Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01019631.1 Corchorus olitorius cultivar O-4 contig19664, 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: 36650
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Found at i:11252 original size:64 final size:68
Alignment explanation
Indices: 11139--11274 Score: 208
Period size: 64 Copynumber: 2.0 Consensus size: 68
11129 TAATCAAATT
*
11139 GAACTTTATAATATAGTAACATAGACAATTAAGGTTGCTAAAAGTGATAAAGGCTCGAAAATTGT
1 GAACTTTATAATATAGTAACATAGACAA-TAAGGTTGCTAAAAGTGATAAAGGCTCGAAAATTAT
11204 GGTG
65 GGTG
* *
11208 GAACTTTATAATATAGT-A-GTA-ACAA-AGGGTTGCTAAAAGTGATAAAGGCTCGAAAATTATG
1 GAACTTTATAATATAGTAACATAGACAATAAGGTTGCTAAAAGTGATAAAGGCTCGAAAATTATG
11269 GTG
66 GTG
11272 GAA
1 GAA
11275 GACACTCGAA
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
64 40 0.62
66 4 0.06
67 2 0.03
68 1 0.02
69 17 0.27
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (68 bp):
GAACTTTATAATATAGTAACATAGACAATAAGGTTGCTAAAAGTGATAAAGGCTCGAAAATTATG
GTG
Found at i:21352 original size:25 final size:25
Alignment explanation
Indices: 21331--21564 Score: 285
Period size: 25 Copynumber: 9.4 Consensus size: 25
21321 TGTGTTTTCT
*
21331 AAACGCAAGCACAGGCTCGTTTGCT
1 AAACGCAAGCACAGGCTCGTTTGCC
* *
21356 AAACGCAAGTTA-AGGCTCGCTTGCC
1 AAACGCAAG-CACAGGCTCGTTTGCC
* * *
21381 AAACGCAAGCACAGGTTCGTTTTCA
1 AAACGCAAGCACAGGCTCGTTTGCC
*
21406 AAACGCAAGCTA-AGGCTCGCTTGCC
1 AAACGCAAGC-ACAGGCTCGTTTGCC
*
21431 AAACGCAAGCTA-AGGCTCGCTTGCC
1 AAACGCAAGC-ACAGGCTCGTTTGCC
*
21456 AAACGCAAGCACAGGTTCGTTTGCC
1 AAACGCAAGCACAGGCTCGTTTGCC
* *
21481 AAACGCAAGCACAGGTTCGTTTCCC
1 AAACGCAAGCACAGGCTCGTTTGCC
* *
21506 AAACGCAAGCACAGGTTCGTTTTCC
1 AAACGCAAGCACAGGCTCGTTTGCC
*
21531 AAACGCAAGCACAGGCTCGTTTTCC
1 AAACGCAAGCACAGGCTCGTTTGCC
*
21556 AAACACAAG
1 AAACGCAAG
21565 AACATGAGCG
Statistics
Matches: 187, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
24 2 0.01
25 183 0.98
26 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (25 bp):
AAACGCAAGCACAGGCTCGTTTGCC
Found at i:21447 original size:75 final size:75
Alignment explanation
Indices: 21324--21564 Score: 333
Period size: 75 Copynumber: 3.2 Consensus size: 75
21314 TAGCTTATGT
* * *
21324 GTTTTCTAAACGCAAGCACAGGCTCGTTTGCTAAACGCAAGTTAAGGCTCGCTTGCCAAACGCAA
1 GTTTTCCAAACGCAAGCACAGGCTCGTTTGCCAAACGCAAGCTAAGGCTCGCTTGCCAAACGCAA
21389 GCACAGGTTC
66 GCACAGGTTC
* *
21399 GTTTTCAAAACGCAAGCTA-AGGCTCGCTTGCCAAACGCAAGCTAAGGCTCGCTTGCCAAACGCA
1 GTTTTCCAAACGCAAGC-ACAGGCTCGTTTGCCAAACGCAAGCTAAGGCTCGCTTGCCAAACGCA
21463 AGCACAGGTTC
65 AGCACAGGTTC
* * * * * *
21474 GTTTGCCAAACGCAAGCACAGGTTCGTTTCCCAAACGCAAGC-ACAGGTTCGTTTTCCAAACGCA
1 GTTTTCCAAACGCAAGCACAGGCTCGTTTGCCAAACGCAAGCTA-AGGCTCGCTTGCCAAACGCA
*
21538 AGCACAGGCTC
65 AGCACAGGTTC
*
21549 GTTTTCCAAACACAAG
1 GTTTTCCAAACGCAAG
21565 AACATGAGCG
Statistics
Matches: 148, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
74 2 0.01
75 145 0.98
76 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (75 bp):
GTTTTCCAAACGCAAGCACAGGCTCGTTTGCCAAACGCAAGCTAAGGCTCGCTTGCCAAACGCAA
GCACAGGTTC
Found at i:21576 original size:25 final size:25
Alignment explanation
Indices: 21454--21577 Score: 77
Period size: 25 Copynumber: 5.0 Consensus size: 25
21444 GGCTCGCTTG
* * ** *
21454 CCAAACGCAAGCACAGGTTCGTTTG
1 CCAAACACAAGAACAGGAGCGTTTT
* * ** *
21479 CCAAACGCAAGCACAGGTTCGTTTC
1 CCAAACACAAGAACAGGAGCGTTTT
* * **
21504 CCAAACGCAAGCACAGGTTCGTTTT
1 CCAAACACAAGAACAGGAGCGTTTT
* * **
21529 CCAAACGCAAGCACAGGCTCGTTTT
1 CCAAACACAAGAACAGGAGCGTTTT
*
21554 CCAAACACAAGAACATGAGCGTTT
1 CCAAACACAAGAACAGGAGCGTTT
21578 ACCCAGCGCA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 91 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (25 bp):
CCAAACACAAGAACAGGAGCGTTTT
Found at i:34139 original size:58 final size:58
Alignment explanation
Indices: 34044--34160 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
34034 GCGATTTGGC
*
34044 ACCAGATATCCGGAGGTGTGGAAAGAGCTGCTATGAAAAGTGAAAAAACCATCAAAAA
1 ACCAGATATCCGGAGGTGTGGAAAGAGCTGCTATGAAAAATGAAAAAACCATCAAAAA
*
34102 ACCAGATATCCGGAGGTGTGGAAAGAGCTGCTGTGAAAAATGAAAAAACCATCAAAAA
1 ACCAGATATCCGGAGGTGTGGAAAGAGCTGCTATGAAAAATGAAAAAACCATCAAAAA
34160 A
1 A
34161 AAGTTTATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.15
Consensus pattern (58 bp):
ACCAGATATCCGGAGGTGTGGAAAGAGCTGCTATGAAAAATGAAAAAACCATCAAAAA
Found at i:35272 original size:666 final size:665
Alignment explanation
Indices: 34185--35700 Score: 2451
Period size: 666 Copynumber: 2.3 Consensus size: 665
34175 AAGTTTTTTT
*
34185 GAAGCGT-AAAAAGCCCTTCAA-TATTTTTGGCATTGTATTATATA-TTTTTGTGAGTATTGTGG
1 GAAGCGTGAAAAA-CCCTTCAATTA-TTTTGGCATTGAATTATATATTTTTTGTGAGTATTGTGG
*
34247 CAAAAAATGGAGGAAAGAATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTA
64 CAAAAAATGGA-GAAAAAATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTA
* *
34312 ACCATCATGATTTTTGGCTAAAAAAGCGCTATGGGACCCCGGCTCAGTTTTGCATGATTTTTAGT
128 ACCATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTAGT
* * * *
34377 GGCAAGACTCCTTGAAATATCTTTATTCATTTAACCAAATCTCAGTCGCAATGGGTTTAAGGATT
193 GACAAGACTCCTTGAAATATCTTTATTCATCTAACCAAATCTCAGCCGCAATGGATTTAAGGATT
* *
34442 TGTTTTTGTGAGCATCTGAATCATGTTCCGATTTACTTAAAAAATAATTTGGAAAAATTTTGAAA
258 TGTTTTTGCGAGCATCTGAATCATGTTCCGATTTACTTAAAAAATAATTTGGAAAAATTTCGAAA
* * * *
34507 AACGATATTAGAAGCGTAAAAATCCCTTCAATCTTTTTGGCATTGCATTATATATTTTTTGTGAG
323 AACGATATTAGAAACGTAAAAAGCCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAG
* * **
34572 TATTGTGGCAAAAAATGGAGGAAAAAATTTTCGGGTTAGTTTTTTCAAAAATTTTAGCCGAAATC
388 TATTGTGGCAAAAAATGGAGGAAAAAACTTTCGGGTCAG-TTTTTCAAAAATTTTAGCAAAAATC
* *
34637 GTATACTAACCATCATGATTTTTGCCTAAAAATGCACTATGGTGCCCCGGCTAAGTTTTGCATTA
452 GTATACTAACCATCATGATTTTTGCCTAAAAATGCACTATGGGGCCCCGGCTAAGTTTTGCATGA
*
34702 TTTTTGGTTCCAAAACTCCTTGAAATATCTTTATTCATCTAACCAAATCCCAGCCGCAATGGATT
517 TTTTTGGTGCCAAAACTCCTTGAAATATCTTTATTCATCTAACCAAATCCCAGCCGCAATGGATT
34767 TAAGGATTTGTTTTTTGCGAGCATCTGAATCATGTTTCGATTTTAGTTAAAAATTAATTTGG-AA
582 TAAGGATTTG-TTTTTGCGAGCATCTGAATCATGTTTCGA-TTTAGTTAAAAATTAATTTGGAAA
34831 AAATTTTGAAAGACGATATTA
645 AAATTTTGAAAGACGATATTA
*
34852 GAATCGTG-AAAACCCTTCAATTATTTTGGCATTGAATTATATATTTTTTGTGA-TAATTGTGGC
1 GAAGCGTGAAAAACCCTTCAATTATTTTGGCATTGAATTATATATTTTTTGTGAGT-ATTGTGGC
*
34915 AAAAAATGGAGAAAAAATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCTGAAATCGTGTACTAAC
65 AAAAAATGGAGAAAAAATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTAAC
* *
34980 CATCATGATTTTTGGCTAAAAATGTGCTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGA
130 CATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTAGTGA
*
35045 CAAGACTCCTTGAAATATCTTTATTCATCTAATCAAATCTCAGCCGCAATGGATTTAAGGATTTG
195 CAAGACTCCTTGAAATATCTTTATTCATCTAACCAAATCTCAGCCGCAATGGATTTAAGGATTTG
* * * * *
35110 TTTTTGCGAGCATCTGAATCATGTTTCGATTTAGTTAGAAATTAATTTGGAAAAAATTTCGAAAG
260 TTTTTGCGAGCATCTGAATCATGTTCCGATTTACTTAAAAAATAATTTGG-AAAAATTTCGAAAA
* *
35175 ATGATATTAGAAACGTGAAAAGCCCTTCAATC-TTTTGGCATTGAATTATATAATTTTTTATGAG
324 ACGATATTAGAAACGTAAAAAGCCCTTCAATCTTTTTGGCATTGAATTATAT-ATTTTTTATGAG
*
35239 TATTGTGGCAAAAAATTGAGG-AAAAACTTTCGGGTCAGTTTTTCAAAAATTTTAGCAAAAATCG
388 TATTGTGGCAAAAAATGGAGGAAAAAACTTTCGGGTCAGTTTTTCAAAAATTTTAGCAAAAATCG
* * * *
35303 TGTACTAACCATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAGTTTTGCATGAT
453 TATACTAACCATCATGATTTTTGCCTAAAAATGCACTATGGGGCCCCGGCTAAGTTTTGCATGAT
* * *
35368 TTTTGGTGCCAAGACTCCTTGAAATATCTTTATTCATCTAACCAAATCTCAGCCGTAATGGATTT
518 TTTTGGTGCCAAAACTCCTTGAAATATCTTTATTCATCTAACCAAATCCCAGCCGCAATGGATTT
*
35433 AAGGATTTGTTTTTGCGAGCATCTGAATCATGTTTCGATTTAGTTAGAAATTAATTTGGAAAAAA
583 AAGGATTTGTTTTTGCGAGCATCTGAATCATGTTTCGATTTAGTTAAAAATTAATTTGGAAAAAA
*
35498 TTTTGAATGACGATATTA
648 TTTTGAAAGACGATATTA
35516 GAAGCGTGAAAAACCCTTCAATCT-TTTTGGCATTGAATTATATATTTTTTGTGAGTATTGTGGC
1 GAAGCGTGAAAAACCCTTCAAT-TATTTTGGCATTGAATTATATATTTTTTGTGAGTATTGTGGC
* *
35580 -AAAAATGGAGGAAAAATTTTTGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTAAC
65 AAAAAATGGAGAAAAAATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTAAC
*
35644 CATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAATTTTGCAT-ATTT
130 CATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAGTTTTGCATGATTT
35701 AGAAGCGCGA
Statistics
Matches: 790, Mismatches: 49, Indels: 24
0.92 0.06 0.03
Matches are distributed among these distances:
663 24 0.03
664 170 0.22
665 204 0.26
666 282 0.36
667 110 0.14
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.36
Consensus pattern (665 bp):
GAAGCGTGAAAAACCCTTCAATTATTTTGGCATTGAATTATATATTTTTTGTGAGTATTGTGGCA
AAAAATGGAGAAAAAATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTAACC
ATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTAGTGAC
AAGACTCCTTGAAATATCTTTATTCATCTAACCAAATCTCAGCCGCAATGGATTTAAGGATTTGT
TTTTGCGAGCATCTGAATCATGTTCCGATTTACTTAAAAAATAATTTGGAAAAATTTCGAAAAAC
GATATTAGAAACGTAAAAAGCCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTAT
TGTGGCAAAAAATGGAGGAAAAAACTTTCGGGTCAGTTTTTCAAAAATTTTAGCAAAAATCGTAT
ACTAACCATCATGATTTTTGCCTAAAAATGCACTATGGGGCCCCGGCTAAGTTTTGCATGATTTT
TGGTGCCAAAACTCCTTGAAATATCTTTATTCATCTAACCAAATCCCAGCCGCAATGGATTTAAG
GATTTGTTTTTGCGAGCATCTGAATCATGTTTCGATTTAGTTAAAAATTAATTTGGAAAAAATTT
TGAAAGACGATATTA
Found at i:35343 original size:332 final size:331
Alignment explanation
Indices: 34185--35700 Score: 2432
Period size: 332 Copynumber: 4.6 Consensus size: 331
34175 AAGTTTTTTT
* * *
34185 GAAGCGTAAAAAGCCCTTCAATATTTTTGGCATTGTATTATATA-TTTTTGTGAGTATTGTGGCA
1 GAAGCGTGAAAAGCCCTTCAAT-CTTTTGGCATTGAATTATATATTTTTTGTGAGTATTGTGGCA
34249 AAAAATGGAGGAAAGAATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTAAC
65 AAAAATGGAGGAAA-AATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTAAC
* * * *
34314 CATCATGATTTTTGGCTAAAAAAGCGCTATGGGACCCCGGCTCAGTTTTGCATGATTTTTAGTGG
129 CATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGC
* * *
34379 CAAGACTCCTTGAAATATCTTTATTCATTTAACCAAATCTCAGTCGCAATGGGTTTAAGGATTTG
194 CAAGACTCCTTGAAATATCTTTATTCATCTAACCAAATCTCAGCCGCAATGGATTTAAGGATTTG
* * * * *
34444 TTTTTGTGAGCATCTGAATCATGTTCCGATTTACTTAAAAAATAATTTGGAAAAATTTTGAAAAA
259 TTTTTGCGAGCATCTGAATCATGTTTCGATTTAGTTAAAAATTAATTTGGAAAAATTTTGAAAGA
34509 CGATATTA
324 CGATATTA
* * *
34517 GAAGCGTAAAAATCCCTTCAATCTTTTTGGCATTGCATTATATATTTTTTGTGAGTATTGTGGCA
1 GAAGCGTGAAAAGCCCTTCAATC-TTTTGGCATTGAATTATATATTTTTTGTGAGTATTGTGGCA
* *
34582 AAAAATGGAGGAAAAAATTTTCGGGTTAGTTTTTTCAAAAATTTTAGCCGAAATCGTATACTAAC
65 AAAAATGGAGG-AAAAATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTAAC
* * * * * *
34647 CATCATGATTTTTGCCTAAAAATGCACTATGGTGCCCCGGCTAAGTTTTGCATTATTTTTGGTTC
129 CATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGC
* *
34712 CAAAACTCCTTGAAATATCTTTATTCATCTAACCAAATCCCAGCCGCAATGGATTTAAGGATTTG
194 CAAGACTCCTTGAAATATCTTTATTCATCTAACCAAATCTCAGCCGCAATGGATTTAAGGATTTG
34777 TTTTTTGCGAGCATCTGAATCATGTTTCGATTTTAGTTAAAAATTAATTTGGAAAAATTTTGAAA
259 -TTTTTGCGAGCATCTGAATCATGTTTCGA-TTTAGTTAAAAATTAATTTGGAAAAATTTTGAAA
34842 GACGATATTA
322 GACGATATTA
* *
34852 GAATCGTGAAAA-CCCTTCAATTATTTTGGCATTGAATTATATATTTTTTGTGA-TAATTGTGGC
1 GAAGCGTGAAAAGCCCTTCAA-TCTTTTGGCATTGAATTATATATTTTTTGTGAGT-ATTGTGGC
* *
34915 AAAAAATGGAGAAAAAATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCTGAAATCGTGTACTAAC
64 AAAAAATGGAGGAAAAATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTAAC
* *
34980 CATCATGATTTTTGGCTAAAAATGTGCTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGA
129 CATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGC
*
35045 CAAGACTCCTTGAAATATCTTTATTCATCTAATCAAATCTCAGCCGCAATGGATTTAAGGATTTG
194 CAAGACTCCTTGAAATATCTTTATTCATCTAACCAAATCTCAGCCGCAATGGATTTAAGGATTTG
* *
35110 TTTTTGCGAGCATCTGAATCATGTTTCGATTTAGTTAGAAATTAATTTGGAAAAAATTTCGAAAG
259 TTTTTGCGAGCATCTGAATCATGTTTCGATTTAGTTAAAAATTAATTTGG-AAAAATTTTGAAAG
*
35175 ATGATATTA
323 ACGATATTA
* *
35184 GAAACGTGAAAAGCCCTTCAATCTTTTGGCATTGAATTATATAATTTTTTATGAGTATTGTGGCA
1 GAAGCGTGAAAAGCCCTTCAATCTTTTGGCATTGAATTATAT-ATTTTTTGTGAGTATTGTGGCA
* * **
35249 AAAAATTGAGGAAAAACTTTCGGGTCAG-TTTTTCAAAAATTTTAGCAAAAATCGTGTACTAACC
65 AAAAATGGAGGAAAAATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTAACC
35313 ATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGCC
130 ATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGCC
*
35378 AAGACTCCTTGAAATATCTTTATTCATCTAACCAAATCTCAGCCGTAATGGATTTAAGGATTTGT
195 AAGACTCCTTGAAATATCTTTATTCATCTAACCAAATCTCAGCCGCAATGGATTTAAGGATTTGT
* *
35443 TTTTGCGAGCATCTGAATCATGTTTCGATTTAGTTAGAAATTAATTTGGAAAAAATTTTGAATGA
260 TTTTGCGAGCATCTGAATCATGTTTCGATTTAGTTAAAAATTAATTTGG-AAAAATTTTGAAAGA
35508 CGATATTA
324 CGATATTA
*
35516 GAAGCGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTGTGAGTATTGTGGC-
1 GAAGCGTGAAAAGCCCTTCAATC-TTTTGGCATTGAATTATATATTTTTTGTGAGTATTGTGGCA
*
35580 AAAAATGGAGGAAAAATTTTTGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTAACC
65 AAAAATGGAGGAAAAATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTAACC
*
35645 ATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAATTTTGCAT-ATTT
130 ATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAGTTTTGCATGATTT
35701 AGAAGCGCGA
Statistics
Matches: 1100, Mismatches: 71, Indels: 27
0.92 0.06 0.02
Matches are distributed among these distances:
331 49 0.04
332 477 0.43
333 435 0.40
334 87 0.08
335 52 0.05
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.36
Consensus pattern (331 bp):
GAAGCGTGAAAAGCCCTTCAATCTTTTGGCATTGAATTATATATTTTTTGTGAGTATTGTGGCAA
AAAATGGAGGAAAAATTTTCGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTAACCA
TCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGCCA
AGACTCCTTGAAATATCTTTATTCATCTAACCAAATCTCAGCCGCAATGGATTTAAGGATTTGTT
TTTGCGAGCATCTGAATCATGTTTCGATTTAGTTAAAAATTAATTTGGAAAAATTTTGAAAGACG
ATATTA
Found at i:35864 original size:185 final size:185
Alignment explanation
Indices: 35513--35878 Score: 515
Period size: 185 Copynumber: 2.0 Consensus size: 185
35503 AATGACGATA
* * * * *
35513 TTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTGTGAGTATTGTG
1 TTAGAAGCGCGAAAAACCCTTCAATCTTTTCGGCATTGAATTATATATTTTTAGTGAATATTATG
* * * *
35578 GCAAAAATGGAGGAAAAATTTTTGGGTCAGTTTTTTCAAAAATTTTAGCCGAAATCGTGTACTAA
66 GCAAAAATGAAGGAAAAATTTTTGGGTCAATTTTTTCAAAAATTTTAGCCGAAATCATATACTAA
* *
35643 CCATCATGATTTTTGGCTAAAAATGCGCTATGGGGCCCCGGCTCAATTTTGCATAT
131 CCATCATGAGTTTTGGCTAAAAATGCGCTATGGGG-CCCGCCTCAATTTTGCATAT
*
35699 TTAGAAGCGCGAAAAGCCCTTCAATC-TTTCGGCATTGAATTATATATTTTCTAG-GAATATTAT
1 TTAGAAGCGCGAAAAACCCTTCAATCTTTTCGGCATTGAATTATATATTTT-TAGTGAATATTAT
* * *
35762 GGTCAAAAATTAAGGAAATATTTTTCGGGTCAATTTTTTCAAAAATTTTAGCCGAAATCATAT-G
65 GG-CAAAAATGAAGGAAAAATTTTT-GGGTCAATTTTTTCAAAAATTTTAGCCGAAATCATATAC
* *
35826 TAACCATCATG-GTTTTGGCTAAAAATGCGCTCTGGGGCCCGCCTCAGTTTTGC
128 TAACCATCATGAGTTTTGGCTAAAAATGCGCTATGGGGCCCGCCTCAATTTTGC
35879 TATGATTTTT
Statistics
Matches: 160, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
184 14 0.09
185 56 0.35
186 56 0.35
187 34 0.21
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (185 bp):
TTAGAAGCGCGAAAAACCCTTCAATCTTTTCGGCATTGAATTATATATTTTTAGTGAATATTATG
GCAAAAATGAAGGAAAAATTTTTGGGTCAATTTTTTCAAAAATTTTAGCCGAAATCATATACTAA
CCATCATGAGTTTTGGCTAAAAATGCGCTATGGGGCCCGCCTCAATTTTGCATAT
Done.