Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005147.1 Kokia drynarioides strain JFW-HI SEQ_118987, 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: 108457
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 279 characters in sequence are not A, C, G, or T
Found at i:532 original size:48 final size:48
Alignment explanation
Indices: 471--597 Score: 163
Period size: 46 Copynumber: 2.7 Consensus size: 48
461 ACACTAGCGC
*
471 GCTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGTTATTA-TCACTATGTGT
1 GCTCTCTGTTTAGCACTGTGT-GTGCTCTCTGTTATTACT-ACTATGTGT
* *
519 GCTCTCTGATTAGCACTGTGTGTGCTCTCTG--ATTACTACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTATTACTACTATGTGT
* *
565 ACTCTCTGTTTAGCACTGTGTTTGCTCTCTGTT
1 GCTCTCTGTTTAGCACTGTGTGTGCTCTCTGTT
598 GCCCAGCACT
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
46 40 0.58
47 1 0.01
48 25 0.36
49 3 0.04
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.45
Consensus pattern (48 bp):
GCTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTATTACTACTATGTGT
Found at i:596 original size:23 final size:23
Alignment explanation
Indices: 471--597 Score: 132
Period size: 23 Copynumber: 5.4 Consensus size: 23
461 ACACTAGCGC
*
471 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTGT-GT
* *
494 GCTCTCTGTTATTATCACTATGTGT
1 GCTCTCTG-T-TTAGCACTGTGTGT
*
519 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* *
542 GCTCTCTGATTA-CTACTTTGTGT
1 GCTCTCTGTTTAGC-ACTGTGTGT
* *
565 ACTCTCTGTTTAGCACTGTGTTT
1 GCTCTCTGTTTAGCACTGTGTGT
588 GCTCTCTGTT
1 GCTCTCTGTT
598 GCCCAGCACT
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
22 1 0.01
23 66 0.76
24 2 0.02
25 16 0.18
26 2 0.02
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.45
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:1289 original size:29 final size:28
Alignment explanation
Indices: 1257--1317 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 28
1247 AAAATGAGAC
1257 TTTTTGGATACTC-GGGAGCAAAATGGTAA
1 TTTTTGG--ACTCAGGGAGCAAAATGGTAA
*
1286 -TTTTGGACTCATGGGGGCAAAATGGTAA
1 TTTTTGGACTCA-GGGAGCAAAATGGTAA
1314 TTTT
1 TTTT
1318 GGAAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
26 4 0.14
28 21 0.75
29 3 0.11
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (28 bp):
TTTTTGGACTCAGGGAGCAAAATGGTAA
Found at i:1395 original size:59 final size:59
Alignment explanation
Indices: 1299--1436 Score: 145
Period size: 59 Copynumber: 2.3 Consensus size: 59
1289 TGGACTCATG
* * * * * *
1299 GGGGCAAAATGGTAA-TTTTGGAAAATTTTGGGGTTAAAAATAGAATTTTTAGACACCC
1 GGGGTAAAATGGTAATTTTTAGAAAATATCGGGATTAAAAACAGAATTTTTAGACACCC
* * **
1357 AGGGGTAAAATGGTAATTTTTAGAAAA-ATCGGGATTAAAAACGGAATTTTTGGACATTC
1 -GGGGTAAAATGGTAATTTTTAGAAAATATCGGGATTAAAAACAGAATTTTTAGACACCC
*
1416 GAGGGTAAAAGGGTAATTTTT
1 G-GGGTAAAATGGTAATTTTT
1437 GAGAGTTTTG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
58 1 0.02
59 56 0.85
60 9 0.14
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTAGAAAATATCGGGATTAAAAACAGAATTTTTAGACACCC
Found at i:1425 original size:29 final size:27
Alignment explanation
Indices: 1394--1468 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 27
1384 ATCGGGATTA
1394 AAAACGGAATTTTTGGACATTCGAGGGT
1 AAAACGGAATTTTTGGACATTCGA-GGT
* ** *
1422 AAAAGGGTAATTTTTGAGAGTTTTGAGGT
1 AAAACGG-AATTTTTG-GACATTCGAGGT
*
1451 CAAAATGGAATTTTTGGA
1 -AAAACGGAATTTTTGGA
1469 AGTTTAGAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 8 0.21
29 19 0.49
30 12 0.31
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (27 bp):
AAAACGGAATTTTTGGACATTCGAGGT
Found at i:1472 original size:29 final size:29
Alignment explanation
Indices: 1430--1704 Score: 157
Period size: 30 Copynumber: 9.7 Consensus size: 29
1420 GTAAAAGGGT
*
1430 AATTTTT-GAGAGTTTTGAGGTCAAAATGG
1 AATTTTTGGA-AGTTTAGAGGTCAAAATGG
*
1459 AATTTTTGGAAGTTTAGAGCT-AAAATGG
1 AATTTTTGGAAGTTTAGAGGTCAAAATGG
** * *
1487 TAATTTTTAAAAGTTTTGGGGTCAAAATTGG
1 -AATTTTTGGAAGTTTAGAGGTCAAAA-TGG
* * * **
1518 GATTTTT-GAAG-TTCGAGGGTAAAAATAT
1 AATTTTTGGAAGTTTAGA-GGTCAAAATGG
* *
1546 AACTTTTGGAAGTTTCA-AGGTTAAAAATGG
1 AATTTTTGGAAGTTT-AGAGG-TCAAAATGG
* *
1576 AATTTTTGGAAGTTTAGGGGT-AAAATTGT
1 AATTTTTGGAAGTTTAGAGGTCAAAA-TGG
*
1605 AA-TTTT---AG----G-GGTCAAAATGT
1 AATTTTTGGAAGTTTAGAGGTCAAAATGG
*
1625 AATTTTTGGAAGTTTTGAGGTCAAAAATGG
1 AATTTTTGGAAGTTTAGAGGTC-AAAATGG
* * **
1655 AATTTTTGAGAAATTTAGGGGTCAAAATAT
1 AATTTTTG-GAAGTTTAGAGGTCAAAATGG
*
1685 AATTTCTGGACAGTTTAGAG
1 AATTTTTGGA-AGTTTAGAG
1705 ACCTTCAGGG
Statistics
Matches: 191, Mismatches: 31, Indels: 47
0.71 0.12 0.17
Matches are distributed among these distances:
20 8 0.04
21 9 0.05
24 2 0.01
25 2 0.01
28 25 0.13
29 60 0.31
30 71 0.37
31 14 0.07
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (29 bp):
AATTTTTGGAAGTTTAGAGGTCAAAATGG
Found at i:1483 original size:117 final size:117
Alignment explanation
Indices: 1362--1610 Score: 272
Period size: 117 Copynumber: 2.1 Consensus size: 117
1352 CACCCAGGGG
*
1362 TAAAATGGTAATTTTTAGAAA-AATCGGGATTAAAAACGGAATTTTTGGACA-TTCGAGGGTAAA
1 TAAAATGGTAATTTTTA-AAAGAATCGGGATCAAAAACGGAATTTTT-GA-AGTTCGAGGGTAAA
* * * ** *
1425 AGGGTAA-TTTTTGAGAGTTTTGAGG-TCAAAATGGAATTTTTGGAAGTTTAGAGC
63 AAGATAACTTTTGGA-AGTTTCAAGGTTAAAAATGGAATTTTTGGAAGTTTAGAGC
** * * ** * *
1479 TAAAATGGTAATTTTTAAAAGTTTTGGGGTCAAAATTGGGATTTTTGAAGTTCGAGGGTAAAAAT
1 TAAAATGGTAATTTTTAAAAGAATCGGGATCAAAAACGGAATTTTTGAAGTTCGAGGGTAAAAAG
* *
1544 ATAACTTTTGGAAGTTTCAAGGTTAAAAATGGAATTTTTGGAAGTTTAGGGG
66 ATAACTTTTGGAAGTTTCAAGGTTAAAAATGGAATTTTTGGAAGTTTAGAGC
*
1596 TAAAATTGTAATTTT
1 TAAAATGGTAATTTT
1611 AGGGGTCAAA
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
115 1 0.01
116 29 0.26
117 80 0.73
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.36
Consensus pattern (117 bp):
TAAAATGGTAATTTTTAAAAGAATCGGGATCAAAAACGGAATTTTTGAAGTTCGAGGGTAAAAAG
ATAACTTTTGGAAGTTTCAAGGTTAAAAATGGAATTTTTGGAAGTTTAGAGC
Found at i:1489 original size:58 final size:58
Alignment explanation
Indices: 1421--1704 Score: 173
Period size: 58 Copynumber: 5.0 Consensus size: 58
1411 CATTCGAGGG
*
1421 TAAAAGGGTAATTTTTGAGAGTTTTGAGGTCAAAATGGAATTTTTGGAAGTTTAGAGC
1 TAAAATGGTAATTTTTGAGAGTTTTGAGGTCAAAATGGAATTTTTGGAAGTTTAGAGC
* * * * * *
1479 TAAAATGGTAATTTTTAAAAGTTTTGGGGTCAAAATTGGGATTTTT-GAAG-TTCGAGGG
1 TAAAATGGTAATTTTTGAGAGTTTTGAGGTCAAAA-TGGAATTTTTGGAAGTTTAGA-GC
* * ** * * *
1537 TAAAAAT-ATAACTTTTG-GAAGTTTCAAGGTTAAAAATGGAATTTTTGGAAGTTTAGGGG
1 T-AAAATGGTAATTTTTGAG-AGTTTTGAGG-TCAAAATGGAATTTTTGGAAGTTTAGAGC
* * *
1596 TAAAATTGTAA-TTTT---AG----G-GGTCAAAATGTAATTTTTGGAAGTTTTGAGGTC
1 TAAAATGGTAATTTTTGAGAGTTTTGAGGTCAAAATGGAATTTTTGGAAGTTTAGA-G-C
* * * * ** *
1647 AAAAATGG-AATTTTTGAGAAATTTAGGGGTCAAAATATAATTTCTGGACAGTTTAGAG
1 TAAAATGGTAATTTTTGAG-AGTTTTGAGGTCAAAATGGAATTTTTGGA-AGTTTAGAG
1705 ACCTTCAGGG
Statistics
Matches: 174, Mismatches: 31, Indels: 40
0.71 0.13 0.16
Matches are distributed among these distances:
49 23 0.13
50 5 0.03
51 10 0.06
55 3 0.02
57 4 0.02
58 69 0.40
59 30 0.17
60 23 0.13
61 7 0.04
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (58 bp):
TAAAATGGTAATTTTTGAGAGTTTTGAGGTCAAAATGGAATTTTTGGAAGTTTAGAGC
Found at i:1631 original size:21 final size:20
Alignment explanation
Indices: 1588--1630 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
1578 TTTTTGGAAG
1588 TTTAGGGGTAAAATTGTAAT
1 TTTAGGGGTAAAATTGTAAT
1608 TTTAGGGGTCAAAA-TGTAAT
1 TTTAGGGGT-AAAATTGTAAT
1628 TTT
1 TTT
1631 TGGAAGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.42
Consensus pattern (20 bp):
TTTAGGGGTAAAATTGTAAT
Found at i:1638 original size:79 final size:81
Alignment explanation
Indices: 1534--1682 Score: 221
Period size: 79 Copynumber: 1.9 Consensus size: 81
1524 TGAAGTTCGA
* *
1534 GGGTAAAAATATAACTTTTGGAAGTTTCAAGGTTAAAAATGGAATTTTTG-GAAGTTTAGGGGT-
1 GGGTAAAAATATAACTTTTGGAAGTTTCAAGGTCAAAAATGGAATTTTTGAGAAATTTAGGGGTC
1597 AAAATTGTAATTTTAG
66 AAAATTGTAATTTTAG
* * * **
1613 GGGTCAAAATGTAATTTTTGGAAGTTTTGAGGTCAAAAATGGAATTTTTGAGAAATTTAGGGGTC
1 GGGTAAAAATATAACTTTTGGAAGTTTCAAGGTCAAAAATGGAATTTTTGAGAAATTTAGGGGTC
1678 AAAAT
66 AAAAT
1683 ATAATTTCTG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 44 0.72
80 12 0.20
81 5 0.08
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (81 bp):
GGGTAAAAATATAACTTTTGGAAGTTTCAAGGTCAAAAATGGAATTTTTGAGAAATTTAGGGGTC
AAAATTGTAATTTTAG
Found at i:1681 original size:31 final size:30
Alignment explanation
Indices: 1608--1681 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 30
1598 AAATTGTAAT
* *
1608 TTTAGGGGTC-AAAATGTAATTTTTGGAAG
1 TTTAGGGGTCAAAAATGGAATTTTTGGAAA
* *
1637 TTTTGAGGTCAAAAATGGAATTTTTGAGAAA
1 TTTAGGGGTCAAAAATGGAATTTTTG-GAAA
1668 TTTAGGGGTCAAAA
1 TTTAGGGGTCAAAA
1682 TATAATTTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 8 0.22
30 14 0.38
31 15 0.41
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (30 bp):
TTTAGGGGTCAAAAATGGAATTTTTGGAAA
Found at i:3564 original size:17 final size:16
Alignment explanation
Indices: 3542--3621 Score: 60
Period size: 18 Copynumber: 5.0 Consensus size: 16
3532 AAGTTTAAGT
*
3542 TTTAAAATTATTTCAAA
1 TTTAAAATAATTT-AAA
* *
3559 TTTAAACTAAATTGAAA
1 TTTAAAAT-AATTTAAA
3576 TTTAAAAATGAATTTAAA
1 TTT-AAAAT-AATTTAAA
3594 TTT-AAA-AA--TAAA
1 TTTAAAATAATTTAAA
*
3606 TTTAAAATAACTTAAA
1 TTTAAAATAATTTAAA
3622 CTCAAAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
12 7 0.14
13 3 0.06
14 4 0.08
16 7 0.14
17 13 0.25
18 17 0.33
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.39
Consensus pattern (16 bp):
TTTAAAATAATTTAAA
Found at i:3594 original size:18 final size:18
Alignment explanation
Indices: 3551--3611 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
3541 TTTTAAAATT
*
3551 ATTTCAAATTT-AAACTAA
1 ATTT-AAATTTAAAAATAA
* *
3569 ATTGAAATTTAAAAATGA
1 ATTTAAATTTAAAAATAA
3587 ATTTAAATTTAAAAATAA
1 ATTTAAATTTAAAAATAA
3605 ATTTAAA
1 ATTTAAA
3612 ATAACTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 6 0.16
18 31 0.84
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTTAAATTTAAAAATAA
Found at i:4885 original size:31 final size:28
Alignment explanation
Indices: 4837--4916 Score: 70
Period size: 31 Copynumber: 2.6 Consensus size: 28
4827 TTATCAAAAT
* *
4837 TATACATCAATTATGATTTAATTTTCAATTA
1 TATACATGAATT-TGATTTAA-TAT-AATTA
* *
4868 TATACATGAACTTTGATTTTATATAATTT
1 TATACATGAA-TTTGATTTAATATAATTA
4897 TATACATGAAATTTTGATTT
1 TATACATG-AA-TTTGATTT
4917 GTTTCAATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 12 0.29
30 12 0.29
31 16 0.38
32 2 0.05
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.50
Consensus pattern (28 bp):
TATACATGAATTTGATTTAATATAATTA
Found at i:23667 original size:13 final size:13
Alignment explanation
Indices: 23649--23673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23639 TTTACTCACA
23649 TTTTATTTTAATT
1 TTTTATTTTAATT
23662 TTTTATTTTAAT
1 TTTTATTTTAAT
23674 ATCGTATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTTAATT
Found at i:25592 original size:2 final size:2
Alignment explanation
Indices: 25585--25622 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
25575 AACCCTTTGA
25585 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25623 ATTCCATACC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31699 original size:29 final size:29
Alignment explanation
Indices: 31644--31700 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
31634 TAACGCAAGT
** *
31644 GACTAAAATGTAACATTTCAAATATAAAC
1 GACTAAAATGTAACATTAAAAAAATAAAC
31673 GACTAAAATGTAAC-TTAAAACAAATAAA
1 GACTAAAATGTAACATTAAAA-AAATAAA
31701 AATGACTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.56, C:0.12, G:0.07, T:0.25
Consensus pattern (29 bp):
GACTAAAATGTAACATTAAAAAAATAAAC
Found at i:45903 original size:3 final size:3
Alignment explanation
Indices: 45895--45933 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
45885 TGATTTTGAT
45895 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45934 GAGGAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:57910 original size:17 final size:18
Alignment explanation
Indices: 57874--57911 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
57864 AGAAACAGAG
* *
57874 AAAGAAAAGAGATGATGA
1 AAAGAAAAGAGAAGAAGA
57892 AAAGAAAA-AGAAGAAGA
1 AAAGAAAAGAGAAGAAGA
57909 AAA
1 AAA
57912 TGCTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (18 bp):
AAAGAAAAGAGAAGAAGA
Found at i:64586 original size:31 final size:31
Alignment explanation
Indices: 64550--64609 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
64540 ATAAAAAATG
* * *
64550 TATAAATTTATTAAATATTAAAA-TAATATAA
1 TATAAATAT-TTAAAAAATAAAATTAATATAA
64581 TATAAATATTTAAAAAATAAAATTAATAT
1 TATAAATATTTAAAAAATAAAATTAATAT
64610 GAGCGGATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (31 bp):
TATAAATATTTAAAAAATAAAATTAATATAA
Found at i:65803 original size:6 final size:6
Alignment explanation
Indices: 65792--65819 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
65782 GTATATATAA
65792 AATTTT AATTTT AATTTT AATTTT AATT
1 AATTTT AATTTT AATTTT AATTTT AATT
65820 CAACTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:75192 original size:5 final size:5
Alignment explanation
Indices: 75182--75240 Score: 118
Period size: 5 Copynumber: 11.8 Consensus size: 5
75172 AGTACTGCAT
75182 AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAATG
1 AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAATG
75232 AAATG AAAT
1 AAATG AAAT
75241 TCACCATCAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 54 1.00
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.20
Consensus pattern (5 bp):
AAATG
Found at i:93430 original size:28 final size:28
Alignment explanation
Indices: 93399--93452 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
93389 TAATTTGACC
*
93399 TTAATTTTATATAAAAATTATAAAAAAT
1 TTAAATTTATATAAAAATTATAAAAAAT
* * *
93427 TTAAATTTATTTTAAAATTTTAAAAA
1 TTAAATTTATATAAAAATTATAAAAA
93453 TTCTATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
TTAAATTTATATAAAAATTATAAAAAAT
Found at i:108419 original size:2 final size:2
Alignment explanation
Indices: 108412--108457 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
108402 TCACCCCTGA
108412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108454 AT AT
1 AT AT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.