Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01024081.1 Corchorus olitorius cultivar O-4 contig24114, 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: 37371
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:119 original size:41 final size:41
Alignment explanation
Indices: 54--133 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
44 TTAAGCAACA
*
54 ACTAACAAAAGTCGTTGAGAAAAGTTTAAGATTTCGCAATG
1 ACTAACAAAAGTCGCTGAGAAAAGTTTAAGATTTCGCAATG
* *
95 ACTAACAAAAGTCGCTGCGGAAAGTTTAAGATTTCGCAA
1 ACTAACAAAAGTCGCTGAGAAAAGTTTAAGATTTCGCAA
134 CAACTTAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (41 bp):
ACTAACAAAAGTCGCTGAGAAAAGTTTAAGATTTCGCAATG
Found at i:388 original size:132 final size:133
Alignment explanation
Indices: 89--403 Score: 533
Period size: 132 Copynumber: 2.4 Consensus size: 133
79 TTAAGATTTC
* *
89 GCAATGACTAACAAAAGTCGCTGCGGAAAGTTTAAGATTTCGCAACAACTTAATCTGTCGTTTCA
1 GCAACGACTAACAAAAGTCGCTGCGGAAAGTTTAAGATTTCGCAACGACTTAATCTGTCGTTTCA
* ** *
154 AAAGTAATCATAGTTTTTTGTAGCGACTTTCAAGGTCGTTGCGAAAATCAATTAGTAACATATAT
66 AAAGTAATCATAGTTTTTTGTAGCGACTTTCAAAGTCCCTGCGAAAATCAATTAGTAACATATAA
**
219 TTC
131 TAA
222 GCAACGACTAACAAAAGTCGCTGCGGAAAGTTTAAGATTTCGCAACGACTTAATCTGTCGTTTCA
1 GCAACGACTAACAAAAGTCGCTGCGGAAAGTTTAAGATTTCGCAACGACTTAATCTGTCGTTTCA
287 AAAGTAATCAT-GTTTTTTGTAGCGACTTTCAAAGTCCCTGCGAAAATCAATTAGTAACATATAA
66 AAAGTAATCATAGTTTTTTGTAGCGACTTTCAAAGTCCCTGCGAAAATCAATTAGTAACATATAA
351 TAA
131 TAA
* *
354 GCAACGACTAACAAAAGTCGTTGCGAAAAGTTTAAGATTTCGCAACGACT
1 GCAACGACTAACAAAAGTCGCTGCGGAAAGTTTAAGATTTCGCAACGACT
404 AACAAAATTC
Statistics
Matches: 172, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
132 98 0.57
133 74 0.43
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (133 bp):
GCAACGACTAACAAAAGTCGCTGCGGAAAGTTTAAGATTTCGCAACGACTTAATCTGTCGTTTCA
AAAGTAATCATAGTTTTTTGTAGCGACTTTCAAAGTCCCTGCGAAAATCAATTAGTAACATATAA
TAA
Found at i:425 original size:41 final size:41
Alignment explanation
Indices: 354--444 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
344 CATATAATAA
*
354 GCAACGACTAACAAAAGTCGTTGCGAAAAGTTTAAGATTTC
1 GCAACGACTAACAAAAGTCGCTGCGAAAAGTTTAAGATTTC
* * *
395 GCAACGACTAACAAAATTCGCTGTGGAAAGTTTAAGATTTC
1 GCAACGACTAACAAAAGTCGCTGCGAAAAGTTTAAGATTTC
436 GCAACGACT
1 GCAACGACT
445 TAATCTGTCG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (41 bp):
GCAACGACTAACAAAAGTCGCTGCGAAAAGTTTAAGATTTC
Found at i:425 original size:173 final size:173
Alignment explanation
Indices: 217--587 Score: 618
Period size: 173 Copynumber: 2.1 Consensus size: 173
207 AGTAACATAT
217 ATTTCGCAACGACTAACAAAAGTCGCTGCGGAAAGTTTAAGATTTCGCAACGACTTAATCTGTCG
1 ATTTCGCAACGACTAACAAAAGTCGCTGCGGAAAGTTTAAGATTTCGCAACGACTTAATCTGTCG
* *
282 TTTCAAAAGTAATCATGTTTTTTGTAGCGACTTTCAA-AGTCCCTGCGAAAATCAATTAGTAACA
66 TTTCAAAAATAATCATGTTTTTTGTAGCGACTTTCAAGA-TCACTGCGAAAATCAATTAGTAACA
**
346 TATAATAAGCAACGACTAACAAAAGTCGTTGCGAAAAGTTTAAG
130 TATAATAAGCAACGACTAACAAAAGTCGTTGCGAAAAGACTAAG
* *
390 ATTTCGCAACGACTAACAAAATTCGCTGTGGAAAGTTTAAGATTTCGCAACGACTTAATCTGTCG
1 ATTTCGCAACGACTAACAAAAGTCGCTGCGGAAAGTTTAAGATTTCGCAACGACTTAATCTGTCG
*
455 TTTCAAAAATAATCATGTTTTTTGTAGCGACTTTCAAGATCATTGCGAAAATCAATTAGTAACAT
66 TTTCAAAAATAATCATGTTTTTTGTAGCGACTTTCAAGATCACTGCGAAAATCAATTAGTAACAT
* * *
520 ATATTAAGCAACGACTAACAAAAGTCGTTGCGAGAAGACTATG
131 ATAATAAGCAACGACTAACAAAAGTCGTTGCGAAAAGACTAAG
* *
563 ATTTCGCAACGACTAATAGAAGTCG
1 ATTTCGCAACGACTAACAAAAGTCG
588 TTGTAAAACT
Statistics
Matches: 184, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
173 183 0.99
174 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (173 bp):
ATTTCGCAACGACTAACAAAAGTCGCTGCGGAAAGTTTAAGATTTCGCAACGACTTAATCTGTCG
TTTCAAAAATAATCATGTTTTTTGTAGCGACTTTCAAGATCACTGCGAAAATCAATTAGTAACAT
ATAATAAGCAACGACTAACAAAAGTCGTTGCGAAAAGACTAAG
Found at i:1806 original size:95 final size:95
Alignment explanation
Indices: 1643--1829 Score: 311
Period size: 95 Copynumber: 2.0 Consensus size: 95
1633 GGCAAACCTG
* * * *
1643 GTGTGGGGAGTTTTTTGTGGCAGTACGGCAAATGGACTGGTCTTTGCTCCAAGGGGCTCTGGGCC
1 GTGTGGGGAGCTTTTTGTGGCAGTACGGCAAATAGACTAGTCTTTGCTCCAAGGGGCTATGGGCC
1708 AGCCCCTTTCTTCAAGTGAGGGTTAAACTT
66 AGCCCCTTTCTTCAAGTGAGGGTTAAACTT
* *
1738 GTGTGGGGAGCTTTTTGTGGCGGTACGGCAAATAGACTAGTCTTTGCTCCAATGGGCTATGGGCC
1 GTGTGGGGAGCTTTTTGTGGCAGTACGGCAAATAGACTAGTCTTTGCTCCAAGGGGCTATGGGCC
*
1803 AGCCCCTTTCTTCGAGTGAGGGTTAAA
66 AGCCCCTTTCTTCAAGTGAGGGTTAAA
1830 TTTGAATCGG
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
95 85 1.00
ACGTcount: A:0.18, C:0.20, G:0.33, T:0.30
Consensus pattern (95 bp):
GTGTGGGGAGCTTTTTGTGGCAGTACGGCAAATAGACTAGTCTTTGCTCCAAGGGGCTATGGGCC
AGCCCCTTTCTTCAAGTGAGGGTTAAACTT
Found at i:1913 original size:37 final size:37
Alignment explanation
Indices: 1872--2037 Score: 208
Period size: 37 Copynumber: 4.5 Consensus size: 37
1862 ATAGTGCTTT
1872 GTAAGGAGAGCTCTGCGGTAAAGAGGGTGCTACCGCA
1 GTAAGGAGAGCTCTGCGGTAAAGAGGGTGCTACCGCA
* * * **
1909 GTAAGGAGAGCTTTGCGGTGAAGATGGGAGCCGCCGCA
1 GTAAGGAGAGCTCTGCGGTAAAGA-GGGTGCTACCGCA
* * *
1947 GTAACGAGAGCTCTGCGGTAAAGAGGGTGCTACTGCG
1 GTAAGGAGAGCTCTGCGGTAAAGAGGGTGCTACCGCA
* * *
1984 GTAAGG-GAAGCTCTGCCGTAAAAAGGGTGCTACCGCG
1 GTAAGGAG-AGCTCTGCGGTAAAGAGGGTGCTACCGCA
2021 GTAAGGAGAGCTCTGCG
1 GTAAGGAGAGCTCTGCG
2038 ATGAAGAGTG
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
36 1 0.01
37 75 0.69
38 32 0.30
ACGTcount: A:0.25, C:0.19, G:0.39, T:0.17
Consensus pattern (37 bp):
GTAAGGAGAGCTCTGCGGTAAAGAGGGTGCTACCGCA
Found at i:1984 original size:20 final size:20
Alignment explanation
Indices: 1959--2024 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
1949 AACGAGAGCT
1959 CTGCGGTAAAGAGGGTGCTA
1 CTGCGGTAAAGAGGGTGCTA
**
1979 CTGCGGT-AAG-GGAAGCT-
1 CTGCGGTAAAGAGGGTGCTA
* *
1996 CTGCCGTAAAAAGGGTGCTA
1 CTGCGGTAAAGAGGGTGCTA
*
2016 CCGCGGTAA
1 CTGCGGTAA
2025 GGAGAGCTCT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 6 0.17
18 7 0.20
19 8 0.23
20 14 0.40
ACGTcount: A:0.26, C:0.20, G:0.36, T:0.18
Consensus pattern (20 bp):
CTGCGGTAAAGAGGGTGCTA
Found at i:8104 original size:33 final size:33
Alignment explanation
Indices: 8067--8134 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
8057 GCTTATCATC
8067 TAGAATTACCACTTGGAGCTCGTGTTCATCCCA
1 TAGAATTACCACTTGGAGCTCGTGTTCATCCCA
8100 TAGAATTACCACTTGGAGCTCGTGTTCATCCCA
1 TAGAATTACCACTTGGAGCTCGTGTTCATCCCA
8133 TA
1 TA
8135 TTCCATGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (33 bp):
TAGAATTACCACTTGGAGCTCGTGTTCATCCCA
Found at i:9631 original size:11 final size:11
Alignment explanation
Indices: 9617--9641 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9607 AAAAAAAAAA
9617 AAAAATTAAAG
1 AAAAATTAAAG
9628 AAAAATTAAAG
1 AAAAATTAAAG
9639 AAA
1 AAA
9642 CAAATTGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (11 bp):
AAAAATTAAAG
Found at i:11122 original size:50 final size:50
Alignment explanation
Indices: 11063--11174 Score: 224
Period size: 50 Copynumber: 2.2 Consensus size: 50
11053 CTACTTCAAC
11063 AGAAAAATGCAAGAACTGGACCCTAAAAAGTAAAACCCATAGAATTTCTT
1 AGAAAAATGCAAGAACTGGACCCTAAAAAGTAAAACCCATAGAATTTCTT
11113 AGAAAAATGCAAGAACTGGACCCTAAAAAGTAAAACCCATAGAATTTCTT
1 AGAAAAATGCAAGAACTGGACCCTAAAAAGTAAAACCCATAGAATTTCTT
11163 AGAAAAATGCAA
1 AGAAAAATGCAA
11175 AGGATGCTGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (50 bp):
AGAAAAATGCAAGAACTGGACCCTAAAAAGTAAAACCCATAGAATTTCTT
Found at i:13251 original size:28 final size:28
Alignment explanation
Indices: 13211--13266 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
13201 GAGTTGACAC
13211 ATGTCCATTTTTTTAATTAATTAAGTTT
1 ATGTCCATTTTTTTAATTAATTAAGTTT
13239 ATGTCCATTTTTTTAATTAATTAAGTTT
1 ATGTCCATTTTTTTAATTAATTAAGTTT
13267 TAAATATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (28 bp):
ATGTCCATTTTTTTAATTAATTAAGTTT
Found at i:13425 original size:10 final size:10
Alignment explanation
Indices: 13365--13426 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
13355 ATAATTTGCC
13365 TAATATTATAT
1 TAATA-TATAT
13376 T-ATAT-T-T
1 TAATATATAT
*
13383 TATTAT-TAT
1 TAATATATAT
13392 TAAT-TATAAT
1 TAATATAT-AT
13402 ATAATATATAT
1 -TAATATATAT
13413 TAATATATAT
1 TAATATATAT
13423 TAAT
1 TAAT
13427 TTTTTTTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
7 2 0.05
8 6 0.14
9 6 0.14
10 19 0.44
11 7 0.16
12 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TAATATATAT
Found at i:14563 original size:104 final size:104
Alignment explanation
Indices: 14383--14802 Score: 768
Period size: 104 Copynumber: 4.0 Consensus size: 104
14373 TGTTTAGAGA
* *
14383 TTCACAAATAGCCTAGTAATTTATGTAAGTTCTTTCAGCAAGACAAGAAGATCTAATAATCGTTA
1 TTCACAAATAGCATAGTAATTTATGTAAGTTCTTTCAGCAAGACAAGAAGATCAAATAATCGTTA
14448 AGTTTATTTCATACTATTCGATGTCATATGGACAGTAGT
66 AGTTTATTTCATACTATTCGATGTCATATGGACAGTAGT
14487 TTCACAAATAGCATAGTAATTTATGTAAGTTCTTTCAGCAAGACAAGAAGATCAAATAATCGTTA
1 TTCACAAATAGCATAGTAATTTATGTAAGTTCTTTCAGCAAGACAAGAAGATCAAATAATCGTTA
*
14552 AGTTTATTTCATACTATTCGATGTCATATGGATAGTAGT
66 AGTTTATTTCATACTATTCGATGTCATATGGACAGTAGT
14591 TTCACAAATAGCATAGTAATTTATGTAAGTTCTTTCAGCAAGACAAGAAGATCAAATAATCGTTA
1 TTCACAAATAGCATAGTAATTTATGTAAGTTCTTTCAGCAAGACAAGAAGATCAAATAATCGTTA
*
14656 AGTTTATTTCATACTGTTCGATGTCATATGGACAGTAGT
66 AGTTTATTTCATACTATTCGATGTCATATGGACAGTAGT
*
14695 TTCACAAATAGCATAGTAATTTATGTAAGTTCTTTCAGCAAGACAAGAAGATCAAATAACCGTTA
1 TTCACAAATAGCATAGTAATTTATGTAAGTTCTTTCAGCAAGACAAGAAGATCAAATAATCGTTA
*
14760 AGTTTATATTTCATACTATTCGATGTCATATGGACACTAGT
66 AG-TT-TATTTCATACTATTCGATGTCATATGGACAGTAGT
14801 TT
1 TT
14803 GACACCGCCA
Statistics
Matches: 306, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
104 269 0.88
105 2 0.01
106 35 0.11
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (104 bp):
TTCACAAATAGCATAGTAATTTATGTAAGTTCTTTCAGCAAGACAAGAAGATCAAATAATCGTTA
AGTTTATTTCATACTATTCGATGTCATATGGACAGTAGT
Found at i:21605 original size:1 final size:1
Alignment explanation
Indices: 21557--21589 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
21547 ATATAGCAAC
21557 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21590 CAACTAAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22114 original size:90 final size:90
Alignment explanation
Indices: 21961--22141 Score: 353
Period size: 90 Copynumber: 2.0 Consensus size: 90
21951 CGGTCACTTG
*
21961 TGCTTTGTCCCTTGGCTGCCTTGATATGATAGATTAGAGGGAAATAGAGGAAAGGAGCAAGGAGG
1 TGCTTTGTCCCTTGGCTGCCTTGATATGATAGATAAGAGGGAAATAGAGGAAAGGAGCAAGGAGG
22026 TGATGATGTGTCCTTTACCGGTTTT
66 TGATGATGTGTCCTTTACCGGTTTT
22051 TGCTTTGTCCCTTGGCTGCCTTGATATGATAGATAAGAGGGAAATAGAGGAAAGGAGCAAGGAGG
1 TGCTTTGTCCCTTGGCTGCCTTGATATGATAGATAAGAGGGAAATAGAGGAAAGGAGCAAGGAGG
22116 TGATGATGTGTCCTTTACCGGTTTT
66 TGATGATGTGTCCTTTACCGGTTTT
22141 T
1 T
22142 TAGTAAAACT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (90 bp):
TGCTTTGTCCCTTGGCTGCCTTGATATGATAGATAAGAGGGAAATAGAGGAAAGGAGCAAGGAGG
TGATGATGTGTCCTTTACCGGTTTT
Found at i:23557 original size:16 final size:16
Alignment explanation
Indices: 23538--23591 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
23528 AAATCCAGCA
23538 GACCTGAAACCCGAAT
1 GACCTGAAACCCGAAT
* *
23554 GACCTGAATCCAG-AT
1 GACCTGAAACCCGAAT
*
23569 GAGCTGAAACCCGAAT
1 GACCTGAAACCCGAAT
23585 GACCTGA
1 GACCTGA
23592 GAAAATTACC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
15 12 0.39
16 19 0.61
ACGTcount: A:0.35, C:0.28, G:0.22, T:0.15
Consensus pattern (16 bp):
GACCTGAAACCCGAAT
Found at i:23565 original size:31 final size:31
Alignment explanation
Indices: 23520--23591 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
23510 CCGAACCTGC
*
23520 ATGACCCTAAATCCAGCA-GACCTGAAACCCGA
1 ATGA-CCTGAATCCAG-ATGACCTGAAACCCGA
*
23552 ATGACCTGAATCCAGATGAGCTGAAACCCGA
1 ATGACCTGAATCCAGATGACCTGAAACCCGA
23583 ATGACCTGA
1 ATGACCTGA
23592 GAAAATTACC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 1 0.03
31 32 0.86
32 4 0.11
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.15
Consensus pattern (31 bp):
ATGACCTGAATCCAGATGACCTGAAACCCGA
Found at i:31243 original size:25 final size:25
Alignment explanation
Indices: 31215--31264 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
31205 ATATCTATAC
31215 TATATATAAAAGTACGAATAAGGGG
1 TATATATAAAAGTACGAATAAGGGG
31240 TATATATAAAAGTACGAATAAGGGG
1 TATATATAAAAGTACGAATAAGGGG
31265 AAACTTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.24
Consensus pattern (25 bp):
TATATATAAAAGTACGAATAAGGGG
Found at i:31282 original size:19 final size:19
Alignment explanation
Indices: 31258--31296 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
31248 AAAGTACGAA
31258 TAAGGGGAAACTTTATGTT
1 TAAGGGGAAACTTTATGTT
31277 TAAGGGGAAACTTTATGTT
1 TAAGGGGAAACTTTATGTT
31296 T
1 T
31297 TCCGATTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (19 bp):
TAAGGGGAAACTTTATGTT
Found at i:33640 original size:16 final size:16
Alignment explanation
Indices: 33602--33641 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
33592 AGAGATTGAC
*
33602 AGAAAGCAATTAAACT
1 AGAAAACAATTAAACT
33618 A-AAAACAATTAAACT
1 AGAAAACAATTAAACT
33633 AGAAAACAA
1 AGAAAACAA
33642 AGCAAAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.65, C:0.12, G:0.07, T:0.15
Consensus pattern (16 bp):
AGAAAACAATTAAACT
Found at i:34408 original size:11 final size:11
Alignment explanation
Indices: 34392--34417 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34382 CCTTTGCCTA
34392 AAAACTAGAAG
1 AAAACTAGAAG
34403 AAAACTAGAAG
1 AAAACTAGAAG
34414 AAAA
1 AAAA
34418 GAAATTATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (11 bp):
AAAACTAGAAG
Done.