATAAAAGAACTCGTAAATGTTTAACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAAT
* ** * *
1909 TCTCTCATAAAAAAAATTTAATTCAAAGACCAAAAGTTGTTTACAAGATGACAAACTA-TTATAC
451 TCTCTCGTAAAAAATTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAAAC
** * * ** * *
1973 CAAATGATGTGATTTCCCGATCATGGAATGTTTGACAAATTGGTCAAAGGAATGGATCGTCTTGA
516 CAAATGATGCAATTTCCC-AGCAAGGAATGTTCAAAAAATTGCTCAAAGGAATGGATCGTCTTGA
* * * ** *
2038 CTACTATCAA-GAACCGAAGTTATTAAAGAACTAGTAAATGTTTGACAAGTTCAG-AACTTCATC
580 ATACT-TCAAGGAACCGAAGCTATAAAAGAACTAGTAAAACTTTGACAAGGTC-GTAACTTCATC
2101 A
643 A
*
2102 AAGAACCAAGAGAGGAATAATTCTCACGTAAAAAAGTTTTTAATTCAAAGACCAAAAGTTATTTA
1 AAGAACCAAGAGAGAAATAATTCTCACGTAAAAAAGTTTTTAATTCAAAGACCAAAAGTTATTTA
* * **
2167 CAAAATGACGAACTATTTT-GACCAAATGATGTGATTTTCC-GATCATGGAATCTTCGGAAAATT
66 CAAAATGACAAACT-TTTTAGACCAAATGATGTGATTTTCCAG-GCATGGAAAGTTCGGAAAATT
* * * *
2230 GGTCAAAGGAATGGATCATCTTTAATACTCTCAGGAACCAAAGTTATAAAAGAACTCGTAAATGT
129 GGTCGAAGGAATGGATCATCTTAAATACTCTCAGGAACCGAAGTTATAAAAGAACTAGTAAATGT
* * *
2295 TT-ATCAAGTTCTGAAGTTCGTCCAAGAACCAAGAGAGAAAAAATTCTCTCGTAAAAAAGTTTTT
194 TTGA-CAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTT
* * * *
2359 AACTCAAATACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGAGATTTCCTG
258 AATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGAGATTTCCTA
* * *
2424 ATCATGGAATGTTAGAAAAATTGGTCAAAGGAATGGATCGTCTTGATTACTATCAAGAACCGAAG
323 AGCATGGAATGTTAGAAAAATT-GTCAAAGGAAT-GATCGTCTTGAATACTTTCAAGAA-CGAAG
* * * * * **
2489 TTATAAAAGAACTAGTAAATGTTTGACAACTTCAGAAGTT-AGTCCAAGAACTAAGAGAGAAGGA
385 TTATAAAAGAACTCGTAAATGTTTAACAAGTTCGGAAGTTCA-TCCAAGAACCAAGAGAGAAACA
** * *
2553 ATTCTAACGTAAAAAAGTTTTTAATTCAAAGACCAAAAGTTATTTACAAAATGACTAACTA
449 ATTCTCTCGTAAAAAA-TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA
Statistics
Matches: 974, Mismatches: 159, Indels: 50
0.82 0.13 0.04
Matches are distributed among these distances:
644 23 0.02
645 405 0.42
646 234 0.24
647 227 0.23
648 60 0.06
649 25 0.03
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (643 bp):
AAGAACCAAGAGAGAAATAATTCTCACGTAAAAAAGTTTTTAATTCAAAGACCAAAAGTTATTTA
CAAAATGACAAACTTTTTAGACCAAATGATGTGATTTTCCAGGCATGGAAAGTTCGGAAAATTGG
TCGAAGGAATGGATCATCTTAAATACTCTCAGGAACCGAAGTTATAAAAGAACTAGTAAATGTTT
GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTAAT
TCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGAGATTTCCTAAGC
ATGGAATGTTAGAAAAATTGTCAAAGGAATGATCGTCTTGAATACTTTCAAGAACGAAGTTATAA
AAGAACTCGTAAATGTTTAACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCT
CGTAAAAAATTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAAACCAAAT
GATGCAATTTCCCAGCAAGGAATGTTCAAAAAATTGCTCAAAGGAATGGATCGTCTTGAATACTT
CAAGGAACCGAAGCTATAAAAGAACTAGTAAAACTTTGACAAGGTCGTAACTTCATCA
Done.