Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01011987.1 Corchorus olitorius cultivar O-4 contig12020, 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: 49188
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Found at i:4362 original size:14 final size:14
Alignment explanation
Indices: 4343--4371 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4333 ATTTTGATTC
4343 TACTAGGAACCCCA
1 TACTAGGAACCCCA
4357 TACTAGGAACCCCA
1 TACTAGGAACCCCA
4371 T
1 T
4372 TCATGATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.17
Consensus pattern (14 bp):
TACTAGGAACCCCA
Found at i:8269 original size:15 final size:15
Alignment explanation
Indices: 8249--8278 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8239 TTATTTTTCG
8249 ATTATAATATATAAT
1 ATTATAATATATAAT
*
8264 ATTATAATTTATAAT
1 ATTATAATATATAAT
8279 CATGAAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAATATATAAT
Found at i:10434 original size:652 final size:651
Alignment explanation
Indices: 9191--10645 Score: 1574
Period size: 652 Copynumber: 2.2 Consensus size: 651
9181 CGAAATCGTG
* * * *
9191 TTGTTTCGATTTAATTTGAAATTAATTCAGAAAATAAATGGAAAAACGATATTACAAGCGTGAAA
1 TTGTTTCGATTTAATTAGAAATTAATT-TGAAAAAAAATGGAAAAACGATATTAGAAGCGTGAAA
* * * * * *
9256 ACCGTTCAACCTTTTTGCCGTTGAA-T-TATATTTTTTTGAATATTATGG-CAAAATTGAGAAAA
65 ACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTTGAGTATTATGGAAAAAATTGAGAAAA
* * * * *
9318 AAATTTTGTGTCAGTTTTTAACCGAAATCTTGTACTAACCATTACTGTTTTTGGCTAAAAACGCG
130 AATTTTTGGGTCAGTTTTTAACCGAAATC-TGTACTAACCATTACCGTTTTTGGCAAAAAACGCA
* ** * * *
9383 TTTTGGGGCCTCCACTCAGTTTTGCATGGTTTTTAGCATACAGACTCCATGAAAAATCTATATTC
194 TTTGGGGGCCTCCACTCAGTTTTGCATGACTTTTAGCAGAAAGAATCCATGAAAAATCTATATTC
* * * * *
9448 ATGTAACCAAATCTTAGGCACATTGGAAATGATTTGTTTTTACGAGCATATGAATCTTGTTTTGA
259 ATGTAACCAAATCTCAGACACATTGGAAATGATTTGTTTTTACAAGCACATAAATCTTGTTTTGA
* ** *
9513 TTTTTTATTAGAAATAAATTCAGAAAAAAAGGAAAAACGATATTATTAGTATGAAAAACCCTTCA
324 -TTTTAATTAGAAATAAATTCAGAAAAAAAGGAAAAACGATATTAGAAGCATGAAAAACCCTTCA
* *
9578 ATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGGAAAAGCTTT
388 ATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGAAAAAAATTAAGGAAAAACTTT
* * * * *
9643 TCAGGTCAATTTTTTTTGCAAAATTTTAGCAGAAATCGTGTACTTACCATCACGTTTTTTTGGCT
453 TCAGGTCAA-TGTTTTTGCAAAATTTTAGCAGAAATCATGCACTAACCATCAAGTTTTTTTGGCT
* * * *
9708 AAAAACGCGTTCCGGAGTCACAGCTCAATTTTGCATTATTATTGGCGTAAAGACACCTTGAAATA
517 AAAAACGCGTTCCGGAGCCACAGCTCAATTTTGCATGATTATTGGAGTAAAGACACCTTAAAATA
*
9773 TCTATATTCATCGAAACAAATCTCA-GCCACATTGGATTTAAGGA-TTTGTTTTTACGAGCT-TC
582 TCTATATTCATCGAAACAAATCTCACGCCACATTGGATTTAAGAATTTTGTTTTTACGAG-TATC
9835 TGAATT-
646 TG-ATTC
* * **
9841 TTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAAAATAGGAAAACCGATTTTAGAAGCCCGAA
1 TTGTTTCGATTTAATTAGAAATTAATTT-GAAAAAAAAT-GGAAAAACGATATTAGAAGCGTGAA
* *
9906 AAGCCCCTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTTTGGTAAAAAAATTGA
64 AA-CCCTTCAATCTTTTTGGCATTGAATTATATATTTTTT-TGAGTATTATGG--AAAAAATTGA
* * *
9971 GAAAAAATTTTTGGGTTAGTTTTTAACCGAAATC-GT-GT-A-CGTTACCGTTTTTGGCAAAAAA
125 GAAAAAATTTTTGGGTCAGTTTTTAACCGAAATCTGTACTAACCATTACCGTTTTTGGC-AAAAA
*** * * * *
10032 ACGCATTTCGGGGGCCT-GGTTCAGTTTTGCATGACTTTTGGTAGAAAGAATCCTTGAAATATCT
189 ACGCATTT-GGGGGCCTCCACTCAGTTTTGCATGACTTTTAGCAGAAAGAATCCATGAAAAATCT
* * ** * * *
10096 ATATTTATTTAACTGAATCTCA-ACTACATTGGATTCATGGATTTGTTTTTACAAGTACCTAAAT
253 ATATTCATGTAACCAAATCTCAGAC-ACATTGGA--AAT-GATTTGTTTTTACAAGCACATAAAT
* * *
10160 CTTGTTTCT-A-TTTAATTATAAATAAATTCCGAAAAAAATGGAAAAATGATATTAGAAGCATGA
314 CTTGTTT-TGATTTTAATTAGAAATAAATTCAGAAAAAAA-GGAAAAACGATATTAGAAGCATGA
* ** * * *
10223 AAAACCCTTCAATTTTTTTGGCGTTGTGTTATATATTTTTTCTTATTATTGT-GAAAAAAATTGA
377 AAAACCCTTCAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGAAAAAAATTAA
* * *
10287 GGAAAAACTTTTCGGGTC-A-GTTTTT-CGAAATTTTAATC-GAAATCATGCACTAACCATCAGA
442 GGAAAAACTTTTCAGGTCAATGTTTTTGCAAAATTTT-AGCAGAAATCATGCACTAACCATCA-A
* * *
10348 GTTTTTTTGGCTAAAAACGCGCTT-C-GAGGCCCCGGCTCAGTTTTGCATGATT-TTAGGTAG-A
505 GTTTTTTTGGCTAAAAACGCG-TTCCGGA-GCCACAGCTCAATTTTGCATGATTATT-GG-AGTA
* * ** *
10409 AAGACTCCTTAAAATATCTATATTCATCTAATTAAATGTCACTGCCACATTGGATTTAAGAATTT
566 AAGACACCTTAAAATATCTATATTCATCGAAACAAATCTCAC-GCCACATTGGATTTAAGAATTT
*
10474 TTTTTTTACGAGTATCTGATTC
630 TGTTTTTACGAGTATCTGATTC
* * * **
10496 TTGTTTCGATTTAATTAGAAA-TAACTTCAGAAAAAATGGAAAAAAAATATTAGAAGCGTGAAAA
1 TTGTTTCGATTTAATTAGAAATTAATTTGAAAAAAAATGGAAAAACGATATTAGAAGCGTG-AAA
* * * *
10560 ACACTTCAATTTTTTTGGCATTGAATTATATATTTTTTCGGAGTATTGTGGCAAAAAATTGAGGA
65 ACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTT-TGAGTATTATGG-AAAAAATTGA-GA
* * *
10625 AAAACTTTTCGGGTCAATTTT
127 AAAAATTTTTGGGTCAGTTTT
10646 CGCAAAATTT
Statistics
Matches: 669, Mismatches: 106, Indels: 58
0.80 0.13 0.07
Matches are distributed among these distances:
650 35 0.05
651 62 0.09
652 185 0.28
653 31 0.05
654 110 0.16
655 107 0.16
656 71 0.11
657 28 0.04
658 40 0.06
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (651 bp):
TTGTTTCGATTTAATTAGAAATTAATTTGAAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAA
CCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTTGAGTATTATGGAAAAAATTGAGAAAAA
ATTTTTGGGTCAGTTTTTAACCGAAATCTGTACTAACCATTACCGTTTTTGGCAAAAAACGCATT
TGGGGGCCTCCACTCAGTTTTGCATGACTTTTAGCAGAAAGAATCCATGAAAAATCTATATTCAT
GTAACCAAATCTCAGACACATTGGAAATGATTTGTTTTTACAAGCACATAAATCTTGTTTTGATT
TTAATTAGAAATAAATTCAGAAAAAAAGGAAAAACGATATTAGAAGCATGAAAAACCCTTCAATT
TTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGAAAAAAATTAAGGAAAAACTTTTCA
GGTCAATGTTTTTGCAAAATTTTAGCAGAAATCATGCACTAACCATCAAGTTTTTTTGGCTAAAA
ACGCGTTCCGGAGCCACAGCTCAATTTTGCATGATTATTGGAGTAAAGACACCTTAAAATATCTA
TATTCATCGAAACAAATCTCACGCCACATTGGATTTAAGAATTTTGTTTTTACGAGTATCTGATT
C
Found at i:11338 original size:595 final size:589
Alignment explanation
Indices: 10143--11248 Score: 1292
Period size: 604 Copynumber: 1.9 Consensus size: 589
10133 TGGATTTGTT
* * * *
10143 TTTACAAGTACCTAAATCTTGTTTCTATTTAATTATAAATAAATTCCGAAAAAAATGGAAAAATG
1 TTTACAAGCACCTAAATCTTATTTCTATTTAATTAGAAATAAATTCCGAAAAAAATGGAAAAACG
* * * ** *
10208 ATATTAGAAGCATGAAAAACCCTTCAATTTTTTTGGCGTTGTGTTATATATTTTTTCTTATTATT
66 ATATTAGAAGCATGAAAAACCCGTCAATCTTTTTGGCATTGAATTATATATTTTTTCTGATTATT
**
10273 GTGAAAAAAATTGAGGAAAAACTTTTCGGGTCAGTTTTTCGAAATTTTAATCGAAATCATGCACT
131 GTGAAAAAAATTGAAAAAAAACTTTTCGGGTCAG---TT----ATTTTAATCGAAATCATGCACT
* * *
10338 AACCATCAGAGTTTTTTTGGCTAAAAACGCGCTTCGAGGCCCCGGCTCAGTTTTGCATGATTTTA
189 AACCATCAGAG-TTTTTCGGCTAAAAACGCGCTTCGAGGCCCCAGCTCAATTTTGCATGATTTTA
* ** * *
10403 GGTAGAAAGACTCCTTAAAATATCTATATTCATCTAATTAAATGTCACTGCCACATTGGATTTAA
253 GGCAGAAAGACTCCTTAAAATATCTATATTCATCTAACCAAATGTCACAGCCACAATGGATTTAA
* * * * * *
10468 GAATTTTTTTTTTACGAGTATCTGATTCTTGTTTCGATTTAATTAGAAATAACTTCAGAAAAAAT
318 GAATTTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATAAGAAATAAATT----AAAAA-
* *
10533 GGAAAAAAAATATTAGAAGCGTGAAAAACACTTCAATTTTTTTGGCATTGAATTATATATTTTTT
378 -GAAAAAAAATATTAGAAGCGTGAAAAACACTTCAATGTTTTTGGCATTGAATTACATATTTTTT
* *
10598 CGGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAATTTTCGCAAAATTTTAGCTGA
442 CGAAGTATTGTGGCAAAAAATTGAGGAAAAAATTTTCGGGTCAATTTTCGCAAAATTTTAGCTGA
* *
10663 AATCGGTTTTTGGTTAAAAACGCGTTCCGAAGTGCCGGCTCAATTTTGCATGATTTTTGGTGCAA
507 AATCGGTTTTTGGCTAAAAACGCGTTCCGAAGTGCCGACTCAATTTTGCATGATTTTT-GTGCAA
*
10728 AGACTCCTTGAAATATCAA
571 AAACTCCTTGAAATATCAA
* * * * *
10747 TTTACGAGCACCTGAATCTTATTT-TGATTTGATTAGAAATTAATTCGGAAAAAAATGGAAAAAC
1 TTTACAAGCACCTAAATCTTATTTCT-ATTTAATTAGAAATAAATTCCGAAAAAAATGGAAAAAC
* *
10811 GATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCATTGAATTATATATTTTTTCTGATTAT
65 GATATTAGAAGCATGAAAAACCCGTCAATCTTTTTGGCATTGAATTATATATTTTTTCTGATTAT
* * * * *
10876 T-TCGCAAAAAATTGAAAAAAAAAACTTTTCTGGTCAG-T-TTTTAGTCGAAATCGTGTACTAAC
130 TGT-GAAAAAAATTG--AAAAAAAACTTTTCGGGTCAGTTATTTTAATCGAAATCATGCACTAAC
* * * * *
10938 CATCACG-G-TTTTCGGCTAAAAACGCGTTTC-AGGGCCCAGCTTAATTTTGCATGTTTTTTGGC
192 CATCA-GAGTTTTTCGGCTAAAAACGCGCTTCGAGGCCCCAGCTCAATTTTGCATGATTTTAGGC
* * * * * * *
11000 AGAAAGATTCCTTGAGATATCTATATTCATGTAACCGAAT-TTA-AGCCACAATGGATTTAAGGA
256 AGAAAGACTCCTTAAAATATCTATATTCATCTAACCAAATGTCACAGCCACAATGGATTTAAGAA
* * **
11063 -TTTGTTTTTACGTGCATCTGAATCTTGTTTCAATTTAGTAAGAAATAAATT-AAAA-AAAAACG
321 TTTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATAAGAAATAAATTAAAAAGAAAAAAA
* *
11125 ATATTAGAAGCGTGAAAAACACTTCAATGTTTTTGGCGTTGAATTACATA-TTTTTCTAAGTATT
386 ATATTAGAAGCGTGAAAAACACTTCAATGTTTTTGGCATTGAATTACATATTTTTTCGAAGTATT
* * *
11189 GTTGCAAAGAATTG-GGAAAAAAATTTT-GGGTCAGCTTTT-GCAAAATTTTAG-TCGAAATCG
451 GTGGCAAAAAATTGAGG-AAAAAATTTTCGGGTCA-ATTTTCGCAAAATTTTAGCT-GAAATCG
11249 TTTACTCATT
Statistics
Matches: 431, Mismatches: 63, Indels: 39
0.81 0.12 0.07
Matches are distributed among these distances:
580 1 0.00
581 27 0.06
582 37 0.09
583 52 0.12
586 4 0.01
591 43 0.10
592 17 0.04
593 2 0.00
594 58 0.13
595 20 0.05
597 27 0.06
598 1 0.00
602 1 0.00
603 2 0.00
604 121 0.28
606 18 0.04
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (589 bp):
TTTACAAGCACCTAAATCTTATTTCTATTTAATTAGAAATAAATTCCGAAAAAAATGGAAAAACG
ATATTAGAAGCATGAAAAACCCGTCAATCTTTTTGGCATTGAATTATATATTTTTTCTGATTATT
GTGAAAAAAATTGAAAAAAAACTTTTCGGGTCAGTTATTTTAATCGAAATCATGCACTAACCATC
AGAGTTTTTCGGCTAAAAACGCGCTTCGAGGCCCCAGCTCAATTTTGCATGATTTTAGGCAGAAA
GACTCCTTAAAATATCTATATTCATCTAACCAAATGTCACAGCCACAATGGATTTAAGAATTTTG
TTTTTACGAGCATCTGAATCTTGTTTCAATTTAATAAGAAATAAATTAAAAAGAAAAAAAATATT
AGAAGCGTGAAAAACACTTCAATGTTTTTGGCATTGAATTACATATTTTTTCGAAGTATTGTGGC
AAAAAATTGAGGAAAAAATTTTCGGGTCAATTTTCGCAAAATTTTAGCTGAAATCGGTTTTTGGC
TAAAAACGCGTTCCGAAGTGCCGACTCAATTTTGCATGATTTTTGTGCAAAAACTCCTTGAAATA
TCAA
Found at i:12109 original size:655 final size:634
Alignment explanation
Indices: 10747--14525 Score: 2600
Period size: 653 Copynumber: 5.7 Consensus size: 634
10737 GAAATATCAA
* * * * * *
10747 TTTACGAGCACCTGAATCTTATTTTGATTTGATTAGAAATTAATTCGGAAAAAAATGGAAAAACG
1 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAAATGGAAAAATG
* *
10812 ATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCATTGAATTATATATTTTTTCTGATTATT
66 ATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATT
* * * *
10877 TCGCAAAAAATTGAAAAAAAAAACTTTTCTGGTCAGTTTTTAGTCGAAATCGTGTACTAACCATC
131 TGGCAAAAAATTG--AGAAAAAA-TTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATC
* * * * * *
10942 ACGGTTTTCGGCTAAAAACGCGTTTCAGGGCCC-AGCTTAATTTTGCATGTTTTTTGGCAGAAAG
193 ACGATTTTTGGCTAAAAAC-CGTTTCAAGGCCCGA-CTCAGTTTTGCATGGTTTTTGGCAGAAAG
* * * * * * *
11006 ATTCCTTGAGATATCTATATTCATGTAACCGAATTTAAGCCACAATGGATTTAAGGATTTGTTTT
256 ACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATAGATTTAAGGATTTGTTTT
* * * * *
11071 TACGTGCATCTGAATC-TTGTTTCAATTTAGTAAGAAATAAATT--AAAAAAAAACGATATTAGA
321 TACGAGCATCTGAATCTTTATTTCGATTTAATTAGAAATAAATTCGAAAAAAAAAC-ATATTAGA
* * * * *
11133 AGCGTGAAAAACACTTCAATGTTTTTGGCGTTGAATTACATATTTTTCTAAGTATTGTTGCAAAG
385 AGCGTGAAAAACCCTTCAAT-TTTTTGGCGTTGAATTATATATTTTTCTGAGTATTGTGGCAAAA
** * * *
11198 AATTG-GGAAAAAAATTTTGGGTCAGCTTTTGCAAAATTTTAGTCGAAATCGTTTACT--CATTC
449 AATTGAGGAAAAACCTTTCGGGTCAGTTTTTGCAAAATTTTAGTCGAAATCGTGTACTAACATT-
* * * * * *
11260 ATGATTTTTGGCTAAAAACGTGTTCCGGGGT-TGCGACTCAATTTTGCATGATTTTTTGCATAAA
513 ACGGTTTTTGGCTAAAAACGCGTTCAGGAGTCT--G-CTCAATTTTGCATG-TTTTTTGCACAAA
* * * * * *
11324 AACTCCTTGAAATATTTATATTCATCCTTATTGAATCAAATCCCAGCCACATTGGATTTAATGAT
574 GACTCCTTGAAATA--TCTA-TCAT-C--A---AACCAAATCTCAGCCACATTGGATATAAGGAT
*
11389 TCGTT
630 TTGTT
* ** * *
11394 TTTACAAGCATCTGGTTCTTGTTTTGATTGAATTAGAAATTAATTTGGAAAAAAAATGGAAAAAT
1 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGG-AAAAAAATGGAAAAAT
* * * *
11459 GATATTAGAAGCGTGATAAA-CCCTTCAATATTTTTGGCGTTGAATTATATATTATTTTATGAGT
65 GATATTAGAAGCGTGA-AAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATT-TTTTCTGAAT
* * * *
11523 ATTGTGGCAAAAAATTGAGAAAAAATTTTCGGGTCAGTTTCTAACCGAAATCATGTACTAACAAT
128 ATT-TGGCAAAAAATTGAGAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCAT
** * *
11588 CACGATTTTTGGCTAAAAA-CGTTTCGGGGCCTCGACTCAGTTTTGCATGGTTTTTGTCATAAAG
192 CACGATTTTTGGCTAAAAACCGTTTCAAGGCC-CGACTCAGTTTTGCATGGTTTTTGGCAGAAAG
* * ** * * *
11652 ACTCTTTGAAATATATATATCTTCATCTAACTGAATCTCAGCCACATTAGATTTAAAGATCTGCT
256 ACTCCTTGAAATATCTATA--TTCATCTAACCAAATCTCAGCCACAATAGATTTAAGGATTTG-T
* ** *
11717 TTTTACGAGCATTTGAATC-TTGCTTCGATTTAATTAGAAATTAATTCAGAAAAAATGGAAAAAC
318 TTTTACGAGCATCTGAATCTTTATTTCGATTTAATTAGAAATAAATTC-G--AAAA---AAAAAC
* * * * *
11781 ATATTAGAATCGTGAAAAACCCCTTCAATTTTTGTGGTGCTAAATTTATATATTTTTTCTGATTA
377 ATATTAGAAGCGTGAAAAA-CCCTTCAATTTTT-TGGCGTTGAA-TTATATA-TTTTTCTGAGTA
* * *
11846 TTGTGGCAAAAAATTGATGAAAAACTTTTCGGGTCAGTTTTTGCAAAATTTTAGTGGAAATCGTG
438 TTGTGGCAAAAAATTGAGGAAAAACCTTTCGGGTCAGTTTTTGCAAAATTTTAGTCGAAATCGTG
* * *
11911 TACTAACCATTACGGTTTTTGGCTAAAAACACATTAAGGAGTCCTGTCTCAATTTTGCATGGTTT
503 TACTAA-CATTACGGTTTTTGGCTAAAAACGCGTTCAGGAGT-CTG-CTCAATTTTGCAT-G--T
* *
11976 TTTTTGCGCAAAGACTCCTTGAAATATCTATCATCAAACCAAATCTCATCCACATTGGATATAAG
562 TTTTTGCACAAAGACTCCTTGAAATATCTATCATCAAACCAAATCTCAGCCACATTGGATATAAG
12041 GATTTGTT
627 GATTTGTT
12049 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAATAATGGAAAAAT
1 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAA-AATGGAAAAAT
*
12114 GATATTAGAAGCGTG-AAAGGCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATAT
65 GATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATA-
** * * * ** *
12178 TTTGTAAAAAAAATTGAGTAAAAACTTTTCTGGTAAGTTTTTAGCAAAAATCGTGTAC--A-TAT
129 TTTG-GCAAAAAATTGAG-AAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCAT
* * * * * *
12240 CACTGTTTTTTGGATAAAAACGCGTTTCGAGGCCCCGACTCAGTTTTCCATGATTTTTGACAGAA
192 CAC-GATTTTTGGCTAAAAAC-CGTTTCAAGG-CCCGACTCAGTTTTGCATGGTTTTTGGCAGAA
* * * * *
12305 AGATTTCTTGAAATATCTACACTCATCTAACCAAATCTCAGCCACAATAAATTTAAGGATTTGTT
254 AGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATAGATTTAAGGATTTGTT
*
12370 TTTACGAGCAAT-TGAATCTTTATTTCGATTTAATTAGAAATAAATTCG--AAAAAAA-A-ATTG
319 TTTACGAGC-ATCTGAATCTTTATTTCGATTTAATTAGAAATAAATTCGAAAAAAAAACATATTA
* *
12430 GAAGCGTTAAAAACCCTTCAATTTTTTTGGCGTTGAATTATTTATTCTTT-TGGAGTATTGTGGC
383 GAAGCGTGAAAAACCCTTCAA-TTTTTTGGCGTTGAATTATATATT-TTTCT-GAGTATTGTGGC
* * * *
12494 -AAAAATTAAGGAAAATCCCTTCGGGTCCA-TTTTTGCAAAATTTTAGCCGAAATCGTGTATTTT
445 AAAAAATTGAGGAAAAACCTTTCGGGT-CAGTTTTTGCAAAATTTTAGTCGAAATCGTG------
* * * *
12557 TTTTTTTTTGCCAAGGAAATCGTGTAATAATTATCACGGTCTTTGCCTAAAAACGCGTTCCA-TA
503 --------T---------A-C---TAA-CA-T-T-ACGGTTTTTGGCTAAAAACGCGTT-CAGGA
* * * *
12621 GTCTCGGTCAATTTTGCATGATTTTTGCCACAAAGACTTCTTGAAATATCTATAATCATCGAACC
542 GTCT-GCTCAATTTTGCATGTTTTTTG-CACAAAGACTCCTTGAAATATC--T-ATCATCAAACC
* * *
12686 AAATCTCAGCCACATTTGTATATAAGAATTTCTT
602 AAATCTCAGCCACA-TTGGATATAAGGATTTGTT
* * * *
12720 TTTACGGGCATCTAAATCTTGTTTCAATTTAATTAGAAATTAATTCAGGAAAAAAA-GG-AAAAT
1 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATT-TGGAAAAAAATGGAAAAAT
* *
12783 GATATGAGAAGCGTGAAAAGGCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATAT
65 GATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATAT
* * * * *
12848 TTTGCAAAAAATTGA-TAAAACTTTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACCATAAA
130 TTGGCAAAAAATTGAGAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCAT-CA
* * * * * *
12912 GGA-TTTTGGCTAAAAACGCGTTTCAAGGCCCTGGCTTAGTTTTGAAT-GATTTTGGCAGAAATA
194 CGATTTTTGGCTAAAAAC-CGTTTCAAGGCCC-GACTCAGTTTTGCATGGTTTTTGGCAGAAAGA
* *
12975 CTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGATTTGATTTT
257 CTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATAGATTTAAGGATTTGTTTTT
* *
13040 ACGAGCATCTGAATCTTTATTTCGATTTAATTAGAAATAAGTTCGGGAAAAAATGGAAAAAGGAT
322 ACGAGCATCTGAATCTTTATTTCGATTTAATTAGAAATAAATTC--G--AAAA---AAAAA-CAT
* *
13105 ATTAGAAGCGTGAAAAACCCTTCAAATTTTTTGACATTGAATTATATATTTTTCTGAGTATTGTG
379 ATTAGAAGCGTGAAAAACCCTTC-AATTTTTTGGCGTTGAATTATATATTTTTCTGAGTATTGTG
* * * * *
13170 GCAATAAATTGAGGAAAAACCATTCGGGTCAATTTTTGTAAAATTTTAGCCGAAATCGTGTA-T-
443 GCAAAAAATTGAGGAAAAACCTTTCGGGTCAGTTTTTGCAAAATTTTAGTCGAAATCGTGTACTA
* * *
13233 AC-TT----TTTTTGG-TCAACAAA---G-TC--GTGTC--CT-AACTAT-CATGGTTTTTTTTG
508 ACATTACGGTTTTTGGCT-AA-AAACGCGTTCAGGAGTCTGCTCAATTTTGCAT-G--TTTTTTG
* * * * ** * * * **
13282 CTA-AAA-ACGCGTTCCGGAGTCCCGA-C-T--AA--AATTTTGCATG--ATTTTTGGCATA-AA
568 C-ACAAAGACTCCTT--GAAATATCTATCATCAAACCAAATCT-CA-GCCA-CATTGG-ATATAA
13336 -GACTCCTTGAAATATCT
626 GGA-T--TTG-----T-T
* * * **
13353 ATATTCATCGAACCAAATCTCAGCCA-CATTGTATATAAGAATTTGTTTTTACGAGCATCTGAAT
1 -T-TT-A-CG-AGC--ATCT--G-AATC-TTGT-T-T-CG-A-TT-TAATT---AG-A----AAT
* * * *
13417 CTTATTTCGATTTAATTAGAAATTAATTCGGAAAACAAAAAGGAAAAACGATATTAGAAGCGTAA
41 -TAATTT-G----GA--A-AAA--AA-T-GG--------AA--AAAT--GATATTAGAAGCGTGA
* * * *
13482 AAAGCCCGTCAATTTTTTTGGCGTTGAATTATATATTTTTTCTGAAT-TTTTGCAAAACATTAAG
81 AAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTGGCAAAAAATTGAG
* * *
13546 AAAAACTTTTCGGGTTC-GTTTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTTGGCTGAAA
146 AAAAAATTTTCGGG-TCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGGCT-AAA
** * * * **
13610 ATGCATTTC-GGGCCCCGGCTCAGTTTTGCATCATTTTTGGCAG--A-A-T--TTGAAATATCTA
209 AACCGTTTCAAGG-CCCGACTCAGTTTTGCATGGTTTTTGGCAGAAAGACTCCTTGAAATATCTA
* * *
13668 TATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTTATTCT
273 TATTCATCTAACCAAATCTCAGCCACAATAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCT
*
13733 TTGTTTCGATTTAATTAGAAATAAATTCAGAAAAAAAAAGGAAAAACAATATTAGAAGCGTG--A
338 TTATTTCGATTTAATTAGAAATAAATTC-G-----AAAA--AAAAAC-ATATTAGAAGCGTGAAA
* * * *
13796 AACCCTTCAATTCTTTTGACGTTAAATCATATATTTTTTCTGAGTATTGTGGCAAAAAATTGGGG
394 AACCCTTCAATT-TTTTGGCGTTGAATTATATA-TTTTTCTGAGTATTGTGGCAAAAAATTGAGG
** * * * * *
13861 AAAAATTTTTCGAGTCAGTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGGCTTT
457 AAAAACCTTTCGGGTCAGTTTTTGCAAAATTTTAGTCGAAATCGTGTACTAA-CATTACGGTTTT
* * * * * * * * *
13926 TGGCTAAAAACGCGTTCCGGAGCCACGGCTCAATTTCGCATAATTTTTAGCGCAAAGACACATTG
521 TGGCTAAAAACGCGTTCAGGAG--TCTGCTCAATTTTGCAT-GTTTTTTGCACAAAGACTCCTTG
* *
13991 AAATATCTCTATTCATCGAAA-AAAATGTC-GACCACATTGGATATAAGGATTTGTT
583 AAATA--TCTA-TCATC-AAACCAAATCTCAG-CCACATTGGATATAAGGATTTGTT
* * ** *
14046 TTTACGAGTATTTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAATGG-AAAACG
1 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAAATGGAAAAATG
* * *
14110 ATATTAGAAGCGTGAAAAGCCCATCAATCTTTTTGGCGTTAAATTATATATTTTTTCTGAGTATT
66 ATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATT
* * * ** * ** *
14175 GTGTCAAAAAAATGATAATAAACGTTTCGAGTCAGTTTTTAGCCGAAATTATTTACTAACCATCA
131 -TGGCAAAAAATTGAGAA-AAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCA
* * * ** * * * * ***
14240 CGGTTTTTGACTAAAAA-TGTGTTCCGGGGCCATGGCTCTGTTTTGCATGATTTTTGGCACCGAG
194 CGATTTTTGGCTAAAAACCGT-TT-CAAGGCC-CGACTCAGTTTTGCATGGTTTTTGGCAGAAAG
* * * * * *
14304 ACTCCTTGAAATATTTTTATTCATCTAATCAAATTTCAGCCACATTGGATTTAAGGATTTGTTTT
256 ACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATAGATTTAAGGATTTGTTTT
* * *
14369 TACGTGCATCTGAAT-TTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGA
321 TACGAGCATCTGAATCTTTATTTCGATTTAATTAGAAATAAATTC-G---AAA-A--AAAAAC-A
* * * ** * *
14433 TATTAAAAACATG-AAAAGTCTTCCAATCTTTTTGGTGTTGAATTATATATATTTTATGAGTATT
378 TATTAGAAGCGTGAAAAACCCTT-CAAT-TTTTTGGCGTTGAATTATATAT-TTTTCTGAGTATT
* * * * *
14497 TTTGCCAAAAATTGATGAAAAATCTTTCG
440 GTGGCAAAAAATTGAGGAAAAACCTTTCG
14526 ACTCATTTTT
Statistics
Matches: 2518, Mismatches: 367, Indels: 488
0.75 0.11 0.14
Matches are distributed among these distances:
624 1 0.00
625 11 0.00
626 5 0.00
627 5 0.00
629 1 0.00
630 1 0.00
631 4 0.00
632 10 0.00
633 6 0.00
634 12 0.00
635 2 0.00
636 4 0.00
637 3 0.00
638 2 0.00
639 1 0.00
640 55 0.02
641 29 0.01
642 19 0.01
643 82 0.03
644 5 0.00
645 39 0.02
646 92 0.04
647 122 0.05
648 106 0.04
649 58 0.02
650 20 0.01
651 21 0.01
652 62 0.02
653 214 0.08
654 54 0.02
655 182 0.07
656 27 0.01
657 25 0.01
658 14 0.01
659 24 0.01
660 49 0.02
661 5 0.00
662 41 0.02
663 7 0.00
664 27 0.01
665 4 0.00
666 42 0.02
667 139 0.06
668 51 0.02
669 45 0.02
670 100 0.04
671 61 0.02
672 7 0.00
673 3 0.00
674 2 0.00
675 4 0.00
676 32 0.01
677 173 0.07
678 42 0.02
679 102 0.04
680 5 0.00
681 6 0.00
682 32 0.01
683 129 0.05
684 11 0.00
685 8 0.00
686 4 0.00
687 1 0.00
688 3 0.00
689 2 0.00
690 3 0.00
691 2 0.00
692 2 0.00
693 4 0.00
694 13 0.01
695 10 0.00
696 3 0.00
697 1 0.00
698 1 0.00
699 4 0.00
700 3 0.00
701 10 0.00
702 7 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (634 bp):
TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAAATGGAAAAATG
ATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATT
TGGCAAAAAATTGAGAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACG
ATTTTTGGCTAAAAACCGTTTCAAGGCCCGACTCAGTTTTGCATGGTTTTTGGCAGAAAGACTCC
TTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATAGATTTAAGGATTTGTTTTTACGA
GCATCTGAATCTTTATTTCGATTTAATTAGAAATAAATTCGAAAAAAAAACATATTAGAAGCGTG
AAAAACCCTTCAATTTTTTGGCGTTGAATTATATATTTTTCTGAGTATTGTGGCAAAAAATTGAG
GAAAAACCTTTCGGGTCAGTTTTTGCAAAATTTTAGTCGAAATCGTGTACTAACATTACGGTTTT
TGGCTAAAAACGCGTTCAGGAGTCTGCTCAATTTTGCATGTTTTTTGCACAAAGACTCCTTGAAA
TATCTATCATCAAACCAAATCTCAGCCACATTGGATATAAGGATTTGTT
Found at i:13840 original size:677 final size:668
Alignment explanation
Indices: 11903--14518 Score: 2737
Period size: 677 Copynumber: 3.9 Consensus size: 668
11893 ATTTTAGTGG
* * * * ** *
11903 AAATCGTGTACTAACCATTACGGTTTTTGGCTAAAAACACATTAAGGAGTCCTGTCTCAATTTTG
1 AAATCGTGT-CTAACTATCACGGTTTTT-GCTAAAAACGCGTTCCGGAGTCCCG-CTCAATTTTG
* * * * *
11968 CATGGTTTTTTTTGCGCAAAGACTCCTTGAAATATC--TA-TCATCAAACCAAATCTCATCCACA
63 CAT-G-ATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACA
* *
12030 TTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTT
126 TTGGATATAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC
* * *
12095 GGAAAAATAATGGAAAAATGATATTAGAAGCGTG-AAAGGCCGTCAATCTTTTTGGCGTTGAATT
191 GGAAAAA-AAAGG-AAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATT
* * * *
12159 ATATATTTTTTCTGAATATTTTGTAAAAAAAATTGAGTAAAAACTTTTCTGGTAAGTTTTTAGCA
254 ATATATTTTTTCTGAATATTTTGT-CAAAAAATTGAG-AAAAACTTTTCGGGTCAGTTTTTAGCC
* * * *
12224 AAAATCGTGTAC--A-TATCACTGTTTTTTGGATAAAAACGCGTTTC-GAGGCCCCGACTCAGTT
317 AAAATCGTGTACTAACCATCAC-GGTTTTTGGCTAAAAACGCGTTTCAG-GGCCCCGGCTCAGTT
* * * * *
12285 TTCCATGATTTTTGACAGAAAGATTTCTTGAAATATCTACACTCATCTAACCAAATCTCAGCCAC
380 TTGCATGATTTTTGGCAG-AAGA-CTCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCAC
**
12350 AATAAATTTAAGGATTTGTTTTTACGAGCAAT-TGAATCTTTATTTCGATTTAATTAGAAATAAA
443 AATGGATTTAAGGATTTGTTTTTACGAGC-ATCTGAATCTTTATTTCGATTTAATTAGAAATAAA
* * *
12414 TTCG-------A--AAAAA-AA-ATTGGAAGCGTTAAAAACCCTTCAATTTTTTTGGCGTTGAAT
507 TTCGAAAAAAAAGGAAAAACAATATTAGAAGCG-T-GAAACCCTTCAA-TTTTTTGACGTTGAAT
* * * * * *
12468 TATTTATTCTTTT-GGAGTATTGTGGCAAAAATTAAGGAAAATCCCTTCGGGTCCATTTTTGCAA
569 TATATATT-TTTTCTGAGTATTGTGGCAAAAATTGAGGAAAAACCATTCGGGTCAATTTTTGCAA
** *
12532 AATTTTAGCCGAAATCGTGTATTTTTTTTTTTTTGCCAA
633 AATTTTAGCCGAAATCGTGTA---TACTTTTTTTGTCAA
* * * ** * *
12571 GGAAATCGTGTAATAATTATCACGGTCTTTGCCTAAAAACGCGTTCCATAGTCTCGGTCAATTTT
1 --AAATCGTGT-CTAACTATCACGGTTTTTG-CTAAAAACGCGTTCCGGAGTCCCGCTCAATTTT
* * *
12636 GCATGATTTTTGCCACAAAGACTTCTTGAAATATCTATAATCATCGAACCAAATCTCAGCCACAT
62 GCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACA-
* * * * *
12701 TTGTATATAAGAATTTCTTTTTACGGGCATCTAAATCTTGTTTCAATTTAATTAGAAATTAATTC
126 TTGGATATAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC
* * *
12766 AGG-AAAAAAAGGAAAATGATATGAGAAGCGTGAAAAGGCCGTCAATCTTTTTGGCGTTGAATTA
191 -GGAAAAAAAAGGAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTA
* **
12830 TATATTTTTTCTGAATATTTTG-CAAAAAATTGA-TAAAACTTTTCGGGTCAGTTTTTAGCTGAA
255 TATATTTTTTCTGAATATTTTGTCAAAAAATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCAAA
* * * * * * *
12893 ATCGTGTACTAACCATAAAGGATTTTGGCTAAAAACGCGTTTCAAGGCCCTGGCTTAGTTTTGAA
320 ATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCAGGGCCCCGGCTCAGTTTTGCA
*
12958 TGA-TTTTGGCAGAAATACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGG
385 TGATTTTTGGCAG-AAGACT-CTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGG
* * *
13022 ATTTAAGGATTTGATTTTACGAGCATCTGAATCTTTATTTCGATTTAATTAGAAATAAGTTCGGG
448 ATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTTATTTCGATTTAATTAGAAATAAATTC-GA
* ** *
13087 AAAAAATGGAAAAAGGATATTAGAAGCGTGAAAAACCCTTCAAATTTTTTGACATTGAATTATAT
512 AAAAAAAGGAAAAACAATATTAGAAGCGTG--AAACCCTTC-AATTTTTTGACGTTGAATTATAT
*
13152 A-TTTTTCTGAGTATTGTGGCAATAAATTGAGGAAAAACCATTCGGGTCAATTTTTGTAAAATTT
574 ATTTTTTCTGAGTATTGTGGCAA-AAATTGAGGAAAAACCATTCGGGTCAATTTTTGCAAAATTT
13216 TAGCCGAAATCGTGTATACTTTTTTTGGTCAA
638 TAGCCGAAATCGTGTATACTTTTTTT-GTCAA
* *
13248 CAAAGTCGTGTCCTAACTATCATGGTTTTTTTTGCTAAAAACGCGTTCCGGAGTCCCGACTAAAA
1 -AAA-TCGTGT-CTAACTATCACGG---TTTTTGCTAAAAACGCGTTCCGGAGTCCCG-CT-CAA
*
13313 TTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCC
58 TTTTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCC
* *
13378 ACATTGTATATAAGAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATTAA
123 ACATTGGATATAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
* *
13443 TTCGGAAAACAAAAAGGAAAAACGATATTAGAAGCGTAAAAAGCCCGTCAATTTTTTTGGCGTTG
188 TTCGG-AAA-AAAAAGG-AAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTG
* *
13508 AATTATATATTTTTTCTGAAT-TTTTG-CAAAACATTAAGAAAAACTTTTCGGGTTC-GTTTTTA
250 AATTATATATTTTTTCTGAATATTTTGTCAAAAAATTGAGAAAAACTTTTCGGG-TCAGTTTTTA
* * *
13570 GCCAAAATCGTGTACTAACCATCACGGTTTTTGGCTGAAAATGCATTTC-GGGCCCCGGCTCAGT
314 GCCAAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCAGGGCCCCGGCTCAGT
*
13634 TTTGCATCATTTTTGGCAG-A-A-T-TTGAAATATCTATATTCATCTAACCAAATCTCAGCCACA
379 TTTGCATGATTTTTGGCAGAAGACTCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACA
* * *
13695 ATGGATTTAAGGATTTGTTTTTACGAGCATCTTATTCTTTGTTTCGATTTAATTAGAAATAAATT
444 ATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTTATTTCGATTTAATTAGAAATAAATT
* *
13760 CAGAAAAAAAAAGGAAAAACAATATTAGAAGCGTGAAACCCTTCAATTCTTTTGACGTTAAATCA
509 C-G-AAAAAAAAGGAAAAACAATATTAGAAGCGTGAAACCCTTCAATT-TTTTGACGTTGAATTA
* *** * *
13825 TATATTTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAATTTTTCGAGTCAGTTTTTGCAAAA
571 TATATTTTTTCTGAGTATTGTGGC-AAAAATTGAGGAAAAACCATTCGGGTCAATTTTTGCAAAA
*
13890 TTTTAGCCAAAATCGTG--TAC--------T---
635 TTTTAGCCGAAATCGTGTATACTTTTTTTGTCAA
* *
13911 -AA------C---C-ATCACGGCTTTTGGCTAAAAACGCGTTCCGGAG-CCACGGCTCAATTTCG
1 AAATCGTGTCTAACTATCACGG-TTTTTGCTAAAAACGCGTTCCGGAGTCC-C-GCTCAATTTTG
* * * * * * ** *
13964 CATAATTTTTAGCGCAAAGACACATTGAAATATCTCTATTCATCGAAAAAAATGTC-GACCACAT
63 CATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAG-CCACAT
* * * *
14028 TGGATATAAGGATTTGTTTTTACGAGTATTTGAATCTTGTTTCGATTTAATTAGAAATTAATTCA
127 TGGATATAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG
* * *
14093 GAAAAAAATGGAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTTTTTGGCGTTAAATTATA
192 GAAAAAAAAGGAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATA
* * * * * * *
14158 TATTTTTTCTGAGTATTGTGTCAAAAAAATGATAATAAACGTTTCGAGTCAGTTTTTAGCCGAAA
257 TATTTTTTCTGAATATTTTGTCAAAAAATTGAGAA-AAACTTTTCGGGTCAGTTTTTAGCCAAAA
** * * * * * * ** *
14223 TTATTTACTAACCATCACGGTTTTTGACTAAAAATGTGTTCCGGGGCCATGGCTCTGTTTTGCAT
321 TCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCAGGGCCCCGGCTCAGTTTTGCAT
* * * * *
14288 GATTTTTGGCACCG-AGACTCCTTGAAATATTTTTATTCATCTAATCAAATTTCAGCCACATTGG
386 GATTTTTGGCA--GAAGACT-CTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGG
* * *
14352 ATTTAAGGATTTGTTTTTACGTGCATCTGAAT-TTTGTTTCGATTTAATTAGAAATTAATTCAGA
448 ATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTTATTTCGATTTAATTAGAAATAAATTC-GA
* * * * * * ** **
14416 AAAAATATGAAAAACGATATTAAAAACATGAAAAGTCTTCCAATCTTTTTGGTGTTGAATTATAT
512 AAAAAAAGGAAAAACAATATTAGAAGCGTG-AAACCCTT-CAAT-TTTTTGACGTTGAATTATAT
* * * * *
14481 ATATTTTATGAGTATTTTTGCCAAAAATTGATGAAAAA
574 ATTTTTTCTGAGTA-TTGTGGCAAAAATTGAGGAAAAA
14519 TCTTTCGACT
Statistics
Matches: 1671, Mismatches: 209, Indels: 149
0.82 0.10 0.07
Matches are distributed among these distances:
643 63 0.04
644 10 0.01
645 16 0.01
646 177 0.11
647 56 0.03
648 1 0.00
649 8 0.00
650 2 0.00
651 26 0.02
652 36 0.02
653 113 0.07
654 6 0.00
661 2 0.00
666 38 0.02
667 134 0.08
668 52 0.03
669 37 0.02
670 118 0.07
671 62 0.04
672 2 0.00
675 7 0.00
676 37 0.02
677 196 0.12
678 46 0.03
679 113 0.07
680 69 0.04
681 69 0.04
682 40 0.02
683 133 0.08
684 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (668 bp):
AAATCGTGTCTAACTATCACGGTTTTTGCTAAAAACGCGTTCCGGAGTCCCGCTCAATTTTGCAT
GATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGA
TATAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
AAAAAGGAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATT
TTTTCTGAATATTTTGTCAAAAAATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCAAAATCGTG
TACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCAGGGCCCCGGCTCAGTTTTGCATGATTT
TTGGCAGAAGACTCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGG
ATTTGTTTTTACGAGCATCTGAATCTTTATTTCGATTTAATTAGAAATAAATTCGAAAAAAAAGG
AAAAACAATATTAGAAGCGTGAAACCCTTCAATTTTTTGACGTTGAATTATATATTTTTTCTGAG
TATTGTGGCAAAAATTGAGGAAAAACCATTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGT
GTATACTTTTTTTGTCAA
Found at i:14391 original size:321 final size:321
Alignment explanation
Indices: 10747--14536 Score: 1447
Period size: 321 Copynumber: 11.5 Consensus size: 321
10737 GAAATATCAA
* * * * * *
10747 TTTACGAGCACCTGAATCTTATTTTGATTTGATTAGAAATTAATTC-GGAAAAAAATGGAAAAAC
1 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAAAAGGAAAAAC
* * * *
10811 GATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCATTGAATTATATATTTTTTCTGATTAT
66 GATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGTTAAATTATATATTTTTTCTGAGTAT
* * *
10876 T-TCGCAAAAAATTGAAAAAAAAAACTTTTCTG-GTCAGTTTTTAGTCGAAATCGTGTACTAACC
131 TGT-GCAAAAAATTG---AGAAAAACTTTTC-GAGTCAGTTTTTAGCCAAAATCGTGTACTAACC
* * * * * * * * *
10939 ATCACGGTTTTCGGCTAAAAACGCGTTTCAGGGCC-CAGCTTAATTTTGCATGTTTTTTGGCAGA
191 ATCACGGTTTTTGGCTAAAAATGCGTTCCGGGGCCACGGCTCAGTTTTGCATGATTTTTGGCACA
* * * * * * *
11003 AAGATTCCTTGAGATATCTATATTCAT-GTAACCGAATTTAAGCCACAATGGATTTAAGGATTTG
256 AAGACTCCTTGAAATATCTATATTCATCG-AACCAAATCTCAGCCACATTGGATATAAGGATTTG
11067 TT
320 TT
* * * * *
11069 TTTACGTGCATCTGAATCTTGTTTCAATTTAGTAAGAAATAAATT--------AAAA--AAAAAC
1 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAAAAGGAAAAAC
* * * * * *
11124 GATATTAGAAGCGTGAAAAACACTTCAATGTTTTTGGCGTTGAATTACATA-TTTTTCTAAGTAT
66 GATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGTTAAATTATATATTTTTTCTGAGTAT
* * * * * * *
11188 TGTTGCAAAGAATTGGGAAAAAAATTTT-GGGTCAGCTTTT-G-CAAAATTTTAGTCGAAATCGT
131 TG-TGCAAAAAATTGAG-AAAAACTTTTCGAGTCAGTTTTTAGCCAAAA---TCGT-G-TA-C--
* * * * * *** * *
11250 TTACTCATTCATGATTTTTGGCTAAAAACGTGTTCCGGGGTTGCGACTCAATTTTGCATGATTTT
186 TAAC-CA-TCACGGTTTTTGGCTAAAAATGCGTTCCGGGGCCACGGCTCAGTTTTGCATGATTTT
* * * * * *
11315 TTGCATAAAAACTCCTTGAAATATTTATATTCATCCTTATTGAATCAAATCCCAGCCACATTGGA
249 TGGCACAAAGACTCCTTGAAATATCTATATTCAT-C-----GAACCAAATCTCAGCCACATTGGA
* * *
11380 TTTAATGATTCGTT
308 TATAAGGATTTGTT
* ** * * ** * *
11394 TTTACAAGCATCTGGTTCTTGTTTTGATTGAATTAGAAATTAATTTGGAAAAAAAATGGAAAAAT
1 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAAAAGGAAAAAC
* * *
11459 GATATTAGAAGCGTGATAAA-CCCTTCAATATTTTTGGCGTTGAATTATATATTATTTTATGAGT
66 GATATTAGAAGCGTGA-AAAGCCCTTCAATCTTTTTGGCGTTAAATTATATATT-TTTTCTGAGT
* * * * * * *
11523 ATTGTGGCAAAAAATTGAGAAAAAATTTTCGGGTCAGTTTCTAACCGAAATCATGTACTAACAAT
129 ATTGT-GCAAAAAATTGAGAAAAACTTTTCGAGTCAGTTTTTAGCCAAAATCGTGTACTAACCAT
* * * * * * *
11588 CACGATTTTTGGCTAAAAA--CGTTTCGGGGCCTCGACTCAGTTTTGCATGGTTTTTGTCATAAA
193 CACGGTTTTTGGCTAAAAATGCGTTCCGGGGCCACGGCTCAGTTTTGCATGATTTTTGGCACAAA
* * * ** * * * *
11651 GACTCTTTGAAATATATATATCTTCATCTAACTGAATCTCAGCCACATTAGATTTAAAGATCTGC
258 GACTCCTTGAAATATCTATA--TTCATCGAACCAAATCTCAGCCACATTGGATATAAGGATTTG-
11716 TT
320 TT
* * *
11718 TTTACGAGCATTTGAATCTTGCTTCGATTTAATTAGAAATTAATTCAG--AAAAAATGGAAAAAC
1 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAAAAGGAAAAAC
* * * * *
11781 -ATATTAGAATCGTGAAAAACCCCTTCAAT-TTTTGTGGTGCTAAATTTATATATTTTTTCTGAT
66 GATATTAGAAGCGTG-AAAAGCCCTTCAATCTTTT-TGGCGTTAAA-TTATATATTTTTTCTGAG
* *
11844 TATTGTGGCAAAAAATTGATGAAAAACTTTTCGGGTCAGTTTTT-GCAAAATTTTAGTGGAAATC
128 TATTGT-GCAAAAAATTGA-GAAAAACTTTTCGAGTCAGTTTTTAGC-------CA----AAATC
* ** * ** * * * *
11908 GTGTACTAACCATTACGGTTTTTGGCTAAAAACACATTAAGGAGTCC-TGTCTCAATTTTGCATG
180 GTGTACTAACCATCACGGTTTTTGGCTAAAAATGCGTTCCGG-GGCCACGGCTCAGTTTTGCAT-
* * * * *
11972 GTTTTTTTTGCGCAAAGACTCCTTGAAATATC--TA-TCATCAAACCAAATCTCATCCACATTGG
243 G-ATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGG
12034 ATATAAGGATTTGTT
307 ATATAAGGATTTGTT
** * * *
12049 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAATAATGGAAAAAT
1 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAAAAGGAAAAAC
* * * *
12114 GATATTAGAAGCGTG-AAAGGCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATAT
66 GATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGTTAAATTATATATTTTTTCTGAGTA-
** * * *
12178 TTTGTAAAAAAAATTGAGTAAAAACTTTTCTG-GTAAGTTTTTAGCAAAAATCGTGTAC--A-TA
130 -TTGTGCAAAAAATTGAG-AAAAACTTTTC-GAGTCAGTTTTTAGCCAAAATCGTGTACTAACCA
* * * * * * * * * *
12239 TCACTGTTTTTTGGATAAAAACGCGTTTCGAGGCCCCGACTCAGTTTTCCATGATTTTTGACAGA
192 TCAC-GGTTTTTGGCTAAAAATGCGTTCCGGGGCCACGGCTCAGTTTTGCATGATTTTTGGCACA
* * * * * * ** *
12304 AAGATTTCTTGAAATATCTACACTCATCTAACCAAATCTCAGCCACAATAAATTTAAGGATTTGT
256 AAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGATTTGT
12369 T
321 T
* *
12370 TTTACGAGCAAT-TGAATCTTTATTTCGATTTAATTAGAAATAAATTC-G-------AA--AAAA
1 TTTACGAGC-ATCTGAATC-TTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAAAAGGAAAA
* * * * * * *
12424 A--A-ATTGGAAGCGTTAAAAACCCTTCAATTTTTTTGGCGTTGAATTATTTATTCTTTT-GGAG
64 ACGATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGTTAAATTATATATT-TTTTCTGAG
* * ** * * *
12485 TATTGTGGC-AAAAATTAAGGAAAATCCCTTCGGGTCCA-TTTTT-G-CAAAAT--TTTAGCCGA
128 TATTGT-GCAAAAAATTGA-GAAAAACTTTTCGAGT-CAGTTTTTAGCCAAAATCGTGTA--C-T
* ***** * * * *
12544 AATCGTGTATTTTTTTTTTTTTGCCAAGGAAATCGTGTAATAATTATCACGGTCTTTGCCTAAAA
187 AA-C---CA-TCACGGTTTTTGGCTAA--AAAT-GCG-------T-TC-CGG----GGCC-----
* * * * * * ** **** ** * * * ***
12609 ACGCGTTCCATAGTCTCG-GTCAATTTT-GCATGATTTTTGCC-ACAAAGA-CT-TCTTGAAATA
226 ACG-GCT-C--AGTTTTGCATGATTTTTGGCACAAAGACT-CCTTGAAATATCTATATTCATCGA
* * * * * *** * *
12669 TCTATAATCATCGAACCAAATCT-CA-GCCA-CATTTGTA
286 ACCA-AATC-TC-AGCCACAT-TGGATATAAGGATTTGTT
* * * * *
12706 TATA--AGAAT-T---TCTT-TTTACGGGCATCTAAATCTTGTTTCAATTTAATT-AGAAATTAA
1 TTTACGAGCATCTGAATCTTGTTT-C--G-AT-TTAAT-TAG----AAATTAATTCAG------A
* * * * *
12763 TTCAGGAAAAAAAGG-AAAATGATATGAGAAGCGTGAAAAGGCCGTCAATCTTTTTGGCGTTGAA
50 ---A--AAAAAAAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGTTAAA
* * * * **
12827 TTATATATTTTTTCTGAATATTTTGCAAAAAATTGA-TAAAACTTTTCGGGTCAGTTTTTAGCTG
110 TTATATATTTTTTCTGAGTATTGTGCAAAAAATTGAGAAAAACTTTTCGAGTCAGTTTTTAGCCA
* * * * * ** *
12891 AAATCGTGTACTAACCATAAAGGATTTTGGCTAAAAACGCGTTTCAAGGCC-CTGGCTTAGTTTT
175 AAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAATGCGTTCCGGGGCCAC-GGCTCAGTTTT
* * * * *
12955 GAATGA-TTTTGGCAGAAATACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAA
239 GCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACAT
* *
13019 TGGATTTAAGGATTTGAT
304 TGGATATAAGGATTTGTT
* ** *
13037 TTTACGAGCATCTGAATCTTTATTTCGATTTAATTAGAAA-TAAGTTC-GGGAAAAAATGGAAAA
1 TTTACGAGCATCTGAATC-TTGTTTCGATTTAATTAGAAATTAA-TTCAGAAAAAAAAAGGAAAA
* * * * *
13100 AGGATATTAGAAGCGTGAAAAACCCTTCAAAT-TTTTTGACATTGAATTATATA-TTTTTCTGAG
64 ACGATATTAGAAGCGTGAAAAGCCCTTC-AATCTTTTTGGCGTTAAATTATATATTTTTTCTGAG
* ** * * * * *
13163 TATTGTGGCAATAAATTGAGGAAAAACCATTCGGGTCAATTTTT-G-TAAAAT--TTTAGCCGAA
128 TATTGT-GCAAAAAATTGA-GAAAAACTTTTCGAGTCAGTTTTTAGCCAAAATCGTGTA--C-TA
* ** *** * ***
13224 ATCGTGTAT-ACTTTTTTTGG-TCAACAAA-GTCGTGTCC-TAACTATCATGG-TTTTTTTTGC-
188 A-C---CATCACGGTTTTTGGCT-AA-AAATG-CGT-TCCGGGGC---CACGGCTCAGTTTTGCA
***** ** * * * * * * *
13283 T-AAAAACGCGTTC-CGGAGTC-CCGACTAAAATTTTGCATGATTTTTGGCATAAAGACTCCTTG
242 TGATTTTTG-G--CACAAAGACTCC--TTGAAA-TAT-C-T-A-TATT--CAT--CGA-ACC---
* ** **** * * * * *
13345 AAATATCTATATTCATCGAACCAAATCTCAGCCACATTGTA
289 -AA-ATCT-CAGCCA-C--ATTGGATATAAG-GA-TTTGTT
* * ** * ** * * * *
13386 TATAAGAATTTGTTTTTACGAGCATC-TGAATCTTATTTCGATT-TAATTAGAAATTAATTCGGA
1 TTTACG-A---GCATCT--GA--ATCTTGTTTC-GATTT-AATTAGAA------ATTAATTCAGA
* * * *
13449 AAACAAAAAGGAAAAACGATATTAGAAGCGTAAAAAGCCCGTCAATTTTTTTGGCGTTGAATTAT
50 AAA-AAAAAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGTTAAATTAT
* * * * *
13514 ATATTTTTTCTGAAT-TTTTGCAAAACATTAAGAAAAACTTTTCGGGTTC-GTTTTTAGCCAAAA
114 ATATTTTTTCTGAGTATTGTGCAAAAAATTGAGAAAAACTTTTCGAG-TCAGTTTTTAGCCAAAA
* * * *
13577 TCGTGTACTAACCATCACGGTTTTTGGCTGAAAATGCATTTC-GGGCCCCGGCTCAGTTTTGCAT
178 TCGTGTACTAACCATCACGGTTTTTGGCTAAAAATGCGTTCCGGGGCCACGGCTCAGTTTTGCAT
* * * *
13641 CATTTTTGG--C--AGAAT--TTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGA
243 GATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGA
*
13700 TTTAAGGATTTGTT
308 TATAAGGATTTGTT
* * *
13714 TTTACGAGCATCTTATTCTTTGTTTCGATTTAATTAGAAATAAATTCAGAAAAAAAAAGGAAAAA
1 TTTACGAGCATCTGAATC-TTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAAAAGGAAAAA
* * *
13779 CAATATTAGAAGCGTG-AAA-CCCTTCAAT-TCTTTTGACGTTAAATCATATATTTTTTCTGAGT
65 CGATATTAGAAGCGTGAAAAGCCCTTCAATCT-TTTTGGCGTTAAATTATATATTTTTTCTGAGT
* *
13841 ATTGTGGCAAAAAATTGGGGAAAAATTTTTCGAGTCAGTTTTTGCAAAATTTTAGCCAAAATCGT
129 ATTGT-GCAAAAAATT-GAGAAAAACTTTTCGAGTCAG----T------TTTTAGCCAAAATCGT
* * * * * *
13906 GTACTAACCATCACGGCTTTTGGCTAAAAACGCGTTCCGGAGCCACGGCTCAATTTCGCATAATT
182 GTACTAACCATCACGGTTTTTGGCTAAAAATGCGTTCCGGGGCCACGGCTCAGTTTTGCATGATT
* * * * * ** *
13971 TTTAGCGCAAAGACACATTGAAATATCTCTATTCATCGAAAAAAATGTC-GACCACATTGGATAT
247 TTTGGCACAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAG-CCACATTGGATAT
14035 AAGGATTTGTT
311 AAGGATTTGTT
* * *
14046 TTTACGAGTATTTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAAAAATGG-AAAAC
1 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAAAAGGAAAAAC
*
14109 GATATTAGAAGCGTGAAAAGCCCATCAATCTTTTTGGCGTTAAATTATATATTTTTTCTGAGTAT
66 GATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGTTAAATTATATATTTTTTCTGAGTAT
* * * * ** *
14174 TGTGTCAAAAAAATGATAATAAACGTTTCGAGTCAGTTTTTAGCCGAAATTATTTACTAACCATC
131 TGTG-CAAAAAATTGAGAA-AAACTTTTCGAGTCAGTTTTTAGCCAAAATCGTGTACTAACCATC
* * * * **
14239 ACGGTTTTTGACTAAAAATGTGTTCCGGGGCCATGGCTCTGTTTTGCATGATTTTTGGCACCGAG
194 ACGGTTTTTGGCTAAAAATGCGTTCCGGGGCCACGGCTCAGTTTTGCATGATTTTTGGCACAAAG
* * * * * *
14304 ACTCCTTGAAATATTTTTATTCATCTAATCAAATTTCAGCCACATTGGATTTAAGGATTTGTT
259 ACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGATTTGTT
* * * *
14367 TTTACGTGCATCTGAATTTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAAAATATGAAAAAC
1 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAAAAGGAAAAAC
* * * * * * * *
14431 GATATTAAAAACATGAAAAG-TCTTCCAATCTTTTTGGTGTTGAATTATATATATTTTATGAGTA
66 GATATTAGAAGCGTGAAAAGCCCTT-CAATCTTTTTGGCGTTAAATTATATATTTTTTCTGAGTA
* * *
14495 TTTTTGCCAAAAATTGATGAAAAA-TCTTTCGACTCA-TTTTTA
130 -TTGTGCAAAAAATTGA-GAAAAACT-TTTCGAGTCAGTTTTTA
14537 CCATCATGGT
Statistics
Matches: 2579, Mismatches: 586, Indels: 607
0.68 0.16 0.16
Matches are distributed among these distances:
304 3 0.00
306 6 0.00
307 2 0.00
308 31 0.01
309 15 0.01
310 46 0.02
311 17 0.01
312 54 0.02
313 68 0.03
314 51 0.02
315 30 0.01
316 6 0.00
317 7 0.00
318 71 0.03
319 117 0.05
320 44 0.02
321 285 0.11
322 217 0.08
323 74 0.03
324 55 0.02
325 118 0.05
326 39 0.02
327 59 0.02
328 22 0.01
329 71 0.03
330 47 0.02
331 180 0.07
332 159 0.06
333 81 0.03
334 27 0.01
335 85 0.03
336 38 0.01
337 72 0.03
338 29 0.01
339 14 0.01
340 1 0.00
342 6 0.00
343 5 0.00
344 7 0.00
345 2 0.00
346 1 0.00
347 7 0.00
348 3 0.00
349 11 0.00
350 1 0.00
351 2 0.00
352 5 0.00
353 3 0.00
354 10 0.00
355 9 0.00
356 15 0.01
357 14 0.01
358 22 0.01
359 17 0.01
360 73 0.03
361 1 0.00
362 26 0.01
363 23 0.01
364 62 0.02
365 10 0.00
366 3 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (321 bp):
TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAAAAGGAAAAAC
GATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGTTAAATTATATATTTTTTCTGAGTAT
TGTGCAAAAAATTGAGAAAAACTTTTCGAGTCAGTTTTTAGCCAAAATCGTGTACTAACCATCAC
GGTTTTTGGCTAAAAATGCGTTCCGGGGCCACGGCTCAGTTTTGCATGATTTTTGGCACAAAGAC
TCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGATTTGTT
Found at i:18763 original size:16 final size:16
Alignment explanation
Indices: 18742--18774 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18732 CCATAAATCA
18742 AAAGCCATTATGAACC
1 AAAGCCATTATGAACC
18758 AAAGCCATTATGAACC
1 AAAGCCATTATGAACC
18774 A
1 A
18775 GAAAGGGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAGCCATTATGAACC
Found at i:24945 original size:15 final size:15
Alignment explanation
Indices: 24925--24955 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24915 ACAATACATT
24925 AACTATCAAATAGAA
1 AACTATCAAATAGAA
*
24940 AACTATCAAATCGAA
1 AACTATCAAATAGAA
24955 A
1 A
24956 TAGGTTAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.16, G:0.06, T:0.19
Consensus pattern (15 bp):
AACTATCAAATAGAA
Found at i:25002 original size:14 final size:14
Alignment explanation
Indices: 24983--25017 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
24973 CCTTTTAAAT
24983 TAAAATAGTAAAAA
1 TAAAATAGTAAAAA
*
24997 TAAAATGGTAAAAA
1 TAAAATAGTAAAAA
25011 TAAAATA
1 TAAAATA
25018 ATTATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (14 bp):
TAAAATAGTAAAAA
Found at i:25973 original size:20 final size:21
Alignment explanation
Indices: 25921--25974 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
25911 TCATTTACAA
* *
25921 CCAAATATCAGAAAATATCTT
1 CCAAATATCAGAAAAGAACTT
*
25942 CCATATATCAGAAAAGAAC-T
1 CCAAATATCAGAAAAGAACTT
*
25962 CCAAATAACAGAA
1 CCAAATATCAGAA
25975 TTTACATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.52, C:0.20, G:0.07, T:0.20
Consensus pattern (21 bp):
CCAAATATCAGAAAAGAACTT
Found at i:34824 original size:27 final size:26
Alignment explanation
Indices: 34776--34826 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
34766 TCTCTCTCTG
34776 TCTCTTTCTCCTTCTCTCTTTCTTGC
1 TCTCTTTCTCCTTCTCTCTTTCTTGC
*
34802 TCTCTTTTTCTCTTCTCGT-TTTCTT
1 TCTCTTTCTC-CTTCTC-TCTTTCTT
34827 CGCTGGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 12 0.55
28 1 0.05
ACGTcount: A:0.00, C:0.33, G:0.04, T:0.63
Consensus pattern (26 bp):
TCTCTTTCTCCTTCTCTCTTTCTTGC
Done.