Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01015252.1 Corchorus capsularis cultivar CVL-1 contig15273, 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: 16476
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Found at i:407 original size:10 final size:10
Alignment explanation
Indices: 394--427 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
384 TTTTCCTAGC
394 TTTTGTATTT
1 TTTTGTATTT
* *
404 TTTTCTAATT
1 TTTTGTATTT
414 TTTTGTATTT
1 TTTTGTATTT
424 TTTT
1 TTTT
428 TCCAAATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (10 bp):
TTTTGTATTT
Found at i:3238 original size:21 final size:21
Alignment explanation
Indices: 3203--3263 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
3193 TGTTTGGAGC
*
3203 AAGAATATT-CCATCGATTCT
1 AAGAATATTACAATCGATTCT
* **
3223 ATGTCTATTACAATCGATTCT
1 AAGAATATTACAATCGATTCT
*
3244 AAGAATATTCCAATCGATTC
1 AAGAATATTACAATCGATTC
3264 CAAGTTATGC
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 6 0.19
21 26 0.81
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (21 bp):
AAGAATATTACAATCGATTCT
Found at i:7830 original size:33 final size:33
Alignment explanation
Indices: 7733--7837 Score: 140
Period size: 33 Copynumber: 3.2 Consensus size: 33
7723 TTGCAAAGAG
*
7733 TGTTTT-AGATGTTGTTTGCGATGATACTAAACC
1 TGTTTTAAG-TGTTGTTTGCGATGATACTAAATC
** * *
7766 TAATTTAAGTGTTGTTTGCAATGACACTAAATC
1 TGTTTTAAGTGTTGTTTGCGATGATACTAAATC
*
7799 TGTTTTAAGTGTTGTTTGTGATGATACTAAATC
1 TGTTTTAAGTGTTGTTTGCGATGATACTAAATC
7832 TGTTTT
1 TGTTTT
7838 GGATGCTAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
33 59 0.97
34 2 0.03
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.46
Consensus pattern (33 bp):
TGTTTTAAGTGTTGTTTGCGATGATACTAAATC
Found at i:7864 original size:33 final size:33
Alignment explanation
Indices: 7827--7938 Score: 100
Period size: 33 Copynumber: 3.4 Consensus size: 33
7817 TGATGATACT
* *
7827 AAATCTGTTTTGGATGCTAAT-TGTAATGAAAAC
1 AAATCTGTTTTGGATGATAATAT-CAATGAAAAC
* * *
7860 AAATCTGTTTTGGTTGATCATATCATTGAAAAC
1 AAATCTGTTTTGGATGATAATATCAATGAAAAC
* * * * * *
7893 AATTCTGTTTTGGATGGTCATAGCATTGAAAAT
1 AAATCTGTTTTGGATGATAATATCAATGAAAAC
*
7926 AATTCTGTTTTGG
1 AAATCTGTTTTGG
7939 GTGAAAAGAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
33 67 0.99
34 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (33 bp):
AAATCTGTTTTGGATGATAATATCAATGAAAAC
Found at i:8352 original size:30 final size:30
Alignment explanation
Indices: 8316--8374 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
8306 CAAGGGGGAG
8316 GGAATGATGCGCCCAAGG-CTTATCATGGAA
1 GGAATGATGCG-CCAAGGACTTATCATGGAA
*
8346 GGAATGATGCGCCAAGGACTTATTATGGA
1 GGAATGATGCGCCAAGGACTTATCATGGA
8375 CTTGAAGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (30 bp):
GGAATGATGCGCCAAGGACTTATCATGGAA
Found at i:8748 original size:192 final size:192
Alignment explanation
Indices: 8414--8794 Score: 735
Period size: 192 Copynumber: 2.0 Consensus size: 192
8404 TGATGATCAA
*
8414 GGGCTCGTGCTATGATGTCAATCCGGCCATCTAGAATCAATAGCAAGCAAAGTGATGAACTTGTA
1 GGGCTCATGCTATGATGTCAATCCGGCCATCTAGAATCAATAGCAAGCAAAGTGATGAACTTGTA
8479 ATTGATTTGTAATTTCTTGCCCAAATCATCACCAAAGCTCTTCAATTGAACTTCAATGGTCTTCA
66 ATTGATTTGTAATTTCTTGCCCAAATCATCACCAAAGCTCTTCAATTGAACTTCAATGGTCTTCA
* *
8544 AGTCTTCAAGATGAGTTCGAACAAGGCCCATGAGTGCATCCTTGAATCTCTTATCTCTTGTT
131 AGTCTTCAAGATGAGTTCGAACAAGGCCCATGAGTGCACCCTTGAATCTCTTAGCTCTTGTT
8606 GGGCTCATGCTATGATGTCAATCCGGCCATCTAGAATCAATAGCAAGCAAAGTGATGAACTTGTA
1 GGGCTCATGCTATGATGTCAATCCGGCCATCTAGAATCAATAGCAAGCAAAGTGATGAACTTGTA
8671 ATTGATTTGTAATTTCTTGCCCAAATCATCACCAAAGCTCTTCAATTGAACTTCAATGGTCTTCA
66 ATTGATTTGTAATTTCTTGCCCAAATCATCACCAAAGCTCTTCAATTGAACTTCAATGGTCTTCA
8736 AGTCTTCAAGATGAGTTCGAACAAGGCCCATGAGTGCACCCTTGAATCTCTTAGCTCTT
131 AGTCTTCAAGATGAGTTCGAACAAGGCCCATGAGTGCACCCTTGAATCTCTTAGCTCTT
8795 ACTCTTGTCA
Statistics
Matches: 186, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
192 186 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (192 bp):
GGGCTCATGCTATGATGTCAATCCGGCCATCTAGAATCAATAGCAAGCAAAGTGATGAACTTGTA
ATTGATTTGTAATTTCTTGCCCAAATCATCACCAAAGCTCTTCAATTGAACTTCAATGGTCTTCA
AGTCTTCAAGATGAGTTCGAACAAGGCCCATGAGTGCACCCTTGAATCTCTTAGCTCTTGTT
Found at i:10713 original size:2 final size:2
Alignment explanation
Indices: 10706--10744 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
10696 TAATATGACT
*
10706 TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
10745 ATGTTATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:10877 original size:38 final size:38
Alignment explanation
Indices: 10825--10900 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
10815 TTTATCCAGC
*
10825 TATAAGATGTACCACATTCACCCAA-GAACAATATATTA
1 TATAAGATGCACCACATTCACCCAATG-ACAATATATTA
10863 TATAAGATGCACCACATTCACCCAATGACAATATATTA
1 TATAAGATGCACCACATTCACCCAATGACAATATATTA
10901 AAATTGTGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 35 0.97
39 1 0.03
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.26
Consensus pattern (38 bp):
TATAAGATGCACCACATTCACCCAATGACAATATATTA
Found at i:12540 original size:50 final size:50
Alignment explanation
Indices: 12465--12712 Score: 442
Period size: 50 Copynumber: 4.9 Consensus size: 50
12455 ATGTGCCTTA
12465 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCATGGC
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCATGGC
* *
12515 TCATGGCAACCAAGTCCTCAAATGGCTCATGGCAACCAAGTCCCCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGT-CCC-CATGGC
*
12567 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCTATGGC
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCATGGC
12617 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCATGGC
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCATGGC
*
12667 TCATGGCAACCAAGTCCCCACATGGCTTATGGCAACCAAGTCCCCA
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCA
12713 CATGGCATAT
Statistics
Matches: 189, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
50 138 0.73
51 6 0.03
52 45 0.24
ACGTcount: A:0.27, C:0.37, G:0.19, T:0.17
Consensus pattern (50 bp):
TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCATGGC
Found at i:12616 original size:76 final size:75
Alignment explanation
Indices: 12465--12718 Score: 438
Period size: 76 Copynumber: 3.3 Consensus size: 75
12455 ATGTGCCTTA
12465 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCATGGCTCATGGCAACCAAGT
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCATGGCTCATGGCAACCAAGT
12530 CCTCAAATGGC
66 CC-CAAATGGC
12541 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAA
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGT-CCC-CATGGCTCATGGCAACCAA
*
12606 GTCCC-TATGGC
64 GTCCCAAATGGC
12617 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCATGGCTCATGGCAACCAAGT
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCATGGCTCATGGCAACCAAGT
*
12682 CCCCACATGGC
66 -CCCAAATGGC
*
12693 TTATGGCAACCAAGTCCCCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
12719 ATATGGAACT
Statistics
Matches: 171, Mismatches: 3, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
74 21 0.12
75 6 0.04
76 117 0.68
77 4 0.02
78 23 0.13
ACGTcount: A:0.27, C:0.37, G:0.20, T:0.17
Consensus pattern (75 bp):
TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCATGGCTCATGGCAACCAAGT
CCCAAATGGC
Found at i:12724 original size:26 final size:26
Alignment explanation
Indices: 12465--12718 Score: 430
Period size: 26 Copynumber: 10.0 Consensus size: 26
12455 ATGTGCCTTA
12465 TCATGGCAACCAAGTCCCCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
12491 TCATGGCAACCAAGT-CCC-CATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
* *
12515 TCATGGCAACCAAGTCCTCAAATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
12541 TCATGGCAACCAAGTCCCCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
12567 TCATGGCAACCAAGTCCCCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
*
12593 TCATGGCAACCAAGT-CCC-TATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
12617 TCATGGCAACCAAGTCCCCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
12643 TCATGGCAACCAAGT-CCC-CATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
12667 TCATGGCAACCAAGTCCCCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
*
12693 TTATGGCAACCAAGTCCCCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
12719 ATATGGAACT
Statistics
Matches: 215, Mismatches: 7, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
24 62 0.29
25 17 0.08
26 136 0.63
ACGTcount: A:0.27, C:0.37, G:0.20, T:0.17
Consensus pattern (26 bp):
TCATGGCAACCAAGTCCCCACATGGC
Found at i:13679 original size:32 final size:32
Alignment explanation
Indices: 13610--13685 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
13600 TACGACAACG
* *
13610 GAGATTTGCGGCAGTGGTGAGATACGACTGTA
1 GAGATTTGCGGCAGTAGTGAGATACGACTATA
* * *
13642 AAGATTTGCGGCAGTAGTGAGATACGGCTATC
1 GAGATTTGCGGCAGTAGTGAGATACGACTATA
*
13674 GAGATTTACGGC
1 GAGATTTGCGGC
13686 TGTGGGGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.25
Consensus pattern (32 bp):
GAGATTTGCGGCAGTAGTGAGATACGACTATA
Found at i:13872 original size:16 final size:16
Alignment explanation
Indices: 13851--13882 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13841 TTACAGCAAA
13851 CAAGCAATGCCGCACC
1 CAAGCAATGCCGCACC
*
13867 CAAGCAATGTCGCACC
1 CAAGCAATGCCGCACC
13883 TTAGTAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.41, G:0.19, T:0.09
Consensus pattern (16 bp):
CAAGCAATGCCGCACC
Found at i:14238 original size:50 final size:50
Alignment explanation
Indices: 13983--14534 Score: 557
Period size: 50 Copynumber: 11.2 Consensus size: 50
13973 CAACAATGAA
*
13983 GAGATGCGGCGTCAAACATCATGGCAT-AAGAAGTCTATTGGCATTAAGACAT
1 GAGATGCGGCGTCAAACATTATGGCATCAA-AAGTCTA-TGGCA-TAAGACAT
* * *
14035 GAGACGCGACGTCAAATC-TTATGGCAT-AAGAAGTCTATGGCGTAATGACAT
1 GAGATGCGGCGTCAAA-CATTATGGCATCAA-AAGTCTATGGCATAA-GACAT
* * *
14086 TAGACGCGGCGTCAAACATTATGGCATC--AAGTCTATGGCGTAATGACAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAA-GACAT
* *
14135 GAGATGCGGCGTTAAACATTATGGCATC--AAGTCTATGGCATAAGGCAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
* * *
14183 GAGATGCGGCGTCAAACATTACGGTATCAAAAGTCTATGGCATAAGGCAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
* *
14233 GAGATGCGGCGTCAAACATTATGGCAT-AAGAATTCTATGGCAAAAAGACAT
1 GAGATGCGGCGTCAAACATTATGGCATCAA-AAGTCTATGGC-ATAAGACAT
* * *
14284 GAGACGTGGCGTCAAACATTACGGCATCAAAAGTCTATGGCATAAGACAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
* * * **
14334 GAGATGTGGCGT----C---A-GGCATGAGAAGTCTATGGGGTAATGACAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAA-GACAT
* * * *
14377 GAGACGCGGCGTCAAACTTTATGGCATC--AAGTCTATGGCATTAGGCAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
* *
14425 GAGATGCAGCGTCAAACATTACT-GCATCAAAAGTCTATGGCATAAGGCAT
1 GAGATGCGGCGTCAAACATTA-TGGCATCAAAAGTCTATGGCATAAGACAT
* ** * * *
14475 GAGATGCGGCGTCAAACGTTCCGGCTTCAGAAGTCTATGGCATAAGAAAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
*
14525 GAGATACGGC
1 GAGATGCGGC
14535 ATAAGACATG
Statistics
Matches: 429, Mismatches: 49, Indels: 46
0.82 0.09 0.09
Matches are distributed among these distances:
42 19 0.04
43 16 0.04
46 1 0.00
47 1 0.00
48 56 0.13
49 75 0.17
50 148 0.34
51 78 0.18
52 34 0.08
53 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (50 bp):
GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
Found at i:14416 original size:242 final size:248
Alignment explanation
Indices: 13983--14491 Score: 728
Period size: 242 Copynumber: 2.1 Consensus size: 248
13973 CAACAATGAA
**
13983 GAGATGCGGCGTCAAACATCATGGCATAAGAAGTCTATTGGCATTAAGACATGAGACGCGACGTC
1 GAGATGCGGCGTCAAACATCATGGCATAAGAAGTCTATTGGCAAAAAGACATGAGACGCGACGTC
* * *
14048 AAATCTTATGGCATAAGAAGTCTATGGCGTAATGACATTAGACGCGGCGTCAAACATTATGGCAT
66 AAATCTTACGGCATAAGAAGTCTATGGCATAATGACATGAGACGCGGCGTCAAAC--TATGGCAT
* *
14113 CAAGTCTATGGCGTAATGACATGAGATGCGGCGTTAAACATTATGGCATCAAGTCTATGGCATAA
129 CAAGTCTATGGCGTAATGACATGAGACGCGGCGTCAAACATTATGGCATCAAGTCTATGGCATAA
* *
14178 GGCATGAGATGCGGCGTCAAACATTACGGTATCAAAAGTCTATGGCATAAGGCAT
194 GGCATGAGATGCAGCGTCAAACATTACGGCATCAAAAGTCTATGGCATAAGGCAT
* * * *
14233 GAGATGCGGCGTCAAACATTATGGCATAAGAATTCTA-TGGCAAAAAGACATGAGACGTGGCGTC
1 GAGATGCGGCGTCAAACATCATGGCATAAGAAGTCTATTGGCAAAAAGACATGAGACGCGACGTC
* * **
14297 AAA-CATTACGGCATCAA-AAGTCTATGGCATAA-GACATGAGATGTGGCGTCAGGC-AT-G-A-
66 AAATC-TTACGGCAT-AAGAAGTCTATGGCATAATGACATGAGACGCGGCGTCAAACTATGGCAT
* * * *
14355 GAAGTCTATGGGGTAATGACATGAGACGCGGCGTCAAACTTTATGGCATCAAGTCTATGGCATTA
129 CAAGTCTATGGCGTAATGACATGAGACGCGGCGTCAAACATTATGGCATCAAGTCTATGGCATAA
*
14420 GGCATGAGATGCAGCGTCAAACATTACTGCATCAAAAGTCTATGGCATAAGGCAT
194 GGCATGAGATGCAGCGTCAAACATTACGGCATCAAAAGTCTATGGCATAAGGCAT
14475 GAGATGCGGCGTCAAAC
1 GAGATGCGGCGTCAAAC
14492 GTTCCGGCTT
Statistics
Matches: 235, Mismatches: 22, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
242 128 0.54
243 1 0.00
244 1 0.00
245 2 0.01
248 18 0.08
249 48 0.20
250 37 0.16
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (248 bp):
GAGATGCGGCGTCAAACATCATGGCATAAGAAGTCTATTGGCAAAAAGACATGAGACGCGACGTC
AAATCTTACGGCATAAGAAGTCTATGGCATAATGACATGAGACGCGGCGTCAAACTATGGCATCA
AGTCTATGGCGTAATGACATGAGACGCGGCGTCAAACATTATGGCATCAAGTCTATGGCATAAGG
CATGAGATGCAGCGTCAAACATTACGGCATCAAAAGTCTATGGCATAAGGCAT
Found at i:14537 original size:19 final size:19
Alignment explanation
Indices: 14513--14561 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
14503 AGAAGTCTAT
14513 GGCATAAGAAATGAGATAC
1 GGCATAAGAAATGAGATAC
* *
14532 GGCATAAGACATGAGATGC
1 GGCATAAGAAATGAGATAC
*
14551 GGCATCAGAAA
1 GGCATAAGAAA
14562 CTTATGGCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (19 bp):
GGCATAAGAAATGAGATAC
Found at i:14720 original size:15 final size:15
Alignment explanation
Indices: 14700--14729 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14690 AACCGCGGGA
*
14700 GCTACGGTATAAGTC
1 GCTACGGCATAAGTC
14715 GCTACGGCATAAGTC
1 GCTACGGCATAAGTC
14730 CCAACCGCGG
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:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (15 bp):
GCTACGGCATAAGTC
Found at i:14773 original size:20 final size:20
Alignment explanation
Indices: 14740--14779 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14730 CCAACCGCGG
*
14740 GAGCTATGAAATAAGTCCCA
1 GAGCTATGAAATAAGCCCCA
**
14760 GAGCTATGGCATAAGCCCCA
1 GAGCTATGAAATAAGCCCCA
14780 ACTGCGGGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (20 bp):
GAGCTATGAAATAAGCCCCA
Found at i:14789 original size:47 final size:46
Alignment explanation
Indices: 14661--14790 Score: 144
Period size: 42 Copynumber: 2.9 Consensus size: 46
14651 CAACCGCAGC
**
14661 ATAAGTCCCAAAGCTATGGCATAA-CTCCCAACCGCGGGAGCTACGGT
1 ATAAGTCCC-AAGCTATGGCATAAGC-CCCAACCGCGGGAGCTACGAA
* * *
14708 ATAAGT--C--GCTACGGCATAAGTCCCAACCGCGGGAGCTATGAA
1 ATAAGTCCCAAGCTATGGCATAAGCCCCAACCGCGGGAGCTACGAA
*
14750 ATAAGTCCCAGAGCTATGGCATAAGCCCCAACTGCGGGAGC
1 ATAAGTCCCA-AGCTATGGCATAAGCCCCAACCGCGGGAGC
14791 CGTAGCCTGC
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
42 35 0.51
44 1 0.01
45 1 0.01
47 32 0.46
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.16
Consensus pattern (46 bp):
ATAAGTCCCAAGCTATGGCATAAGCCCCAACCGCGGGAGCTACGAA
Done.