Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01012812.1 Corchorus capsularis cultivar CVL-1 contig12833, 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: 42807
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:3321 original size:20 final size:20
Alignment explanation
Indices: 3292--3346 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
3282 TTTATTTTTT
*
3292 TATATATAATTATATAATA-
1 TATATATAATTATATAAAAC
*
3311 TATATTATAATTACATAAAAC
1 TATA-TATAATTATATAAAAC
3332 TATAGTAT-ATTATAT
1 TATA-TATAATTATAT
3347 TTATCCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 4 0.13
20 19 0.63
21 7 0.23
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
TATATATAATTATATAAAAC
Found at i:8768 original size:23 final size:24
Alignment explanation
Indices: 8726--8773 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
8716 ATACAAGTAT
8726 TATTATAGTATAAATAATTGTAAA
1 TATTATAGTATAAATAATTGTAAA
8750 TATTATAGTAT-AATAATTGTAAA
1 TATTATAGTATAAATAATTGTAAA
8773 T
1 T
8774 CTAATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (24 bp):
TATTATAGTATAAATAATTGTAAA
Found at i:8885 original size:15 final size:17
Alignment explanation
Indices: 8860--8893 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
8850 AATAGTTATT
8860 TTTAGATTATAAT-ATA
1 TTTAGATTATAATAATA
8876 TTTA-ATTATAATAATA
1 TTTAGATTATAATAATA
8892 TT
1 TT
8894 ATTTTTAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAGATTATAATAATA
Found at i:11185 original size:576 final size:569
Alignment explanation
Indices: 10120--11163 Score: 1386
Period size: 576 Copynumber: 1.8 Consensus size: 569
10110 AAATTGATCC
* *
10120 AATACTTTACATGTACAATAGAAATTGGTCTAATTGTCGAGGTTGTCAAGACTAAAGTTTCCTAT
1 AATACTTTACATGTACAATAAAAATTGGTCTAATTGCCGAGGTTGTCAAGACTAAAGTTTCCTAT
*
10185 GCCAAGGAAAAAAATTGTTGGAATTTACTTCCATCTAGCAAGTTTCCAAGATTATAATTGGGCGA
66 GCCAAGGAAAAAAATTGCTGGAATTTACTTCCATCTAGCAAGTTTCCAAGATTATAATTGGGCGA
* ** * *
10250 TTTTCCAAAGTAGTGCTTCAATATTCTTTACAAAAAATTTTAAAAAATGGTTTAATTCTTTATAT
131 TTTTCCAAAGCAG-G--TC-ATATTCTTTACAAAAAATTAAAAAAAATGGTTAAATTCTTTACAT
*
10315 CATCTAACCAAATCTCAACAACATGTTGGATTTAAAGATTTGTTTTTCCGAGCATTTGAATCTTA
192 CATCTAACCAAATCTCAACAACA-GTTGGATTTAAAGATTTGTTTTTACGAGCATTTGAATCTTA
* **
10380 TTTCGATTTAATTAGAAATTAATTAAAAAAAGAAAAACGATATTAAAAGTGTGAAAAGTCCTCCA
256 TTTCAATTTAATTAGAAATTAATTAAAAAAAGAAAAACGATATTAAAAGCATGAAAAGTCCTCCA
*
10445 ATTTTTTTGACGTTGAATTATATATTTTTATGAGTATTTTAGACAAAAATTGAAGAGAAATCTTT
321 ATTTTTTTGACGTTGAATTATATATTTTTATGAGTATTTAAGACAAAAATTGAAGAGAAATCTTT
* * * * * *
10510 CGTGTCAATTTTTGCAAAATTTTACTCGAAATCGTGTAGTAACCATCACGGTTTTTGACTAAAAA
386 CATGTCAATTTTCGCAAAATTTTACACGAAACCGTGTAGTAACCATCACGGGTTGTGACTAAAAA
* *
10575 TGCGTTATGAGGACCCAGCTCAGTTTTGCATGATTATTAATGCAGAGGCTTCTTGAAATATCTAT
451 CGCGTTATCAGGACCCAGCTCAGTTTTGCATGATTATTAATGCAGAGGCTTCTTGAAATATCTAT
10640 ATATATCTAATCGCATCTCAGCCACATTTGATTTAAGGATTTGTAAATTGGTTT
516 ATATATCTAATCGCATCTCAGCCACATTTGATTTAAGGATTTGTAAATTGGTTT
**
10694 AATACTTTACATGTTTAA-AAAAATTGGTCTAA-TGCCGAGGTTGTCAAGACTAAAGTTTCCTAT
1 AATACTTTACATGTACAATAAAAATTGGTCTAATTGCCGAGGTTGTCAAGACTAAAGTTTCCTAT
* * * * ** *
10757 GCTAAGGAAAAAAATTGCTGGAATTTGCTTTCGTC-AGACAAGTTTCCCTCGATTATAATTGGGT
66 GCCAAGGAAAAAAATTGCTGGAATTTACTTCCATCTAG-CAAGTTT-CCAAGATTATAATTGGGC
* *
10821 GATTTTCCAAAGCA-G-C-TATTCTTTCCGATAAAATTAAAAAAAAATGGTTAAAATAT-TTTAC
129 GATTTTCCAAAGCAGGTCATATTCTTTAC-AAAAAATT-AAAAAAAATGGTT-AAAT-TCTTTAC
* * *
10882 ATCATCTAACCAAATTTCAGCAACA-TTGGATTTAAGGATTTGTTTTTACGAGCATTTGAATCTT
190 ATCATCTAACCAAATCTCAACAACAGTTGGATTTAAAGATTTGTTTTTACGAGCATTTGAATCTT
* *
10946 GTTTCAATTTAATTAGGAATTAATTTAAAAAAATAAGAAAAACGATATTAAAAGCATGAAAAG-C
255 ATTTCAATTTAATTAGAAATTAA-TT--AAAAA-AAGAAAAACGATATTAAAAGCATGAAAAGTC
* * * *
11010 CTTCCAATCTTTAATTTTGGCTGTTGAATTATATATTTTTGTGAGTATTTAAGCCAAAAATTGAG
316 C-TCCAA--TTT--TTTTGAC-GTTGAATTATATATTTTTATGAGTATTTAAGACAAAAATTGAA
* * * * * *
11075 GAGAAATCTTTTATGTGAATTTTCGCAAAATTTTAGACGAAACCGTGTATTGACTATCACGGGTT
375 GAGAAATCTTTCATGTCAATTTTCGCAAAATTTTACACGAAACCGTGTAGTAACCATCACGGGTT
* * *
11140 GTGGCTAAGAACGCGTTCTCAGGA
440 GTGACTAAAAACGCGTTATCAGGA
11164 TCTGACTCAA
Statistics
Matches: 404, Mismatches: 50, Indels: 30
0.83 0.10 0.06
Matches are distributed among these distances:
566 9 0.02
567 64 0.16
568 14 0.03
569 30 0.07
570 8 0.02
571 35 0.09
572 67 0.17
573 44 0.11
574 16 0.04
575 6 0.01
576 111 0.27
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (569 bp):
AATACTTTACATGTACAATAAAAATTGGTCTAATTGCCGAGGTTGTCAAGACTAAAGTTTCCTAT
GCCAAGGAAAAAAATTGCTGGAATTTACTTCCATCTAGCAAGTTTCCAAGATTATAATTGGGCGA
TTTTCCAAAGCAGGTCATATTCTTTACAAAAAATTAAAAAAAATGGTTAAATTCTTTACATCATC
TAACCAAATCTCAACAACAGTTGGATTTAAAGATTTGTTTTTACGAGCATTTGAATCTTATTTCA
ATTTAATTAGAAATTAATTAAAAAAAGAAAAACGATATTAAAAGCATGAAAAGTCCTCCAATTTT
TTTGACGTTGAATTATATATTTTTATGAGTATTTAAGACAAAAATTGAAGAGAAATCTTTCATGT
CAATTTTCGCAAAATTTTACACGAAACCGTGTAGTAACCATCACGGGTTGTGACTAAAAACGCGT
TATCAGGACCCAGCTCAGTTTTGCATGATTATTAATGCAGAGGCTTCTTGAAATATCTATATATA
TCTAATCGCATCTCAGCCACATTTGATTTAAGGATTTGTAAATTGGTTT
Found at i:13058 original size:99 final size:99
Alignment explanation
Indices: 12887--13080 Score: 257
Period size: 99 Copynumber: 2.0 Consensus size: 99
12877 TGCATTCCAA
* * * * *
12887 AGTCGGGCTGTTGGTATTATTTCGAGGATGACCGTTGGCCTGCTTTGGTGTAGATTCCGCTACCT
1 AGTCGGGCTGCTGGTATTATTTCGAAGATGACCGTTGGCCTGATTTGGTGAAGATTCCGATACCT
*
12952 CTTTCCGGCTTTCCAGAAAAACAGAGTCATTCAG
66 CTTTCCGGCTCTCCAGAAAAACAGAGTCATTCAG
* * *
12986 AGTCGGGCTGCTGGTATTGA-TTCGAAGATGATCGTTGGCCTGATTTGGTGGAAG-TTTCGATAT
1 AGTCGGGCTGCTGGTATT-ATTTCGAAGATGACCGTTGGCCTGATTTGGT-GAAGATTCCGATAC
* *
13049 CTCTTTCCGGCTCTCTAGTAAAACAGAGTCAT
64 CTCTTTCCGGCTCTCCAGAAAAACAGAGTCAT
13081 CACTCTAAAC
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
99 78 0.95
100 4 0.05
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (99 bp):
AGTCGGGCTGCTGGTATTATTTCGAAGATGACCGTTGGCCTGATTTGGTGAAGATTCCGATACCT
CTTTCCGGCTCTCCAGAAAAACAGAGTCATTCAG
Found at i:14679 original size:29 final size:29
Alignment explanation
Indices: 14646--14721 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
14636 ACTTGTAGCG
14646 TTTGGACGTTTTGCCCCATAAACTTCAAT
1 TTTGGACGTTTTGCCCCATAAACTTCAAT
* * * * * *
14675 TTTGGACATTTTACCCCCTGAATTTTAAT
1 TTTGGACGTTTTGCCCCATAAACTTCAAT
14704 TTTGGGACGTTTTGCCCC
1 TTT-GGACGTTTTGCCCC
14722 CTCATGCTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 26 0.68
30 12 0.32
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.41
Consensus pattern (29 bp):
TTTGGACGTTTTGCCCCATAAACTTCAAT
Found at i:14935 original size:29 final size:29
Alignment explanation
Indices: 14882--14958 Score: 118
Period size: 29 Copynumber: 2.6 Consensus size: 29
14872 TTAGGTTGAG
14882 GGGGCAAAACGTCCCAAAATTGAAGTTCAT
1 GGGGCAAAACGT-CCAAAATTGAAGTTCAT
* *
14912 GGGGCAAAATGTCCTAAATTGAAGTTCAT
1 GGGGCAAAACGTCCAAAATTGAAGTTCAT
*
14941 GGAGCAAAACGTCCAAAA
1 GGGGCAAAACGTCCAAAA
14959 ACTACAAGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 31 0.74
30 11 0.26
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.19
Consensus pattern (29 bp):
GGGGCAAAACGTCCAAAATTGAAGTTCAT
Found at i:15884 original size:331 final size:326
Alignment explanation
Indices: 14999--16105 Score: 1105
Period size: 329 Copynumber: 3.4 Consensus size: 326
14989 TAAGTCTTGA
*
14999 GAAAAGCCCTTCAATCTTTTTGGAGTTGAATTATATATTTTTTATAAGTATTTTAGTCAAAAATT
1 GAAAAGCCCTTCAATCTTTTTGGAGTTGAA-T-TATATTTTTTATGAGTATTTTAGTCAAAAATT
* * * *
15064 GA-AAAAATATCTTTCAGGTCAATTTTTGCAAAATTTTATCCGAAATCGTGTAC-TAACCATCAA
64 GAGGAAAATA--TTTCTGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACGT--TCATCAA
* ** * * * * * *
15127 GGTTTTTGGCTAAAAACACGTTCCAGGATCCC-GACTCAGTTTTGCATGATTTTTAGCGCCAAGA
125 GGTTTTTGGTTAAAAATGCGTTACGGGA-CCCTGGCTCAATTTTGCATGATTTTTGGCGCCGAGA
* * * * * * *
15191 CTCCTTTAGATATCCATATTCATCTAACCAAATCCCATCCACACATTGAATTTAA--CTTCTTTT
189 CTCCTTGAAATATCTATATTCATCTAACCAAATCTCA-AC-CACATTGAATTTAAGGATTGTTTT
* * * *
15254 TACGAGCATCTGAATTTTGTTTCGATTTAATTAGAATTTAATTCCGAAAAATATGAAAAAAAACG
252 TACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAAT-T-ATAAAAAACG
15319 ATATTAAAAGCGT
314 ATATTAAAAGCGT
** * * * * *
15332 GAAAAATCCTTCAGTCTTTTTGGCGTTAAATTATA--TATTATGAGTATTTTAGTCAAAAATTGC
1 GAAAAGCCCTTCAATCTTTTTGGAGTTGAATTATATTTTTTATGAGTATTTTAGTCAAAAATTGA
* * * * * *
15395 GGAAAA-ATCTTACGGGTTATTTTTTGC-AAATTCTATG-CGAAATCGTGTATGTTACTATCACG
66 GGAAAATAT-TT-CTGGTCAATTTTTGCAAAATTTTA-GCCGAAATCGTGTACGTT-C-ATCAAG
* * *
15457 GTTTTTGGTTAAAAATGCGTTTCAGGACCCTGGCT-AAGTTTAGCAT-ATTTTTGGCGCCGAGAC
126 GTTTTTGGTTAAAAATGCGTTACGGGACCCTGGCTCAA-TTTTGCATGATTTTTGGCGCCGAGAC
* * * *
15520 TCATTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTA
190 TCCTTGAAATATCTATATTCATCTAACCAAATCTCAACCACATTGAATTTAAGGA-TTGTTTTTA
* *
15585 TGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAGTTCAGAAAATTATAAAAAACGATATT
254 CGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAATTATAAAAAACGATATT
15650 AAAAGCGT
319 AAAAGCGT
* * *
15658 GAAAAGTCCTCCAATCTTTTTGGAGTTGAATTATAAATTTTTTTATGATTATTTTAAG-CAAAAA
1 GAAAAGCCCTTCAATCTTTTTGGAGTTGAATTAT--A-TTTTTTATGAGTATTTT-AGTCAAAAA
* * * *
15722 CTGAGGAAAATATTTCTGGTCAATTTTTGCAAAATATTAGCCGAAAATCGCGTACGTTCATCATG
62 TTGAGGAAAATATTTCTGGTCAATTTTTGCAAAATTTTAGCCG-AAATCGTGTACGTTCATCAAG
* * * * *
15787 GTTTTTGGTTAAAAATGCGTTACGGGGCCCTGGTTCAATTTTGCTTGATTTTTGGTGCTGAGACT
126 GTTTTTGGTTAAAAATGCGTTACGGGACCCTGGCTCAATTTTGCATGATTTTTGGCGCCGAGACT
* * * *
15852 CCTTGAAATATCTATATTCATCTAACCAAATCTCAACTACATTGGATTTAAGGATTGTTCTAACG
191 CCTTGAAATATCTATATTCATCTAACCAAATCTCAACCACATTGAATTTAAGGATTGTTTTTACG
* * * * * *
15917 AGCATCTGATTCATGTTTCGATTTAATTATAAATTAATTCGGAAAA-AATAGGAAAAACAATATT
256 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAATTATA--AAAAACGATATT
* *
15981 AGAAGTGT
319 AAAAGCGT
* * * * * * *
15989 GAAAAGCCCTTAAATCTTTTTGGCGTTTAATTATATTTTTTTATGAATATTGT-GGCTTAAAATT
1 GAAAAGCCCTTCAATCTTTTTGGAGTTGAATTATA-TTTTTTATGAGTATTTTAGTC-AAAAATT
*
16053 GAAGGAAAATATTT-TGGGGT-AATTTTTGTAAAATTTTAGCCGAAATCGTGTAC
64 G-AGGAAAATATTTCT--GGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
16106 AATCACGGTT
Statistics
Matches: 647, Mismatches: 96, Indels: 66
0.80 0.12 0.08
Matches are distributed among these distances:
326 64 0.10
327 4 0.01
328 78 0.12
329 161 0.25
330 140 0.22
331 158 0.24
332 17 0.03
333 25 0.04
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (326 bp):
GAAAAGCCCTTCAATCTTTTTGGAGTTGAATTATATTTTTTATGAGTATTTTAGTCAAAAATTGA
GGAAAATATTTCTGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACGTTCATCAAGGTTTT
TGGTTAAAAATGCGTTACGGGACCCTGGCTCAATTTTGCATGATTTTTGGCGCCGAGACTCCTTG
AAATATCTATATTCATCTAACCAAATCTCAACCACATTGAATTTAAGGATTGTTTTTACGAGCAT
CTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAATTATAAAAAACGATATTAAAAGCG
T
Found at i:16146 original size:331 final size:326
Alignment explanation
Indices: 14999--16207 Score: 853
Period size: 331 Copynumber: 3.7 Consensus size: 326
14989 TAAGTCTTGA
*
14999 GAAAAGCCCTTC-AATCTTTTTGGAGTTGAATTAT-ATATTTTTTAT-AAGTATT-TTAGTCAAA
1 GAAAAGCCC-TCAAATCTTTTTGGAGTTGAATTATAAT-TTTTTTATGAA-TATTGTAAG-CAAA
* * * * * *
15060 AATTGA-AAAAATATCTTTCAGGTCAATTTTTGCAAAATTTTATCCG-AAATCGTGTACTAACCA
62 AACTGAGGAAAATA--TTTCTGGTCAATTTTTGCAAAATATTAGCCGAAAATCGCGTACT-A--A
* * * * * * ** * * *
15123 TCAAGGTTTTTGGCTAAAAACACGTTCCAGGATCCC-GACTCAGTTTTGCATGATTTTTAGCGCC
122 TCACGGTTTTTGGTTAAAAACGCATTACGGGGCCCCGGA-TCAATTTTGCAT-ATTTTTGGTG-C
* * * * * * * * *
15187 AAGACTCCTTTAGATATCCATATTCATCTAACCAAATCCCATCCACACATTGAATTTAA--CTTC
184 GAGACTCATTGAAATATCTATATTCATCTAACCAAATCTCA-AC-CACATTGCATTTAAGGATT-
* ** * * *
15250 T-TT-TTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAATTTAATTCCGAAAAATATGAAAA
246 TGTTCTAACGAGCATCTGAATCATGTTTCGATTTAATTAGAAATTAATTCAG-AAAATA--ATAA
*
15313 AAAACGATATTAAAAGCGT
308 AAAACAATATTAAAAGCGT
* * * * * * * *
15332 GAAAAATCCTTC-AGTCTTTTTGGCGTTAAATTAT-A---TATTATGAGTATT-TTAGTCAAAAA
1 G-AAAAGCCCTCAAATCTTTTTGGAGTTGAATTATAATTTTTTTATGAATATTGTAAG-CAAAAA
* * * * * * *
15391 TTGCGGAAAA-ATCTTACGGGTTATTTTTTGC-AAAT-TCTATG-CG-AAATCGTGTATGTTACT
64 CTGAGGAAAATAT-TT-CTGGTCAATTTTTGCAAAATAT-TA-GCCGAAAATCGCGTA--CTA--
* * * * * * * * *
15451 ATCACGGTTTTTGGTTAAAAATGCGTTTCAGGACCCTGGCT-AAGTTTAGCATATTTTTGGCGCC
121 ATCACGGTTTTTGGTTAAAAACGCATTACGGGGCCCCGGATCAA-TTTTGCATATTTTTGGTG-C
* *
15515 GAGACTCATTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGT
184 GAGACTCATTGAAATATCTATATTCATCTAACCAAATCTCAACCACATTGCATTTAAGGATTTGT
* * * * * * *
15580 TTTTATGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAGTTCAGAAAATTATAAAAAACG
249 TCTAACGAGCATCTGAATCATGTTTCGATTTAATTAGAAATTAATTCAGAAAATAATAAAAAACA
15645 ATATTAAAAGCGT
314 ATATTAAAAGCGT
* * * *
15658 GAAAAGTCCTCCAATCTTTTTGGAGTTGAATTATAAATTTTTTTATGATTATTTTAAGCAAAAAC
1 GAAAAGCCCTCAAATCTTTTTGGAGTTGAATTAT-AATTTTTTTATGAATATTGTAAGCAAAAAC
* *
15723 TGAGGAAAATATTTCTGGTCAATTTTTGCAAAATATTAGCCGAAAATCGCGTACGTTCATCATGG
65 TGAGGAAAATATTTCTGGTCAATTTTTGCAAAATATTAGCCGAAAATCGCGTAC--TAATCACGG
* * * * *
15788 TTTTTGGTTAAAAATGCGTTACGGGGCCCTGGTTCAATTTTGCTTGATTTTTGGTGCTGAGACTC
128 TTTTTGGTTAAAAACGCATTACGGGGCCCCGGATCAATTTTGCAT-ATTTTTGGTGC-GAGACTC
* * *
15853 CTTGAAATATCTATATTCATCTAACCAAATCTCAACTACATTGGATTTAAGGA-TTGTTCTAACG
191 ATTGAAATATCTATATTCATCTAACCAAATCTCAACCACATTGCATTTAAGGATTTGTTCTAACG
* * *
15917 AGCATCTGATTCATGTTTCGATTTAATTATAAATTAATTCGGAAAA-AATAGGAAAAACAATATT
256 AGCATCTGAATCATGTTTCGATTTAATTAGAAATTAATTCAGAAAATAATA--AAAAACAATATT
* *
15981 AGAAGTGT
319 AAAAGCGT
* * * * * *
15989 GAAAAGCCCTTAAATCTTTTTGGCGTTTAATTAT-ATTTTTTTATGAATATTGT-GGCTTAAAAT
1 GAAAAGCCCTCAAATCTTTTTGGAGTTGAATTATAATTTTTTTATGAATATTGTAAGC-AAAAAC
* * *
16052 TGAAGGAAAATATTT-TGGGGT-AATTTTTGTAAAATTTTAGCCG-AAATCGTGTAC-AATCACG
65 TG-AGGAAAATATTTCT--GGTCAATTTTTGCAAAATATTAGCCGAAAATCGCGTACTAATCACG
** * * *
16113 GTTTTTTTTTTAACTAAAAACGCATTTCGGGGCCCCGGATCAGTTTTGCATATTTTTGACGT-CA
127 G--TTTTTGGT---TAAAAACGCATTACGGGGCCCCGGATCAATTTTGCATATTTTTG--GTGCG
*
16177 AGACTCATTAAAATATCTATATTCATCTAAC
185 AGACTCATTGAAATATCTATATTCATCTAAC
16208 TATATGCCTA
Statistics
Matches: 719, Mismatches: 112, Indels: 93
0.78 0.12 0.10
Matches are distributed among these distances:
325 7 0.01
326 61 0.08
327 4 0.01
328 84 0.12
329 155 0.22
330 180 0.25
331 181 0.25
332 18 0.03
333 23 0.03
334 6 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (326 bp):
GAAAAGCCCTCAAATCTTTTTGGAGTTGAATTATAATTTTTTTATGAATATTGTAAGCAAAAACT
GAGGAAAATATTTCTGGTCAATTTTTGCAAAATATTAGCCGAAAATCGCGTACTAATCACGGTTT
TTGGTTAAAAACGCATTACGGGGCCCCGGATCAATTTTGCATATTTTTGGTGCGAGACTCATTGA
AATATCTATATTCATCTAACCAAATCTCAACCACATTGCATTTAAGGATTTGTTCTAACGAGCAT
CTGAATCATGTTTCGATTTAATTAGAAATTAATTCAGAAAATAATAAAAAACAATATTAAAAGCG
T
Found at i:16200 original size:330 final size:326
Alignment explanation
Indices: 14999--16207 Score: 878
Period size: 330 Copynumber: 3.7 Consensus size: 326
14989 TAAGTCTTGA
*
14999 GAAAAGCCCTTC-AATCTTTTTGGAGTTGAATTAT-ATATTTTTTAT-AAGTATT-TTAGTCAAA
1 GAAAAGCCC-TCAAATCTTTTTGGAGTTGAATTATAAT-TTTTTTATGAA-TATTGTAAG-CAAA
* * * * * *
15060 AATTGA-AAAAATATCTTTCAGGTCAATTTTTGCAAAATTTTATCCG-AAATCGTGTACTAACCA
62 AACTGAGGAAAATA--TTTCTGGTCAATTTTTGCAAAATATTAGCCGAAAATCGCGTACT-A--A
* * * * * * ** *
15123 TCAAGGTTTTTGGCTAAAAACACGTTCCAGGATCCC-GACTCAGTTTTGCATGATTTTTAGCGCC
122 TCACGGTTTTTGGTTAAAAACGCATTACGGGGCCCCGGA-TCAGTTTTGCAT-ATTTTT-GCGTC
* * * * * * * * *
15187 AAGACTCCTTTAGATATCCATATTCATCTAACCAAATCCCATCCACACATTGAATTTAA--CTTC
184 GAGACTCATTGAAATATCTATATTCATCTAACCAAATCTCA-AC-CACATTGCATTTAAGGATT-
* ** * * *
15250 T-TT-TTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAATTTAATTCCGAAAAATATGAAAA
246 TGTTCTAACGAGCATCTGAATCATGTTTCGATTTAATTAGAAATTAATTCAG-AAAATA--ATAA
*
15313 AAAACGATATTAAAAGCGT
308 AAAACAATATTAAAAGCGT
* * * * * * * *
15332 GAAAAATCCTTC-AGTCTTTTTGGCGTTAAATTAT-A---TATTATGAGTATT-TTAGTCAAAAA
1 G-AAAAGCCCTCAAATCTTTTTGGAGTTGAATTATAATTTTTTTATGAATATTGTAAG-CAAAAA
* * * * * * *
15391 TTGCGGAAAA-ATCTTACGGGTTATTTTTTGC-AAAT-TCTATG-CG-AAATCGTGTATGTTACT
64 CTGAGGAAAATAT-TT-CTGGTCAATTTTTGCAAAATAT-TA-GCCGAAAATCGCGTA--CTA--
* * * * * * * * * *
15451 ATCACGGTTTTTGGTTAAAAATGCGTTTCAGGACCCTGGCTAAGTTTAGCATATTTTTGGCGCCG
121 ATCACGGTTTTTGGTTAAAAACGCATTACGGGGCCCCGGATCAGTTTTGCATATTTTT-GCGTCG
* *
15516 AGACTCATTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTT
185 AGACTCATTGAAATATCTATATTCATCTAACCAAATCTCAACCACATTGCATTTAAGGATTTGTT
* * * * * * *
15581 TTTATGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAGTTCAGAAAATTATAAAAAACGA
250 CTAACGAGCATCTGAATCATGTTTCGATTTAATTAGAAATTAATTCAGAAAATAATAAAAAACAA
15646 TATTAAAAGCGT
315 TATTAAAAGCGT
* * * *
15658 GAAAAGTCCTCCAATCTTTTTGGAGTTGAATTATAAATTTTTTTATGATTATTTTAAGCAAAAAC
1 GAAAAGCCCTCAAATCTTTTTGGAGTTGAATTAT-AATTTTTTTATGAATATTGTAAGCAAAAAC
* *
15723 TGAGGAAAATATTTCTGGTCAATTTTTGCAAAATATTAGCCGAAAATCGCGTACGTTCATCATGG
65 TGAGGAAAATATTTCTGGTCAATTTTTGCAAAATATTAGCCGAAAATCGCGTAC--TAATCACGG
* * * * * *
15788 TTTTTGGTTAAAAATGCGTTACGGGGCCCTGGTTCAATTTTGCTTGATTTTTG-GTGCTGAGACT
128 TTTTTGGTTAAAAACGCATTACGGGGCCCCGGATCAGTTTTGCAT-ATTTTTGCGT-C-GAGACT
* * *
15852 CCTTGAAATATCTATATTCATCTAACCAAATCTCAACTACATTGGATTTAAGGA-TTGTTCTAAC
190 CATTGAAATATCTATATTCATCTAACCAAATCTCAACCACATTGCATTTAAGGATTTGTTCTAAC
* * *
15916 GAGCATCTGATTCATGTTTCGATTTAATTATAAATTAATTCGGAAAA-AATAGGAAAAACAATAT
255 GAGCATCTGAATCATGTTTCGATTTAATTAGAAATTAATTCAGAAAATAATA--AAAAACAATAT
* *
15980 TAGAAGTGT
318 TAAAAGCGT
* * * * * *
15989 GAAAAGCCCTTAAATCTTTTTGGCGTTTAATTAT-ATTTTTTTATGAATATTGT-GGCTTAAAAT
1 GAAAAGCCCTCAAATCTTTTTGGAGTTGAATTATAATTTTTTTATGAATATTGTAAGC-AAAAAC
* * *
16052 TGAAGGAAAATATTT-TGGGGT-AATTTTTGTAAAATTTTAGCCG-AAATCGTGTAC-AATCACG
65 TG-AGGAAAATATTTCT--GGTCAATTTTTGCAAAATATTAGCCGAAAATCGCGTACTAATCACG
** * *
16113 GTTTTTTTTTTAACTAAAAACGCATTTCGGGGCCCCGGATCAGTTTTGCATATTTTTGACGTCAA
127 G--TTTTTGGT---TAAAAACGCATTACGGGGCCCCGGATCAGTTTTGCATATTTTTG-CGTCGA
*
16178 GACTCATTAAAATATCTATATTCATCTAAC
186 GACTCATTGAAATATCTATATTCATCTAAC
16208 TATATGCCTA
Statistics
Matches: 718, Mismatches: 114, Indels: 91
0.78 0.12 0.10
Matches are distributed among these distances:
325 7 0.01
326 61 0.08
327 4 0.01
328 83 0.12
329 158 0.22
330 182 0.25
331 176 0.25
332 18 0.03
333 23 0.03
334 6 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (326 bp):
GAAAAGCCCTCAAATCTTTTTGGAGTTGAATTATAATTTTTTTATGAATATTGTAAGCAAAAACT
GAGGAAAATATTTCTGGTCAATTTTTGCAAAATATTAGCCGAAAATCGCGTACTAATCACGGTTT
TTGGTTAAAAACGCATTACGGGGCCCCGGATCAGTTTTGCATATTTTTGCGTCGAGACTCATTGA
AATATCTATATTCATCTAACCAAATCTCAACCACATTGCATTTAAGGATTTGTTCTAACGAGCAT
CTGAATCATGTTTCGATTTAATTAGAAATTAATTCAGAAAATAATAAAAAACAATATTAAAAGCG
T
Found at i:16511 original size:48 final size:48
Alignment explanation
Indices: 16428--16531 Score: 120
Period size: 48 Copynumber: 2.2 Consensus size: 48
16418 AGACGAGCAT
* * * *
16428 TCATTTTCGGTAATAAGGCCCCTAGTCGAGCAGTAAGGCCAATTGACA
1 TCATTTTCGGCAATAAGACCCCGAGTCGAGCAGTAAGGCCAATCGACA
* ***
16476 TCATTTTCGGCAATAAGACCCCGAGTCG-GTTAGTAAGGTTGATCGACA
1 TCATTTTCGGCAATAAGACCCCGAGTCGAG-CAGTAAGGCCAATCGACA
16524 TCATTTTC
1 TCATTTTC
16532 AGCGCTAAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.02
48 46 0.98
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
TCATTTTCGGCAATAAGACCCCGAGTCGAGCAGTAAGGCCAATCGACA
Found at i:16836 original size:31 final size:29
Alignment explanation
Indices: 16792--16862 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
16782 CTTAAAGCCC
*
16792 TTTTTGCCCCTAAACTTGTACGATTTT-GACG
1 TTTTGGCCCCTAAA-TTGTA--ATTTTAGACG
* *
16823 TTTTGGCCTCTAAATTTTAATTTTAGACG
1 TTTTGGCCCCTAAATTGTAATTTTAGACG
*
16852 TTTTGCCCCCT
1 TTTTGGCCCCT
16863 GAACTTGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 5 0.15
29 13 0.38
30 4 0.12
31 12 0.35
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (29 bp):
TTTTGGCCCCTAAATTGTAATTTTAGACG
Found at i:21209 original size:33 final size:32
Alignment explanation
Indices: 21172--21233 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
21162 GCGGCTGAGC
*
21172 CATGGCCAGGCCGCCCTCCTAGGGCGGCACTAT
1 CATGGCCAGGCCGCCC-CCCAGGGCGGCACTAT
* *
21205 CATGGCTAGGCCGCCCCCCGGGGCGGCAC
1 CATGGCCAGGCCGCCCCCCAGGGCGGCAC
21234 AGACCCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.42
33 15 0.58
ACGTcount: A:0.13, C:0.42, G:0.34, T:0.11
Consensus pattern (32 bp):
CATGGCCAGGCCGCCCCCCAGGGCGGCACTAT
Found at i:26818 original size:62 final size:62
Alignment explanation
Indices: 26739--26865 Score: 182
Period size: 62 Copynumber: 2.0 Consensus size: 62
26729 TTATTAAATT
* * *
26739 ATTATGATAATTACACTATTCTTGATAATGTCCTTATGGAATTTTGATAACCTTCATATGAA
1 ATTATGATAATTACACTATTCTTGATAACGTCCTTATGAAATTTTAATAACCTTCATATGAA
* * * * *
26801 ATTATGATAATTACACTATTTTTTATGACGTCCTTATGAAATTTTAATAAGCTTCCTATGAA
1 ATTATGATAATTACACTATTCTTGATAACGTCCTTATGAAATTTTAATAACCTTCATATGAA
26863 ATT
1 ATT
26866 TCAATAACGA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (62 bp):
ATTATGATAATTACACTATTCTTGATAACGTCCTTATGAAATTTTAATAACCTTCATATGAA
Found at i:27024 original size:45 final size:45
Alignment explanation
Indices: 26964--27051 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
26954 TGAAGACCTC
* * *
26964 ACTATAAAATTTTGATAACTTCCAAATGAAATTTTGATAACCAGT
1 ACTATAAAATATTGATAACCTCCAAATGAAATATTGATAACCAGT
* * *
27009 ACTATAAGATATTGATAACCTCCATATGATATATTGATAACCA
1 ACTATAAAATATTGATAACCTCCAAATGAAATATTGATAACCA
27052 CGTTATGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (45 bp):
ACTATAAAATATTGATAACCTCCAAATGAAATATTGATAACCAGT
Found at i:27126 original size:22 final size:22
Alignment explanation
Indices: 27101--27374 Score: 158
Period size: 22 Copynumber: 12.5 Consensus size: 22
27091 AATCACACTC
* **
27101 TGAAATTATGATAATCTCGTTA
1 TGAAATTTTGATAATCTCCCTA
*
27123 TGAAATTTTGATAAATCTTCCTA
1 TGAAATTTTGAT-AATCTCCCTA
*
27146 TAAAATTTTGATAAATCTCCCTA
1 TGAAATTTTGAT-AATCTCCCTA
* * *
27169 TAAAATTTTGATAACCTCCTTA
1 TGAAATTTTGATAATCTCCCTA
*
27191 TGAAATCTTGATAA-----CTA
1 TGAAATTTTGATAATCTCCCTA
* * *
27208 -CAAATTTTGATAACCTCCCCA
1 TGAAATTTTGATAATCTCCCTA
** * **
27229 TGATTTTTTGATAACCTCATTA
1 TGAAATTTTGATAATCTCCCTA
27251 TGAAATTTTGTTAATTAATCTCCCTA
1 TGAAATTTTG---A-TAATCTCCCTA
27277 TGAAATTTTGATAA-C-CCTCTTA
1 TGAAATTTTGATAATCTCC-C-TA
* **
27299 TGAAATTTTGA-AAACTAAACTA
1 TGAAATTTTGATAATCT-CCCTA
* * * *
27321 TGAAGTTTTGATAACCTTCATA
1 TGAAATTTTGATAATCTCCCTA
27343 TGAAATTTTGAT-ATCCTCCC--
1 TGAAATTTTGATAAT-CTCCCTA
27363 TGAAATTTTGAT
1 TGAAATTTTGAT
27375 TACTCCATAA
Statistics
Matches: 198, Mismatches: 36, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
16 11 0.06
17 2 0.01
20 14 0.07
21 7 0.04
22 99 0.50
23 46 0.23
25 1 0.01
26 18 0.09
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.41
Consensus pattern (22 bp):
TGAAATTTTGATAATCTCCCTA
Found at i:27151 original size:23 final size:23
Alignment explanation
Indices: 27103--27204 Score: 109
Period size: 23 Copynumber: 4.5 Consensus size: 23
27093 TCACACTCTG
* ** *
27103 AAATTATGAT-AATCTCGTTATG
1 AAATTTTGATAAATCTCCCTATA
*
27125 AAATTTTGATAAATCTTCCTATA
1 AAATTTTGATAAATCTCCCTATA
27148 AAATTTTGATAAATCTCCCTATA
1 AAATTTTGATAAATCTCCCTATA
* * *
27171 AAATTTTGAT-AACCTCCTTATG
1 AAATTTTGATAAATCTCCCTATA
*
27193 AAATCTTGATAA
1 AAATTTTGATAA
27205 CTACAAATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
22 27 0.40
23 41 0.60
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (23 bp):
AAATTTTGATAAATCTCCCTATA
Found at i:27434 original size:22 final size:22
Alignment explanation
Indices: 27274--27437 Score: 64
Period size: 22 Copynumber: 7.8 Consensus size: 22
27264 ATTAATCTCC
* *
27274 CTATGAAATTTTGATAACCCT-
1 CTATGAAATTTTGATAATCATA
* *
27295 CTTATGAAATTTTGA-AAACTAAA
1 C-TATGAAATTTTGATAATC-ATA
* * *
27318 CTATGAAGTTTTGATAA-CCTT
1 CTATGAAATTTTGATAATCATA
*
27339 CATATGAAATTTTGAT-ATCCT-
1 C-TATGAAATTTTGATAATCATA
** *
27360 CCCTGAAATTTTGATTACTCCATA
1 CTATGAAATTTTGA-TAAT-CATA
* * * *
27384 --ATAAAAGTTTAATAATC-TT
1 CTATGAAATTTTGATAATCATA
27403 CT-T--AA-TTTGATAATCATA
1 CTATGAAATTTTGATAATCATA
27421 CTATGAAATTTTGATAA
1 CTATGAAATTTTGATAA
27438 CCTCCCCAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 33
0.67 0.13 0.21
Matches are distributed among these distances:
17 9 0.08
18 5 0.05
19 2 0.02
20 13 0.12
21 13 0.12
22 59 0.56
23 5 0.05
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (22 bp):
CTATGAAATTTTGATAATCATA
Found at i:27478 original size:22 final size:22
Alignment explanation
Indices: 27453--27581 Score: 82
Period size: 22 Copynumber: 5.9 Consensus size: 22
27443 CCAGAAATAT
*
27453 CATTATGAAATTTTGGTAATCA
1 CATTATGAAATTTTGATAATCA
* ** * *
27475 CATTTTGAAAACTTGATAACCT
1 CATTATGAAATTTTGATAATCA
* *
27497 CTTTATGAAATTTTGATAATCT
1 CATTATGAAATTTTGATAATCA
* * * *
27519 C-TCTATAAAATTTTGTTGA-CC
1 CAT-TATGAAATTTTGATAATCA
* *
27540 CCTCTATGGAATTTTGATAATCA
1 CAT-TATGAAATTTTGATAATCA
* *
27563 TATTATGTAATTTTGATAA
1 CATTATGAAATTTTGATAA
27582 CCTTGCTTTG
Statistics
Matches: 81, Mismatches: 23, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
21 3 0.04
22 76 0.94
23 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (22 bp):
CATTATGAAATTTTGATAATCA
Found at i:27724 original size:37 final size:38
Alignment explanation
Indices: 27677--27753 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
27667 GTTGGAGATG
27677 AAGACAAAAAG-CAAAATAAAATACAACGATTGGAAACA
1 AAGACAAAAAGACAAAATAAAATACAACG-TTGGAAACA
* **
27715 AAGAC-AAAAGACAAAATTAAATAGGACGTTGGAAACA
1 AAGACAAAAAGACAAAATAAAATACAACGTTGGAAACA
27752 AA
1 AA
27754 AAGTCAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 16 0.46
38 19 0.54
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.12
Consensus pattern (38 bp):
AAGACAAAAAGACAAAATAAAATACAACGTTGGAAACA
Found at i:27907 original size:32 final size:32
Alignment explanation
Indices: 27871--27937 Score: 102
Period size: 31 Copynumber: 2.1 Consensus size: 32
27861 TTAGTAATGG
27871 CAATTTAGAAATATATTTTCAAAAA-AAGGGTA
1 CAATTTAGAAATATATTTT-AAAAATAAGGGTA
*
27903 CAA-TTGGAAATATATTTTAAAAATAAGGGTA
1 CAATTTAGAAATATATTTTAAAAATAAGGGTA
27934 CAAT
1 CAAT
27938 CGGAAAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 5 0.16
31 24 0.75
32 3 0.09
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.31
Consensus pattern (32 bp):
CAATTTAGAAATATATTTTAAAAATAAGGGTA
Found at i:27913 original size:31 final size:31
Alignment explanation
Indices: 27878--27943 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 31
27868 TGGCAATTTA
*
27878 GAAATATATTTTCAAAAA-AAGGGTACAATTG
1 GAAATATATTTT-AAAAATAAGGGTACAATCG
27909 GAAATATATTTTAAAAATAAGGGTACAATCG
1 GAAATATATTTTAAAAATAAGGGTACAATCG
27940 GAAA
1 GAAA
27944 ACATAAAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (31 bp):
GAAATATATTTTAAAAATAAGGGTACAATCG
Found at i:32224 original size:16 final size:16
Alignment explanation
Indices: 32199--32246 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
32189 GAATGAATGT
*
32199 CCAAGATCTAATATTG
1 CCAAGGTCTAATATTG
*
32215 CCAAGGTCTAATACTG
1 CCAAGGTCTAATATTG
32231 CCAAGGTCTAATATTG
1 CCAAGGTCTAATATTG
32247 ATTATGTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (16 bp):
CCAAGGTCTAATATTG
Found at i:34546 original size:288 final size:286
Alignment explanation
Indices: 34027--34582 Score: 851
Period size: 288 Copynumber: 1.9 Consensus size: 286
34017 ATTGATTTGT
* * *
34027 GGAGAAATTATTAGGTAGGATGGACCCACCACGTCATCCATGGGACTAACCAATGGAATCTTGAC
1 GGAGAAATTATTAGGTAGGACGGACCCACCACATCATCCATGGGACTAACCAATAGAATCTTGAC
* * * * *
34092 ATGTCAAATGACCTCCTTAAATTTAGGCACGATTTTAGTCCTAGGTTTAGCCCCCTTTTAAAATA
66 ATGTCAAATAAACTCCTTAAATTTAGGCACGATTTTAGCCCAAGGTTTAGCCCCCTTTTAAAACA
* * *
34157 AATCCTTTATAAAGGGTAAGTCCCCAAATTTGAGATATTATTGGGATAGGGTTTTAGAAAATTGA
131 AACCCTATATAAAGGGTAAGTCCCCAAATTTGAGATATTATTGGGATAAGGTTTTAGAAAATTGA
34222 TGAATTATCTTAATATCATTGGTTGGTCCCATAGATGACGTGGTGGGTCCGTCCCACCTAATAAT
196 TGAATTATCTTAATATCATTGGTTGGTCCCATAGATGACGTGGTGGGTCCGTCCCACCTAATAAT
34287 TTCTCTGACACTTAAAATGGATCGGA
261 TTCTCTGACACTTAAAATGGATCGGA
* * * *
34313 GGAGAAATTATTAGGTGGGACGGACCCACCACATCATCCATGGGACTAACTAATAGAATTTTGCC
1 GGAGAAATTATTAGGTAGGACGGACCCACCACATCATCCATGGGACTAACCAATAGAATCTTGAC
* * *
34378 ATGTCAAATAAATTCCTTAAAATTTAGGCTCGATTTTTAGCCCAAGGTTTAGCCCTCTTTTAAAA
66 ATGTCAAATAAACTCCTT-AAATTTAGGCACGA-TTTTAGCCCAAGGTTTAGCCCCCTTTTAAAA
* *
34443 CAAACCCTATATAAAGGGTAAGTCCTCAAATTTGAGATTTTATTGGGATAAGGTTTTAGAAAATT
129 CAAACCCTATATAAAGGGTAAGTCCCCAAATTTGAGATATTATTGGGATAAGGTTTTAGAAAATT
* * * * * * *
34508 GATGAGTTGTTTTCATATTATTTGTTGGTCCTATAGATGACGTGGTGGGTCCGTCCCACCTAATA
194 GATGAATTATCTTAATATCATTGGTTGGTCCCATAGATGACGTGGTGGGTCCGTCCCACCTAATA
34573 ATTTCTCTGA
259 ATTTCTCTGA
34583 TCGGAGGGAG
Statistics
Matches: 241, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
286 73 0.30
287 13 0.05
288 155 0.64
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (286 bp):
GGAGAAATTATTAGGTAGGACGGACCCACCACATCATCCATGGGACTAACCAATAGAATCTTGAC
ATGTCAAATAAACTCCTTAAATTTAGGCACGATTTTAGCCCAAGGTTTAGCCCCCTTTTAAAACA
AACCCTATATAAAGGGTAAGTCCCCAAATTTGAGATATTATTGGGATAAGGTTTTAGAAAATTGA
TGAATTATCTTAATATCATTGGTTGGTCCCATAGATGACGTGGTGGGTCCGTCCCACCTAATAAT
TTCTCTGACACTTAAAATGGATCGGA
Found at i:34801 original size:68 final size:68
Alignment explanation
Indices: 34689--34891 Score: 343
Period size: 68 Copynumber: 3.0 Consensus size: 68
34679 CAATTGAGGG
*
34689 TAAATTGGTCTTCACATGAATAATATCAAGATGAGTGGTTAAGATTTAAATACAAATCCTGAAGA
1 TAAATTGGTCTTCACATGAATAATATCAAGATGAGTGGTCAAGATTTAAATACAAATCCTGAAGA
34754 AAC
66 AAC
* *
34757 TAAATTGTTCTTCACATGAATAATATCAAGATGTGTGGTCAAGATTTAAATACAAATCCTGAAGA
1 TAAATTGGTCTTCACATGAATAATATCAAGATGAGTGGTCAAGATTTAAATACAAATCCTGAAGA
34822 AAC
66 AAC
* * * *
34825 TAAATTGGTCTTCACATGAATAATATCAAGATGAGTAGTCAAGATTAAAATATAAATCCTGATGA
1 TAAATTGGTCTTCACATGAATAATATCAAGATGAGTGGTCAAGATTTAAATACAAATCCTGAAGA
34890 AA
66 AA
34892 TTTAGTTTCT
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 126 1.00
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (68 bp):
TAAATTGGTCTTCACATGAATAATATCAAGATGAGTGGTCAAGATTTAAATACAAATCCTGAAGA
AAC
Done.