Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011078.1 Corchorus capsularis cultivar CVL-1 contig11099, 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: 109300
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:4630 original size:28 final size:28
Alignment explanation
Indices: 4594--4651 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
4584 TTACTACTAT
4594 TTTATATATAAAATCATGAACTCAAAAA
1 TTTATATATAAAATCATGAACTCAAAAA
4622 TTTATATATAAAATCATGAACTCAAAAA
1 TTTATATATAAAATCATGAACTCAAAAA
4650 TT
1 TT
4652 CTAATTGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.34
Consensus pattern (28 bp):
TTTATATATAAAATCATGAACTCAAAAA
Found at i:8550 original size:648 final size:635
Alignment explanation
Indices: 5513--11634 Score: 3885
Period size: 650 Copynumber: 9.4 Consensus size: 635
5503 GGGCATTAGT
* * * ** *
5513 CATCACGGTTTTT-TGCTAAAAACGCATTTCGGAGCCTCAACTTAGTTTTGCATGGTTTTTGGCA
1 CATCACGGTTTTTGGGCTAAAAACGCGTTTCGGGGCCT-GGCTTAGTTTTGCATGATTTTTGGCA
* * * * * *
5577 -TAAGAACTCTTTGAAATATTTATATTCATCTAGCCAAATCTAAGCCACATTGGATTTAATGATT
65 GAAAG-ACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATT
* * * *
5641 TGTTTTTACAAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAATTCGAAAAAAAATGGAAA
129 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAA
*
5706 AACAATATTAGAAGCGTGAAAATA--CTTCATTTTTTTTTGCGTTGAATTATATATTTTTTCTAA
194 AACAATATTAGAAGCGTGAAAA-ACCCTTCAATTTTTTTTGCGTTGAA-TATATA-TTTTT-T--
* ** * * * *
5769 ATATTGTGGCAAAAAAACCGAGGAAAAACTTGTTGGGTAAG-TTTTGCAAAATTTTAGCCAAAAT
253 ATATTTTGGC-AAAAAATTGAGGAAAAACTTTTTGGGTCAGTTTTTACAAAATTTTAGCCGAAAT
** * * * * * * * *
5833 CGTGTGTTAACCATCACTGTTTTTTGCTGAAAACGCATTTCGGAGCCCCGGCTCAGTTTTGCATG
317 CGTGTACTAACCATCACAGTTTTTTGCTAAAAACACGTTCCGGGGCCCCGGCTCAATTTTACATG
* * *
5898 ATTTTTGGCGCAAAGGCTCCTTGAAATATCTATATTCATCGAA-CAAAATCTCAGCCACATTGGA
382 ATTTTTGGCGCAAAGACTTCTTGAAATATCTATATTCATCGAATC-AAATCCCAGCCACATTGGA
* **
5962 TATAAGGATTTGTTTTCACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAACAAATTCGAAAA
446 TATAAGGA-TTGTTTTTACGAG---C--AA---TGTTTCGATTTAATTAGAAATTAATTCGAAAA
* * * * *
6027 AAAAAATAGAAAAACGATATTAGAAGCTTGAAAAGCCCGTCATTTTTTTTTGCGTTGAATCATAT
502 AAAAGA-AGAAAAACGATATTAGAAGCTTGAAAAACCCGTCAATTTTTTTTG-TTTGAATTATAT
* ** * * * * *
6092 ATATTTTTTTGAATATTGTGGGAAATTTTTTTAAAAAAA---TTCAGGTCAATTTTTAGTCGAAA
565 AT-TTTTTTTG--TATTGTGGCAAA-AATTTCAAAAAAACTTTTCGGGTTAGTTATTAGTCGAAA
6154 TCGTGTAATAACGTC
626 TCGTG---T-AC-TC
* * * *
6169 ACATCACGGTTTTTGGTCTAAAAACGTGTTTCGGGGCCCTGGCTCAGTTTTGCATGATTTTTTGC
1 -CATCACGGTTTTTGGGCTAAAAACGCGTTTCGGGG-CCTGGCTTAGTTTTGCATGATTTTTGGC
* * * * *
6234 AGAAAAATTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCACATTGGACTTAAGAATT
64 AGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATT
* * ** *
6299 TGTTTTTACGAGCATGTGAATCTTGTTTCGATTTAATTATAAATAAATTATG-AAAAAATGAAAA
129 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAA
* * * *
6363 AACAATATTAGAAGCCTG-AAAACCCTTCAGTTTTGTTGGCGTTGAATTATATATTATTTCTGAG
194 AACAATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTTGCGTTGAA-TATATATT-TTT-T-A-
* * * * * * *
6427 TATTGTGGCAAAAGATTGAGAAAAAACTTTTTGGGTTAG-CTTTGCAAAATTTTACCCGAAATCG
254 TATTTTGGCAAAAAATTGAGGAAAAACTTTTTGGGTCAGTTTTTACAAAATTTTAGCCGAAATCG
* * * ** *
6491 TGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTCCGTGGCCCCGGCTCAATCATGCATGAT
319 TGTACTAACCATCACAGTTTTTTGCTAAAAACACGTTCCGGGGCCCCGGCTCAATTTTACATGAT
* * * * *
6556 TTTCGGTGCAAAGACTTCTTGAAACATATATATTCATCGAATTAAATCCCAGCCACATTGGATAT
384 TTTTGGCGCAAAGACTTCTTGAAATATCTATATTCATCGAATCAAATCCCAGCCACATTGGATAT
* *
6621 AAGGATTTTTTTCTACTAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAA
449 AAGGATTGTTTT-TAC--G-AGC--AA---TGTTTCGATTTAATTAGAAATTAATTC-GAAAAAA
* * * * * *
6686 ATG--GAAAAACAATA-TAGAAGCGTGAAAAACTCGTCAATCTTTTTAGTGTTGAATTATATATT
504 AAGAAGAAAAACGATATTAGAAGCTTGAAAAACCCGTCAATTTTTTTTGT-TTGAATTATATATT
** * * **
6748 TTTTCCGAATATTGTGGCAAAAATTTTCAGAAAAACATTTCGGGTTAGTTATTAACCGAAATCGT
568 TTTTTTG--TATTGTGGCAAAAA-TTTCAAAAAAACTTTTCGGGTTAGTTATTAGTCGAAATCGT
6813 GTA--C
630 GTACTC
* * * * * *
6817 CATCACGGTTTTCGAGCTAAAACCACGTTTCGGGATCCTGG-TTCAATTTTGCATGATTTTTGGC
1 CATCACGGTTTTTGGGCTAAAAACGCGTTTCGGG-GCCTGGCTT-AGTTTTGCATGATTTTTGGC
* * * ** *
6881 AGAAAGACTCCTTGAAATATCTATATTCATCTAACCATATCGCAGCTACATTGGATTTAAAAATC
64 AGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATT
* * * * *
6946 TGTTTTTACGAGCATCTGAATTTTGTTTTGATATAATTAGAAATAAATTCCGAAAAAGATGGAAA
129 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAA
* * * * * * * * *
7011 GACGATATTAAAAGCCTGAAAATACCCTTCAGTTATTTCTACGATGAATTATATATTTTTCCTAA
194 AACAATATTAGAAGCGTGAAAA-ACCCTTCAATTTTTTTTGCGTTGAA-TATATATTTTT--T-A
* * * *
7076 GTATTTTGGCAAAGAATTGAGGTAAAA-TTTTTCGGGTCAGTTTTTGA-AAAATTTTATCTGAAA
254 -TATTTTGGCAAAAAATTGAGGAAAAACTTTTT-GGGTCAGTTTTT-ACAAAATTTTAGCCGAAA
* * *** * * * *
7139 TCGTGTACTAACCATCACGATTTTTTTTTTTGCTTAAAACGTATTCTGGGCCCCCGACTCAGTTT
316 TCGTGTACTAACCATCAC-A----GTTTTTTGCTAAAAACACGTTCCGGGGCCCCGGCTCAATTT
* * * * *
7204 TACATGATTTTTGGCGTAAAAACTTCTTGAAGTATCTATATTCATTGAATCAAATCCCAGCCAAA
376 TACATGATTTTTGGCGCAAAGACTTCTTGAAATATCTATATTCATCGAATCAAATCCCAGCCACA
* *
7269 TTGGATTTAAGGAATTGTTTTTACGAGCATATAAGTCGTGTTTCCATTTAATTAGAAATTAATTC
441 TTGGATATAAGG-ATTGTTTTTACGAGC----AA----TGTTTCGATTTAATTAGAAATTAATTC
* * * * * * *
7334 -AAAAAAAAAAAGAAAAACAATATTAGAAG-TGTGAGAAACTCTTCACTCTTTTTTGTGTTGAAT
497 GAAAAAAAAGAAGAAAAACGATATTAGAAGCT-TGAAAAACCCGTCAATTTTTTTTGT-TTGAAT
* * * * * * *
7397 TATATATTTTTCATGTGTATTGTGGCGAAAATTTGAGAAAAAAAAATTTTTGCGTCAGTT-TTGA
560 TATATATTTTT--TTTGTATTGTGGCAAAAATTT---CAAAAAAACTTTTCGGGTTAGTTATT-A
* *
7461 G-CTGAAATCGAGTATTAAC
619 GTC-GAAATCGTGTACT--C
* * * * *
7480 CATCACAGTTTTT-GACTAAAAACGCGTTTCAGGGCCTTGACTAAGTTTTGCATGATTTTTGGCA
1 CATCACGGTTTTTGGGCTAAAAACGCGTTTCGGGGCC-TGGCTTAGTTTTGCATGATTTTTGGCA
*
7544 TAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTT
65 GAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTT
* * *
7609 GTTTTTACGAGCATCTGAATCTTGATTCGATTTAATTCGAAATAAATTCGAAAAAAAATTGGAAA
130 GTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAA-TGGAAA
* *
7674 AACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTTGGCGTTAAATTATATATTTTTTCGGA
194 AACAATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTT-GCGTTGAA-TATATATTTTTT---A
* * *
7739 GTATTCTGGCAAAAAATTGGGGAAAAACTTTTCGGGTCAGTTTTTACAAAATTTTAGCCGAAATC
254 -TATTTTGGCAAAAAATTGAGGAAAAACTTTTTGGGTCAGTTTTTACAAAATTTTAGCCGAAATC
* * * * *
7804 GTGTACTAACCATCACAG-TTTTTGACAAAAAACACGTTCCGGAGTCTCGGCTCAATTTTCCATG
318 GTGTACTAACCATCACAGTTTTTTG-CTAAAAACACGTTCCGGGGCCCCGGCTCAATTTTACATG
* * * * * * *
7868 ATTTTTGGTGCAAAGAGTCCTTGTAATATCTATATTTATCGAATCAAATCTCAGCCACATTGGGT
382 ATTTTTGGCGCAAAGACTTCTTGAAATATCTATATTCATCGAATCAAATCCCAGCCACATTGGAT
7933 ATAAGGATTCGTTTTTACGAGC-ATGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAAAGAAA
447 ATAAGGATT-GTTTTTACGAGCAATGTTTCGATTTAATTAGAAATTAATTCG-AAAAAAAAG-AA
* * *
7997 GAAAAATGATATTAAAAGCTTGAAAAACCCGTCAATTTTTTTTGGATTTGAATCATAT-TTTTTT
509 GAAAAACGATATTAGAAGCTTGAAAAACCCGTCAATTTTTTTT-G-TTTGAATTATATATTTTTT
* * *
8061 TTGTATTCTGGCAAAAAATTCAAATGAAAATTTTTCGGGTTAGTTATTAGTCGAAATCGTGTACT
572 TTGTATTGTGGCAAAAATTTCAAA--AAAACTTTTCGGGTTAGTTATTAGTCGAAATCGTGTACT
8126 C
635 C
*
8127 CATCACGGTTTTTTGGGCTAAAAACGCGATTT-GGGGCTCTGGCTTAGTTTTGGATGATTTTT-G
1 CATCACGG-TTTTTGGGCTAAAAACGCG-TTTCGGGGC-CTGGCTTAGTTTTGCATGATTTTTGG
* * *
8190 CAGAAAGACTCCTTGAAATATTTATATTCATCTAACTATATCTCAGCCACATTGGATTTAAGGAT
63 CAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGAT
** * *
8255 TTACTTTTACGAGCATCT-AAGTCTCTTGTTTCGATTTAATTAGAGATAAATTTGGGGAAAAAAA
128 TTGTTTTTACGAGCATCTGAA---TCTTGTTTCGATTTAATTAGAAATAAA-TT-CGGAAAAAAA
*
8319 -GGAAAAACAATATTAGAAGCGTGAAAAACCCTTCAAAAAAAATTTTTTTTGTGTTGAA-ATAT-
188 TGGAAAAACAATATTAGAAGCGTGAAAAACCCTTC------AATTTTTTTTGCGTTGAATATATA
* * *
8381 TTTTTT-TATTTTGGCAAAAAAAATTGAGGAAAAA-TTTTTTGGTTAGTTTTTACTAAATTTTAG
247 TTTTTTATATTTTGGC--AAAAAATTGAGGAAAAACTTTTTGGGTCAGTTTTTACAAAATTTTAG
* * * *
8444 CCAAAATCGTGTATTAACCATCACAGTTTTTTGCTAAAAATACGTTCCGGGGTCCCGGCTCAATT
310 CCGAAATCGTGTACTAACCATCACAGTTTTTTGCTAAAAACACGTTCCGGGGCCCCGGCTCAATT
*
8509 TTACATGATTTTTGGCCCAAAGACTTCTTGAAATATCTATATTCATCGAA-CTAAATCCCAGCCA
375 TTACATGATTTTTGGCGCAAAGACTTCTTGAAATATCTATATTCATCGAATC-AAATCCCAGCCA
** *
8573 CATTGGATATAAGGATTTGTTTCAACGAGCATATAAATCTTGTTCGATTTAATTAGAAATTAATT
439 CATTGGATATAAGGA-TTGTTTTTACGAGC-----AAT-GT-TTCGATTTAATTAGAAATTAATT
* * * ** *
8638 -GGAAAAAAAG--GGAAAACGATATTAGAA-ATGTGAAAAGTCCATCAATCTTTTTGTTG-TTGA
496 CGAAAAAAAAGAAGAAAAACGATATTAGAAGCT-TGAAAAACCCGTCAAT-TTTTT-TTGTTTGA
* ** ** *
8698 ATTATATAATTTTTCTTAGTATTGTGGCAAAAAAAATCTGAAAAACTTTTCGGGTTAGTTTTTAG
558 ATTATAT-ATTTTT-TTTGTATTGTGGC-AAAAATTTCAAAAAAACTTTTCGGGTTAGTTATTAG
*
8763 TCGAAATCATGTACTACC
620 TCGAAATCGTGTACT--C
* * *
8781 CATCAC-GTTTTCTGGGATAAAAACGCGTTTCGGGGCCCTGG-TTCTGTTTTACATGATTTTTGG
1 CATCACGGTTTT-TGGGCTAAAAACGCGTTTCGGGG-CCTGGCTT-AGTTTTGCATGATTTTTGG
* * * ** * * * * * *
8844 CAGAAAAACTCCTTGGACTATCCGTTTTCACCTAACCATATATCAACCACATTAGATTTAAGGAT
63 CAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGAT
**
8909 TTGTTTTTATAAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAA
128 TTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAA
* * *
8974 AAACGATATTAGAAGCGTGAAAAAACCATT-AATTTTTTTGGCGTTGAATTATATATTTTTTCAG
193 AAACAATATTAGAAGCGTG-AAAAACCCTTCAATTTTTTTTGCGTTGAA-TATATATTTTTT---
* * * * *
9038 AGTATTGTGGCAAAAAAATGAGG-AAAACTTTTTTGGGTCA-TTTTTGCAAAATATTAGCTGAAA
253 A-TATTTTGGCAAAAAATTGAGGAAAAAC-TTTTTGGGTCAGTTTTTACAAAATTTTAGCCGAAA
* ** * * * * * * *
9101 TCATGTAC--ACCATCAC-GATTTTTTGCCTAAAAACGTGTTCTGGGACCTCGACTTAGTTTTGC
316 TCGTGTACTAACCATCACAG-TTTTTTG-CTAAAAACACGTTCCGGGGCCCCGGCTCAATTTTAC
* ** * * * * ** *
9163 ATGGTTTTT-GCATAAAGAC-TCTTTGAAATATCTATATTTATCTAACCAAATCTCAATCAGATT
379 ATGATTTTTGGCGCAAAGACTTC-TTGAAATATCTATATTCATCGAATCAAATCCCAGCCACATT
* * *
9226 GGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTTGATTTAATTAGAAATAAATTCGG
443 GGATATAAGGA-TTGTTTTTACGAG---C--AA---TGTTTCGATTTAATTAGAAATTAATTC-G
* * * * **
9291 GAAAAAATG--GAAAAACGATATTAGAAACGTGAAAAACCATTCAATTTTTTTTAACG-TTGAAT
498 AAAAAAAAGAAGAAAAACGATATTAGAAGCTTGAAAAACCCGTCAATTTTTTTT---GTTTGAAT
* * * * * * *
9353 TATATATTTTTTCTGAGTTTTGTGGTAAAAAATTGAGGAAAAACTTTTCGGGTCAGTTTTTGCAA
560 TATATATTTTTT-T-TGTATTGTGGCAAAAATTTCA-AAAAAACTTTTCGGGTTAG---TT----
* *
9418 AATTTTAGCCGAAATCGTGTACTAAT
615 -A--TTAGTCGAAATCGTGTACT--C
* * * * * * * * * *
9444 CATCACGATTTTT-GGCTAAAAACACGTTCCGGAGCCCGACTCAATTTTGCATAATTTTTTGC-G
1 CATCACGGTTTTTGGGCTAAAAACGCGTTTCGGGGCCTGGCTTAGTTTTGCATGATTTTTGGCAG
* * * * ** *
9507 CAAAGACTCCTTGAAATATCTATATTCATCGAACTAAATCTCAGCCACACTGGATATAAAAAATT
66 -AAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTT
* ** * ** *
9572 GATTTTACGAGCAGATGAATCTTGTTTCGATTTAATCAGAAATTTATTCGGAAAAAAAATAGAAA
130 GTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGG-AAAAAAATGGAAA
* * * * * *
9637 AACGATATTA-AATGCTTGAAAAACCCGTGAATATTTTTTGTGTTGAATTATATATTTTTTCTTA
194 AACAATATTAGAA-GCGTGAAAAACCCTTCAATTTTTTTTGCGTTGAA-TATATA--TTTT-TTA
* * * * *
9701 GTATTGTAGCAAAAAATTCAGGAAAAAATTTTCTGGGTCTGTTTTT-----A--TT---CGAAAT
254 -TATTTTGGCAAAAAATTGAGGAAAAACTTTT-TGGGTCAGTTTTTACAAAATTTTAGCCGAAAT
* * * * * * * * * *
9756 CGTGTACTAA-AAACGC-GTTTTTAGGCTAAAAACGCGTTTCGGGACCCCGGCTCAGTTTTGCTT
317 CGTGTACTAACCATCACAGTTTTT-TGCTAAAAACACGTTCCGGGGCCCCGGCTCAATTTTACAT
* * * * ** *
9819 GATTTTTGGCGGAAAGAC-TCATTGAAATATCTATATTTATCTAACCATTTCTCAGCCACATTGG
381 GATTTTTGGCGCAAAGACTTC-TTGAAATATCTATATTCATCGAATCAAATCCCAGCCACATTGG
* * * * * *
9883 ATTTAAGGATTTGATTTTACGAGCATTTGAATCTTATTTCGATTTAATAAGAAATAAATTCGGAA
445 ATATAAGGA-TTGTTTTTACGAGC-----AA---TGTTTCGATTTAATTAGAAATTAATTCGAAA
* * * * * ** *
9948 AAAATG-A-AAAAAC-ATTATTAGAAGCGTGAAAAGCTCTTCAA-TTTTTTTGACACTGAGTTAT
501 AAAAAGAAGAAAAACGA-TATTAGAAGCTTGAAAAACCCGTCAATTTTTTTTG--TTTGAATTAT
* ** * * *
10009 ATATTTTATTCTGAGTATTGAAGCAAAAAATT-AAGGAAAAGCTTTCCGGGTTAGTTTTTGCCAA
563 ATATTTT-TT-T-TGTATTGTGGCAAAAATTTCAA--AAAAACTTTTCGGGTTAG---TT-----
** * *
10073 ATTTAAACCGAAATCGTATACGTTA
615 A-TT-AGTCGAAATCGTGTAC--TC
* ** * * * *
10098 CATCACAGGTTTTT--GCTAAAAACGCGTTCTAGGTCCCCGG-TTCAATTTCGCATTATTTTTTG
1 CATCAC-GGTTTTTGGGCTAAAAACGCGTT-TCGGGGCCTGGCTT-AGTTTTGCATGA-TTTTTG
* * * * * *
10160 CGCA-AAA-ACTTCTTGAAATATCTATATTCATCAAACCAAATCCCAGCCACACTGGATATAAAG
62 -GCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGG
* * * * *
10223 ATTTGTTTCTACGAACATCTGAATCTAGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATTGG
126 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGG
* * * *
10288 AAAAA-GATATTAGAAGCGT--AAAACCTCGTCAATTTTTTTGGTGTTGAATTATATATTTTCTT
191 AAAAACAATATTAGAAGCGTGAAAAACC-CTTCAATTTTTTTTGCGTTGAA-TATATATTTT-TT
* * * * * * *
10350 AGTATTGTGGCGAAAATTTCA-GAAAAACCTTTCGGGTCAG----T------TTTTAGCCGACAT
253 A-TATTTTGGCAAAAAATTGAGGAAAAACTTTTTGGGTCAGTTTTTACAAAATTTTAGCCGAAAT
* * * * * ** *
10404 CATGTACTAACCCATCACGGTTTTTGGGCTAAAAACGCAGTT-CGGAGCCCTAGCT-AAGTTTTG
317 CGTGTACTAA-CCATCACAGTTTTT-TGCTAAAAACAC-GTTCCGGGGCCCCGGCTCAA-TTTTA
** * * * * * *
10467 CATGATTTTTGGCAAAAAGACTCCTTGAAATATATATACACTCATCTAACCAAATCGCAGCCACA
378 CATGATTTTTGGCGCAAAGACTTCTTGAAATATCTAT--ATTCATCGAATCAAATCCCAGCCACA
* * * *
10532 TTGGATTTAAAGATTTGTTTTTACGAGCACCTGAATCTAGTTTTGATTTAA-TA-AAA--AAATC
441 TTGGATATAAGGA-TTGTTTTTACGAG---C--AA--T-GTTTCGATTTAATTAGAAATTAATTC
* * * * * * *
10593 GGGGAAAAAATG--GAAAAACTG-TATTAGAAGCGTGAAAAAACCTTCAATTTTTTTGGCGTTGA
497 --GAAAAAAAAGAAGAAAAAC-GATATTAGAAGCTTGAAAAACCCGTCAATTTTTTTTG-TTTGA
* * ** * * *
10655 ATTACATGTGTTTTCTGAGTATTGTGCCAAATAA-TTGAGGAAAAAAATTTT-GGGTTAGTTTTT
558 ATTATATAT-TTTT-TTTGTATTGTGGCAAA-AATTTCA--AAAAAACTTTTCGGGTTAG---TT
* * **
10718 GCAAAAGTTTAGCCAAAATCGCCTAC-C
615 -----A--TTAGTCGAAATCGTGTACTC
* * * * * * * * *
10745 AACAATCACGGTTTTT-GGCTAAAAACGTGTTCCAAGGTCCCGACTCAATTTTGCTTGATTTTTG
1 --C-ATCACGGTTTTTGGGCTAAAAACGCGTTTC-GGGGCCTGGCTTAGTTTTGCATGATTTTTG
* * * *
10809 TTG-TG-AAGACTTCTTGAAATATCTACATTCATC-ATACCAAAT-TCCAGCCACATTGGATTAA
62 --GCAGAAAGACTCCTTGAAATATCTATATTCATCTA-ACCAAATCT-CAGCCACATTGGATTTA
* * * *
10870 AGGATTTGTTTTTACAAGCATCTTAATCTTGTTTCGATTTAATAAGAAATTAATTCGGAAAAAAA
123 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAA
** * * * ** * *
10935 TGG-AAAATGATAGTAGAAGCCTGAAAAACCCTTCAATCTTTTAGGCGTTGAATTAAATTTTTTT
188 TGGAAAAACAATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTTGCGTTGAA-TATA-TATTTT
* *** * *
10999 TCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCATGTCAGTTTTTGCAAAAGTTTAGCCG
251 T-T-A-TATTTTGGCAAAAAATTGAGGAAAAACTTTTTGGGTCAGTTTTTACAAAATTTTAGCCG
* * * * ** * * *
11064 AAATC--G---T--CCATCACCGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGATTTAACTTTG
313 AAATCGTGTACTAACCATCACAGTTTTTTGCTAAAAACACGTTCCGGGGCCCCGGCTCAATTTTA
* * * * * * * **
11122 TATGATTTTCGGTGCAAAGACTCCTTGAAATATCCATATTAATCGAATCAAATCTCAGTTACATT
378 CATGATTTTTGGCGCAAAGACTTCTTGAAATATCTATATTCATCGAATCAAATCCCAGCCACATT
* ** *
11187 GGATATAAGGATTTATTTTTACGAGCATGTGAGTCATGTTTCGATTTGTTTAAAAATTAATTCG-
443 GGATATAAGGA-TTGTTTTTACGAGC-----A---ATGTTTCGATTTAATTAGAAATTAATTCGA
* ** * ** * * * ** *
11251 --GAAAACCACACTAA-GA-ATAAG-GGC-T----AGCTAGTCAATCTTTTTTTGCGTTGAATTA
499 AAAAAAAGAAGAAAAACGATATTAGAAGCTTGAAAAACCCGTCAAT-TTTTTTTG-TTTGAATTA
* * * * * * *
11306 TATATTTTTCTTAGTATTGTTGCAAAAAATTCTGAAATAAAA-ATTTCAGGTTAGTTTTTAGACG
562 TATATTTTT-TTTGTATTGTGGC-AAAAATT-TCAAA-AAAACTTTTCGGGTTAGTTATTAGTCG
*
11370 AAATCGTATACGT-
623 AAATCGTGTAC-TC
* * ** * * *
11383 TATCATGGTTTTTGGGCTAAAAACGCGTTTCGAGACCCCGACTCAGTTTTGCATGATTTTTGGCA
1 CATCACGGTTTTTGGGCTAAAAACGCGTTTCG-GGGCCTGGCTTAGTTTTGCATGATTTTTGGCA
* * **
11448 GAAAGACCCCTTGAAATATCTATATTCATCTAACCATATCTCAGTAACATTGGATTTAAGGATTT
65 GAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTT
* * * * *
11513 GTTTTTATGAG--T-TGAATCTTGTTTCGATTTAATCAGAAATTAATTCGGGAAAGAAATGGGAA
130 GTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTC-GGAAAAAAATGGAAA
* * * * * * *
11575 AACGATATTAAAAGCGTGAAAAGCTCGTCAATATTTTTTGCATTGAATTATATATTTTTT
194 AACAATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTTGCGTTGAA-TATATATTTTTT
11635 CTGAGTATTG
Statistics
Matches: 4445, Mismatches: 738, Indels: 588
0.77 0.13 0.10
Matches are distributed among these distances:
633 33 0.01
634 19 0.00
635 54 0.01
636 101 0.02
637 16 0.00
644 3 0.00
645 18 0.00
646 29 0.01
647 212 0.05
648 296 0.07
649 241 0.05
650 445 0.10
651 299 0.07
652 300 0.07
653 324 0.07
654 324 0.07
655 324 0.07
656 404 0.09
657 171 0.04
658 233 0.05
659 37 0.01
660 1 0.00
661 120 0.03
662 252 0.06
663 158 0.04
664 29 0.01
665 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (635 bp):
CATCACGGTTTTTGGGCTAAAAACGCGTTTCGGGGCCTGGCTTAGTTTTGCATGATTTTTGGCAG
AAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTG
TTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAAAA
CAATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTTGCGTTGAATATATATTTTTTATATTTTG
GCAAAAAATTGAGGAAAAACTTTTTGGGTCAGTTTTTACAAAATTTTAGCCGAAATCGTGTACTA
ACCATCACAGTTTTTTGCTAAAAACACGTTCCGGGGCCCCGGCTCAATTTTACATGATTTTTGGC
GCAAAGACTTCTTGAAATATCTATATTCATCGAATCAAATCCCAGCCACATTGGATATAAGGATT
GTTTTTACGAGCAATGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAAGAAGAAAAACGATAT
TAGAAGCTTGAAAAACCCGTCAATTTTTTTTGTTTGAATTATATATTTTTTTTGTATTGTGGCAA
AAATTTCAAAAAAACTTTTCGGGTTAGTTATTAGTCGAAATCGTGTACTC
Found at i:11727 original size:107 final size:108
Alignment explanation
Indices: 11540--11755 Score: 416
Period size: 107 Copynumber: 2.0 Consensus size: 108
11530 CTTGTTTCGA
*
11540 TTTAATCAGAAATTAATTCGGGAAAGAAATGGGAAAACGATATTAAAAGCGTGAAAAGCTCGTCA
1 TTTAATCAGAAATTAATTCGGGAAAGAAATGGAAAAACGATATTAAAAGCGTGAAAAGCTCGTCA
11605 ATATTTTTTGCATTGAATTATATATTTTTTCTGAGTATTGTGG
66 ATATTTTTTGCATTGAATTATATATTTTTTCTGAGTATTGTGG
11648 TTTAATCAGAAATTAATTCGGG-AAGAAATGGAAAAACGATATTAAAAGCGTGAAAAGCTCGTCA
1 TTTAATCAGAAATTAATTCGGGAAAGAAATGGAAAAACGATATTAAAAGCGTGAAAAGCTCGTCA
11712 ATATTTTTTGCATTGAATTATATATTTTTTCTGAGTATTGTGG
66 ATATTTTTTGCATTGAATTATATATTTTTTCTGAGTATTGTGG
11755 T
1 T
11756 AAAAATTTGA
Statistics
Matches: 107, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
107 85 0.79
108 22 0.21
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (108 bp):
TTTAATCAGAAATTAATTCGGGAAAGAAATGGAAAAACGATATTAAAAGCGTGAAAAGCTCGTCA
ATATTTTTTGCATTGAATTATATATTTTTTCTGAGTATTGTGG
Found at i:15538 original size:15 final size:15
Alignment explanation
Indices: 15518--15548 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15508 TTGTCTTTGC
15518 TTGAGGATTTAGATG
1 TTGAGGATTTAGATG
15533 TTGAGGATTTAGATG
1 TTGAGGATTTAGATG
15548 T
1 T
15549 ATTGGCATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
TTGAGGATTTAGATG
Found at i:16243 original size:23 final size:23
Alignment explanation
Indices: 16212--16257 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
16202 AAATTATCTA
16212 TACCAAATTTGATATTATTTTGG
1 TACCAAATTTGATATTATTTTGG
*
16235 TACCGAATTTGATATTATTTTGG
1 TACCAAATTTGATATTATTTTGG
16258 GATGGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (23 bp):
TACCAAATTTGATATTATTTTGG
Found at i:18519 original size:15 final size:15
Alignment explanation
Indices: 18499--18539 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
18489 TGAAATTATG
*
18499 TATATAATATTATAA
1 TATATAATATAATAA
18514 TATATAATATAATAA
1 TATATAATATAATAA
18529 TA-ATAATATAA
1 TATATAATATAA
18540 CCATCTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TATATAATATAATAA
Found at i:20164 original size:12 final size:12
Alignment explanation
Indices: 20149--20179 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20139 GCTTTGACAT
20149 GGCATTTGGCAC
1 GGCATTTGGCAC
20161 GGCATTTGGCAC
1 GGCATTTGGCAC
*
20173 GACATTT
1 GGCATTT
20180 AGATTTGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (12 bp):
GGCATTTGGCAC
Found at i:24237 original size:19 final size:20
Alignment explanation
Indices: 24203--24240 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
24193 TGAGGATGAG
24203 GAACATTGACGAAAAAGAAA
1 GAACATTGACGAAAAAGAAA
*
24223 GAACA-TGACGGAAAAGAA
1 GAACATTGACGAAAAAGAA
24241 GAATGAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.58, C:0.11, G:0.24, T:0.08
Consensus pattern (20 bp):
GAACATTGACGAAAAAGAAA
Found at i:37878 original size:13 final size:13
Alignment explanation
Indices: 37860--37890 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
37850 TCAATTGACA
*
37860 TTTTTGTTTTGTT
1 TTTTTGTTTTATT
37873 TTTTTGTTTTATT
1 TTTTTGTTTTATT
37886 TTTTT
1 TTTTT
37891 AGAAATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (13 bp):
TTTTTGTTTTATT
Found at i:38707 original size:31 final size:31
Alignment explanation
Indices: 38586--38739 Score: 159
Period size: 31 Copynumber: 5.0 Consensus size: 31
38576 GACATGACAT
* **
38586 GCCACATGTACAAAAAAGTGACATGTAACAC
1 GCCACATGTACAAAAAAGTGACACGTGGCAC
* * *
38617 GCTACATGTACCAAAAAAGTGACACATGTCAC
1 GCCACATGTA-CAAAAAAGTGACACGTGGCAC
* * *
38649 GCCACGTGTAC-CAAAAGTGACATGTGGCAC
1 GCCACATGTACAAAAAAGTGACACGTGGCAC
* *
38679 GCCACGTGTACAAAAAAGTGACACGTGGCAT
1 GCCACATGTACAAAAAAGTGACACGTGGCAC
* *
38710 GCCACATGTTTC-ATAAAGTGACACGTGGCA
1 GCCACATG-TACAAAAAAGTGACACGTGGCA
38740 TGTCATGTGC
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
30 26 0.25
31 50 0.49
32 27 0.26
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.18
Consensus pattern (31 bp):
GCCACATGTACAAAAAAGTGACACGTGGCAC
Found at i:61820 original size:192 final size:192
Alignment explanation
Indices: 61493--61877 Score: 770
Period size: 192 Copynumber: 2.0 Consensus size: 192
61483 TTTCATTTGA
61493 TGCAAAAATTATGTACTTAAATTAATTATACTATTTTTTTATGGCAAATTATATAATATATTGAC
1 TGCAAAAATTATGTACTTAAATTAATTATACTATTTTTTTATGGCAAATTATATAATATATTGAC
61558 AGTGGAGTTTAGCAGACTATACAAGCGGACCCTGAAGAGTGACATGCGTTCTCTAGGGACTAGAT
66 AGTGGAGTTTAGCAGACTATACAAGCGGACCCTGAAGAGTGACATGCGTTCTCTAGGGACTAGAT
61623 TGCTTGTGGAGTCCAAAATTTACATCGCCGGTATATCAAATAATTACCCTTTTCTTATATAG
131 TGCTTGTGGAGTCCAAAATTTACATCGCCGGTATATCAAATAATTACCCTTTTCTTATATAG
61685 TGCAAAAATTATGTACTTAAATTAATTATACTATTTTTTTATGGCAAATTATATAATATATTGAC
1 TGCAAAAATTATGTACTTAAATTAATTATACTATTTTTTTATGGCAAATTATATAATATATTGAC
61750 AGTGGAGTTTAGCAGACTATACAAGCGGACCCTGAAGAGTGACATGCGTTCTCTAGGGACTAGAT
66 AGTGGAGTTTAGCAGACTATACAAGCGGACCCTGAAGAGTGACATGCGTTCTCTAGGGACTAGAT
61815 TGCTTGTGGAGTCCAAAATTTACATCGCCGGTATATCAAATAATTACCCTTTTCTTATATAG
131 TGCTTGTGGAGTCCAAAATTTACATCGCCGGTATATCAAATAATTACCCTTTTCTTATATAG
61877 T
1 T
61878 TGTTATTATA
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
192 193 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (192 bp):
TGCAAAAATTATGTACTTAAATTAATTATACTATTTTTTTATGGCAAATTATATAATATATTGAC
AGTGGAGTTTAGCAGACTATACAAGCGGACCCTGAAGAGTGACATGCGTTCTCTAGGGACTAGAT
TGCTTGTGGAGTCCAAAATTTACATCGCCGGTATATCAAATAATTACCCTTTTCTTATATAG
Found at i:65476 original size:17 final size:16
Alignment explanation
Indices: 65436--65478 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
65426 CATGTAATTT
*
65436 TTGATCACCGGTGATA
1 TTGATCACTGGTGATA
*
65452 TTGCATCACTGGTGATC
1 TTG-ATCACTGGTGATA
65469 TTAGATCACT
1 TT-GATCACT
65479 AATGATCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 19 0.83
18 1 0.04
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (16 bp):
TTGATCACTGGTGATA
Found at i:83122 original size:16 final size:16
Alignment explanation
Indices: 83087--83128 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
83077 TTTGGTAGGG
*
83087 AGGAAA-GAATTAGAA
1 AGGAAAGGAAATAGAA
*
83102 AGGAAAGGAAATAGCA
1 AGGAAAGGAAATAGAA
83118 AGGAAAAGGAA
1 AGG-AAAGGAA
83129 TTAGGGAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 10 0.43
17 7 0.30
ACGTcount: A:0.60, C:0.02, G:0.31, T:0.07
Consensus pattern (16 bp):
AGGAAAGGAAATAGAA
Found at i:83614 original size:26 final size:27
Alignment explanation
Indices: 83579--83665 Score: 88
Period size: 29 Copynumber: 3.2 Consensus size: 27
83569 CACACACAAG
83579 AAAAAA-TAGCAGCCCATTT-CAAAAA
1 AAAAAAGTAGCAGCCCATTTACAAAAA
* *
83604 AAAAAAGTAGCAGGCCATTTGATAAAAA
1 AAAAAAGTAGCAGCCCATTT-ACAAAAA
* * *
83632 AAAAATAGAAGCAGCCCATTGAACCAAAA
1 AAAAA-AGTAGCAGCCCATT-TACAAAAA
83661 AAAAA
1 AAAAA
83666 TAGCAGTACC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
25 6 0.12
26 12 0.24
28 10 0.20
29 22 0.44
ACGTcount: A:0.57, C:0.16, G:0.13, T:0.14
Consensus pattern (27 bp):
AAAAAAGTAGCAGCCCATTTACAAAAA
Found at i:83670 original size:26 final size:25
Alignment explanation
Indices: 83579--83671 Score: 98
Period size: 26 Copynumber: 3.5 Consensus size: 25
83569 CACACACAAG
*
83579 AAAAAATAGCAGCCCATTTCAAAAA
1 AAAAAATAGCAGCCCATTTGAAAAA
*
83604 AAAAAAGTAGCAGGCCATTTGATAAAA
1 AAAAAA-TAGCAGCCCATTTGA-AAAA
83631 AAAAAATAGAAGCAGCCCA-TTGAACCAAA
1 AAAAAAT---AGCAGCCCATTTGAA--AAA
83660 AAAAAATAGCAG
1 AAAAAATAGCAG
83672 TACCAGTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
25 6 0.10
26 19 0.33
27 11 0.19
28 4 0.07
29 18 0.31
ACGTcount: A:0.56, C:0.16, G:0.14, T:0.14
Consensus pattern (25 bp):
AAAAAATAGCAGCCCATTTGAAAAA
Found at i:84306 original size:42 final size:43
Alignment explanation
Indices: 84236--84318 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 43
84226 CTTAAATGTG
* *
84236 TTAATCGTGTCTTGATACGATTACGACACGAAACACGATAATC
1 TTAATCGTGTCTCGACACGATTACGACACGAAACACGATAATC
* *
84279 TTAATCGTGTC-CGACACGATT-CAGACACGAGACATGATAA
1 TTAATCGTGTCTCGACACGATTAC-GACACGAAACACGATAA
84319 GCCAAGCACG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.03
42 23 0.66
43 11 0.31
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (43 bp):
TTAATCGTGTCTCGACACGATTACGACACGAAACACGATAATC
Found at i:84554 original size:15 final size:15
Alignment explanation
Indices: 84531--84583 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
84521 AAAGAACTAT
*
84531 TTTCCTTCCTTCCCA
1 TTTCTTTCCTTCCCA
* *
84546 TTTCTTTCC-CCCCG
1 TTTCTTTCCTTCCCA
84560 TCTTCTTTCCTTCCCA
1 T-TTCTTTCCTTCCCA
84576 TTTCTTTC
1 TTTCTTTC
84584 GTACCAAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
14 4 0.13
15 23 0.74
16 4 0.13
ACGTcount: A:0.04, C:0.43, G:0.02, T:0.51
Consensus pattern (15 bp):
TTTCTTTCCTTCCCA
Found at i:97497 original size:27 final size:27
Alignment explanation
Indices: 97470--97520 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
97460 ACTTTTAAGA
97470 AAATTT-AGTTAAAAAATGAAATTTAG
1 AAATTTCAGTTAAAAAATGAAATTTAG
*
97496 AAATTTCAGTTAAGAAATGAAATTT
1 AAATTTCAGTTAAAAAATGAAATTT
97521 TGTTGTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.51, C:0.02, G:0.12, T:0.35
Consensus pattern (27 bp):
AAATTTCAGTTAAAAAATGAAATTTAG
Found at i:109265 original size:2 final size:2
Alignment explanation
Indices: 109258--109295 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
109248 TAACTCATTC
109258 AT AT AT AT AT 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 AT AT AT AT AT
109296 CAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.