Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01022397.1 Corchorus olitorius cultivar O-4 contig22430, 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: 147471
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:2400 original size:662 final size:663
Alignment explanation
Indices: 1150--4772 Score: 4087
Period size: 662 Copynumber: 5.5 Consensus size: 663
1140 AATCAAATAA
* * * *
1150 ACGATTTCGGCCAAAATTTTGCAAAAACTATCCCAAAAAATTTTTCCTCACTTTTTGGCCACAAT
1 ACGATTTCAGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAAT
* ** * * * * ** * * **
1215 ACTCATAAAAAATATATAACTCATCGCTAA-AAATATTTAAGGGCTTTTCATGCTTATAATATCG
66 ACTCATAAAAAATATATAATTCAAAGCCAATAAAT-CTGAAGGGCTCTAGACGCTTCTAATATAA
** * * * **
1279 TTTTTCCTA-TTTTCCGAATTAATTTTTATTTAAATCGAAACATAATTCAGATGTTCGTAAAACC
130 TTTTT-CTATTTTTCCGAATTAATTACTAATTAAATCGAAACATAATTCAGATGCTCATAAAAAA
** * * * **
1343 TTATCCTTAAATCAATTGTG-TCTGAGATTTGGTTAGATGAAA-ATAGATATTTTAAGGAGTCTT
194 AAATCCATAAATCAATTGTGAT-GGAGATTTGGTTAGAT-AAATATAGATATTTCAAGGACACTT
* * ** * * *
1406 -GCTGTCAAAAATCATCCAAAACTGTGTCGAGGCCTAAGAA-CGCGTTTTTAGCC--AAAC----
257 GGC-GCCAAAAATCATGCAAAACTAAGTCGGGGCCCAAGAACCGCATTTTTAGCCAAAAACAGTG
* * *
1463 A---CT-GT--A--ATCTCAGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTTAATTT
321 ATGGTTAGTACACGATCTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTT
*
1520 TTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAATAAATTTTAAGGGCTTTTCAGGCT
386 TTGGCCACAATACTCAT-AAAAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCT
* * * *
1585 TCTAATATAATTTTTCCTATTTTTCCGAATTAATTACTTATTAAATCAAAACATAATTCAGATGC
450 TCTAATATCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGC
* * * * *
1650 TCATAAAAAATTATCCATAAATCCATTGT-GCATGAGATTTGGTTAGATGACTATAAATGTTTTA
515 TCGTAAAAAATTATTCTTAAATCCATTGTGGC-TGAGATTTGGTTAGATGAATATAAATATTTTA
* *
1714 AGGAGTCTTGCCGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCTTTTTTAGCCA
579 AGGAGTCTTGCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCA
*
1779 AAAACAGTGATGGTTAGTAT
644 AAAACAGTGATGGTTAGTAC
* ** * *
1799 ACGATTTCAGCCAAAATTTTGCCAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTAACCATAAC
1 ACGATTTCAGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAAT
* * * *
1864 ACTCATAAAAAATATATAATTCAAATCCGAA-AAGA-CTGAAGGGCTCAAGACGTTTC-AATTTT
66 ACTCATAAAAAATATATAATTCAAAGCC-AATAA-ATCTGAAGGGCTCTAGACGCTTCTAA-TAT
** *
1926 CGTTTTTCTAATTTTTTTTCCGAATT-A-T-CTAATTAAATCGAAACATAATTCAGATGCTCGTA
128 AATTTTTCT-A---TTTTTCCGAATTAATTACTAATTAAATCGAAACATAATTCAGATGCTCATA
* * * * *
1988 AAAAAAAATCCTTAAATCAA-TGTTGATGGGGA-TTAGTTAGATAAATATAGATATCTCAAAGAC
189 AAAAAAAATCCATAAATCAATTG-TGATGGAGATTTGGTTAGATAAATATAGATATTTCAAGGAC
* * ** ** * *
2051 ACTAGGTGCCAAAAATCATGCAAAACTCTGTCATGGCCCAATAA-CGCATTTTTAGCCAAAAACT
253 ACTTGGCGCCAAAAATCATGCAAAACTAAGTCGGGGCCCAAGAACCGCATTTTTAGCCAAAAACA
* * * *
2115 GTGAAGGTTAGTACACGATCTCGGCCAAAATTTTGCAACAACTGTCTCGAAAAATATTTCCTCAA
318 GTGATGGTTAGTACACGATCTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAA
* *
2180 TTTTTGGCCACAATACTCATAAAAATATATAACTCAAAGCCAATAAAATTTAAGGGCTTTTCTGG
383 TTTTTGGCCACAATACTCATAAAAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGG
* * *
2245 TTTCTACTATCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGAA
448 CTTCTAATATCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGAT
* * *
2310 GCTCGTAAAAAAGTATTCTTAAATCCATTATGGCTGAGATTTGGTTAGATGAATATAAATGTTTT
513 GCTCGTAAAAAATTATTCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTT
* * *
2375 AAGGAGTCTTGCTGGCAAAAATCATGCAAAACTAAATCGGGGCCCCAGAACGCGTGTTTTTAGCC
578 AAGGAGTCTTGCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCC
*
2440 AAAAACAATGATGGTTAGTAC
643 AAAAACAGTGATGGTTAGTAC
* * *
2461 ACGATTTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACGAC
1 ACGATTTCAGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAAT
* * * * * *
2526 ACTCATAAAAAATATATAATTCAAATCCAA-AAGA-CTGAAAGGCTTTAGATGCTTC-AATTTTC
66 ACTCATAAAAAATATATAATTCAAAGCCAATAA-ATCTGAAGGGCTCTAGACGCTTCTAA-TATA
* *
2588 ATTTTTCTAATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAA
129 ATTTTTCT-ATTTTTCCGAATTAATTACTAATTAAATCGAAACATAATTCAGATGCTCATAAAAA
* * * * *
2653 CAAATCCTTAAATCCAA-TGTGGCT-GAGAATTGGTTAGATAAATATAGATATTTCAATGACACT
193 AAAATCCATAAAT-CAATTGT-GATGGAGATTTGGTTAGATAAATATAGATATTTCAAGGACACT
* ** *
2716 TGGTGCCAAAAATCATGCAAAACTGTGTCGGGGCCCAAGAA-CG-AGTTTTTAGCCAAAAACTGT
256 TGGCGCCAAAAATCATGCAAAACTAAGTCGGGGCCCAAGAACCGCA-TTTTTAGCCAAAAACAGT
* * * *
2779 GATGGTTAGTACACGATTTCGGCCAAAATTTTGCAACAATTGTCCCGAAAAATATTTCCTCAATT
320 GATGGTTAGTACACGATCTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATT
* *
2844 TTTGGCCACAATACTCATTAAAAATATATAACTCAATGCCAATAAAATTTAA-GGCTTTTCAGGT
385 TTTGGCCACAATACTCA-TAAAAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGC
* *
2908 TTCTATTATCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAATATAATTCAGATG
449 TTCTAATATCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATG
*
2973 CTCGTAAAAAATTATTCTTAAATCCATTGTGGCTGAGATTTGGTTTGATGAATATAAATA-TTTA
514 CTCGTAAAAAATTATTCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTA
* * *
3037 CAGGAGTCTTGCTGCAAAAAAT-ATGCAAAACTAAGTCGGGGCCCCAGAACACGCGTTTTTAGCA
579 -AGGAGTCTTGCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCC
* *
3101 AAAAATAGTGATGTTTAGTAC
643 AAAAACAGTGATGGTTAGTAC
* * *
3122 ACGATTTC-GACCCAAATTTTACAAAAACTGTCCCGAAAAATATTTCCTCAATTTTT-GCCACAA
1 ACGATTTCAG-CCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAA
* * * * * ** *
3185 TACTTATAAAAAA-ATATAATTCAACGCCAATAAATTTTAAGGGCTTTTCAGGCTTCTAATATAA
65 TACTCATAAAAAATATATAATTCAAAGCCAATAAATCTGAAGGGCTCTAGACGCTTCTAATATAA
* *
3249 TTTCTCCTATTTTTCCGAATTAATTACTTATTAAATCGAAACATAATTCAGATGCTCATAAAAAA
130 TTT-TTCTATTTTTCCGAATTAATTACTAATTAAATCGAAACATAATTCAGATGCTCATAAAAAA
** * * * * * * ** **
3314 TTATCCATAAATCCATTGTG-TCTGAGATTTGGTTAGATGACTATAAATTTTTTTAGGAGTCTTG
194 AAATCCATAAATCAATTGTGAT-GGAGATTTGGTTAGATAAATATAGATATTTCAAGGACACTTG
* * * *
3378 CCGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTTTGCCAAAAACAGTG
258 GCGCCAAAAATCATGCAAAACTAAGTCGGGGCCCAAGAAC-CGC-ATTTTTAGCCAAAAACAGTG
* * * *
3443 ATGGTTAGTACACGATTTCGGCCGAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCACTTT
321 ATGGTTAGTACACGATCTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTT
* * * *
3508 TTGGCCACAATACTCATAAAAGATATATAACTCATCGCTGAA-AATATTTAAGGGCTTTTCATGC
386 TTGGCCACAATACTCATAAAA-ATATATAACTCAACGC-CAATAAAATTTAAGGGCTTTTCAGGC
* * * *
3572 TTATAATATCGTTTTTCCTATTTTT-CGAATTAATTTTTATTTAAATCGAAACATAATTCAGATG
449 TTCTAATATCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATG
* ** * * * * * *
3636 TTCGTAAAACCTTATCCTTAAGTCCATTGTGTCTGAGATTTGCTTAGATGAAAATAGATATTTTA
514 CTCGTAAAAAATTATTCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTA
* * ** * * *
3701 AGGAGTTTTGCTGCCAAAAATCATCCAAAACTGTGCCGGGG-CCTAGGAA--CGCGTTTTTAACC
579 AGGAGTCTTGCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCA-GAACGCGCGTTTTTAGCC
* *
3763 AAAAAC--TG-TGATAACGTAC
643 AAAAACAGTGATGGTTA-GTAC
* *
3782 ACGATCTCAGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTTAATTTTTGGCCACAAT
1 ACGATTTCAGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAAT
* * * * * *
3847 ACTCATAAAAAATATCTAACTCAACGCCAATAAATTTTAAGGGCTTTTCAGA--CTTCTAATATA
66 ACTCATAAAAAATATATAATTCAAAGCCAATAAATCTGAAGGGC-TCT-AGACGCTTCTAATATA
* *
3910 ATTTTTCCTATTTTTCCGAATTAATTACTTATTAAATCGAAACATAATTCAGATGCTTATAAAAA
129 ATTTTT-CTATTTTTCCGAATTAATTACTAATTAAATCGAAACATAATTCAGATGCTCATAAAAA
** * * * * * **
3975 ATTATCCATAAATCCATTGTGCAT-GAGATTTGGTTAGATGACTATA-ATTGTTTTAAGGAGTCT
193 AAAATCCATAAATCAATTGTG-ATGGAGATTTGGTTAGATAAATATAGA-TATTTCAAGGACACT
* * * *
4038 TGACGCCAAAAATCATGCAAAACTAAGTTGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGT
256 TGGCGCCAAAAATCATGCAAAACTAAGTCGGGGCCCAAGAAC-CGCATTTTTAGCCAAAAACAGT
* **
4103 GATGGTTAGTACACGATCTCGGCCAAAATTTTACAAAAACTGTCCCGAAATTTTTTTCCT-AATT
320 GATGGTTAGTACACGATCTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATT
*
4167 TTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAAGC
385 TTTGGCCACAATACTCAT-AAAAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGC
*
4232 TTCTAATATCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACTTAATTCAGATG
449 TTCTAATATCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATG
* *
4297 CTCGTAAAAAATTATTCTTAAATCCATTGTGGCTGAGATTTGGTTTGATGAATATAAATATTTTC
514 CTCGTAAAAAATTATTCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTA
* * *
4362 AGGAGTCTTGCTGCCAAAAATCATACAAAACTAAGTCGGGGCCCCGGAACGCGCGTTTTTAGCAA
579 AGGAGTCTTGCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCA
*
4427 AAAACAGTGATGGTTAATAC
644 AAAACAGTGATGGTTAGTAC
* * * * * *
4447 ACGATTTCGGCCAAAATTTTGCCAAAACTATCTCGAAAAATATTTCCTCAATTTTTTGCCATCAA
1 ACGATTTCAGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCA-CAA
* ** * ** *
4512 TACTCATAACAAAA-ATATAATTCAACGCCAATAAAT-TTTAGGGCTTTTCAGGCTTCTAATATA
65 TACTCATAA-AAAATATATAATTCAAAGCCAATAAATCTGAAGGGCTCTAGACGCTTCTAATATA
*
4575 ATTTTTCCTATTTTTTCCGAATTAATTACTTATTAAATCGAAACATAATTCAGATGCTCATAAAA
129 ATTTTT-CTA-TTTTTCCGAATTAATTACTAATTAAATCGAAACATAATTCAGATGCTCATAAAA
** * * * * * * * * ***
4640 AATTATCCTTAAATCCATTGTGGCT-GAGATTTGGTTTA-TTGAATATAAATGTTTTAAGGAGTT
192 AAAAATCCATAAATCAATTGT-GATGGAGATTTGG-TTAGATAAATATAGATATTTCAAGGACAC
** * * *
4703 TTGTTGCCAAAAATCATGTAAAACTAAGTCGGGGCCCCAGAATGCACG-A-TTTTAGTCAAAAAC
255 TTGGCGCCAAAAATCATGCAAAACTAAGTCGGGGCCCAAGAA--C-CGCATTTTTAGCCAAAAAC
4766 AGTGATG
317 AGTGATG
4773 AATTATATAA
Statistics
Matches: 2602, Mismatches: 289, Indels: 149
0.86 0.10 0.05
Matches are distributed among these distances:
648 7 0.00
649 169 0.06
650 57 0.02
651 7 0.00
652 1 0.00
653 11 0.00
655 1 0.00
658 14 0.01
659 28 0.01
660 306 0.12
661 436 0.17
662 868 0.33
663 341 0.13
664 61 0.02
665 86 0.03
666 197 0.08
667 9 0.00
668 3 0.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (663 bp):
ACGATTTCAGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAAT
ACTCATAAAAAATATATAATTCAAAGCCAATAAATCTGAAGGGCTCTAGACGCTTCTAATATAAT
TTTTCTATTTTTCCGAATTAATTACTAATTAAATCGAAACATAATTCAGATGCTCATAAAAAAAA
ATCCATAAATCAATTGTGATGGAGATTTGGTTAGATAAATATAGATATTTCAAGGACACTTGGCG
CCAAAAATCATGCAAAACTAAGTCGGGGCCCAAGAACCGCATTTTTAGCCAAAAACAGTGATGGT
TAGTACACGATCTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGC
CACAATACTCATAAAAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAAT
ATCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAA
AAAATTATTCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTC
TTGCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAG
TGATGGTTAGTAC
Found at i:2509 original size:332 final size:333
Alignment explanation
Indices: 1475--4772 Score: 4204
Period size: 332 Copynumber: 9.9 Consensus size: 333
1465 TGTAATCTCA
*
1475 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTTAATTTTTGGCCACAATACTCATAAA
1 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAA
* *
1540 AAATATATAACTCAACGCCAATAAATTTTAAGGGCTTTTCAGGCTTCTAATATAATTTTTCCTAT
66 AAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATCATTTTTCCTAT
* * * * *
1605 TTTTCCGAATTAATTACTTATTAAATCAAAACATAATTCAGATGCTCATAAAAAATTATCCATAA
131 TTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAATTATCCTTAA
* * *
1670 ATCCATTGT-GCATGAGATTTGGTTAGATGACTATAAATGTTTTAAGGAGTCTTGCCGCCAAAAA
196 ATCCATTGTGGC-TGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAA
* *
1734 TCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCTTTTTTAGCCAAAAACAGTGATGGTTAGTAT
260 TCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGATGGTTAGTAC
*
1799 ACGATTTCA
325 ACGATTTCG
* ** * *
1808 GCCAAAATTTTGCCAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTAACCATAACACTCATAAA
1 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAA
* ** * * * **** * * * *
1873 AAATATATAATTCAAATCCGAA-AAGACTGAAGGGCTCAAGACGTTTC-AATTTTCGTTTTT-CT
66 AAATATATAACTCAACGCC-AATAAAATTTAAGGGCTTTTCAGGCTTCTAA-TATCATTTTTCCT
**
1935 AATTTTTTTTCCGAATT-A--TCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAAAAAT
129 -A---TTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAATTAT
* * * * * * * * * * ** * *
1997 CCTTAAAT-CAATGTTGATGGGGA-TTAGTTAGATAAATATAGATATCTCAAAGACACTAGGTGC
190 CCTTAAATCCATTGTGGCT-GAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGC
** ** * * * * *
2060 CAAAAATCATGCAAAACTCTGTCATGGCCCAATAA--CGCATTTTTAGCCAAAAACTGTGAAGGT
254 CAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGATGGT
*
2123 TAGTACACGATCTCG
319 TAGTACACGATTTCG
* * *
2138 GCCAAAATTTTGCAACAACTGTCTCGAAAAATATTTCCTCAATTTTTGGCCACAATACTCAT-AA
1 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAA
* * * *
2202 AAATATATAACTCAAAGCCAATAAAATTTAAGGGCTTTTCTGGTTTCTACTATCATTTTTCCTAT
66 AAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATCATTTTTCCTAT
* * *
2267 TTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGAAGCTCGTAAAAAAGTATTCTTAA
131 TTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAATTATCCTTAA
* * *
2332 ATCCATTATGGCTGAGATTTGGTTAGATGAATATAAATGTTTTAAGGAGTCTTGCTGGCAAAAAT
196 ATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAAT
* * *
2397 CATGCAAAACTAAATCGGGGCCCCAGAACGCGTGTTTTTAGCCAAAAACAATGATGGTTAGTACA
261 CATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACA
2462 CGATTTCG
326 CGATTTCG
* *
2470 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACGACACTCATAAA
1 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAA
* ** * * * * ** * *
2535 AAATATATAATTCAAATCCAA-AAGACTGAAAGGCTTTAGATGCTTC-AATTTTCATTTTT-CTA
66 AAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAA-TATCATTTTTCCT-
*
2597 ATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACA-AATCCT
129 ATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAA-ATTATCCT
* * * * * * ** *
2661 TAAATCCAATGTGGCTGAGAATTGGTTAGATAAATATAGATATTTCAATGACACTTGGTGCCAAA
193 TAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAA
** * * *
2726 AATCATGCAAAACTGTGTCGGGGCCCAAGAA--CGAGTTTTTAGCCAAAAACTGTGATGGTTAGT
258 AATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGATGGTTAGT
2789 ACACGATTTCG
323 ACACGATTTCG
* * * *
2800 GCCAAAATTTTGCAACAATTGTCCCGAAAAATATTTCCTCAATTTTTGGCCACAATACTCATTAA
1 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAA
* * *
2865 AAATATATAACTCAATGCCAATAAAATTTAA-GGCTTTTCAGGTTTCTATTATCATTTTTCCTAT
66 AAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATCATTTTTCCTAT
* *
2929 TTTTCCGAATTAATTTCTAATTAAATCGAAATATAATTCAGATGCTCGTAAAAAATTATTCTTAA
131 TTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAATTATCCTTAA
* *
2994 ATCCATTGTGGCTGAGATTTGGTTTGATGAATATAAATA-TTTACAGGAGTCTTGCTGCAAAAAA
196 ATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTA-AGGAGTCTTGCTGCCAAAAA
* * * *
3058 T-ATGCAAAACTAAGTCGGGGCCCCAGAACACGCGTTTTTAGCAAAAAATAGTGATGTTTAGTAC
260 TCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGATGGTTAGTAC
3122 ACGATTTCG
325 ACGATTTCG
* * * * *
3131 ACCCAAATTTTACAAAAACTGTCCCGAAAAATATTTCCTCAATTTTT-GCCACAATACTTATAAA
1 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAA
* * * *
3195 AAA-ATATAATTCAACGCCAATAAATTTTAAGGGCTTTTCAGGCTTCTAATATAATTTCTCCTAT
66 AAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATCATTTTTCCTAT
* * * *
3259 TTTTCCGAATTAATTACTTATTAAATCGAAACATAATTCAGATGCTCATAAAAAATTATCCATAA
131 TTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAATTATCCTTAA
* * * * *
3324 ATCCATTGTGTCTGAGATTTGGTTAGATGACTATAAATTTTTTTAGGAGTCTTGCCGCCAAAAAT
196 ATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAAT
*
3389 CATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTTTGCCAAAAACAGTGATGGTTAGTAC
261 CATGCAAAACTAAGTCGGGGCCCCAGAACGCGCG-TTTTTAGCCAAAAACAGTGATGGTTAGTAC
3454 ACGATTTCG
325 ACGATTTCG
* * *
3463 GCCGAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCACTTTTTGGCCACAATACTCATAAA
1 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAA
* * * * * * *
3528 AGATATATAACTCATCGCTGAA-AATATTTAAGGGCTTTTCATGCTTATAATATCGTTTTTCCTA
66 AAATATATAACTCAACGC-CAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATCATTTTTCCTA
* * * **
3592 TTTTT-CGAATTAATTTTTATTTAAATCGAAACATAATTCAGATGTTCGTAAAACCTTATCCTTA
130 TTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAATTATCCTTA
* * * * * *
3656 AGTCCATTGTGTCTGAGATTTGCTTAGATGAAAATAGATATTTTAAGGAGTTTTGCTGCCAAAAA
195 AATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAA
* ** * * * * *
3721 TCATCCAAAACTGTGCCGGGG-CCTAGGAA--CGCGTTTTTAACCAAAAAC--TG-TGATAACGT
260 TCATGCAAAACTAAGTCGGGGCCCCA-GAACGCGCGTTTTTAGCCAAAAACAGTGATGGTTA-GT
* *
3780 ACACGATCTCA
323 ACACGATTTCG
*
3791 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTTAATTTTTGGCCACAATACTCATAAA
1 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAA
* * * *
3856 AAATATCTAACTCAACGCCAATAAATTTTAAGGGCTTTTCAGACTTCTAATATAATTTTTCCTAT
66 AAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATCATTTTTCCTAT
* * ** *
3921 TTTTCCGAATTAATTACTTATTAAATCGAAACATAATTCAGATGCTTATAAAAAATTATCCATAA
131 TTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAATTATCCTTAA
* * *
3986 ATCCATTGT-GCATGAGATTTGGTTAGATGACTATAATTGTTTTAAGGAGTCTTGAC-GCCAAAA
196 ATCCATTGTGGC-TGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTG-CTGCCAAAA
*
4049 ATCATGCAAAACTAAGTTGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGATGGTTAGTA
259 ATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGATGGTTAGTA
*
4114 CACGATCTCG
324 CACGATTTCG
* **
4124 GCCAAAATTTTACAAAAACTGTCCCGAAATTTTTTTCCT-AATTTTTGGCCACAATACTCATAAA
1 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAA
*
4188 AAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAAGCTTCTAATATCATTTTTCCTAT
66 AAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATCATTTTTCCTAT
* *
4253 TTTTCCGAATTAATTTCTAATTAAATCGAAACTTAATTCAGATGCTCGTAAAAAATTATTCTTAA
131 TTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAATTATCCTTAA
* *
4318 ATCCATTGTGGCTGAGATTTGGTTTGATGAATATAAATATTTTCAGGAGTCTTGCTGCCAAAAAT
196 ATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAAT
* * * *
4383 CATACAAAACTAAGTCGGGGCCCCGGAACGCGCGTTTTTAGCAAAAAACAGTGATGGTTAATACA
261 CATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACA
4448 CGATTTCG
326 CGATTTCG
* * * * *
4456 GCCAAAATTTTGCCAAAACTATCTCGAAAAATATTTCCTCAATTTTTTGCCATCAATACTCATAA
1 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCA-CAATACTCATAA
* * *
4521 CAAAA-ATATAATTCAACGCCAAT-AAATTTTAGGGCTTTTCAGGCTTCTAATATAATTTTTCCT
65 -AAAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATCATTTTTCCT
* * *
4584 ATTTTTTCCGAATTAATTACTTATTAAATCGAAACATAATTCAGATGCTCATAAAAAATTATCCT
129 A-TTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAATTATCCT
* * * *
4649 TAAATCCATTGTGGCTGAGATTTGGTTTA-TTGAATATAAATGTTTTAAGGAGTTTTGTTGCCAA
193 TAAATCCATTGTGGCTGAGATTTGG-TTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAA
* * * * *
4713 AAATCATGTAAAACTAAGTCGGGGCCCCAGAATGCACGATTTTAGTCAAAAACAGTGATG
257 AAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGATG
4773 AATTATATAA
Statistics
Matches: 2537, Mismatches: 373, Indels: 109
0.84 0.12 0.04
Matches are distributed among these distances:
326 12 0.00
327 7 0.00
328 132 0.05
329 267 0.11
330 582 0.23
331 150 0.06
332 700 0.28
333 414 0.16
334 252 0.10
335 9 0.00
336 12 0.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (333 bp):
GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAA
AAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATCATTTTTCCTAT
TTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAATTATCCTTAA
ATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAAT
CATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACA
CGATTTCG
Found at i:3767 original size:993 final size:992
Alignment explanation
Indices: 1150--4772 Score: 4420
Period size: 993 Copynumber: 3.7 Consensus size: 992
1140 AATCAAATAA
* * * * * *
1150 ACGATTTCGGCCAAAATTTTGCAAAAACTATCCCAAAAAATTTTTCCTCACTTTTTGGCCACAAT
1 ACGATCTCGGCCAAAATTTTACAAAAACTGTCCCGAAAAATATTTCCTCAATTTTTGGCCACAAT
* * * * *
1215 ACTCATAAAAAATATATAACTCATCGCTAA-AAATATTTAAGGGCTTTTCATGCTTATAATATCG
66 ACTCATAAAAAATATATAACTCAACGCCAATAAA-ATTTAAGGGCTTTTCAGGCTTCTAATATCA
* * * **
1279 TTTTTCCTA-TTTTCCGAATTAATTTTTATTTAAATCGAAACATAATTCAGATGTTCGTAAAACC
130 TTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAA
* * * *
1343 TTATCCTTAAATCAATTGTGTCTGAGATTTGGTTAGATGAAAATAGATATTTTAAGGAGTCTTGC
195 TTATCCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGC
* * ** * **
1408 TGTCAAAAATCATCCAAAACTGTGTCGAGGCCTAAGAA--CGCGTTTTTAGCC--AAAC----A-
260 TGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGAT
* * * * *
1464 --CT-GT--A--ATCTCAGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTTAATTTTT
325 GGTTAGTACACGATTTCGGCCAAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCAATTTTT
1522 GGCCACAATACTCATAAAAAATATATAACTCAACGCCAATAA-ATTTTAAGGGCTTTTCAGGCTT
390 GGCCACAATACTCATAAAAAATATATAACTCAACG-CAA-AATA-TTTAAGGGCTTTTCAGGCTT
* *
1586 CTAATATAATTTTTCCTATTTTTCCGAATTAATTACTTATTAAATCAAAACATAATTCAGATGCT
452 ATAATATAATTTTTCCTATTTTTCCGAATTAATTACTTATTAAATCGAAACATAATTCAGATGCT
* ** *
1651 CATAAAAAATTATCCATAAATCCATTGT-GCATGAGATTTGGTTAGATGACTATAAATGTTTTAA
517 CATAAAAAATTATCCTTAAATCCATTGTGGC-TGAGATTTGGTTAGATGAAAATAAATATTTTAA
* **
1715 GGAGTCTTGCCGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCTTTTTTAGCCAA
581 GGAGTCTTGCTGCCAAAAATCATGCAAAACTGTGTCGGGG-CCCAGAACGCG--TTTTTAGCCAA
* *
1780 AAACAGTGATGGTTAGTATACGATTTCAGCCAAAATTTTGCCAAAACTGTCCCGAAAAATTTTTC
643 AAACTGTGATGGTTAGTACACGATTTCAGCCAAAATTTTG-CAAAACTGTCCCGAAAAATTTTTC
** * * * * * *
1845 CTCAATTTTTAACCATAACACTCATAAAAAATATATAATTCAAAT-CCGAA-AAGACTGAAGGGC
707 CTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTC-AATGCC-AATAAAATTTAAGGGC
**** * * * *
1908 TCAAGACGTTTCAATTTTCGTTTTT-CTAATTTTTTTTCCGAATT-A--TCTAATTAAATCGAAA
770 TTTTCAGGTTTCTATTATCATTTTTCCT-A---TTTTTCCGAATTAATTTCTAATTAAATCGAAA
** * * * * *
1969 CATAATTCAGATGCTCGTAAAAAAAAATCCTTAAAT-CAATGTTGATGGGGA-TTAGTTAGATAA
831 CATAATTCAGATGCTCGTAAAAAATTATCCTTAAATCCATTG-TGCT-GAGATTTGGTTAGATGA
* * * ** * * ** **
2032 ATATAGATATCT-CAAAGACACTAGGTGCCAAAAATCATGCAAAACTCTGTCATGG-CCCA-ATA
894 ATATAAATATTTAC-AGGAGTCTTGCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGA-A
* * *
2094 -ACGCATTTTTAGCCAAAAACT-GTGAAGGTTAGTAC
957 CACGCGTTTTTAG-CAAAAAATAGTGATGGTTAGTAC
* * *
2129 ACGATCTCGGCCAAAATTTTGCAACAACTGTCTCGAAAAATATTTCCTCAATTTTTGGCCACAAT
1 ACGATCTCGGCCAAAATTTTACAAAAACTGTCCCGAAAAATATTTCCTCAATTTTTGGCCACAAT
* * * *
2194 ACTCAT-AAAAATATATAACTCAAAGCCAATAAAATTTAAGGGCTTTTCTGGTTTCTACTATCAT
66 ACTCATAAAAAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATCAT
* *
2258 TTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGAAGCTCGTAAAAAAG
131 TTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAAT
* * *
2323 TATTCTTAAATCCATTATGGCTGAGATTTGGTTAGATGAATATAAATGTTTTAAGGAGTCTTGCT
196 TATCCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCT
* * * *
2388 GGCAAAAATCATGCAAAACTAAATCGGGGCCCCAGAACGCGTGTTTTTAGCCAAAAACAATGATG
261 GCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGATG
*
2453 GTTAGTACACGATTTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTG
326 GTTAGTACACGATTTCGGCCAAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCAATTTTTG
* * * * * * * ** *
2518 GCCACGACACTCATAAAAAATATATAATTCAAATC-CAAAAGACTGAAAGGCTTTAGATGCTTCA
391 GCCACAATACTCATAAAAAATATATAACTC-AA-CGCAAAATATTTAAGGGCTTTTCAGGCTT-A
* * * * *
2582 -ATTTTCATTTTT-CTAATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCT
453 TAATATAATTTTTCCT-ATTTTTCCGAATTAATTACTTATTAAATCGAAACATAATTCAGATGCT
* * * * * *
2645 CGTAAAAACA-AATCCTTAAATCCAATGTGGCTGAGAATTGGTTAGAT-AAATATAGATATTTCA
517 CATAAAAA-ATTATCCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAAA-ATAAATATTTTA
* ** * *
2708 ATGACACTTGGTGCCAAAAATCATGCAAAACTGTGTCGGGGCCCAAGAACGAGTTTTTAGCCAAA
580 AGGAGTCTTGCTGCCAAAAATCATGCAAAACTGTGTCGGGGCCC-AGAACGCGTTTTTAGCCAAA
* * *
2773 AACTGTGATGGTTAGTACACGATTTCGGCCAAAATTTTGCAACAATTGTCCCGAAAAATATTTCC
644 AACTGTGATGGTTAGTACACGATTTCAGCCAAAATTTTGCAA-AACTGTCCCGAAAAATTTTTCC
*
2838 TCAATTTTTGGCCACAATACTCATTAAAAATATATAACTCAATGCCAATAAAATTTAA-GGCTTT
708 TCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAATGCCAATAAAATTTAAGGGCTTT
*
2902 TCAGGTTTCTATTATCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAATATAATT
773 TCAGGTTTCTATTATCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATT
* *
2967 CAGATGCTCGTAAAAAATTATTCTTAAATCCATTGTGGCTGAGATTTGGTTTGATGAATATAAAT
838 CAGATGCTCGTAAAAAATTATCCTTAAATCCATTGT-GCTGAGATTTGGTTAGATGAATATAAAT
*
3032 ATTTACAGGAGTCTTGCTGCAAAAAAT-ATGCAAAACTAAGTCGGGGCCCCAGAACACGCGTTTT
902 ATTTACAGGAGTCTTGCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACACGCGTTTT
*
3096 TAGCAAAAAATAGTGATGTTTAGTAC
967 TAGCAAAAAATAGTGATGGTTAGTAC
* * *
3122 ACGATTTCGACCCAAATTTTACAAAAACTGTCCCGAAAAATATTTCCTCAATTTTT-GCCACAAT
1 ACGATCTCGGCCAAAATTTTACAAAAACTGTCCCGAAAAATATTTCCTCAATTTTTGGCCACAAT
* * * *
3186 ACTTATAAAAAA-ATATAATTCAACGCCAATAAATTTTAAGGGCTTTTCAGGCTTCTAATATAAT
66 ACTCATAAAAAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATCAT
* * * *
3250 TTCTCCTATTTTTCCGAATTAATTACTTATTAAATCGAAACATAATTCAGATGCTCATAAAAAAT
131 TTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAAT
* * * * * *
3315 TATCCATAAATCCATTGTGTCTGAGATTTGGTTAGATGACTATAAATTTTTTTAGGAGTCTTGCC
196 TATCCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCT
*
3380 GCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTTTGCCAAAAACAGTGAT
261 GCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCG-TTTTTAGCCAAAAACAGTGAT
* *
3445 GGTTAGTACACGATTTCGGCCGAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCACTTTTT
325 GGTTAGTACACGATTTCGGCCAAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCAATTTTT
* * *
3510 GGCCACAATACTCATAAAAGATATATAACTCATCGCTGAAAATATTTAAGGGCTTTTCATGCTTA
390 GGCCACAATACTCATAAAAAATATATAACTCAACGC--AAAATATTTAAGGGCTTTTCAGGCTTA
** * *
3575 TAATATCGTTTTTCCTATTTTT-CGAATTAATT-TTTATTTAAATCGAAACATAATTCAGATGTT
453 TAATATAATTTTTCCTATTTTTCCGAATTAATTACTTA-TTAAATCGAAACATAATTCAGATGCT
* ** * * * *
3638 CGTAAAACCTTATCCTTAAGTCCATTGTGTCTGAGATTTGCTTAGATGAAAATAGATATTTTAAG
517 CATAAAAAATTATCCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAAAATAAATATTTTAAG
* * * * *
3703 GAGTTTTGCTGCCAAAAATCATCCAAAACTGTGCCGGGGCCTAGGAACGCGTTTTTAACCAAAAA
582 GAGTCTTGCTGCCAAAAATCATGCAAAACTGTGTCGGGGCCCA-GAACGCGTTTTTAGCCAAAAA
* *
3768 CTGTGA---TAACGTACACGATCTCAGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCT
646 CTGTGATGGTTA-GTACACGATTTCAGCCAAAATTTTGC-AAAACTGTCCCGAAAAATTTTTCCT
* * * *
3830 TAATTTTTGGCCACAATACTCATAAAAAATATCTAACTCAACGCCAATAAATTTTAAGGGCTTTT
709 CAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAATGCCAATAAAATTTAAGGGCTTTT
** * * * *
3895 CAGACTTCTAATATAATTTTTCCTATTTTTCCGAATTAATTACTTATTAAATCGAAACATAATTC
774 CAGGTTTCTATTATCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTC
** * * *
3960 AGATGCTTATAAAAAATTATCCATAAATCCATTGTGCATGAGATTTGGTTAGATGACTATAATTG
839 AGATGCTCGTAAAAAATTATCCTTAAATCCATTGTGC-TGAGATTTGGTTAGATGAATATAAAT-
* * *
4025 TTTTA-AGGAGTCTTGAC-GCCAAAAATCATGCAAAACTAAGTTGGGGCCCCAGAACGCGCGTTT
902 ATTTACAGGAGTCTTG-CTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACACGCGTTT
* *
4088 TTAGCCAAAAACAGTGATGGTTAGTAC
966 TTAGCAAAAAATAGTGATGGTTAGTAC
** *
4115 ACGATCTCGGCCAAAATTTTACAAAAACTGTCCCGAAATTTTTTTCCT-AATTTTTGGCCACAAT
1 ACGATCTCGGCCAAAATTTTACAAAAACTGTCCCGAAAAATATTTCCTCAATTTTTGGCCACAAT
*
4179 ACTCATAAAAAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAAGCTTCTAATATCAT
66 ACTCATAAAAAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATCAT
*
4244 TTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACTTAATTCAGATGCTCGTAAAAAAT
131 TTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAAT
* * *
4309 TATTCTTAAATCCATTGTGGCTGAGATTTGGTTTGATGAATATAAATATTTTCAGGAGTCTTGCT
196 TATCCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCT
* * *
4374 GCCAAAAATCATACAAAACTAAGTCGGGGCCCCGGAACGCGCGTTTTTAGCAAAAAACAGTGATG
261 GCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGATG
* * * * *
4439 GTTAATACACGATTTCGGCCAAAATTTTGCCAAAACTATCTCGAAAAATATTTCCTCAATTTTTT
326 GTTAGTACACGATTTCGGCCAAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCAATTTTTG
* *
4504 GCCATCAATACTCATAACAAAA-ATATAATTCAACGCCAATAA-ATTTTAGGGCTTTTCAGGCTT
391 GCCA-CAATACTCATAA-AAAATATATAACTCAACG-CAA-AATATTTAAGGGCTTTTCAGGCTT
*
4567 CTAATATAATTTTTCCTATTTTTTCCGAATTAATTACTTATTAAATCGAAACATAATTCAGATGC
452 ATAATATAATTTTTCCTA-TTTTTCCGAATTAATTACTTATTAAATCGAAACATAATTCAGATGC
* * *
4632 TCATAAAAAATTATCCTTAAATCCATTGTGGCTGAGATTTGGTTTA-TTGAATATAAATGTTTTA
516 TCATAAAAAATTATCCTTAAATCCATTGTGGCTGAGATTTGG-TTAGATGAAAATAAATATTTTA
* * * ** * * *
4696 AGGAGTTTTGTTGCCAAAAATCATGTAAAACTAAGTCGGGGCCCCAGAATGCACGATTTTAGTCA
580 AGGAGTCTTGCTGCCAAAAATCATGCAAAACTGTGTCGGGG-CCCAGAA--CGCGTTTTTAGCCA
*
4761 AAAACAGTGATG
642 AAAACTGTGATG
4773 AATTATATAA
Statistics
Matches: 2274, Mismatches: 295, Indels: 130
0.84 0.11 0.05
Matches are distributed among these distances:
978 53 0.02
979 203 0.09
981 12 0.01
983 4 0.00
987 1 0.00
988 12 0.01
989 1 0.00
990 3 0.00
991 198 0.09
992 529 0.23
993 583 0.26
994 431 0.19
995 213 0.09
996 11 0.00
997 20 0.01
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (992 bp):
ACGATCTCGGCCAAAATTTTACAAAAACTGTCCCGAAAAATATTTCCTCAATTTTTGGCCACAAT
ACTCATAAAAAATATATAACTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATCAT
TTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAAT
TATCCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCT
GCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCCAAAAACAGTGATG
GTTAGTACACGATTTCGGCCAAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCAATTTTTG
GCCACAATACTCATAAAAAATATATAACTCAACGCAAAATATTTAAGGGCTTTTCAGGCTTATAA
TATAATTTTTCCTATTTTTCCGAATTAATTACTTATTAAATCGAAACATAATTCAGATGCTCATA
AAAAATTATCCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGT
CTTGCTGCCAAAAATCATGCAAAACTGTGTCGGGGCCCAGAACGCGTTTTTAGCCAAAAACTGTG
ATGGTTAGTACACGATTTCAGCCAAAATTTTGCAAAACTGTCCCGAAAAATTTTTCCTCAATTTT
TGGCCACAATACTCATAAAAAATATATAACTCAATGCCAATAAAATTTAAGGGCTTTTCAGGTTT
CTATTATCATTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCT
CGTAAAAAATTATCCTTAAATCCATTGTGCTGAGATTTGGTTAGATGAATATAAATATTTACAGG
AGTCTTGCTGCCAAAAATCATGCAAAACTAAGTCGGGGCCCCAGAACACGCGTTTTTAGCAAAAA
ATAGTGATGGTTAGTAC
Found at i:8155 original size:21 final size:20
Alignment explanation
Indices: 8096--8155 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
8086 CACTGTTTAG
*
8096 GTACTGTACATATGAGATTA
1 GTACTGTACAAATGAGATTA
* * *
8116 -CACTGTACAAATTAAATTA
1 GTACTGTACAAATGAGATTA
8135 GTTACTGTACAAATGAGATTA
1 G-TACTGTACAAATGAGATTA
8156 TCAAAGCAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 15 0.48
21 16 0.52
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (20 bp):
GTACTGTACAAATGAGATTA
Found at i:11211 original size:1 final size:1
Alignment explanation
Indices: 11205--11233 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
11195 CGTTAGTTTC
11205 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11234 CTTGCATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18154 original size:12 final size:12
Alignment explanation
Indices: 18137--18164 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
18127 GAAAAATCTA
18137 TGTTCTAAATAT
1 TGTTCTAAATAT
18149 TGTTCTAAATAT
1 TGTTCTAAATAT
18161 TGTT
1 TGTT
18165 TTAACTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.54
Consensus pattern (12 bp):
TGTTCTAAATAT
Found at i:19393 original size:71 final size:71
Alignment explanation
Indices: 19310--19444 Score: 252
Period size: 71 Copynumber: 1.9 Consensus size: 71
19300 ATAACTCAAA
19310 AGTTCAAAATCAGGCAGCATTATCCTTGGCCTCAGATATATGCATACAGGTGTTCAAGGGTATAA
1 AGTTCAAAATCAGGCAGCATTATCCTTGGCCTCAGATATATGCATACAGGTGTTCAAGGGTATAA
19375 ACTCAC
66 ACTCAC
* *
19381 AGTTCAAAATCAGGCAGTATTATCCTTGGCCTCAGATATATGCATACAGGTGTTCAAGGTTATA
1 AGTTCAAAATCAGGCAGCATTATCCTTGGCCTCAGATATATGCATACAGGTGTTCAAGGGTATA
19445 TCCATGATCT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (71 bp):
AGTTCAAAATCAGGCAGCATTATCCTTGGCCTCAGATATATGCATACAGGTGTTCAAGGGTATAA
ACTCAC
Found at i:36731 original size:28 final size:29
Alignment explanation
Indices: 36689--36744 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
36679 CTATATTATT
*
36689 TTTTATTTAGAGAAAATTATTGCTAGATC
1 TTTTATTTAGAGAAAATTATCGCTAGATC
*
36718 TTTT-TTTAGGGAAAATTATCGCTAGAT
1 TTTTATTTAGAGAAAATTATCGCTAGAT
36745 TAAACAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (29 bp):
TTTTATTTAGAGAAAATTATCGCTAGATC
Found at i:38463 original size:2 final size:2
Alignment explanation
Indices: 38456--38483 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38446 CTCTAAGCCA
38456 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38484 TTGTATGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38844 original size:31 final size:31
Alignment explanation
Indices: 38806--38970 Score: 91
Period size: 31 Copynumber: 5.5 Consensus size: 31
38796 GGCTAATTGT
38806 TCAAATAAGGGCCTAACATTTTTCAAAATGC
1 TCAAATAAGGGCCTAACATTTTTCAAAATGC
**
38837 TCAAATAAGGGCC---CGATCTTTT-AATTTGGC
1 TCAAATAAGGGCCTAAC-AT-TTTTCAAAAT-GC
* * *
38867 T-AAATAAGGGCTTAAC-GTTATCGAAAATGC
1 TCAAATAAGGGCCTAACATTTTTC-AAAATGC
***
38897 TCAAATAAGGGCCT-A-ATCTTTT-ATTTTGGC
1 TCAAATAAGGGCCTAACAT-TTTTCAAAAT-GC
* * *
38927 -CAAATAAGGGCTTAAC-GTTATCGAAAATGC
1 TCAAATAAGGGCCTAACATTTTTC-AAAATGC
38957 TCAAATAAGGGCCT
1 TCAAATAAGGGCCT
38971 GGCGTCAGTT
Statistics
Matches: 97, Mismatches: 20, Indels: 34
0.64 0.13 0.23
Matches are distributed among these distances:
28 1 0.01
29 35 0.36
30 16 0.16
31 44 0.45
32 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (31 bp):
TCAAATAAGGGCCTAACATTTTTCAAAATGC
Found at i:38970 original size:60 final size:60
Alignment explanation
Indices: 38807--38970 Score: 249
Period size: 60 Copynumber: 2.7 Consensus size: 60
38797 GCTAATTGTT
* * * **
38807 CAAATAAGGGCCTAACATTTTTC-AAAATGCTCAAATAAGGGCCCGATCTTTTAATTTGGC
1 CAAATAAGGGCTTAAC-GTTATCGAAAATGCTCAAATAAGGGCCTAATCTTTTAATTTGGC
* *
38867 TAAATAAGGGCTTAACGTTATCGAAAATGCTCAAATAAGGGCCTAATCTTTTATTTTGGC
1 CAAATAAGGGCTTAACGTTATCGAAAATGCTCAAATAAGGGCCTAATCTTTTAATTTGGC
38927 CAAATAAGGGCTTAACGTTATCGAAAATGCTCAAATAAGGGCCT
1 CAAATAAGGGCTTAACGTTATCGAAAATGCTCAAATAAGGGCCT
38971 GGCGTCAGTT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
59 4 0.04
60 91 0.96
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (60 bp):
CAAATAAGGGCTTAACGTTATCGAAAATGCTCAAATAAGGGCCTAATCTTTTAATTTGGC
Found at i:39076 original size:29 final size:29
Alignment explanation
Indices: 39033--39141 Score: 94
Period size: 29 Copynumber: 3.7 Consensus size: 29
39023 GCATTTTGGC
* *
39033 AAACGTTAGGCCCTTATTTGGCCAAATTA
1 AAACATTAGACCCTTATTTGGCCAAATTA
* * ** *
39062 AAAGATTAGGCCCTTATTTGAG-CATTTTGGC
1 AAACATTAGACCCTTATTTG-GCCAAATT--A
*
39093 AAACATTAGATCCTTATTTGGCCAAATTA
1 AAACATTAGACCCTTATTTGGCCAAATTA
* *
39122 AAATATCAGACCCTTATTTG
1 AAACATTAGACCCTTATTTG
39142 AGCATTTTAA
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
29 39 0.63
30 2 0.03
31 21 0.34
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (29 bp):
AAACATTAGACCCTTATTTGGCCAAATTA
Found at i:39108 original size:60 final size:60
Alignment explanation
Indices: 39008--39172 Score: 249
Period size: 60 Copynumber: 2.8 Consensus size: 60
38998 TTTTCAACGC
*
39008 CAGACCCTTATTTGAGCATTTTGGCAAACGTTAGGCCCTTATTTGGCCAAATTAAAAGAT
1 CAGACCCTTATTTGAGCATTTTGGCAAACGTTAGACCCTTATTTGGCCAAATTAAAAGAT
* * * * *
39068 TAGGCCCTTATTTGAGCATTTTGGCAAACATTAGATCCTTATTTGGCCAAATTAAAATAT
1 CAGACCCTTATTTGAGCATTTTGGCAAACGTTAGACCCTTATTTGGCCAAATTAAAAGAT
** *
39128 CAGACCCTTATTTGAGCATTTTAACAAATGTTAGACCCTTATTTG
1 CAGACCCTTATTTGAGCATTTTGGCAAACGTTAGACCCTTATTTG
39173 AGTAATTAGC
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 92 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (60 bp):
CAGACCCTTATTTGAGCATTTTGGCAAACGTTAGACCCTTATTTGGCCAAATTAAAAGAT
Found at i:39167 original size:31 final size:30
Alignment explanation
Indices: 39009--39174 Score: 117
Period size: 31 Copynumber: 5.5 Consensus size: 30
38999 TTTCAACGCC
*
39009 AGACCCTTATTTGAGCATTTTGGCAAACGTT
1 AGACCCTTATTTGAGCATTTT-ACAAACGTT
* **
39040 AGGCCCTTATTTG-GCCAAATTA-AAA-GATT
1 AGACCCTTATTTGAG-CATTTTACAAACG-TT
* * *
39069 AGGCCCTTATTTGAGCATTTTGGCAAACATT
1 AGACCCTTATTTGAGCATTTT-ACAAACGTT
* ** ** *
39100 AGATCCTTATTTG-GCCAAATTA-AAATATC
1 AGACCCTTATTTGAG-CATTTTACAAACGTT
*
39129 AGACCCTTATTTGAGCATTTTAACAAATGTT
1 AGACCCTTATTTGAGCATTTT-ACAAACGTT
39160 AGACCCTTATTTGAG
1 AGACCCTTATTTGAG
39175 TAATTAGCCT
Statistics
Matches: 105, Mismatches: 20, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
28 1 0.01
29 43 0.41
30 5 0.05
31 56 0.53
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (30 bp):
AGACCCTTATTTGAGCATTTTACAAACGTT
Found at i:47480 original size:5 final size:5
Alignment explanation
Indices: 47467--47515 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
47457 TATTATTAGG
*
47467 TTTTT TTTTC -TTT- TTTTC TTTTCTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC -TTT-TC TTTTC TTTTC TTTTC TTTTC TTTT
47516 GGCCAAAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
4 6 0.15
5 25 0.64
6 6 0.15
7 2 0.05
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:47505 original size:22 final size:20
Alignment explanation
Indices: 47472--47512 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
47462 TTAGGTTTTT
47472 TTTTCTTTTTTTCTTTTCTC
1 TTTTCTTTTTTTCTTTTCTC
47492 TTTTCTTTTCTTTTCTTTTCT
1 TTTTC-TTT-TTTTCTTTTCT
47513 TTTGGCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 3 0.16
22 11 0.58
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCTTTTTTTCTTTTCTC
Found at i:51856 original size:12 final size:12
Alignment explanation
Indices: 51839--51863 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51829 CTCTTGTATC
51839 TAATAACTACAT
1 TAATAACTACAT
51851 TAATAACTACAT
1 TAATAACTACAT
51863 T
1 T
51864 GAATTCTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATAACTACAT
Found at i:72547 original size:33 final size:33
Alignment explanation
Indices: 72505--72570 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
72495 CGTAGCTAAG
72505 CCCGAACCTGAGAAGAAGTTGGTTAGTCCCCGT
1 CCCGAACCTGAGAAGAAGTTGGTTAGTCCCCGT
72538 CCCGAACCTGAGAAGAAGTTGGTTAGTCCCCGT
1 CCCGAACCTGAGAAGAAGTTGGTTAGTCCCCGT
72571 GAGTCAGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.21
Consensus pattern (33 bp):
CCCGAACCTGAGAAGAAGTTGGTTAGTCCCCGT
Found at i:79289 original size:11 final size:11
Alignment explanation
Indices: 79270--79303 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
79260 CCTATGATAT
79270 CTATCATTTTA
1 CTATCATTTTA
*
79281 CTATGATTTTA
1 CTATCATTTTA
*
79292 CTATTATTTTA
1 CTATCATTTTA
79303 C
1 C
79304 ACTTGAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (11 bp):
CTATCATTTTA
Found at i:89185 original size:15 final size:15
Alignment explanation
Indices: 89165--89193 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
89155 ATGTATATTA
89165 TTATTTATTTATGAT
1 TTATTTATTTATGAT
89180 TTATTTATTTATGA
1 TTATTTATTTATGA
89194 CCCATTAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
TTATTTATTTATGAT
Found at i:90044 original size:110 final size:109
Alignment explanation
Indices: 89851--90153 Score: 482
Period size: 110 Copynumber: 2.8 Consensus size: 109
89841 CAATTTTGGT
* *
89851 GTTTTGATATAAT-AGAATTTTTTACTAAAATCCTATTGGTTTAAGATGAAGGACACGAATCGTC
1 GTTTTGATATAATCA-AATTTTTTACTAAAATCCTATTGGTTTAAGATGAAGGACATGGATCGTC
89915 ATACCAACCGTTGGATTGAATCCTTTTAATTTGGCATAAAAAATAA
65 ATACCAACCGTTGGATTGAATCCTTTTAATTTGGCATAAAAAA-AA
* * *
89961 GTTTTCATATAATCAAATTTTTTACTACAATCCTTTTGGTTTAAGATGAAGGACATGGATCGTCA
1 GTTTTGATATAATCAAATTTTTTACTAAAATCCTATTGGTTTAAGATGAAGGACATGGATCGTCA
* *
90026 TACCAATCGTTGGATTGAATCCTTTTAATTTGGCATCAAAAAAA
66 TACCAACCGTTGGATTGAATCCTTTTAATTTGGCATAAAAAAAA
*
90070 GTTTTGATATAATCGAATTTTTTTACTAAAATCCTATTGGTTTAAGATGAAGGACATGGATCGTC
1 GTTTTGATATAATC-AAATTTTTTACTAAAATCCTATTGGTTTAAGATGAAGGACATGGATCGTC
**
90135 ATACCAACTATTGGATTGA
65 ATACCAACCGTTGGATTGA
90154 GATTCAATCC
Statistics
Matches: 177, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
109 15 0.08
110 161 0.91
111 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (109 bp):
GTTTTGATATAATCAAATTTTTTACTAAAATCCTATTGGTTTAAGATGAAGGACATGGATCGTCA
TACCAACCGTTGGATTGAATCCTTTTAATTTGGCATAAAAAAAA
Found at i:90266 original size:21 final size:21
Alignment explanation
Indices: 90240--90282 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
90230 TCTCAGATAG
*
90240 CAACCGTCCAATCATTGAGAA
1 CAACCGTCCAATCATGGAGAA
90261 CAACCGTCCAATCATGGAGAA
1 CAACCGTCCAATCATGGAGAA
90282 C
1 C
90283 TACCTTCGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.30, G:0.16, T:0.16
Consensus pattern (21 bp):
CAACCGTCCAATCATGGAGAA
Found at i:92803 original size:19 final size:19
Alignment explanation
Indices: 92779--92817 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
92769 TGCCACTGAA
92779 ACTAAGAATTCAGCACTTT
1 ACTAAGAATTCAGCACTTT
92798 ACTAAGAATTCAGCACTTT
1 ACTAAGAATTCAGCACTTT
92817 A
1 A
92818 TTATCAGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (19 bp):
ACTAAGAATTCAGCACTTT
Found at i:100206 original size:18 final size:18
Alignment explanation
Indices: 100180--100214 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
100170 CACGATATTA
*
100180 TCAGATTTCTCAGCTTTG
1 TCAGATTTCTCAACTTTG
*
100198 TCAGGTTTCTCAACTTT
1 TCAGATTTCTCAACTTT
100215 CCCTACTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (18 bp):
TCAGATTTCTCAACTTTG
Found at i:113411 original size:27 final size:27
Alignment explanation
Indices: 113381--113449 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
113371 TCTTGTCTCC
113381 AAATGTGACTGAAAATTTTCACCAAAA
1 AAATGTGACTGAAAATTTTCACCAAAA
113408 AAATGTGACTGAAAATTTTCACCAAAA
1 AAATGTGACTGAAAATTTTCACCAAAA
113435 AAATGTGACTGAAAA
1 AAATGTGACTGAAAA
113450 ATGGGAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (27 bp):
AAATGTGACTGAAAATTTTCACCAAAA
Found at i:114093 original size:25 final size:26
Alignment explanation
Indices: 114041--114094 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
114031 TCCCATTAAT
***
114041 TATCTACTTATTTTAATACTTTTTTA
1 TATCTACTTATTTTAATACTTAGATA
114067 TATC-ACTTATTTTAATACTTAGATA
1 TATCTACTTATTTTAATACTTAGATA
114092 TAT
1 TAT
114095 TAGCTAGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (26 bp):
TATCTACTTATTTTAATACTTAGATA
Found at i:117219 original size:17 final size:17
Alignment explanation
Indices: 117169--117220 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
117159 CAAATACAAT
117169 ATAATACAAAAAAATAATA
1 ATAATA-AAAAAAA-AATA
* *
117188 ATAATAATAATAAAATA
1 ATAATAAAAAAAAAATA
117205 AT-ATAGAAAAAAAAAT
1 ATAATA-AAAAAAAAAT
117221 TGCAGTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.11
17 14 0.50
18 5 0.18
19 6 0.21
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (17 bp):
ATAATAAAAAAAAAATA
Found at i:120277 original size:50 final size:50
Alignment explanation
Indices: 120218--120325 Score: 216
Period size: 50 Copynumber: 2.2 Consensus size: 50
120208 GGGCAAAAAG
120218 GTACGTATCTTTCAGAAGCATACATCTACTAATTGCAAAGCTCCATTTTT
1 GTACGTATCTTTCAGAAGCATACATCTACTAATTGCAAAGCTCCATTTTT
120268 GTACGTATCTTTCAGAAGCATACATCTACTAATTGCAAAGCTCCATTTTT
1 GTACGTATCTTTCAGAAGCATACATCTACTAATTGCAAAGCTCCATTTTT
120318 GTACGTAT
1 GTACGTAT
120326 TCTATGTATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (50 bp):
GTACGTATCTTTCAGAAGCATACATCTACTAATTGCAAAGCTCCATTTTT
Found at i:138975 original size:52 final size:52
Alignment explanation
Indices: 138918--139024 Score: 169
Period size: 52 Copynumber: 2.1 Consensus size: 52
138908 TCTCGAATTG
* * * *
138918 AATCGGTTTTGGAATGTTTTGTCCATCAATCAAATTAAAATGTTATAACCTA
1 AATCGGTTTTCGAACGTTTTGCCCATCAACCAAATTAAAATGTTATAACCTA
*
138970 AATCGGTTTTCGAACGTTTTGCCCATCAACCAAATTAAAATGTTATACCCTA
1 AATCGGTTTTCGAACGTTTTGCCCATCAACCAAATTAAAATGTTATAACCTA
139022 AAT
1 AAT
139025 TAGGTTTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (52 bp):
AATCGGTTTTCGAACGTTTTGCCCATCAACCAAATTAAAATGTTATAACCTA
Done.