Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016485.1 Corchorus olitorius cultivar O-4 contig16518, 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: 3410
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Found at i:751 original size:322 final size:321
Alignment explanation
Indices: 3--3402 Score: 4268
Period size: 321 Copynumber: 10.6 Consensus size: 321
1 TC
* * * *
3 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTTTGTTAAAAACGCATTTCGGGGCCCCGACT
1 TTAGCCGAAATCGTGTACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCT
* * * * *
68 CAGTTTTACATGATTTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATATAATCATATCTC
65 CAGTTTTGCTTGA-TTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTC
* * *
133 AGCCAATATGGATTTAAGGATTTCTTTTTATGAGCATCTGAATTTTGTTTCGATTTAATAAGAAA
129 AGCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAA
* * * * * *
198 TAAATTCGGAAAAGAAATGAGAAAACGATATTGGAAGCGTGGAAAGCCCTTTAATTTTTTTGGCA
194 TAAATTCGGAAAAAAAAGGA-AAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCG
263 TTGAATTATATATTTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAAAAGTTTTCGGGTCAATTT
258 TTGAATTATATA-TTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAAAAGTTTTCGGGTCAATTT
** ** * ** * * ** *
328 TTATTCGAAATTATGTATTAATTATCATGGCTTTTGGCTAAAAACGCGTTTCGGGGTTCCGACTC
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * *
393 AGTTTTGCATT-ATTTTTTGG-AAAAAGACTCCTTGAAATATCTATATTTATATAACGAAATCCC
66 AGTTTTGC-TTGA-TTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTC
** *
456 AGCCAATAAGGATTTAAGGATTTCTTTTTACAAGCATCTGAATTTTGTTTCGATTTAATTAGAAA
129 AGCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAA
* * *
521 TAAATTCAGAAAAAAAAGGAAAAACGATATTGGAAGCGTGAAAACCCCGTCAATTTTTTTGGCGG
194 TAAATTCGGAAAAAAAAGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGT
* * * * * *
586 TGAATCATGTATTTTGTAGAGTTGTATGGCAAAAAAAATGAGAATAAAGTTTTCGGGTCAACTT
259 TGAATTATATATTTTTTAGAGTTGTGTGGC-AAAAAAATGAGAAAAAAGTTTTCGGGTCAATTT
* * ** **
650 TTAACCGAAATCGAGTACTAATTATCACGGTTTTTGGCTAAAAACGCGTTAGGGGGCCCCGGCTC
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * * * *
715 AGTCTTGCTTGATTTTTGGCAGAAAGTCTGCTTGAAATATTTATATTCATATAACCAAATCTCA-
66 AGTTTTGCTTGATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAG
* * *
779 ACAAGTTTGGATTTAAGGATTTCTTTTTAGGAGCATCTTAATTTTGTTTCGATTTAATTAGAAAT
131 CCAA-TTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
* * * * * *
844 AAATTCGGAAAAAAATTGGAAAAACGATATCGGAAGCATGAAAAACCCTTCATTTTTTTTGGGGT
195 AAATTCGGAAAAAAA-AGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGT
* * *
909 TGAATCATATTTTTTTTAGAGTTGTGTAGC-AAAAAATGAGAAAAGAAGTTTTCGGGTCAATTT
259 TGAATTATATATTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAA-AAGTTTTCGGGTCAATTT
* * *
972 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCG-TTCGAGCCCCCGGCTC
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * * * *
1036 AGTTTTACATT-ATTTTTGGCAAAAAGACTCGTTGAAATATCTATATTTATATCACAAAATCTCA
66 AGTTTTGC-TTGATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCA
1100 GCCAATTTGGATTTAAGG-TTT-TTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
130 GCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
* * * *
1163 AAATTCAGAAAAAAAATGGAAAAACGATATTTGGAAGCATGAAAACCCCTTTAAGTTTTTTGGCG
195 AAATTCGGAAAAAAAA-GGAAAAACGATA-TTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCG
* * * * * *
1228 TTGAATTATATATTTTGTAGAATTGTGTGGGAAAAAAATGAGAAGAAAGTTTTCGAGTCAACTT
258 TTGAATTATATATTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAAAAGTTTTCGGGTCAATTT
* *
1292 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTTTTTGCTAAAAACACGTTTCGGGGCCCCGG
1 TTAGCCGAAATCGTGTACTAACCATCACGG---TTTTTGGCTAAAAACGCGTTTCGGGGCCCCGG
* * * * *
1357 CTAAGTTTTG-TATGATTTTTGGCAGATAGACTCCTTGATATATCTATATTCATATAACCAAGTC
63 CTCAGTTTTGCT-TGATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATC
* * *
1421 TCAGCCAATTTAGATTAAAGGATTTCTTTTTATGAGCATCTGAATTTTGTTTCGATTTAATTAGA
127 TCAGCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGA
* * * * * * *
1486 AATATACTCGGAAAAGAAATGAGAAAACGATATTGGAAACTTGAAAAAACCCTTCAATTTTTTTG
192 AATAAATTCGGAAAAAAAAGGA-AAAACGATATTGGAAGCGTG-AAAACCCCTTCAATTTTTTTG
** * * *
1551 GAATTGAATTATATATTTCTCTAGAGTTGTGTGGCCAAAAAAATGAGAATAAAGCTTTCGGGTCA
255 GCGTTGAATTATATATTT-TTTAGAGTTGTGTGG-CAAAAAAATGAGAAAAAAGTTTTCGGGTCA
1616 ATTT
318 ATTT
* ** * * * **
1620 TTATCCGAAATTATGTA-TAAGCATCACGGTTTTTGGCTAAAAACGCGTTTTGGAGTTCCGGCTC
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * * *
1684 AATTTTGCATT-ATTTTTAGGCAAAAAGACTCCTTGAAATATCTATATTTATATAACGAAATCCC
66 AGTTTTGC-TTGATTTTT-GGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTC
* * * *
1748 AGACAATTTGGATTTAAGGATTTCTTTTTACGAGCGTCTGAATTTTGTGTAGATTTAATTAGAAA
129 AGCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAA
* *
1813 TAAATTCAGAAAAAAATGG-AAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGT
194 TAAATTCGGAAAAAAAAGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGT
* ** *
1877 TGAATTATATATTTTGTAGAGTAT-TGTGGCAAAACAAATGAGATGAAAGTTTTCGGGTCAACTT
259 TGAATTATATATTTTTTAGAGT-TGTGTGGCAAAA-AAATGAGAAAAAAGTTTTCGGGTCAATTT
*
1941 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGGCTC
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * *
2006 AGTTTTGCATGATTTTTGGCAGAAACACTCCTTGAAATATCTATATTCATATAACCAAATCTCAG
66 AGTTTTGCTTGATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAG
* * * * **
2071 CTAATTTGGATTTAAAGATTTCTTTTTACGGGTATCTGAATTTTGTTTCGAACTAATTAGAAATA
131 CCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATA
** * * * * *
2136 AATTCGGAAAAAATTGGAAAAACAATATTCGAAGCGTGAAAAACCCTTAAACTTTTTTTGGTGTT
196 AATTCGGAAAAAAAAGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAA-TTTTTTTGGCGTT
* * *
2201 GAATCATATATTTTTTAGAGTAGTGTGG--GAAAAATGAGAAAAAAAAAGTTTTCGGGTCAATTT
260 GAATTATATATTTTTTAGAGTTGTGTGGCAAAAAAATGAG---AAAAAAGTTTTCGGGTCAATTT
* *
2264 TTAGCCGAAATCGTGTACTAACCATCACGGATTTTT-GCTAAAAACGCGTTTCGAGGCCCCGGTT
1 TTAGCCGAAATCGTGTACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCT
** * *
2328 CAGTTTTGCAGGATTTTTGGCAAAAAGACTCCATGAAATATCTATATTCATATAACCATATCTCA
65 CAGTTTTGCTTGATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCA
* *
2393 GCCAATTTTGATTTAAGGATTTCTTTTTAGGAGCATCT-AATTTTTGTTTCGATTTAATTAGAAA
130 GCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAA-TTTTGTTTCGATTTAATTAGAAA
* * * * * * *
2457 TAAATTC-GAAAAAGAAATGAGAAAACTATTTTGAAAGAGTGAAAAGCCCTTTAA-TTTTTTGGC
194 TAAATTCGGAAAAA-AAAGGA-AAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGC
* * *
2520 ATTGAATTATATGTTTTTTTAGAGTTGTGTGGCAAAAAAAATGAGAAACAAGTTTTCGGGTCAAT
257 GTTGAATTATAT-ATTTTTTAGAGTTGTGTGGC-AAAAAAATGAGAAAAAAGTTTTCGGGTCAAT
2585 TT
320 TT
** ** *
2587 TT-------A---T-T-C---CCATCACGACTTTTGGCTAAAAACGCGTTTCGGGGTTCCGACTC
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * * *
2637 AGTTTTGCTTTATTTTTGGCAAAACGACTCCTTGAAATATCTATATTTATATAACGAAATC-CAA
66 AGTTTTGCTTGATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTC-A
* *
2701 CCCAATTTGGATTTAAGGATTTCTTTTTACAAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
130 GCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
* * * *
2766 AAATTCGGAAAAAAAAAGAAACACGATATTGGAAGCGTGAAAACCCCTTCAATTGTTTTGGCATT
195 AAATTCGGAAAAAAAAGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGTT
* * *
2831 GAATTATATATTTTGTAGAGTTGTGTGGCAAAAAAATGAGAATAAAGTTTTCGGGTCAACTT
260 GAATTATATATTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAAAAGTTTTCGGGTCAATTT
** * *
2893 TTAGCCGAAATCGTGTACTAATTATCACGGTTTTTGGCTGAAAACGCGTTTCGGGGCCCCGGCTA
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * * * *
2958 AGTATTGCTTGATTTTTGGCAGAAAGATTGCTTGAAATATTTATATTCATATAACCAAATCTCAG
66 AGTTTTGCTTGATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAG
* * *
3023 CAAATTTGAATTTAAGGATTTCTTTTTACGAGCATCTTAATTTTGTTTCGATTTAATTAGAAATA
131 CCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATA
** * *
3088 AATTCGGAAAAAATTGGAAAAACGATATTGGAAGCATGAAAA-CCCTTCAATTTTTTTGGGGTTG
196 AATTCGGAAAAAAAAGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGTTG
* * *
3152 AATCATATTTTTTTTAGAGTTGTGTAGC-AAAAAATGAGAAAATAAGTTTTCGGGTCAATTT
261 AATTATATATTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAA-AAGTTTTCGGGTCAATTT
* *
3213 TTAGCCGAAATCGTGTACTAACCATCACGATATTTT-GCTAAAAACGCGTTTCGGGCCCCCGGCT
1 TTAGCCGAAATCGTGTACTAACCATCACGGT-TTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCT
* * *
3277 CAGTTTTGCATT-ATTTTTGGCAAAAAGACTCCTTGAAATATCTTTATTTATATAACAAAATCTC
65 CAGTTTTGC-TTGATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTC
* *
3341 AGCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATTTGAATTTTGTTTCGATATAATTAG
129 AGCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAG
3403 GAAAAAAA
Statistics
Matches: 2644, Mismatches: 362, Indels: 143
0.84 0.11 0.05
Matches are distributed among these distances:
306 32 0.01
307 49 0.02
308 175 0.07
309 8 0.00
311 1 0.00
312 1 0.00
313 2 0.00
316 2 0.00
317 1 0.00
318 1 0.00
319 79 0.03
320 338 0.13
321 490 0.19
322 458 0.17
323 490 0.19
324 196 0.07
325 148 0.06
326 106 0.04
327 24 0.01
328 43 0.02
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.36
Consensus pattern (321 bp):
TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
AGTTTTGCTTGATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAG
CCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATA
AATTCGGAAAAAAAAGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGTTG
AATTATATATTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAAAAGTTTTCGGGTCAATTT
Found at i:1266 original size:321 final size:322
Alignment explanation
Indices: 3--3402 Score: 4314
Period size: 323 Copynumber: 10.6 Consensus size: 322
1 TC
* * * *
3 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTTTGTTAAAAACGCATTTCGGGGCCCCGACT
1 TTAGCCGAAATCGTGTACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCT
* * * * *
68 CAGTTTTACATGATTTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATATAATCATATCTC
65 CAGTTTTGCATTA-TTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTC
* * *
133 AGCCAATATGGATTTAAGGATTTCTTTTTATGAGCATCTGAATTTTGTTTCGATTTAATAAGAAA
129 AGCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAA
* * * *
198 TAAATTCGGAAAAGAAAT-GAGAAAACGATATTGGAAGCGTGGAAAGCCCTTTAATTTTTTTGGC
194 TAAATTCGGAAAAAAAATGGA-AAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGC
*
262 ATTGAATTATATATTTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAAAAGTTTTCGGGTCAATT
258 GTTGAATTATATA-TTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAAAAGTTTTCGGGTCAATT
327 T
322 T
** ** * ** * * ** *
328 TTATTCGAAATTATGTATTAATTATCATGGCTTTTGGCTAAAAACGCGTTTCGGGGTTCCGACTC
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * *
393 AGTTTTGCATTATTTTTTGG-AAAAAGACTCCTTGAAATATCTATATTTATATAACGAAATCCCA
66 AGTTTTGCATTA-TTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCA
** *
457 GCCAATAAGGATTTAAGGATTTCTTTTTACAAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
130 GCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
* * *
522 AAATTCAGAAAAAAAA-GGAAAAACGATATTGGAAGCGTGAAAACCCCGTCAATTTTTTTGGCGG
195 AAATTCGGAAAAAAAATGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGT
* * * * * *
586 TGAATCATGTATTTTGTAGAGTTGTATGGCAAAAAAAATGAGAATAAAGTTTTCGGGTCAACTT
260 TGAATTATATATTTTTTAGAGTTGTGTGGC-AAAAAAATGAGAAAAAAGTTTTCGGGTCAATTT
* * ** **
650 TTAACCGAAATCGAGTACTAATTATCACGGTTTTTGGCTAAAAACGCGTTAGGGGGCCCCGGCTC
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * * * *
715 AGTCTTGC-TTGATTTTTGGCAGAAAGTCTGCTTGAAATATTTATATTCATATAACCAAATCTCA
66 AGTTTTGCATT-ATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCA
* * *
779 -ACAAGTTTGGATTTAAGGATTTCTTTTTAGGAGCATCTTAATTTTGTTTCGATTTAATTAGAAA
130 GCCAA-TTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAA
* * * * * *
843 TAAATTCGGAAAAAAATTGGAAAAACGATATCGGAAGCATGAAAAACCCTTCATTTTTTTTGGGG
194 TAAATTCGGAAAAAAAATGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCG
* * *
908 TTGAATCATATTTTTTTTAGAGTTGTGTAGC-AAAAAATGAGAAAAGAAGTTTTCGGGTCAATTT
259 TTGAATTATATATTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAA-AAGTTTTCGGGTCAATTT
* * *
972 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCG-TTCGAGCCCCCGGCTC
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * * * *
1036 AGTTTTACATTATTTTTGGCAAAAAGACTCGTTGAAATATCTATATTTATATCACAAAATCTCAG
66 AGTTTTGCATTATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAG
1101 CCAATTTGGATTTAAGG-TTT-TTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATA
131 CCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATA
* * * *
1164 AATTCAGAAAAAAAATGGAAAAACGATATTTGGAAGCATGAAAACCCCTTTAAGTTTTTTGGCGT
196 AATTCGGAAAAAAAATGGAAAAACGATA-TTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGT
* * * * * *
1229 TGAATTATATATTTTGTAGAATTGTGTGGGAAAAAAATGAGAAGAAAGTTTTCGAGTCAACTT
260 TGAATTATATATTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAAAAGTTTTCGGGTCAATTT
* *
1292 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTTTTTGCTAAAAACACGTTTCGGGGCCCCGG
1 TTAGCCGAAATCGTGTACTAACCATCACGG---TTTTTGGCTAAAAACGCGTTTCGGGGCCCCGG
* * * * * * *
1357 CTAAGTTTTGTATGATTTTTGGCAGATAGACTCCTTGATATATCTATATTCATATAACCAAGTCT
63 CTCAGTTTTGCATTATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCT
* * *
1422 CAGCCAATTTAGATTAAAGGATTTCTTTTTATGAGCATCTGAATTTTGTTTCGATTTAATTAGAA
128 CAGCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAA
* * * * * *
1487 ATATACTCGGAAAAGAAAT-GAGAAAACGATATTGGAAACTTGAAAAAACCCTTCAATTTTTTTG
193 ATAAATTCGGAAAAAAAATGGA-AAAACGATATTGGAAGCGTG-AAAACCCCTTCAATTTTTTTG
** * * *
1551 GAATTGAATTATATATTTCTCTAGAGTTGTGTGGCCAAAAAAATGAGAATAAAGCTTTCGGGTCA
256 GCGTTGAATTATATATTT-TTTAGAGTTGTGTGG-CAAAAAAATGAGAAAAAAGTTTTCGGGTCA
1616 ATTT
319 ATTT
* ** * * * **
1620 TTATCCGAAATTATGTA-TAAGCATCACGGTTTTTGGCTAAAAACGCGTTTTGGAGTTCCGGCTC
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * * *
1684 AATTTTGCATTATTTTTAGGCAAAAAGACTCCTTGAAATATCTATATTTATATAACGAAATCCCA
66 AGTTTTGCATTATTTTT-GGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCA
* * * *
1749 GACAATTTGGATTTAAGGATTTCTTTTTACGAGCGTCTGAATTTTGTGTAGATTTAATTAGAAAT
130 GCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
*
1814 AAATTCAG-AAAAAAATGG-AAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGT
195 AAATTCGGAAAAAAAATGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGT
* ** *
1877 TGAATTATATATTTTGTAGAGTAT-TGTGGCAAAACAAATGAGATGAAAGTTTTCGGGTCAACTT
260 TGAATTATATATTTTTTAGAGT-TGTGTGGCAAAA-AAATGAGAAAAAAGTTTTCGGGTCAATTT
*
1941 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGGCTC
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * *
2006 AGTTTTGCATGATTTTTGGCAGAAACACTCCTTGAAATATCTATATTCATATAACCAAATCTCAG
66 AGTTTTGCATTATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAG
* * * * **
2071 CTAATTTGGATTTAAAGATTTCTTTTTACGGGTATCTGAATTTTGTTTCGAACTAATTAGAAATA
131 CCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATA
* * * * * *
2136 AATTCGG-AAAAAATTGGAAAAACAATATTCGAAGCGTGAAAAACCCTTAAACTTTTTTTGGTGT
196 AATTCGGAAAAAAAATGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAA-TTTTTTTGGCGT
* * *
2200 TGAATCATATATTTTTTAGAGTAGTGTGG--GAAAAATGAGAAAAAAAAAGTTTTCGGGTCAATT
260 TGAATTATATATTTTTTAGAGTTGTGTGGCAAAAAAATGAG---AAAAAAGTTTTCGGGTCAATT
2263 T
322 T
* *
2264 TTAGCCGAAATCGTGTACTAACCATCACGGATTTTT-GCTAAAAACGCGTTTCGAGGCCCCGGTT
1 TTAGCCGAAATCGTGTACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCT
** * *
2328 CAGTTTTGCAGGATTTTTGGCAAAAAGACTCCATGAAATATCTATATTCATATAACCATATCTCA
65 CAGTTTTGCATTATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCA
* *
2393 GCCAATTTTGATTTAAGGATTTCTTTTTAGGAGCATCT-AATTTTTGTTTCGATTTAATTAGAAA
130 GCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAA-TTTTGTTTCGATTTAATTAGAAA
* * * * * *
2457 TAAATTC-GAAAAAGAAAT-GAGAAAACTATTTTGAAAGAGTGAAAAGCCCTTTAA-TTTTTTGG
194 TAAATTCGGAAAAA-AAATGGA-AAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGG
* * *
2519 CATTGAATTATATGTTTTTTTAGAGTTGTGTGGCAAAAAAAATGAGAAACAAGTTTTCGGGTCAA
257 CGTTGAATTATAT-ATTTTTTAGAGTTGTGTGGC-AAAAAAATGAGAAAAAAGTTTTCGGGTCAA
2584 TTT
320 TTT
** ** *
2587 TT-------A---T-T-C---CCATCACGACTTTTGGCTAAAAACGCGTTTCGGGGTTCCGACTC
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * * *
2637 AGTTTTGCTTTATTTTTGGCAAAACGACTCCTTGAAATATCTATATTTATATAACGAAATC-CAA
66 AGTTTTGCATTATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTC-A
* *
2701 CCCAATTTGGATTTAAGGATTTCTTTTTACAAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
130 GCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
* * * *
2766 AAATTCGGAAAAAAAA-AGAAACACGATATTGGAAGCGTGAAAACCCCTTCAATTGTTTTGGCAT
195 AAATTCGGAAAAAAAATGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGT
* * *
2830 TGAATTATATATTTTGTAGAGTTGTGTGGCAAAAAAATGAGAATAAAGTTTTCGGGTCAACTT
260 TGAATTATATATTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAAAAGTTTTCGGGTCAATTT
** * *
2893 TTAGCCGAAATCGTGTACTAATTATCACGGTTTTTGGCTGAAAACGCGTTTCGGGGCCCCGGCTA
1 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
* * * * *
2958 AGTATTGC-TTGATTTTTGGCAGAAAGATTGCTTGAAATATTTATATTCATATAACCAAATCTCA
66 AGTTTTGCATT-ATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCA
* * *
3022 GCAAATTTGAATTTAAGGATTTCTTTTTACGAGCATCTTAATTTTGTTTCGATTTAATTAGAAAT
130 GCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
* * *
3087 AAATTCGG-AAAAAATTGGAAAAACGATATTGGAAGCATGAAAA-CCCTTCAATTTTTTTGGGGT
195 AAATTCGGAAAAAAAATGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGT
* * *
3150 TGAATCATATTTTTTTTAGAGTTGTGTAGC-AAAAAATGAGAAAATAAGTTTTCGGGTCAATTT
260 TGAATTATATATTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAA-AAGTTTTCGGGTCAATTT
* *
3213 TTAGCCGAAATCGTGTACTAACCATCACGATATTTT-GCTAAAAACGCGTTTCGGGCCCCCGGCT
1 TTAGCCGAAATCGTGTACTAACCATCACGGT-TTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCT
* * *
3277 CAGTTTTGCATTATTTTTGGCAAAAAGACTCCTTGAAATATCTTTATTTATATAACAAAATCTCA
65 CAGTTTTGCATTATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCA
* *
3342 GCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATTTGAATTTTGTTTCGATATAATTAG
130 GCCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAG
3403 GAAAAAAA
Statistics
Matches: 2650, Mismatches: 357, Indels: 141
0.84 0.11 0.04
Matches are distributed among these distances:
306 32 0.01
307 49 0.02
308 175 0.07
309 8 0.00
311 1 0.00
312 1 0.00
313 2 0.00
316 2 0.00
317 1 0.00
318 1 0.00
319 80 0.03
320 346 0.13
321 481 0.18
322 454 0.17
323 492 0.19
324 212 0.08
325 140 0.05
326 106 0.04
327 24 0.01
328 43 0.02
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.36
Consensus pattern (322 bp):
TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTC
AGTTTTGCATTATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAG
CCAATTTGGATTTAAGGATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATA
AATTCGGAAAAAAAATGGAAAAACGATATTGGAAGCGTGAAAACCCCTTCAATTTTTTTGGCGTT
GAATTATATATTTTTTAGAGTTGTGTGGCAAAAAAATGAGAAAAAAGTTTTCGGGTCAATTT
Done.