Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01019441.1 Corchorus olitorius cultivar O-4 contig19474, 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: 75015
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:406 original size:16 final size:16
Alignment explanation
Indices: 379--420 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
369 TTTGGTAGAG
379 AGGAAA-GAAATAGGA
1 AGGAAAGGAAATAGGA
*
394 AGGAAAGGAAATAGGG
1 AGGAAAGGAAATAGGA
*
410 AGGAAGGGAAA
1 AGGAAAGGAAA
421 GGAAGTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.55, C:0.00, G:0.40, T:0.05
Consensus pattern (16 bp):
AGGAAAGGAAATAGGA
Found at i:1082 original size:80 final size:81
Alignment explanation
Indices: 947--1111 Score: 269
Period size: 80 Copynumber: 2.0 Consensus size: 81
937 TGATTCAAAT
947 AATTCTGAGTTTCATTTTGGTTTGGGTAATGGAGAAAGAAAAAAGAGAAAAAAAAA-ATCGTTGA
1 AATTCTGAGTTTCATTTTGGTTTGGGTAATGGAGAAAGAAAAAAGAGAAAAAAAAAGATCGTTGA
*
1011 TCCGAATGTCGAGGAA
66 TCCGAAAGTCGAGGAA
* * *
1027 AATTCTGAGTTTCATTTTGGTTTGGGTAATGGAGATAGAAAAAGGAGAAAGAAAAAGATCGTTGA
1 AATTCTGAGTTTCATTTTGGTTTGGGTAATGGAGAAAGAAAAAAGAGAAAAAAAAAGATCGTTGA
* *
1092 TCTGAAAGTCGATGAA
66 TCCGAAAGTCGAGGAA
1108 AATT
1 AATT
1112 TGGTAATTAG
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 53 0.68
81 25 0.32
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (81 bp):
AATTCTGAGTTTCATTTTGGTTTGGGTAATGGAGAAAGAAAAAAGAGAAAAAAAAAGATCGTTGA
TCCGAAAGTCGAGGAA
Found at i:1340 original size:15 final size:16
Alignment explanation
Indices: 1304--1346 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
1294 ACAAGGGAAG
*
1304 CTTTTCTTTCCTTCCC
1 CTTTTCTTTCCTACCC
*
1320 CATTTCTTTCC-ACCC
1 CTTTTCTTTCCTACCC
1335 CTTTTCTTTCCT
1 CTTTTCTTTCCT
1347 TTCCATTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.05, C:0.42, G:0.00, T:0.53
Consensus pattern (16 bp):
CTTTTCTTTCCTACCC
Found at i:1355 original size:15 final size:15
Alignment explanation
Indices: 1306--1355 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
1296 AAGGGAAGCT
1306 TTTCTTTCCTTCCCCA
1 TTTCTTTCCTT-CCCA
** *
1322 TTTCTTTCCACCCCT
1 TTTCTTTCCTTCCCA
*
1337 TTTCTTTCCTTTCCA
1 TTTCTTTCCTTCCCA
1352 TTTC
1 TTTC
1356 CTCTCTACCA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
15 18 0.67
16 9 0.33
ACGTcount: A:0.06, C:0.40, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTCTTTCCTTCCCA
Found at i:6563 original size:42 final size:42
Alignment explanation
Indices: 6503--6595 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
6493 TCAAATCTAG
*
6503 CAAATCCGACAACAAGGAATAACAAGCCTTCGGCCATTTCTCT
1 CAAATCC-ACAACAAGGAATAACAAGCCTTCGGCCATTCCTCT
*
6546 CAAATCCACAACGAGGAATAACAAGCCTTCGGCCATTCCTCT
1 CAAATCCACAACAAGGAATAACAAGCCTTCGGCCATTCCTCT
6588 CAAATCCA
1 CAAATCCA
6596 TTTCATCGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 41 0.85
43 7 0.15
ACGTcount: A:0.35, C:0.32, G:0.13, T:0.19
Consensus pattern (42 bp):
CAAATCCACAACAAGGAATAACAAGCCTTCGGCCATTCCTCT
Found at i:10322 original size:16 final size:17
Alignment explanation
Indices: 10297--10334 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
10287 TACCCTTATC
10297 TTTTTATTTTTC-ATTA
1 TTTTTATTTTTCTATTA
* *
10313 TTTTTCTTTTTCTTTTA
1 TTTTTATTTTTCTATTA
10330 TTTTT
1 TTTTT
10335 GTTTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTATTTTTCTATTA
Found at i:11513 original size:21 final size:21
Alignment explanation
Indices: 11474--11522 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
11464 TCAATGGTTT
**
11474 AGGAATGCAAGAGGGATTTCAA
1 AGGAA-GCAAGAGCCATTTCAA
*
11496 AGGAAGCAAGAGCCATTTCCA
1 AGGAAGCAAGAGCCATTTCAA
11517 A-GAAGC
1 AGGAAGC
11523 TACAATTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 5 0.21
21 14 0.58
22 5 0.21
ACGTcount: A:0.41, C:0.16, G:0.29, T:0.14
Consensus pattern (21 bp):
AGGAAGCAAGAGCCATTTCAA
Found at i:21959 original size:71 final size:73
Alignment explanation
Indices: 21828--21974 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 73
21818 TGAGTGAGTT
*
21828 GAAAATAGTCTATAAGATGTAAAACAGCACTGAATTTAAATTTATGTTTCCTTTT-TTTTTGTTA
1 GAAAATAGTCTATAAGATGTAAAACAGCACTGAATTTAAATTTATGTTTCCTTTTCTTTTGGTTA
21892 AT-AAAAG
66 ATAAAAAG
* * **
21899 GAAAATAGTCTAATAAGATGTAAAATCAGCATTGAATTTATA-TTAT-TTTTGTTTTCTTTTGGT
1 GAAAATAGTCT-ATAAGATGTAAAA-CAGCACTGAATTTAAATTTATGTTTCCTTTTCTTTTGGT
21962 TAATAAAAAG
64 TAATAAAAAG
21972 GAA
1 GAA
21975 CCGTATGATT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
71 18 0.27
72 27 0.40
73 22 0.33
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.41
Consensus pattern (73 bp):
GAAAATAGTCTATAAGATGTAAAACAGCACTGAATTTAAATTTATGTTTCCTTTTCTTTTGGTTA
ATAAAAAG
Found at i:23326 original size:31 final size:31
Alignment explanation
Indices: 23288--23392 Score: 92
Period size: 31 Copynumber: 3.5 Consensus size: 31
23278 TGGCTAATTA
23288 CTCAAATAAGGATCTAACGTTTGTCAAAATG
1 CTCAAATAAGGATCTAACGTTTGTCAAAATG
* * **
23319 CTCAAATAAGGGTCTGATC-TTT-T-AATTTGG
1 CTCAAATAAGGATCT-AACGTTTGTCAAAAT-G
* * *
23349 C-AAAATAAGGGTCTAACGTTTGCCAAAATG
1 CTCAAATAAGGATCTAACGTTTGTCAAAATG
*
23379 ATCAAATAAGGATC
1 CTCAAATAAGGATC
23393 CGGTCTTTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
28 2 0.04
29 18 0.32
30 4 0.07
31 30 0.54
32 2 0.04
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (31 bp):
CTCAAATAAGGATCTAACGTTTGTCAAAATG
Found at i:23384 original size:60 final size:60
Alignment explanation
Indices: 23291--23450 Score: 214
Period size: 60 Copynumber: 2.7 Consensus size: 60
23281 CTAATTACTC
* * *
23291 AAATAAGGATCTAACGTTTGTCAAAATGCTCAAATAAGGGTCTGATCTTTTAATTTGGCA
1 AAATAAGGGTCTAACGTTTGCCAAAATGCTCAAATAAGGGTCCGATCTTTTAATTTGGCA
* * * *
23351 AAATAAGGGTCTAACGTTTGCCAAAATGATCAAATAAGGATCCGGTCTTTTAATTTGGCC
1 AAATAAGGGTCTAACGTTTGCCAAAATGCTCAAATAAGGGTCCGATCTTTTAATTTGGCA
* * *
23411 AAATAAGGGCCTAGCGTTAT-CGAAAATGCTCAAATAAGGG
1 AAATAAGGGTCTAACGTT-TGCCAAAATGCTCAAATAAGGG
23451 CTTGGAGTCG
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
60 86 0.99
61 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.29
Consensus pattern (60 bp):
AAATAAGGGTCTAACGTTTGCCAAAATGCTCAAATAAGGGTCCGATCTTTTAATTTGGCA
Found at i:25326 original size:47 final size:47
Alignment explanation
Indices: 25259--25351 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
25249 AATTATATGG
* *
25259 AAAATTATATAATACATTGTCAGTGAAGTTTAGCTGATTACACATGA
1 AAAATTATACAATACATTGTCAGTGAAGTTTAGCTGACTACACATGA
25306 AAAATTATACAATACATTGTCAGTGAAGTTTAGCTGACTACACATG
1 AAAATTATACAATACATTGTCAGTGAAGTTTAGCTGACTACACATG
25352 CGAGGTTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (47 bp):
AAAATTATACAATACATTGTCAGTGAAGTTTAGCTGACTACACATGA
Found at i:29324 original size:22 final size:20
Alignment explanation
Indices: 29298--29346 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
29288 GAATTTATGA
*
29298 AGAGAGATAGTGAGTGGGAGG
1 AGAGAGAGAGTGAGTGGG-GG
* *
29319 AGGAGAAAGAGTTAGTGGGGG
1 A-GAGAGAGAGTGAGTGGGGG
29340 AGAGAGA
1 AGAGAGA
29347 AAAAAGGGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 5 0.22
21 4 0.17
22 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.12
Consensus pattern (20 bp):
AGAGAGAGAGTGAGTGGGGG
Found at i:32997 original size:21 final size:22
Alignment explanation
Indices: 32957--32997 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
32947 GACAAACTTG
*
32957 TAACCCGAATAACCCGAGAAGA
1 TAACCCGAATAACCCAAGAAGA
*
32979 TAACCCG-ATGACCCAAGAA
1 TAACCCGAATAACCCAAGAA
32998 TATTATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.44, C:0.29, G:0.17, T:0.10
Consensus pattern (22 bp):
TAACCCGAATAACCCAAGAAGA
Found at i:35356 original size:3 final size:3
Alignment explanation
Indices: 35335--35380 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
35325 TTTTACCGTA
* *
35335 ATT ATA ATT ATT A-T GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
35381 AAGATTAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 1 0.03
3 37 0.97
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:38903 original size:21 final size:24
Alignment explanation
Indices: 38874--38924 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
38864 TTTTGAACTC
38874 ATTATT-TATTATTTAA-AATATAT
1 ATTATTAT-TTATTTAATAATATAT
38897 -TTATTATTTATTTAATAATATAT
1 ATTATTATTTATTTAATAATATAT
38920 ATTAT
1 ATTAT
38925 ATCTAAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.52
23 8 0.32
24 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTATTATTTATTTAATAATATAT
Found at i:38919 original size:25 final size:25
Alignment explanation
Indices: 38874--38922 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
38864 TTTTGAACTC
*
38874 ATTATTTATTATTTAAAATATATTT
1 ATTATTTATTATATAAAATATATTT
*
38899 ATTATTTATT-TAATAATATATATT
1 ATTATTTATTAT-ATAAAATATATT
38923 ATATCTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTATTTATTATATAAAATATATTT
Found at i:43203 original size:32 final size:32
Alignment explanation
Indices: 43167--43231 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
43157 CGATTCTATT
43167 AATTTAACAATTACAATCAAGATTAAAAAATG
1 AATTTAACAATTACAATCAAGATTAAAAAATG
* *
43199 AATTTAATAATTGCAATCAAGATTAAAAAATG
1 AATTTAACAATTACAATCAAGATTAAAAAATG
43231 A
1 A
43232 CTGCAGCGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (32 bp):
AATTTAACAATTACAATCAAGATTAAAAAATG
Found at i:46840 original size:104 final size:104
Alignment explanation
Indices: 46706--46911 Score: 324
Period size: 104 Copynumber: 2.0 Consensus size: 104
46696 AAACAGAGAA
*
46706 AATCAAGGAGAATCGGAGCAAAAAGAGAGAGAAAAAAACAGAGAAAACCATCGAGAGAGATGAAG
1 AATCAAGGAGAAGCGGAGCAAAAAGAGAGAGAAAAAAACAGAGAAAACCATCGAGAGAGATGAAG
*
46771 ATACA-AGATTTATATAAGAAATTGAGGGAAGCGGTGCAG
66 ATACATA-ACTTATATAAGAAATTGAGGGAAGCGGTGCAG
* * *
46810 AATCAAGGAGAAGCGGAGCAAAAAGAGAGAGAAAAATACAGAGGAAACTATCGAGAGAGATGAAG
1 AATCAAGGAGAAGCGGAGCAAAAAGAGAGAGAAAAAAACAGAGAAAACCATCGAGAGAGATGAAG
* * *
46875 ATTCATAACTTATATAGGAATTTGAGGGAAGCGGTGC
66 ATACATAACTTATATAAGAAATTGAGGGAAGCGGTGC
46912 TGATCATTCC
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
104 92 0.99
105 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.29, T:0.14
Consensus pattern (104 bp):
AATCAAGGAGAAGCGGAGCAAAAAGAGAGAGAAAAAAACAGAGAAAACCATCGAGAGAGATGAAG
ATACATAACTTATATAAGAAATTGAGGGAAGCGGTGCAG
Found at i:48458 original size:3 final size:3
Alignment explanation
Indices: 48450--48517 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
48440 CAATTTTTTA
48450 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
48498 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
48518 ATTAATTAAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48526 original size:4 final size:4
Alignment explanation
Indices: 48512--48552 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
48502 ATAATAATAA
* * *
48512 TAAT AAAT TAAT TAAT TAAT TAAT TAAT AAAT TAAT AAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
48553 TGAGGTTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (4 bp):
TAAT
Found at i:48527 original size:12 final size:12
Alignment explanation
Indices: 48512--48547 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
48502 ATAATAATAA
48512 TAATAAATTAAT
1 TAATAAATTAAT
*
48524 TAATTAATTAAT
1 TAATAAATTAAT
48536 TAATAAATTAAT
1 TAATAAATTAAT
48548 AAATTTGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATAAATTAAT
Found at i:48527 original size:24 final size:24
Alignment explanation
Indices: 48450--48549 Score: 127
Period size: 24 Copynumber: 4.2 Consensus size: 24
48440 CAATTTTTTA
*
48450 AATAATAATAATAATAATAATAAT
1 AATAATAATAATAATAATAATATT
*
48474 AATAATAATAATAATAATAATAAT
1 AATAATAATAATAATAATAATATT
48498 AATAATAATAATAATAATAA-ATT
1 AATAATAATAATAATAATAATATT
48521 AAT--TAATTAATTAATTAATAA-ATT
1 AATAATAA-TAA-TAA-TAATAATATT
48545 AATAA
1 AATAA
48550 ATTTGAGGTT
Statistics
Matches: 70, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
21 3 0.04
22 3 0.04
23 8 0.11
24 56 0.80
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
AATAATAATAATAATAATAATATT
Found at i:48528 original size:8 final size:8
Alignment explanation
Indices: 48512--48552 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
48502 ATAATAATAA
48512 TAATAAAT
1 TAATAAAT
*
48520 TAATTAAT
1 TAATAAAT
*
48528 TAATTAAT
1 TAATAAAT
48536 TAATAAAT
1 TAATAAAT
48544 TAATAAAT
1 TAATAAAT
48552 T
1 T
48553 TGAGGTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
TAATAAAT
Found at i:48839 original size:29 final size:31
Alignment explanation
Indices: 48779--48839 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 31
48769 TAGGGGCCCG
**
48779 ACCTTTAGTGAAAAGGTCATTTAAGGGTCTA
1 ACCTTTAGTGAAAAGGTCATTTAAGGACCTA
* *
48810 ACCTTT-G-GAAAAGTTCATTTAAGTACCTA
1 ACCTTTAGTGAAAAGGTCATTTAAGGACCTA
48839 A
1 A
48840 TCTTACAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 19 0.73
30 1 0.04
31 6 0.23
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (31 bp):
ACCTTTAGTGAAAAGGTCATTTAAGGACCTA
Found at i:49058 original size:27 final size:27
Alignment explanation
Indices: 49034--49088 Score: 87
Period size: 25 Copynumber: 2.1 Consensus size: 27
49024 TTAAAATTTC
*
49034 ATTATTATTAATATATATATAAATTAA
1 ATTATTACTAATATATATATAAATTAA
49061 ATTATTACT-A-ATATATATAAATTAA
1 ATTATTACTAATATATATATAAATTAA
49086 ATT
1 ATT
49089 TCAAGAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 18 0.67
26 1 0.04
27 8 0.30
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
ATTATTACTAATATATATATAAATTAA
Found at i:70994 original size:4 final size:4
Alignment explanation
Indices: 70985--71009 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
70975 GAGCAATATC
70985 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
71010 GTATTTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:73702 original size:21 final size:21
Alignment explanation
Indices: 73678--73724 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
73668 TTTGAAAAAG
* *
73678 TAGAAAAAGTGCTATAACGGC
1 TAGAAAAAGAGCTACAACGGC
*
73699 TAG-AAAAGAGCTCCAACGGC
1 TAGAAAAAGAGCTACAACGGC
73719 TAGAAA
1 TAGAAA
73725 CTTGTGAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (21 bp):
TAGAAAAAGAGCTACAACGGC
Done.