Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014975.1 Corchorus olitorius cultivar O-4 contig15008, 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: 20973
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:753 original size:324 final size:322
Alignment explanation
Indices: 58--762 Score: 789
Period size: 323 Copynumber: 2.2 Consensus size: 322
48 GAGCCTGAGA
* * *
58 TTGGTTAGATGAATATAGATATTTCAAGGAATCTTTC-TGCCAAAAATCATGCAAAACTGAGCCG
1 TTGGTTCGATGAATATAGATAATTCAAGGAGTCTTTCAT--CAAAAATCATGCAAAACTGAGCCG
*
122 GGGCCCCCGAAACGCCTTTTTAGCCCAAAAACTATGATGGTTAGTACACGATTTTCGGTTAAAAA
64 GGGCCCCCGAAACGCCTTTTTAGCCCAAAAACCATGATGGTTAGTACACGATTTTCGGTTAAAAA
* ** **
187 CTGACCCGATTTTTTTTCTGGATTTTTTGCCAAAATACTCAGAAAAAAAAATATAATTCAACACC
129 CTGACCAGAAGTTTTTTCTCAATTTTTTGCCAAAATACTCAGAAAAAAAAATATAATTCAACACC
* * * * *
252 AAAAATATTGATGGTCTTTTCACGCATTTAATATCATTTTTCCAATTTTTTCCGAATTAATTTCT
194 AAAAAGATTGAGGGACATTTCACGCATTCAATATCATTTTTCCAATTTTTTCCGAATTAATTTCT
* * * * * *
317 AATTAAATTGAAACAAGATTCAGATGCTCGTAACACATATCATTATATCCAATGTGGCTGACAT
259 AATTAAATTGAAACAAGATTCAGATGCTCATAAAAAAAATCATTAAATCCAACGTGGCTGACAT
* * * * * **
381 TTGGTTTGATGAATATAGATACTTCAAGAAGTCTTTGCGCA-AAAAAATCATGCAAAATTGAGTT
1 TTGGTTCGATGAATATAGATAATTCAAGGAGTCTTT---CATCAAAAATCATGCAAAACTGAGCC
*** * * *
445 GGGG-CTTGGGAACGCGTTTTTAG-CCAAAAACCGTGATGGTTAGTACACGA-TTTCGGTTAAAA
63 GGGGCCCCCGAAACGCCTTTTTAGCCCAAAAACCATGATGGTTAGTACACGATTTTCGGTTAAAA
* * * * * *
507 ACTGATCAGAAAAGTTTTTTCTCAATTTTTTGTCACAATACTCAG-AAAAAATATATACTTCAAT
128 ACTGACCAG--AAGTTTTTTCTCAATTTTTTGCCAAAATACTCAGAAAAAAAAATATAATTCAAC
* * *
571 GCCAAAAAGATTGACGGGACATTTCACGC-TTCCAATATCGTTTTTCCATTTTTTTTCCGAATTA
191 ACCAAAAAGATTGA-GGGACATTTCACGCATT-CAATATCATTTTTCCA-ATTTTTTCCGAATT-
* *
635 AATTT-TTATTAAATTGAAACAAGATTCAGATGCTCATAAAAAAAAAT-ACTTAAATCGAACGTG
252 AATTTCTAATTAAATTGAAACAAGATTCAGATGCTCAT-AAAAAAAATCA-TTAAATCCAACGTG
**
698 GCTGGGAT
315 GCTGACAT
* *
706 TTTGTTCGATGAATATAGATAATTCAAGGAGTATTTACATCAAAAATCATGCAAAAC
1 TTGGTTCGATGAATATAGATAATTCAAGGAGTCTTT-CATCAAAAATCATGCAAAAC
763 AAAAAAAAAA
Statistics
Matches: 317, Mismatches: 52, Indels: 25
0.80 0.13 0.06
Matches are distributed among these distances:
321 19 0.06
322 55 0.17
323 101 0.32
324 82 0.26
325 59 0.19
326 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (322 bp):
TTGGTTCGATGAATATAGATAATTCAAGGAGTCTTTCATCAAAAATCATGCAAAACTGAGCCGGG
GCCCCCGAAACGCCTTTTTAGCCCAAAAACCATGATGGTTAGTACACGATTTTCGGTTAAAAACT
GACCAGAAGTTTTTTCTCAATTTTTTGCCAAAATACTCAGAAAAAAAAATATAATTCAACACCAA
AAAGATTGAGGGACATTTCACGCATTCAATATCATTTTTCCAATTTTTTCCGAATTAATTTCTAA
TTAAATTGAAACAAGATTCAGATGCTCATAAAAAAAATCATTAAATCCAACGTGGCTGACAT
Found at i:1519 original size:733 final size:728
Alignment explanation
Indices: 74--1529 Score: 2282
Period size: 734 Copynumber: 2.0 Consensus size: 728
64 AGATGAATAT
* * *
74 AGATATTTCAAGGAATCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCCGAAACGCCT
1 AGATATCTCAAGGAATCTTTCTGCCAAAAATCATGCAAAACTGAGCAGGGGCCCCCGAAACGCAT
*
139 TTTTAGCCCAAAAACTATGATGGTTAGTACACGATTTTCGGTTAAAAACTGACCCGATTTTTTTT
66 TTTTAGCCCAAAAACTATGATGGTTAGTACACGATTTTCGGATAAAAACTGACCCGATTTTTTTT
* * *
204 CTGGATTTTTTGCCAAAATACTCAGAAAAAAAAATATAATTCAACACCAAAAATATTGATGGTCT
131 ATGAATTTTTTGCCAAAATACTCAGAAAAAAAAATATAATTCAACACCAAAAAGATTGATGGTCT
* *
269 TTTCACGCATTTAATATCATTTTTCCAATTTTTTCCGAATTAATTTCTAATTAAATTGAAACAAG
196 TTTCACGCATTTAATATCATTTTTCCAATTTTTTCCGAATTAATTTCAAATTAAATCGAAACAAG
* * *
334 ATTCAGATGCTCGTAACACATATCATTATATCCAATGTGGCTGACATTTGGTTTGATGAATATAG
261 ATACAGATGCTCGTAAAACAAATCATTATATCCAATGTGGCTGACATTTGGTTTGATGAATATAG
* * * *
399 ATACTTCAAGAAGTCTTTGCGCAAAAAAATCATGCAAAATTGAGTTGGGGCTTGGGAACGCGTTT
326 ATACTTCAAGAAGTCTTTGCACAAAAAAATCATGCAAAATTGAGTCGGGGCTCGGGAACACGTTT
*
464 TTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGTTAAAAACTGATCAGAAAAGTTTTTTCT
391 TTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGATCAGAAAAGTTTTTTCT
* * *
529 CAATTTTTTGTCACAATACTCAGAAAAAATATATACTTCAATGCCAAAAAGATTGACGGGACATT
456 CAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGACATT
* *
594 TCACGCTTCCAATATCGTTTTTCCATTTTTTTTCCGAATTAAATTTTTATTAAATTGAAACAAGA
521 TCACGCTTCCAATATCGTTTTTCCAGTTTTTTTCCGAATTAAATTTTTATTAAACTGAAACAAGA
659 TTCAGATGCTCATAAAAAAAAATACTTAAATCGAACGTGGCTGGGATTTTGTTCGATGAATATAG
586 TTCAGATGCTCATAAAAAAAAATACTTAAATCGAACGTGGCTGGGATTTTGTTCGATGAATATAG
**
724 ATAATTCAAGGAGTATTTACATCAAAAATCATGCAAAACAAAAAAAAAATTTTTTTGCAAAAAAA
651 ATAATTCAAGGAGTATTTACATCAAAAATCATGCAAAACAAAAAAAAAATTTTTCGGC-AAAAAA
789 TACACAATTTAAAA
715 TACACAATTTAAAA
* *
803 AGATATCTCAAGGAGTCTTTCTGTCAAAAATCATGCAAAACTGAGCAGGGGCCCCCGAAACGCAT
1 AGATATCTCAAGGAATCTTTCTGCCAAAAATCATGCAAAACTGAGCAGGGGCCCCCGAAACGCAT
* *
868 TTTTAGCCCAAAAACCT-TGATGGTTAGTACACGATTTTTGGCAT-AAATCTGACCCGGAATTTT
66 TTTTAGCCCAAAAA-CTATGATGGTTAGTACACGATTTTCGG-ATAAAAACTGACCC-G-A--TT
* * * *
931 GTTTTTTATGAATTTTTTGGCATAATACTCAG-AAAAAATATATAATTCAACATCAAAAAGATTG
125 -TTTTTTATGAATTTTTTGCCAAAATACTCAGAAAAAAAAATATAATTCAACACCAAAAAGATTG
995 ATGGTCTTTTCACGC-TTTCAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCAAATTAAAT
189 ATGGTCTTTTCACGCATTT-AATATCATTTTTCCAA-TTTTTTCCGAATTAATTTCAAATTAAAT
*
1059 CGAAACAAGATACAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGACATTTGGTTTG
252 CGAAACAAGATACAGATGCTCGT-AAAACAAATCATTATATCCAATGTGGCTGACATTTGGTTTG
* * *
1124 ATGAATATAGATATTTC-AGTAAGTCTTTGCAC-CAAAAATCATGCAAAATTGAGTCGGGTCTCG
316 ATGAATATAGATACTTCAAG-AAGTCTTTGCACAAAAAAATCATGCAAAATTGAGTCGGGGCTCG
* * *
1187 GGAACACGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCGGCTAAAAACTTATCGGAA
380 GGAACACGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGATCAGAA
* *
1252 CAGTTTTTTCTCATTTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATT
445 AAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATT
* * *
1317 GACGGG-CTTTTCACGCTTCTAATATCGTTTTTCCAGTTTTTTTCTGAATT-AATTTTTAATTAA
510 GACGGGACATTTCACGCTTCCAATATCGTTTTTCCAGTTTTTTTCCGAATTAAATTTTT-ATTAA
*
1380 ACTGAAACAAGATTCAGATGCTCATAAAAACAAATACTTAAATCGAACGTGGCTGGGATTTTGTT
574 ACTGAAACAAGATTCAGATGCTCATAAAAAAAAATACTTAAATCGAACGTGGCTGGGATTTTGTT
* * * *
1445 TGATGAATATAGATATTTCAAGGAGTATTTACGTCAAAAATCATGCACAAACAAAAAAAATA-TT
639 CGATGAATATAGATAATTCAAGGAGTATTTACATCAAAAATCATGCA-AAACAAAAAAAAAATTT
1509 TTCGGCAAAAAATACACAATT
703 TTCGGCAAAAAATACACAATT
1530 CAACGCAAAA
Statistics
Matches: 665, Mismatches: 49, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
729 107 0.16
730 4 0.01
731 1 0.00
732 25 0.04
733 220 0.33
734 243 0.37
735 65 0.10
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (728 bp):
AGATATCTCAAGGAATCTTTCTGCCAAAAATCATGCAAAACTGAGCAGGGGCCCCCGAAACGCAT
TTTTAGCCCAAAAACTATGATGGTTAGTACACGATTTTCGGATAAAAACTGACCCGATTTTTTTT
ATGAATTTTTTGCCAAAATACTCAGAAAAAAAAATATAATTCAACACCAAAAAGATTGATGGTCT
TTTCACGCATTTAATATCATTTTTCCAATTTTTTCCGAATTAATTTCAAATTAAATCGAAACAAG
ATACAGATGCTCGTAAAACAAATCATTATATCCAATGTGGCTGACATTTGGTTTGATGAATATAG
ATACTTCAAGAAGTCTTTGCACAAAAAAATCATGCAAAATTGAGTCGGGGCTCGGGAACACGTTT
TTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGATCAGAAAAGTTTTTTCT
CAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGACATT
TCACGCTTCCAATATCGTTTTTCCAGTTTTTTTCCGAATTAAATTTTTATTAAACTGAAACAAGA
TTCAGATGCTCATAAAAAAAAATACTTAAATCGAACGTGGCTGGGATTTTGTTCGATGAATATAG
ATAATTCAAGGAGTATTTACATCAAAAATCATGCAAAACAAAAAAAAAATTTTTCGGCAAAAAAT
ACACAATTTAAAA
Found at i:3484 original size:322 final size:320
Alignment explanation
Indices: 2268--3521 Score: 1301
Period size: 322 Copynumber: 3.8 Consensus size: 320
2258 AGCCAAACAG
* * ** * * *
2268 ACACGATTTCGGCTAAAAATTGAGAC-AAAATTTTTTTCTCAATTTTTTGCGACAATAGTCATAA
1 ACACGATTTCGGATAAAAACTGACCCGAAAA-TTTTTTCTCAATTTTTTGCCACAATACTCAGAA
* * * * *
2332 AAAATATATAATTTAACGGCAAAAAAATTAAAGGAT-TTTTCACACTTCTAATATCGTTTTTCCA
65 AAAATATATAATTCAACGCCAAAAAAATT-GAGG-TCTTTTCACGCTTCTAATATCATTTTTCCA
* * * * * *
2396 TTTTTTTCTGAATTAATTTCTAATTAAAACGAAACAAGATTAAGATGCTGGTAAAAATAAATCGT
128 TTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAAATCCT
* *
2461 TAAATCGAATTTGGCTGGGAATTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTACGCC-AA
193 TAAATCGAATGTGGCTGGGAATTGGTTCGATGAATATAGATATTTCAAGGAGTATTTACGCCAAA
* * * *
2525 AATCATGCAAAACTGAGTCGGGG-TCCCGGAACGTGGTTTTAGCAAAAAACCGTGATGGTTAGT
258 AATCATGCAAAACTGAGTCGGGGCT-CGGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGT
* * * *
2588 ACAGGATTTCAACGAAAGTTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAAAATTTTTT-CCA
1 ACACGATTT---CG---G--AT--AAAAACTGACCCG-AAAATTTTTTCTC--AATTTTTTGCCA
* * * * ** * * *
2652 CAATAGTCAGAAAAAATACACAATTCAACGCAAAAAAAATTGAAATATTTTCTCTCTT-TAAATA
53 CAATACTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGAGGTCTTTTCACGCTTCT-AATA
* * *
2716 TCATTTTTCTATTTTTTT-CGAATCT-ATTTATAATTAAATCGAAACAATATTCAGATGCTCGTA
117 TCATTTTTCCATTTTTTTCCGAAT-TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTA
* *
2779 AAAAAAAATCCTTAAATCTAATGTGGCTGAGAGCCTGAGATTGGTTAGATGAATATAGATATTTC
181 AAAAAAAATCCTTAAATCGAATGTGGCT--G-G---GA-ATTGGTTCGATGAATATAGATATTTC
* *
2844 AAGGAATATTT-CTGCCAAAAATCATGCAAAACTGAGCCGGGGC-CGCCGGAACGCGTTTTTAGC
239 AAGGAGTATTTAC-GCCAAAAATCATGCAAAACTGAGTCGGGGCTCG--GGAACGCGTTTTTAG-
* * *
2907 CCAAAAATCGTGATGTTTAAT
300 CCAAAAACCGTGATGGTTAGT
* ** * ** ** *
2928 ACATGATTTTCGTCTAAAAACTAACCCG-ATTTTTTTTCTTTATTTTTTGCCACAGTACTCA-AA
1 ACACGA-TTTCGGATAAAAACTGACCCGAAAATTTTTTCTCAATTTTTTGCCACAATACTCAGAA
* * * *
2991 AAAATTATATAATTCAACACCAAAAAGATTGATGGTCTTTTCACGCTTTTAATATAATTTTTCCA
65 AAAA-TATATAATTCAACGCCAAAAAAATTGA-GGTCTTTTCACGCTTCTAATATCATTTTTCC-
* *
3056 ATTTTTTTTCCGAATTAATTTCTAAGTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATC
127 A-TTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAAATC
* * ** * * * *
3121 CTTATATCCAATGTGGCTGACATTTGGTTTGATGAATATAGATATTTCAAGGAGTCTTTGCGCCA
191 CTTAAATCGAATGTGGCTGGGAATTGGTTCGATGAATATAGATATTTCAAGGAGTATTTACGCCA
* *
3186 AAAATCATGCAAAATTGAGTCGGGGCTCGGGAACGCGTTTTTAGCCAAAAACCGTGATGGGTAGT
256 AAAATCATGCAAAACTGAGTCGGGGCTCGGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGT
* * *
3251 ACACGATTTCGGATAAAAACTGATCGGAACAATTTTTTCTCAATTTTTTCCCACAATACTCAGAA
1 ACACGATTTCGGATAAAAACTGACCCGAA-AATTTTTTCTCAATTTTTTGCCACAATACTCAGAA
* * * *
3316 AAAATATATAATTCAACGCCAAAAATATTGACGGGCTTTTCACGCTTCTATTATCGTTTTTCCAT
65 AAAATATATAATTCAACGCCAAAAAAATTGA-GGTCTTTTCACGCTTCTAATATCATTTTTCCAT
* * *
3381 TTTTTTCCGAATTAATTT-TAAATTAAATTGAAACAAGATTTAGATGCTCGTAAAAAAAAATACT
129 TTTTTTCCGAATTAATTTCT-AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAAATCCT
* * * *
3445 TAAATCGAACGTGGCTGGGATTTTGTTCGATGAATATAGATATTTCAAGGAGTATTTACGACAAA
193 TAAATCGAATGTGGCTGGGAATTGGTTCGATGAATATAGATATTTCAAGGAGTATTTACGCCAAA
3510 AATCATGCAAAA
258 AATCATGCAAAA
3522 ACAAAAAAAA
Statistics
Matches: 772, Mismatches: 117, Indels: 88
0.79 0.12 0.09
Matches are distributed among these distances:
320 8 0.01
321 1 0.00
322 141 0.18
323 26 0.03
324 92 0.12
325 67 0.09
326 5 0.01
327 13 0.02
328 33 0.04
329 30 0.04
330 76 0.10
331 58 0.08
332 107 0.14
333 10 0.01
336 3 0.00
337 38 0.05
338 26 0.03
339 13 0.02
340 22 0.03
341 3 0.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (320 bp):
ACACGATTTCGGATAAAAACTGACCCGAAAATTTTTTCTCAATTTTTTGCCACAATACTCAGAAA
AAATATATAATTCAACGCCAAAAAAATTGAGGTCTTTTCACGCTTCTAATATCATTTTTCCATTT
TTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAAATCCTTAA
ATCGAATGTGGCTGGGAATTGGTTCGATGAATATAGATATTTCAAGGAGTATTTACGCCAAAAAT
CATGCAAAACTGAGTCGGGGCTCGGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGT
Found at i:4846 original size:666 final size:663
Alignment explanation
Indices: 3541--4829 Score: 2000
Period size: 666 Copynumber: 1.9 Consensus size: 663
3531 ATATTTTAGG
* *
3541 GAAAAAATACACAATTTAATGCAAAAAAACATTGAAATATTTTTCTCGCTTTAAATATCATTTTT
1 GAAAAAATACACAATTCAACGCAAAAAAACATTGAAATATTTTTCTCGCTTTAAATATCATTTTT
3606 CTATTTTTTTCGAATCTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTAAAACAAATCC
66 CTATTTTTTTCGAATCTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTAAAACAAATCC
3671 TTAAATCTAAAGTGGCTGAGAGCCTGAGATTGGTTAGATGAATATAGATATTTCAATGAGTCTTT
131 TTAAATCTAAAGTGGCTGAGAGCCTGAGATTGGTTAGATGAATATAGATATTTCAATGAGTCTTT
*
3736 CTGCCAAAAATCATGCAAAACTGAGCCGGGGCGCCCGAAACGCATTTTTAGCACAAAAACCATGA
196 CTGCCAAAAATCATGCAAAACTGAGCCGGGGCGCCCGAAACGCATTTTCAGCACAAAAACCATGA
* *
3801 TGGTTAGTACACGATTTTCGGCTAAAAACTGACCCGAATTTTTTTTTTCTGCATTTTTTGACACA
261 TGGTTAGTACACGATTTTCGGCTAAAAACTAACCCGAATTTTTTTTTTCTGAATTTTTTGACACA
3866 ATACTAAGAAAAAAATATATAATTCAACACCAAAAAGATTGATGGTCTTGTCAAGCTTTTAATAT
326 ATACTAAGAAAAAAATATATAATTCAACACCAAAAAGATTGATGGTCTTGTCAAGCTTTTAATAT
* * *
3931 CATTTTTCCAGTTCTTTTTCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAA
391 CATTTTTCCAATTCTTTTTCGAATGAATTTCTAATTAAATCGAAACAAGATTCAGATACTCGTAA
* * *
3996 AAGCAAATCATTATATCCAATGTGGCTGACATTTGGTGTGATGAATATAGATGTTTCAAGGAGTC
456 AAACAAATCATTATATCCAATGTCGCTGACATTTGGTGTGATGAATATAGATATTTCAAGGAGTC
* *
4061 TTTGCGCCAAAATCATGCAAAACTGAGTCGGGGTCCCGGAACGTGGTTTTAGCAAAAAACCGTGA
521 TTTGCGCCAAAATCATGCAAAACTGAGCCGGGGTCCCGGAACGCGGTTTTAGCAAAAAACCGTGA
* * * **
4126 TGGTTAGTACATGATTTCAGCGAAAGTTTTGCAAAAACTGACCCGAAAAATTTTTCCTCAAACTT
586 TGGTTAGTACACGATTTCAGCAAAACTGATGCAAAAACTGACCC---AAATTTTTCCTCAAACTT
4191 TTTGCCACAATAGTAA
648 TTTGCCACAATAGTAA
*
4207 GAAAAAATACACAATTCAACGC-AAAAAA-ATTGAAATATTTTTCTC-TTTTAAGATATCATTTT
1 GAAAAAATACACAATTCAACGCAAAAAAACATTGAAATATTTTTCTCGCTTTAA-ATATCATTTT
4269 TCTATTTTTTTCCGAATCTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTAAAAACAAA
65 TCTATTTTTTT-CGAATCTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGT-AAAACAAA
*
4334 TCCTTAAATCTAATGTGGCTGAGAGCCTGAGATTGGTTAGATGAATATAGATATTTCAATGAGTC
128 TCCTTAAATCTAAAGTGGCTGAGAGCCTGAGATTGGTTAGATGAATATAGATATTTCAATGAGTC
* *
4399 TTTCTGCCAAAAATCATGCAAAACTGAGCTGGGGC-CCTCGAAACGCGTTTTCAGC-CTAAAAAC
193 TTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCGCC-CGAAACGCATTTTCAGCAC-AAAAAC
* *
4462 CATGATGGTTAGTACACGATTTTCGGCTTAAATCTAACCCGAAATTTTTTTTTTCTGAATTTTTT
256 CATGATGGTTAGTACACGATTTTCGGCTAAAAACTAACCCG-AATTTTTTTTTTCTGAATTTTTT
* * * * * *
4527 GCCACAATACTCAG-AAAAAATATATAATTCAATACCAAAAATATTGATGGTCTTTTCACGCTTT
320 GACACAATACTAAGAAAAAAATATATAATTCAACACCAAAAAGATTGATGGTCTTGTCAAGCTTT
* *
4591 TAATATCATTTTTCCAATTTTTTTTCTGAATGAATTTCTAATTATATCGAAACAAGATTCAGATA
385 TAATATCATTTTTCCAATTCTTTTTC-GAATGAATTTCTAATTAAATCGAAACAAGATTCAGATA
* * *
4656 TTCGTAAAAACAAATCCTTATATCCAATGTCGCAT-ACATTTGGTTTGATGAATATAGATATTTC
449 CTCGTAAAAACAAATCATTATATCCAATGTCGC-TGACATTTGGTGTGATGAATATAGATATTTC
* * * * * *
4720 AAGGAGTGTTTGCGCCAAAAATCATGCAAAATTGAGCCGGGGTTCGGGAACGCGTTTTTAGCCAA
513 AAGGAGTCTTTGCGCC-AAAATCATGCAAAACTGAGCCGGGGTCCCGGAACGCGGTTTTAGCAAA
* * *
4785 AAATCGTGATTGTTAGTACACGATTTCGGCTAAAAACTGAT-CAAA
577 AAACCGTGATGGTTAGTACACGATTTCAGC--AAAACTGATGCAAA
4830 TTTTTTTCTC
Statistics
Matches: 568, Mismatches: 44, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
663 5 0.01
664 38 0.07
665 53 0.09
666 255 0.45
667 140 0.25
668 68 0.12
669 4 0.01
670 5 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (663 bp):
GAAAAAATACACAATTCAACGCAAAAAAACATTGAAATATTTTTCTCGCTTTAAATATCATTTTT
CTATTTTTTTCGAATCTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTAAAACAAATCC
TTAAATCTAAAGTGGCTGAGAGCCTGAGATTGGTTAGATGAATATAGATATTTCAATGAGTCTTT
CTGCCAAAAATCATGCAAAACTGAGCCGGGGCGCCCGAAACGCATTTTCAGCACAAAAACCATGA
TGGTTAGTACACGATTTTCGGCTAAAAACTAACCCGAATTTTTTTTTTCTGAATTTTTTGACACA
ATACTAAGAAAAAAATATATAATTCAACACCAAAAAGATTGATGGTCTTGTCAAGCTTTTAATAT
CATTTTTCCAATTCTTTTTCGAATGAATTTCTAATTAAATCGAAACAAGATTCAGATACTCGTAA
AAACAAATCATTATATCCAATGTCGCTGACATTTGGTGTGATGAATATAGATATTTCAAGGAGTC
TTTGCGCCAAAATCATGCAAAACTGAGCCGGGGTCCCGGAACGCGGTTTTAGCAAAAAACCGTGA
TGGTTAGTACACGATTTCAGCAAAACTGATGCAAAAACTGACCCAAATTTTTCCTCAAACTTTTT
GCCACAATAGTAA
Found at i:5922 original size:324 final size:317
Alignment explanation
Indices: 5129--6595 Score: 1516
Period size: 324 Copynumber: 4.5 Consensus size: 317
5119 ATTGAAAAAT
* * * * *
5129 TTTTCTCGCTTTAATTATTATTTTTCTATTCTTTTCCGAATCT-ATTTCTAATTAAATCGAAACA
1 TTTTCACGCTTTAAATATCATTTTTCAATTTTTTTCCGAAT-TAATTTCTAATTAAATCGAAACA
* * * * *
5193 ATATTCATATGCTCGTAAAAAAAATCCTTAAATCTAATGTGGTGAGAGCCTGAGATTGGTTAGAT
65 AGATTCAGATGCTCGTAAAACAAATCCTTAAATCCAATGTGGT-AGA--C--A-TTTGGTTAGAT
*
5258 GAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCCAGA
124 GAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGG-CACCAGA
* *
5323 ACGCGTTTTTAGCCCAAAAACCGTGATGGTTAGTACACGAATTTCGTCTAAAAACTGACCCGAAT
188 ACGCGTTTTTAG-CCAAAAACCGTGATGGTTAGTACACG-ATTTCGGCTAAAAACTGACCCGAAA
* **
5388 TTTTTTTTCTGTA-TTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTG
251 GTTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGA-T-
5452 ATGGTC
314 A--GTC
* * *
5458 TTTTCACGCTTTTAATATCATTTTTCCAATTTTTTTCCGAATTAATATCTAATTAAATTGAAACA
1 TTTTCACGCTTTAAATATCATTTTT-CAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
* * * *
5523 AGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTTGTTGACATTTGGTTTGATGAATA
65 AGATTCAGATGCTCGT-AAAACAAATCCTTAAATCCAATGTGGTAGACATTTGGTTAGATGAATA
* * * * *
5588 TAGATATTTCAAGGAGTCTTTGC-GCCAAAAATCATACAAAATTGAGTCGGGGCACGAGAACGCC
129 TAGATATTTCAAGGAGTCTTT-CTGCCAAAAATCATGCAAAACTGAGCCGGGGCACCAGAACGCG
* * *
5652 TTTTTAGCCAAAAACCGTGATTGTTAGTACACGATTTCGGCTAAAAACTGATCAGAAAAGTTTTT
193 TTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCG-AAAGTTTTT
* * *
5717 TTCTCAATTTTTTGCCACAATACTCAG-AAAAATTTATAATTCAACGCCAAAAAGA-A-TA
257 TTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATAGTC
* * *
5775 TTTTCTCGCTTTAAATATCATTTTTCTATTATTTTTCCGAATCT-ATTTCAAATTAAATCGAAAC
1 TTTTCACGCTTTAAATATCATTTTTCAATT-TTTTTCCGAAT-TAATTTCTAATTAAATCGAAAC
* * * * *
5839 AATATTCAAATGCTCGTAAATATAAATCCTTAAATCTAATGTGGCTGAGAGCCTGGGATTGGTTA
64 AAGATTCAGATGCTCGTAAA-ACAAATCCTTAAATCCAATGTGG-T-AGA-CAT----TTGGTTA
* * *
5904 GATGAATATAGGTATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCGCCC
121 GATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCACCA
* * * *
5969 G--CGCATTTTTATCACAAAAACCATGATGGTTAGTACACGATTTTCGGCTAAAAATTGACCCGA
186 GAACGCGTTTTTAGC-CAAAAACCGTGATGGTTAGTACACGA-TTTCGGCTAAAAACTGACCCGA
*** * * *
6032 TTTTTTTTCTTCTGAATCTTTTGCCACAATACTTAGAAAAAATATATAATTCAACACCAAAAAGA
249 AAGTTTTT-TTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGA
6097 TTGATGGTC
313 -T-A--GTC
* * *
6106 TTTTCACGCTTTTAATATCATTTTCCCAATTCATTTT-CGAATTAATTTCTAATTAAATCGAAAC
1 TTTTCACGCTTTAAATATCATTTT-TCAATT-TTTTTCCGAATTAATTTCTAATTAAATCGAAAC
* * * *
6170 AAGATTCAGGTGCTCGTAAAAGCAAATCATTATATCCAATGTGGCT-GACATTTGGTTTGATGAA
64 AAGATTCAGATGCTCGTAAAA-CAAATCCTTAAATCCAATGTGG-TAGACATTTGGTTAGATGAA
* * * * *
6234 TATAGATATTTCAAGGAGTCTTTGC-GCCAAAAATAATGCAAAATTGAGTCGGGGCTCGAGAACG
127 TATAGATATTTCAAGGAGTCTTT-CTGCCAAAAATCATGCAAAACTGAGCCGGGGCACCAGAACG
* * * * * * *
6298 CGTTTTTTGGCAAAAACCGTGATGG-T--TACACGATTTTGGATAAAAAGTGATCGGAACAG-TT
191 CGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAA-AGTTT
* *
6359 TTTTCTCAATTTTTTGCCACAATACTCTGAAAAAATATATAATTCAACGCCAAAAAGATTGACGG
255 TTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGA-T-A--G
*
6424 GC
316 TC
* * * * *
6426 TTTTCACGCTTCT-ATTATCGTTTTTTCCA-TTTTTTCCGAATTAATTTTTAATTAAATTGAAAC
1 TTTTCACGCTT-TAAATATC-ATTTTTCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAAC
* * * * ** * *
6489 AAGATTCAGATGCTCGTAAAAACAAATACTTAAATCGAACGTGACT-GGGATTTTGTTCGATGAA
64 AAGATTCAGATGCTCGT-AAAACAAATCCTTAAATCCAATGTG-GTAGACATTTGGTTAGATGAA
* *
6553 TATAGATATTTCAAGGAGTACTTAC-GACAAAAATCATGCAAAA
127 TATAGATATTTCAAGGAGT-CTTTCTGCCAAAAATCATGCAAAA
6596 ACAAAAAAAA
Statistics
Matches: 962, Mismatches: 136, Indels: 90
0.81 0.11 0.08
Matches are distributed among these distances:
316 7 0.01
317 86 0.09
318 6 0.01
319 111 0.12
320 86 0.09
321 26 0.03
322 36 0.04
323 94 0.10
324 204 0.21
325 102 0.11
326 10 0.01
328 4 0.00
329 24 0.02
330 51 0.05
331 107 0.11
332 8 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (317 bp):
TTTTCACGCTTTAAATATCATTTTTCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAA
GATTCAGATGCTCGTAAAACAAATCCTTAAATCCAATGTGGTAGACATTTGGTTAGATGAATATA
GATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCACCAGAACGCGTTT
TTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAGTTTTTTTCT
CAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATAGTC
Found at i:7261 original size:323 final size:328
Alignment explanation
Indices: 6665--7735 Score: 1327
Period size: 323 Copynumber: 3.3 Consensus size: 328
6655 TATTTTCCTC
* * * * * **
6665 GCTTTAAATATCATTTTTCTATTTTTTTTTCCGAATCT-ATTTCTGATTAAATTGAAACACTATT
1 GCTTTTAATATCATTTTTCCA-ATTTTTTTCCGAAT-TAATTTCTAATTAAATCGAAACAAGATT
*
6729 CAGATGCTCGTAAAAACAAATCCTTAAATCTAATGGGGCTGAGAGCCTGAGATTGGTTAGATGAA
64 CAGATGCTCGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGA--CTGAGATTGGTTAGATGAA
* * *
6794 TATAGATATTTCAAGGAGTCTTTCTGCCAAGAATCAGGCAAAACTGAGCCGGGGCCCCTGAAATG
127 TATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCC-GAAACG
* * *
6859 CGTTTTTAGCCAAAAAATCGTGATGGTTGTACACGATTTTCGGCTAAAAACTGACCTGAATTTTT
191 CGTTTTTAGCC-AAAAACCGTGATGGTAGTACACGATTTTCGGCTAAAAACTGACCCGAATTTTT
* *
6924 TTTTCTGC-ATTTTTTGACACAATACTAAGAAAAAAATATATAATTCAACACCAAAAAGATTGAT
255 TTTTCT-CAATTTTTTGCCACAATACTCAG-AAAAAATATATAATTCAACACCAAAAAGATTGAT
6988 GGTCTTTTCAT
318 GGTCTTTTCAT
* * *
6999 GCTTTTAATATGATTTTTCCAATTTTTTTCCGAATTAATTTCTAAGTAAATCGAAACAAGAAT-A
1 GCTTTTAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCA
* * * * *
7063 GATGCTCGTAAAAACAAATCCTTATATCCAATGTGG-T-TGA-T-A-TTTGGTTTGATGAATATA
66 GATGCTCGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGACTGAGATTGGTTAGATGAATATA
* * * * * *
7123 GATATTTCAAGGAGTTTTTGC-GCCAAAAATCATGCAAAATTGAGTCGGGGCTCGGGAACGCGTT
131 GATATTTCAAGGAGTCTTT-CTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTT
* * * ***
7187 TTTAGCCAAAAACCGTGATGGGTAGTACACGA-TTTCGGATAAAAACTGATCGGAACAATTTTTT
195 TTTAGCCAAAAACCGTGAT-GGTAGTACACGATTTTCGGCTAAAAACTGACCCGAATTTTTTTTT
* *
7251 CTCAATTTTTTGCCACAATACTCAG-AAAAATATATAATTCAACGCCAAAAAGA---AT-AT-TT
259 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGATGGTCTT
7310 TTC-T
324 TTCAT
* ** *
7314 -CGTTTTAAATATCATTTTT-CTATTTTTTTCCGAATCCATTTCTAATTAAATCGAAACAATATT
1 GC-TTTT-AATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATT
* *
7377 CAGATGCTCGTAAATACAAATCTTTAAATCTAATGTGGCTGAGAGCCTGAGATTGGTTAGATGAA
64 CAGATGCTCGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGA--CTGAGATTGGTTAGATGAA
7442 TATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCGCCCGAAACG
127 TATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGC-CCCGAAACG
* * * * *
7507 CATTTTTAGCACAAAAACCATGATAGTTAGTACATGATTTTCGGCTAAAAACTGACCCGATTTTT
191 CGTTTTTAGC-CAAAAACCGTGAT-GGTAGTACACGATTTTCGGCTAAAAACTGACCCGAATTTT
* * *
7572 TTTCTTCTGAATATTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCCAAAAGATTGAT
254 TTT-TTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGAT
*
7637 GGTCTTTTCAA
318 GGTCTTTTCAT
* *
7648 GCTTTTAATATCATTTTCCCAA-TATTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCA
1 GCTTTTAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCA
* *
7712 GATGCTCGTAAAAGCAAACCCTTA
66 GATGCTCGTAAAAACAAATCCTTA
7736 TATGGGTGAG
Statistics
Matches: 624, Mismatches: 85, Indels: 57
0.81 0.11 0.07
Matches are distributed among these distances:
314 1 0.00
315 43 0.07
316 49 0.08
317 2 0.00
318 4 0.01
321 28 0.04
322 3 0.00
323 120 0.19
324 41 0.07
325 83 0.13
326 25 0.04
327 26 0.04
328 26 0.04
330 2 0.00
331 3 0.00
332 36 0.06
333 107 0.17
334 24 0.04
335 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (328 bp):
GCTTTTAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCA
GATGCTCGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGACTGAGATTGGTTAGATGAATATA
GATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTT
TTAGCCAAAAACCGTGATGGTAGTACACGATTTTCGGCTAAAAACTGACCCGAATTTTTTTTTCT
CAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGATGGTCTTTT
CAT
Found at i:7941 original size:28 final size:28
Alignment explanation
Indices: 7905--7965 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
7895 TAATAATTAT
*
7905 ATATTATTATATATGTAATTATATATATCTA
1 ATATTATTATATA--T-ATAATATATATCTA
*
7936 ATATTATTATATATATAATATATATTTA
1 ATATTATTATATATATAATATATATCTA
7964 AT
1 AT
7966 TATAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 14 0.50
29 1 0.04
31 13 0.46
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (28 bp):
ATATTATTATATATATAATATATATCTA
Found at i:7958 original size:19 final size:20
Alignment explanation
Indices: 7898--7974 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 20
7888 AACCGTTTAA
7898 TAATTATATATTATTATATATG
1 TAATTATATA-TA-TATATATG
*
7920 TAATTATATATATCTAATAT-
1 TAATTATATATATAT-ATATG
* *
7940 TATTATATATATAATATATATT
1 TAAT-TATATAT-ATATATATG
*
7962 TAATTATAAATAT
1 TAATTATATATAT
7975 TAGTAAACGG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
20 7 0.15
21 23 0.50
22 16 0.35
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (20 bp):
TAATTATATATATATATATG
Found at i:9338 original size:322 final size:324
Alignment explanation
Indices: 8619--9432 Score: 948
Period size: 322 Copynumber: 2.5 Consensus size: 324
8609 GCTTTAAATG
*
8619 TCATTTTT-CTATTTTTTTCCGAATCT-ATTTCTAATTAAATCGAAACAATATTCAGATGCTCGT
1 TCATTTTTCCT-TTTTTTTCCGAAT-TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT
* *
8682 AAAAACAAATCCTTAAATCTAATGTGGCTGGGAGTCTGAGATTGGTTAGATGAATATAGATATTT
64 AAAAACAAATCCTTAAATCCAATGTGGCT--GA--C--AG-TTTGTTAGATGAATATAGATATTT
* *
8747 CAAGGAGTCTTTCTGCCAAAAATCAA-ACAAAACTGAGCTGGGGCGCCCGAAACGCATTTTTAAC
122 CAAGGAGTCTTTC-GTCAAAAAT-AATGCAAAACTGAGCTGGGGCGCCCGAAACGCATTTTTAAC
* * *
8811 ACAAAAACAACGATGGTTAGTACACGATTTTCGGCTAAAAACTGACCCGAAATTTTATTTCTGAA
185 ACAAAAACAACGATGGTTAGTACACGATTTTAGGATAAAAACTGACCCGAAATTTTATTTCTCAA
* * *
8876 TCTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAATGATTGATGGTCTCTTCAC
250 TCTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGGGCTCTTCAC
*
8941 GCTTTTAATA
315 GCTTCTAATA
* *
8951 TCATTTTTCCAATTCTTTTT-CGAATTAATTTCTAAGTAAATCGAAACAAGATTCAGATGCTCGT
1 TCATTTTTCC--TTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT
** * *
9015 AAAAGTAAATCCTTATATCCAATGTGGCTGACA-TTTGATTTGATGAATATAGATATTTCAAGGA
64 AAAAACAAATCCTTAAATCCAATGTGGCTGACAGTTTG-TTAGATGAATATAGATATTTCAAGGA
* ** * * * *
9079 GTCTTTGCGTCAAAAATAATGCAAAATTGAG-TCGGGG-TTCGGGAACGCGTTTTTAGC-CAAAA
128 GTCTTT-CGTCAAAAATAATGCAAAACTGAGCT-GGGGCGCCCGAAACGCATTTTTAACACAAAA
*** * * *
9141 ACCGTGATGGTTAGTACACGA-TTTAGGATAAAAACTGATCGGAACA-TTT-TTTCTCAATTTTT
191 ACAACGATGGTTAGTACACGATTTTAGGATAAAAACTGACCCGAA-ATTTTATTTCTCAATCTTT
* * * *
9203 TGCCACAATACTCAGAAAAAATATATAATTTAACGCCAAAAAGATTGACGGGCTTTTCATGCTTC
255 TGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGGGCTCTTCACGCTTC
*
9268 TATTA
320 TAATA
* * *
9273 TCCTTTTTCCTTTTTTTTCCGAATTAATTTTTAATTAAATTGAAACAAGATTCAGATGCCTCGTA
1 TCATTTTTCCTTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATG-CTCGTA
* * * ** * *
9338 AAAACAAATACTTAAATCGAACGTGGCTGGGATTTTGTTCGATGAATATAGATATTTCAAGGAGT
65 AAAACAAATCCTTAAATCCAATGTGGCTGACAGTTTGTTAGATGAATATAGATATTTCAAGGAGT
* *
9403 ATTTACGTCAAAAATCATGCAAAACTGAGC
130 CTTT-CGTCAAAAATAATGCAAAACTGAGC
9433 CGGTGCTAAA
Statistics
Matches: 415, Mismatches: 54, Indels: 35
0.82 0.11 0.07
Matches are distributed among these distances:
320 7 0.02
321 36 0.09
322 163 0.39
323 26 0.06
324 24 0.06
325 20 0.05
326 52 0.13
327 2 0.00
329 1 0.00
331 2 0.00
332 9 0.02
333 66 0.16
334 6 0.01
335 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (324 bp):
TCATTTTTCCTTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAA
AAACAAATCCTTAAATCCAATGTGGCTGACAGTTTGTTAGATGAATATAGATATTTCAAGGAGTC
TTTCGTCAAAAATAATGCAAAACTGAGCTGGGGCGCCCGAAACGCATTTTTAACACAAAAACAAC
GATGGTTAGTACACGATTTTAGGATAAAAACTGACCCGAAATTTTATTTCTCAATCTTTTGCCAC
AATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGGGCTCTTCACGCTTCTAATA
Found at i:9948 original size:29 final size:28
Alignment explanation
Indices: 9894--9952 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
9884 ATAATAATAT
*
9894 TAATAAAAAATTGAATCATCTAAAAAAA
1 TAATAAAAAATTAAATCATCTAAAAAAA
*
9922 TAATAAAAAAGTTAAATGA-CTATAAAAAA
1 TAATAAAAAA-TTAAATCATCTA-AAAAAA
9951 TA
1 TA
9953 CTTCTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.25
Consensus pattern (28 bp):
TAATAAAAAATTAAATCATCTAAAAAAA
Found at i:18221 original size:21 final size:22
Alignment explanation
Indices: 18197--18238 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
18187 TAAACAAAGT
18197 CCCAATTTTTAGATT-ATAGTG
1 CCCAATTTTTAGATTCATAGTG
18218 CCCAATTTTTAGATTCATAGT
1 CCCAATTTTTAGATTCATAGT
18239 ACTCAAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (22 bp):
CCCAATTTTTAGATTCATAGTG
Found at i:20941 original size:2 final size:2
Alignment explanation
Indices: 20934--20973 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
20924 ATTAATTAGG
20934 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.