Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013146.1 Kokia drynarioides strain JFW-HI SEQ_128165, 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: 100185
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Warning! 60 characters in sequence are not A, C, G, or T
Found at i:1273 original size:34 final size:34
Alignment explanation
Indices: 1234--1303 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
1224 GTTTTAAATA
*
1234 TGAAAGAATATTAAAGTAATTTCTGTAACTAAGT
1 TGAAAGAATATTAAAGTAATTTCTCTAACTAAGT
*
1268 TGAAAGGATATTAAAGTAATTTCTCTAACTAAGT
1 TGAAAGAATATTAAAGTAATTTCTCTAACTAAGT
1302 TG
1 TG
1304 GGGTCCGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (34 bp):
TGAAAGAATATTAAAGTAATTTCTCTAACTAAGT
Found at i:1520 original size:30 final size:29
Alignment explanation
Indices: 1444--1526 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 29
1434 TTTTAAGTCT
*
1444 CTTAAAAGTTGGTAAAAAAGA-TTTGGGGC
1 CTTAAAAGTTGATAAAAAA-ATTTTGGGGC
* *
1473 CATTAAAAATT-AAAAAAAAATTTTGGGGTC
1 C-TTAAAAGTTGATAAAAAAATTTTGGGG-C
1503 CTTAAAAGTTGATAAAAAAATTTT
1 CTTAAAAGTTGATAAAAAAATTTT
1527 TAACCTATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 1 0.02
29 22 0.49
30 22 0.49
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (29 bp):
CTTAAAAGTTGATAAAAAAATTTTGGGGC
Found at i:1568 original size:21 final size:22
Alignment explanation
Indices: 1542--1584 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
1532 TATAAAAGTT
*
1542 AAAAAAATTTTGG-GCCTTTTA
1 AAAAAAATTTTGGACCCTTTTA
1563 AAAAAAATTTTGGACCCTTTTA
1 AAAAAAATTTTGGACCCTTTTA
1585 GCTTTGGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (22 bp):
AAAAAAATTTTGGACCCTTTTA
Found at i:2715 original size:13 final size:11
Alignment explanation
Indices: 2687--2729 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
2677 TAGTTAATAT
2687 TATTTTATTAA
1 TATTTTATTAA
2698 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
2711 TA-TTTATTAT
1 TATTTTATTAA
2721 TATTTTATT
1 TATTTTATT
2730 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:2718 original size:23 final size:23
Alignment explanation
Indices: 2690--2733 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2680 TTAATATTAT
2690 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
2713 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
2734 AAATGGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:5901 original size:23 final size:22
Alignment explanation
Indices: 5754--5898 Score: 110
Period size: 23 Copynumber: 6.4 Consensus size: 22
5744 AGTGCTGGGG
* *
5754 AAACAGTAAGCACACACAGTGC
1 AAACAGTAGGCACACAAAGTGC
* * * *
5776 AATCCAGTAGGCAGACACAGTGT
1 AA-ACAGTAGGCACACAAAGTGC
* * * *
5799 AATCAGTAGGCGCACATAGCGC
1 AAACAGTAGGCACACAAAGTGC
* * *
5821 AAATCAGTAGGCGCACATAGCGC
1 AAA-CAGTAGGCACACAAAGTGC
*
5844 AAATCAGTAGGCACACAAGGTGC
1 AAA-CAGTAGGCACACAAAGTGC
*
5867 GAAACAGTAAGCACACAAAGTGC
1 -AAACAGTAGGCACACAAAGTGC
5890 GAAACAGTA
1 -AAACAGTA
5899 AGCGCGCTAG
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
22 18 0.17
23 82 0.80
24 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.24, T:0.12
Consensus pattern (22 bp):
AAACAGTAGGCACACAAAGTGC
Found at i:29996 original size:12 final size:12
Alignment explanation
Indices: 29979--30003 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29969 TGTATAATGT
29979 TTAGGAACCAAA
1 TTAGGAACCAAA
29991 TTAGGAACCAAA
1 TTAGGAACCAAA
30003 T
1 T
30004 AAGACCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (12 bp):
TTAGGAACCAAA
Found at i:33553 original size:16 final size:15
Alignment explanation
Indices: 33522--33569 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
33512 CAATGACCAG
*
33522 TCTATTTTTTTAATT
1 TCTAATTTTTTAATT
33537 TCTAATTTTTTAGATTT
1 TCTAATTTTTTA-A-TT
* *
33554 TTTAATTTTCTAATT
1 TCTAATTTTTTAATT
33569 T
1 T
33570 TTTTTACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 14 0.50
16 2 0.07
17 12 0.43
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (15 bp):
TCTAATTTTTTAATT
Found at i:33559 original size:17 final size:16
Alignment explanation
Indices: 33527--33572 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
33517 ACCAGTCTAT
*
33527 TTTTTTAA-TTTCTAA
1 TTTTTTAATTTTTTAA
33542 TTTTTTAGATTTTTTAA
1 TTTTTTA-ATTTTTTAA
*
33559 TTTTCTAATTTTTT
1 TTTTTTAATTTTTT
33573 TTACTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 7 0.26
16 8 0.30
17 12 0.44
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTTTTAATTTTTTAA
Found at i:33561 original size:8 final size:8
Alignment explanation
Indices: 33527--33572 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
33517 ACCAGTCTAT
33527 TTTTTTAA
1 TTTTTTAA
*
33535 -TTTCTAA
1 TTTTTTAA
33542 TTTTTTAGA
1 TTTTTTA-A
33551 TTTTTTAA
1 TTTTTTAA
*
33559 TTTTCTAA
1 TTTTTTAA
33567 TTTTTT
1 TTTTTT
33573 TTACTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 6 0.19
8 18 0.56
9 8 0.25
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTTTTAA
Found at i:33572 original size:16 final size:16
Alignment explanation
Indices: 33522--33570 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
33512 CAATGACCAG
*
33522 TCTATTTTTTTAA-TT
1 TCTAATTTTTTAATTT
33537 TCTAATTTTTTAGATTT
1 TCTAATTTTTTA-ATTT
* *
33554 TTTAATTTTCTAATTT
1 TCTAATTTTTTAATTT
33570 T
1 T
33571 TTTTACTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 11 0.38
16 6 0.21
17 12 0.41
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.69
Consensus pattern (16 bp):
TCTAATTTTTTAATTT
Found at i:33580 original size:25 final size:24
Alignment explanation
Indices: 33528--33582 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
33518 CCAGTCTATT
*
33528 TTTTTAATTTCTAATTTTTTAGAT
1 TTTTTAATTTCTAATTTTTTAGAC
**
33552 TTTTTAATTTTCTAATTTTTTTTAC
1 TTTTTAA-TTTCTAATTTTTTAGAC
33577 TTTTTA
1 TTTTTA
33583 TTGATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTTTAATTTCTAATTTTTTAGAC
Found at i:33634 original size:2 final size:2
Alignment explanation
Indices: 33627--33653 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33617 TGTTTTGAAT
33627 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
33654 TAATTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36238 original size:9 final size:9
Alignment explanation
Indices: 36224--36253 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
36214 TCTTCACCAT
36224 AACCAAATA
1 AACCAAATA
36233 AACCAAATA
1 AACCAAATA
*
36242 AATCAAATA
1 AACCAAATA
36251 AAC
1 AAC
36254 TTCCCATCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.67, C:0.20, G:0.00, T:0.13
Consensus pattern (9 bp):
AACCAAATA
Found at i:36704 original size:21 final size:21
Alignment explanation
Indices: 36660--36704 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
36650 AATATAAATA
* *
36660 ATAAAAATATTAATATTTATT
1 ATAAAAATATTAATAATTAAT
* *
36681 ATAATAATATTATTAATTAAT
1 ATAAAAATATTAATAATTAAT
36702 ATA
1 ATA
36705 TTTTTGAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAAAATATTAATAATTAAT
Found at i:37350 original size:18 final size:19
Alignment explanation
Indices: 37310--37352 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
37300 GAATAAATTT
37310 TTAATTAAATAAAATTAAA
1 TTAATTAAATAAAATTAAA
**
37329 -TAATTAAA-AATTTTAAA
1 TTAATTAAATAAAATTAAA
37346 TTAATTA
1 TTAATTA
37353 CAACAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAATTAAATAAAATTAAA
Found at i:50408 original size:98 final size:99
Alignment explanation
Indices: 50238--50435 Score: 389
Period size: 98 Copynumber: 2.0 Consensus size: 99
50228 GCATAGAAGA
50238 AAAACTTTTTAGAATGCATGATAATTTGATTCCACTATTTGTTAACAATTATACTTTCTTGTCCA
1 AAAACTTTTTAGAATGCATGATAATTTGATTCCACTATTTGTTAACAATTATACTTTCTTGTCCA
50303 AATGTTAGCTCTAGCATGCCACATACAAGAAAAT
66 AATGTTAGCTCTAGCATGCCACATACAAGAAAAT
50337 AAAACTTTTTAGAATGC-TGATAATTTGATTCCACTATTTGTTAACAATTATACTTTCTTGTCCA
1 AAAACTTTTTAGAATGCATGATAATTTGATTCCACTATTTGTTAACAATTATACTTTCTTGTCCA
50401 AATGTTAGCTCTAGCATGCCACATACAAGAAAAT
66 AATGTTAGCTCTAGCATGCCACATACAAGAAAAT
50435 A
1 A
50436 GTCAGTAGTT
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 82 0.83
99 17 0.17
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.36
Consensus pattern (99 bp):
AAAACTTTTTAGAATGCATGATAATTTGATTCCACTATTTGTTAACAATTATACTTTCTTGTCCA
AATGTTAGCTCTAGCATGCCACATACAAGAAAAT
Found at i:53461 original size:17 final size:17
Alignment explanation
Indices: 53439--53472 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
53429 ATCAAACTAC
*
53439 TGATGAAGATGAAACGT
1 TGATGAAGATAAAACGT
53456 TGATGAAGATAAAACGT
1 TGATGAAGATAAAACGT
53473 AAATAATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (17 bp):
TGATGAAGATAAAACGT
Found at i:64031 original size:14 final size:15
Alignment explanation
Indices: 64012--64047 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
64002 ACCATGAGGC
64012 TCAAT-GCCTCATGG
1 TCAATAGCCTCATGG
64026 TCAATGAGCCTCATGG
1 TCAAT-AGCCTCATGG
64042 TCAATA
1 TCAATA
64048 AAACAGACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 1 0.05
16 14 0.70
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (15 bp):
TCAATAGCCTCATGG
Found at i:73425 original size:19 final size:20
Alignment explanation
Indices: 73397--73447 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
73387 TTTTATTCAG
*
73397 AAAAAAATTAAATTCAA-AT
1 AAAAATATTAAATTCAAGAT
73416 AAAAATATTAAAATTCAAGAT
1 AAAAATATT-AAATTCAAGAT
* *
73437 GAAATTATTAA
1 AAAAATATTAA
73448 TGTGATGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.30
20 10 0.37
21 9 0.33
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAAATATTAAATTCAAGAT
Found at i:73429 original size:20 final size:21
Alignment explanation
Indices: 73397--73447 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
73387 TTTTATTCAG
*
73397 AAAAAAATT-AAATTCAA-AT
1 AAAAATATTAAAATTCAAGAT
73416 AAAAATATTAAAATTCAAGAT
1 AAAAATATTAAAATTCAAGAT
* *
73437 GAAATTATTAA
1 AAAAATATTAA
73448 TGTGATGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 11 0.41
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAAATATTAAAATTCAAGAT
Found at i:74918 original size:6 final size:7
Alignment explanation
Indices: 74903--74934 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
74893 CAAATTCCTC
74903 TTTTATT
1 TTTTATT
74910 TTTTATT
1 TTTTATT
74917 TTTTATT
1 TTTTATT
*
74924 TTTTGTT
1 TTTTATT
74931 TTTT
1 TTTT
74935 TATATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:79558 original size:59 final size:59
Alignment explanation
Indices: 79495--79647 Score: 193
Period size: 59 Copynumber: 2.6 Consensus size: 59
79485 AAACAGAGTC
* * *
79495 TTTGGACA-TCCGAGAGTAAGATAGTAATTTTTGGATGTTTCAAGGT-TAAAAATGAGATT
1 TTTGGA-AGTCCGGGAGTAAAATAGTAATTTTTGGATG-TTCAAGGTAAAAAAATGAGATT
* * * * *
79554 TTTGGAAGTTCGGGGGTAAAATAGTAATTTTAGAATGTTCGAGGTAAAAAAATGAGATT
1 TTTGGAAGTCCGGGAGTAAAATAGTAATTTTTGGATGTTCAAGGTAAAAAAATGAGATT
*
79613 TTTGGAAGTCCGGGAGTAAAATGGTAATTTTTGGA
1 TTTGGAAGTCCGGGAGTAAAATAGTAATTTTTGGA
79648 AGGTTGGGGT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
58 8 0.10
59 71 0.90
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (59 bp):
TTTGGAAGTCCGGGAGTAAAATAGTAATTTTTGGATGTTCAAGGTAAAAAAATGAGATT
Found at i:79574 original size:29 final size:29
Alignment explanation
Indices: 79541--79838 Score: 208
Period size: 29 Copynumber: 10.1 Consensus size: 29
79531 GTTTCAAGGT
79541 TAAAAATGAGATTTTTGGAAGTTCGGGGG
1 TAAAAATGAGATTTTTGGAAGTTCGGGGG
* * *
79570 T-AAAAT-AGTAATTTTAGAATGTTC-GAGG
1 TAAAAATGAG-ATTTTTGGAA-GTTCGGGGG
* *
79598 TAAAAAAATGAGATTTTTGGAAGTCCGGGAG
1 T--AAAAATGAGATTTTTGGAAGTTCGGGGG
79629 T-AAAATG-GTAATTTTTGGAAGGTT--GGGG
1 TAAAAATGAG--ATTTTTGGAA-GTTCGGGGG
* **
79657 TCAAAAATGGGATTTTTGGAAGTTCGACGG
1 T-AAAAATGAGATTTTTGGAAGTTCGGGGG
*
79687 TAAAAATGGGATTTTTGGAAGTTCGGGGG
1 TAAAAATGAGATTTTTGGAAGTTCGGGGG
* *
79716 T-AAAATG-GTAATTTTTGGAAGGTT-TGAGG
1 TAAAAATGAG--ATTTTTGGAA-GTTCGGGGG
*
79745 TCAAAAAATGGGATTTTTGGAAGTTCGGGGG
1 T--AAAAATGAGATTTTTGGAAGTTCGGGGG
* *
79776 T-AAAATG-GTAATTTTTGAAAGGTT-TGGGG
1 TAAAAATGAG--ATTTTTGGAA-GTTCGGGGG
* *
79805 TCAAAAATTAGATTTTTGGAAGTTCGAGGG
1 T-AAAAATGAGATTTTTGGAAGTTCGGGGG
79835 TAAA
1 TAAA
79839 TGGTAATTTT
Statistics
Matches: 215, Mismatches: 24, Indels: 60
0.72 0.08 0.20
Matches are distributed among these distances:
27 5 0.02
28 42 0.20
29 86 0.40
30 36 0.17
31 36 0.17
32 9 0.04
33 1 0.00
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.33
Consensus pattern (29 bp):
TAAAAATGAGATTTTTGGAAGTTCGGGGG
Found at i:79598 original size:118 final size:117
Alignment explanation
Indices: 79447--79691 Score: 264
Period size: 118 Copynumber: 2.1 Consensus size: 117
79437 AAAACATTCA
* * * *
79447 GGGGTAAAAATGGTAATTTTGAGAGTTTTGAGGTCGAAAAACA-GAG-TCTTTGGACA-TCCGAG
1 GGGGT-AAAATAGTAATTTTGAGAATTTCGAGGT--AAAAAAATGAGATCTTTGGA-AGTCCGAG
* * * *
79509 AGTAAGATAGTAATTTTTGGATGTTTCAAGGTTAAAAATGAGATTTTTGGAAGTTCG
62 AGTAAAATAGTAATTTTTGGAAGGTT-AAGGTCAAAAATGAGATTTTTGGAAGTTCG
* *
79566 GGGGTAAAATAGTAATTTT-AGAATGTTCGAGGTAAAAAAATGAGATTTTTGGAAGTCCGGGAGT
1 GGGGTAAAATAGTAATTTTGAGAAT-TTCGAGGTAAAAAAATGAGATCTTTGGAAGTCCGAGAGT
* ** *
79630 AAAATGGTAATTTTTGGAAGGTTGGGGTCAAAAATGGGATTTTTGGAAGTTCG
65 AAAATAGTAATTTTTGGAAGGTTAAGGTCAAAAATGAGATTTTTGGAAGTTCG
**
79683 ACGGTAAAA
1 GGGGTAAAA
79692 ATGGGATTTT
Statistics
Matches: 106, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
116 6 0.06
117 41 0.39
118 54 0.51
119 5 0.05
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (117 bp):
GGGGTAAAATAGTAATTTTGAGAATTTCGAGGTAAAAAAATGAGATCTTTGGAAGTCCGAGAGTA
AAATAGTAATTTTTGGAAGGTTAAGGTCAAAAATGAGATTTTTGGAAGTTCG
Found at i:79663 original size:59 final size:58
Alignment explanation
Indices: 79495--79679 Score: 185
Period size: 59 Copynumber: 3.2 Consensus size: 58
79485 AAACAGAGTC
* * * * * * *
79495 TTTGGACA-TCCGAGAGTAAGATAGTAATTTTTGGATGTTTCAAGGTTAAAAATGAGATT
1 TTTGGA-AGTCCGGGAGTAAAATAGTAA-TTTTAGAAGGTTCGAGGTAAAAAATGAGATT
* * *
79554 TTTGGAAGTTCGGGGGTAAAATAGTAATTTTAGAATGTTCGAGGTAAAAAAATGAGATT
1 TTTGGAAGTCCGGGAGTAAAATAGTAATTTTAGAAGGTTCGAGGT-AAAAAATGAGATT
* * * * *
79613 TTTGGAAGTCCGGGAGTAAAATGGTAATTTTTGGAAGGTT-GGGGTCAAAAATGGGATT
1 TTTGGAAGTCCGGGAGTAAAATAGTAA-TTTTAGAAGGTTCGAGGTAAAAAATGAGATT
79671 TTTGGAAGT
1 TTTGGAAGT
79680 TCGACGGTAA
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
58 34 0.32
59 61 0.58
60 10 0.10
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.34
Consensus pattern (58 bp):
TTTGGAAGTCCGGGAGTAAAATAGTAATTTTAGAAGGTTCGAGGTAAAAAATGAGATT
Found at i:79690 original size:58 final size:56
Alignment explanation
Indices: 79518--79838 Score: 203
Period size: 59 Copynumber: 5.4 Consensus size: 56
79508 GAGTAAGATA
* * * *
79518 GTAATTTTTGGATGTTTCAAGGTTAAAAATGAGATTTTTGGAAGTTCGGGGGTAAAATA
1 GTAATTTTTGGAAG-TTC-GGGGTAAAAATGAGATTTTTGGAAGTTC-GGGGTAAAATG
* * *
79577 GTAA-TTTTAGAATGTTCGAGGTAAAAAAATGAGATTTTTGGAAGTCCGGGAGTAAAATG
1 GTAATTTTTGGAA-GTTCGGGGT--AAAAATGAGATTTTTGGAAGTTCGGG-GTAAAATG
* *
79636 GTAATTTTTGGAAGGTT-GGGGTCAAAAATGGGATTTTTGGAAGTTCGACGGTAAAAATG
1 GTAATTTTTGGAA-GTTCGGGGT-AAAAATGAGATTTTTGGAAGTTCG-GGGT-AAAATG
* * *
79695 G-GATTTTTGGAAGTTCGGGGGT-AAAATG-GTAATTTTTGGAAGGTTTGAGGTCAAAAAATG
1 GTAATTTTTGGAAGTTC-GGGGTAAAAATGAG--ATTTTTGGAA-GTTCGGGGT---AAAATG
* * *
79755 G-GATTTTTGGAAGTTCGGGGGT-AAAATG-GTAATTTTTGAAAGGTTTGGGGTCAAAAAT-
1 GTAATTTTTGGAAGTTC-GGGGTAAAAATGAG--ATTTTTGGAA-GTTCGGGGT--AAAATG
79813 -TAGATTTTTGGAAGTTCGAGGGTAAA
1 GTA-ATTTTTGGAAGTTCG-GGGTAAA
79839 TGGTAATTTT
Statistics
Matches: 223, Mismatches: 21, Indels: 35
0.80 0.08 0.13
Matches are distributed among these distances:
56 1 0.00
57 11 0.05
58 60 0.27
59 83 0.37
60 68 0.30
ACGTcount: A:0.32, C:0.04, G:0.31, T:0.34
Consensus pattern (56 bp):
GTAATTTTTGGAAGTTCGGGGTAAAAATGAGATTTTTGGAAGTTCGGGGTAAAATG
Found at i:79719 original size:87 final size:89
Alignment explanation
Indices: 79601--79780 Score: 292
Period size: 87 Copynumber: 2.0 Consensus size: 89
79591 TTCGAGGTAA
*
79601 AAAAATGAGATTTTTGGAAGTCCGGGAGTAAAATGGTAATTTTTGGAAGG-TTGGGGTC-AAAAA
1 AAAAATGAGATTTTTGGAAGTCCGGGAGTAAAATGGTAATTTTTGGAAGGTTTGAGGTCAAAAAA
79664 TGGGATTTTTGGAAGTTCGACGGT
66 TGGGATTTTTGGAAGTTCGACGGT
* * *
79688 AAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTTGAGGTCAAAAAA
1 AAAAATGAGATTTTTGGAAGTCCGGGAGTAAAATGGTAATTTTTGGAAGGTTTGAGGTCAAAAAA
**
79753 TGGGATTTTTGGAAGTTCGGGGGT
66 TGGGATTTTTGGAAGTTCGACGGT
79777 AAAA
1 AAAA
79781 TGGTAATTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
87 47 0.55
88 7 0.08
89 31 0.36
ACGTcount: A:0.32, C:0.04, G:0.33, T:0.31
Consensus pattern (89 bp):
AAAAATGAGATTTTTGGAAGTCCGGGAGTAAAATGGTAATTTTTGGAAGGTTTGAGGTCAAAAAA
TGGGATTTTTGGAAGTTCGACGGT
Found at i:79765 original size:60 final size:59
Alignment explanation
Indices: 79630--79849 Score: 272
Period size: 60 Copynumber: 3.7 Consensus size: 59
79620 GTCCGGGAGT
* * *
79630 AAAATGGTAATTTTTGGAAGGTT--GGGGTCAAAAATGG-GATTTTTGGAA-GTTCGACGGT-A
1 AAAATGG-GATTTTTGGAA-GTTCGGGGGT--AAAATGGTAATTTTTGGAAGGTTTGA-GGTCA
79689 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTTGAGGTCAA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTTGAGGTC-A
* *
79749 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGAAAGGTTTGGGGTCA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTTGAGGTCA
** *
79808 AAAATTAGATTTTTGGAAGTTCGAGGGT-AAATGGTAATTTTT
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTT
79850 TGACAATTTA
Statistics
Matches: 147, Mismatches: 8, Indels: 13
0.88 0.05 0.08
Matches are distributed among these distances:
57 10 0.07
58 37 0.25
59 43 0.29
60 57 0.39
ACGTcount: A:0.30, C:0.04, G:0.31, T:0.35
Consensus pattern (59 bp):
AAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTTGAGGTCA
Found at i:80882 original size:12 final size:12
Alignment explanation
Indices: 80867--80913 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
80857 TCTTTTTTTA
*
80867 ATTAATGCTATT
1 ATTAATGTTATT
80879 ATTAAATGTTATT
1 ATT-AATGTTATT
*
80892 ATTTATGTTATT
1 ATTAATGTTATT
*
80904 ATTATTGTTA
1 ATTAATGTTA
80914 ATGATATTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 19 0.63
13 11 0.37
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (12 bp):
ATTAATGTTATT
Found at i:80963 original size:33 final size:33
Alignment explanation
Indices: 80899--80967 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
80889 ATTATTTATG
** * *
80899 TTATTATTATTGTTAATGATATTAGTGATATTA
1 TTATTATTATTGCCAATGATATTAATAATATTA
80932 TTATTATTATTGCCAAT-ATAATTAATAATATTA
1 TTATTATTATTGCCAATGAT-ATTAATAATATTA
80965 TTA
1 TTA
80968 ATGGTATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 2 0.06
33 29 0.94
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (33 bp):
TTATTATTATTGCCAATGATATTAATAATATTA
Found at i:81684 original size:37 final size:35
Alignment explanation
Indices: 81639--81720 Score: 110
Period size: 37 Copynumber: 2.3 Consensus size: 35
81629 CAAATTTAAT
** *
81639 TAAATTTAAATTTAAGGCAAATTTAAATTTAAAAAGA
1 TAAATTTAAATTTAACACAAATTTAAATCT-AAAA-A
*
81676 TAAATTTAAATTTAACATAAATTTAAATCTAAAAA
1 TAAATTTAAATTTAACACAAATTTAAATCTAAAAA
81711 TAAATTTAAA
1 TAAATTTAAA
81721 CGAATTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 11 0.27
36 4 0.10
37 26 0.63
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (35 bp):
TAAATTTAAATTTAACACAAATTTAAATCTAAAAA
Found at i:81697 original size:17 final size:17
Alignment explanation
Indices: 81630--81720 Score: 85
Period size: 17 Copynumber: 5.2 Consensus size: 17
81620 AAATCCATTC
*
81630 AAATTTAA-TTAAATTT
1 AAATTTAAGATAAATTT
**
81646 AAATTTAAGGCAAATTT
1 AAATTTAAGATAAATTT
81663 AAATTTAAAAAGATAAATTT
1 AAATTT---AAGATAAATTT
*
81683 AAATTTAACATAAATTT
1 AAATTTAAGATAAATTT
* *
81700 AAATCTAAAAATAAATTT
1 AAAT-TTAAGATAAATTT
81718 AAA
1 AAA
81721 CGAATTTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
16 8 0.13
17 26 0.41
18 14 0.22
20 15 0.24
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
AAATTTAAGATAAATTT
Found at i:82728 original size:206 final size:205
Alignment explanation
Indices: 82142--82729 Score: 853
Period size: 206 Copynumber: 2.9 Consensus size: 205
82132 TCTTTGTGTT
* * * ** * **
82142 TCATTAGGAAGACGAATTTGGTTCGCTCCTC--TATGTCTCATCAGGGGGCTAACCATTTTATTG
1 TCATTAGGAAGACGAATTTGGTCCACTTCTCAGTAT-T-TCATCAGGAAGCTAACCTTTTTATCA
* * *
82205 CTTCGAAC-TGCTTTTCAGTGTCTCATCAGGAAGCCTGAGTTCGAAGATTTGCTCACATCG-GAC
64 CTTCG-ACTTGCTTCTCAGTATCTCATCAGGAAGCGTG-GTTCGAAGATTTGCTCACATCGAG-C
* * *
82268 GTGAGTTTGATTTGGTCTTCTTCTCAATATGTCATCGGGAAGATGACTACGTCGTCTATTTCAAT
126 GTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCGGGAAGATGACTGCGTCGTCTATTTCAAT
82333 CCGCTTCTCTGTATC
191 CCGCTTCTCTGTATC
* *
82348 TCATCAGGAAGACGGATTTGGTCCACTTCTCAGTATTTCATCAGGAAGCTAACCTTTTTATCACT
1 TCATTAGGAAGACGAATTTGGTCCACTTCTCAGTATTTCATCAGGAAGCTAACCTTTTTATCACT
*
82413 TCGACTTGCTTCTCAATATCTCATCAGGAAGCCGTGGTTCGAAGATTTGCTCACATCGAGCGTGA
66 TCGACTTGCTTCTCAGTATCTCATCAGGAAG-CGTGGTTCGAAGATTTGCTCACATCGAGCGTGA
* * **
82478 GTTTGATTTGGTCTTCTTCTCAGTATCTCATCGGGAAGATGACTGCGTCGTTTGTTTCTGTCCGC
130 GTTTGATTTGGTCTTCTTCTCAGTATCTCATCGGGAAGATGACTGCGTCGTCTATTTCAATCCGC
*
82543 TTTTCTGTATC
195 TTCTCTGTATC
82554 TCATTAGGAAGACGAATTTGGTCCACTTCTCAGTATTTCATCAGGAAGCTAACCTTTTTATCACT
1 TCATTAGGAAGACGAATTTGGTCCACTTCTCAGTATTTCATCAGGAAGCTAACCTTTTTATCACT
*
82619 TCGACTTGCTTCTCAGTATCTTC-TCAGGTAGTCGTGGTTCGAAGATTTGCTCACATCGAGCGTG
66 TCGACTTGCTTCTCAGTATC-TCATCAGGAAG-CGTGGTTCGAAGATTTGCTCACATCGAGCGTG
*
82683 GGTTTGATTTGGTCTTCTTCTCAGTATCTCATCGGGAAGATGACTGC
129 AGTTTGATTTGGTCTTCTTCTCAGTATCTCATCGGGAAGATGACTGC
82730 ATCATTTTAT
Statistics
Matches: 348, Mismatches: 28, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
205 2 0.01
206 336 0.97
207 7 0.02
208 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (205 bp):
TCATTAGGAAGACGAATTTGGTCCACTTCTCAGTATTTCATCAGGAAGCTAACCTTTTTATCACT
TCGACTTGCTTCTCAGTATCTCATCAGGAAGCGTGGTTCGAAGATTTGCTCACATCGAGCGTGAG
TTTGATTTGGTCTTCTTCTCAGTATCTCATCGGGAAGATGACTGCGTCGTCTATTTCAATCCGCT
TCTCTGTATC
Found at i:94749 original size:60 final size:58
Alignment explanation
Indices: 94610--94971 Score: 267
Period size: 59 Copynumber: 6.1 Consensus size: 58
94600 GTTTCAGGGT
* * * * *
94610 TAAAAATGAGATTTTTGAAAGTTTGAGGGT-AAAATGGTAA-TTTTAGAAGGTTCGAGG
1 TAAAAATGGGATTTTTGGAAGTTTGAGGGTAAAAATGG-AATTTTTAGAAGTTTGGGGG
* * *
94667 TAAAAAAATGGGATTTTGGGAAGTTCGAGGGT-AAAATGGTAATTTTTGGAAGGTTTGGGGG
1 T--AAAAATGGGATTTTTGGAAGTTTGAGGGTAAAAATGG-AATTTTTAGAA-GTTTGGGGG
* **
94728 TCAAAAATGGGATTTTTGGAAGTTTGAGGGT-TAAATGGTAATTTTTAGAAGGTTT-ATGG
1 T-AAAAATGGGATTTTTGGAAGTTTGAGGGTAAAAATGG-AATTTTTAGAA-GTTTGGGGG
* * * *
94787 TAAAAAAAATGGGATTTTTAGAAGTTTGAGAGTAAAAAAAGGGATTTTTAGAAGTTTGGGGG
1 T---AAAAATGGGATTTTTGGAAGTTTGAGGGT-AAAAATGGAATTTTTAGAAGTTTGGGGG
* * * * *
94849 T-AAACTGGTAATTTTTGGAAGGTTCG-GGGTTAAAAAT-GAGATTTTTGGAAGTTTAGGGG
1 TAAAAATGG-GATTTTTGGAA-GTTTGAGGG-TAAAAATGGA-ATTTTTAGAAGTTTGGGGG
* * * *
94908 T-AAAATGGTAATTTTTGGAAAGTTTG-GGGTCAAAAATGGGATTTTTGGAAGTTCGGGGG
1 TAAAAATGG-GATTTTTGG-AAGTTTGAGGGT-AAAAATGGAATTTTTAGAAGTTTGGGGG
94967 TAAAA
1 TAAAA
94972 TGATAATTTT
Statistics
Matches: 251, Mismatches: 37, Indels: 31
0.79 0.12 0.10
Matches are distributed among these distances:
57 1 0.00
58 8 0.03
59 119 0.47
60 67 0.27
61 38 0.15
62 13 0.05
63 5 0.02
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.34
Consensus pattern (58 bp):
TAAAAATGGGATTTTTGGAAGTTTGAGGGTAAAAATGGAATTTTTAGAAGTTTGGGGG
Found at i:94967 original size:30 final size:29
Alignment explanation
Indices: 94610--94971 Score: 243
Period size: 30 Copynumber: 12.2 Consensus size: 29
94600 GTTTCAGGGT
* * *
94610 TAAAAATGAGATTTTTGAAAGTTTGAGGG
1 TAAAAATGGGATTTTTGGAAGTTTGGGGG
* * * * * *
94639 T-AAAATGGTAATTTTAGAAGGTTCGAGG
1 TAAAAATGGGATTTTTGGAAGTTTGGGGG
* * *
94667 TAAAAAAATGGGATTTTGGGAAGTTCGAGGG
1 T--AAAAATGGGATTTTTGGAAGTTTGGGGG
*
94698 T-AAAATGGTAATTTTTGGAAGGTTTGGGGG
1 TAAAAATGG-GATTTTTGGAA-GTTTGGGGG
*
94728 TCAAAAATGGGATTTTTGGAAGTTTGAGGG
1 T-AAAAATGGGATTTTTGGAAGTTTGGGGG
* * * **
94758 T-TAAATGGTAATTTTTAGAAGGTTT-ATGG
1 TAAAAATGG-GATTTTTGGAA-GTTTGGGGG
* * *
94787 TAAAAAAAATGGGATTTTTAGAAGTTTGAGAG
1 T---AAAAATGGGATTTTTGGAAGTTTGGGGG
* *
94819 TAAAAAAAGGGATTTTTAGAAGTTTGGGGG
1 T-AAAAATGGGATTTTTGGAAGTTTGGGGG
* * * *
94849 T-AAACTGGTAATTTTTGGAAGGTTCGGGGT
1 TAAAAATGG-GATTTTTGGAA-GTTTGGGGG
* *
94879 TAAAAATGAGATTTTTGGAAGTTTAGGGG
1 TAAAAATGGGATTTTTGGAAGTTTGGGGG
*
94908 T-AAAATGGTAATTTTTGGAAAGTTT-GGGG
1 TAAAAATGG-GATTTTTGG-AAGTTTGGGGG
*
94937 TCAAAAATGGGATTTTTGGAAGTTCGGGGG
1 T-AAAAATGGGATTTTTGGAAGTTTGGGGG
94967 TAAAA
1 TAAAA
94972 TGATAATTTT
Statistics
Matches: 260, Mismatches: 51, Indels: 44
0.73 0.14 0.12
Matches are distributed among these distances:
28 43 0.17
29 61 0.23
30 85 0.33
31 45 0.17
32 20 0.08
33 6 0.02
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.34
Consensus pattern (29 bp):
TAAAAATGGGATTTTTGGAAGTTTGGGGG
Found at i:94984 original size:30 final size:29
Alignment explanation
Indices: 94830--94982 Score: 132
Period size: 29 Copynumber: 5.2 Consensus size: 29
94820 AAAAAAAGGG
* * * *
94830 ATTTTTAGAAGTTTGGGGGTAAACTGGTA
1 ATTTTTGGAAGTTCGGGGGTAAAATGATA
* *
94859 ATTTTTGGAAGGTTCGGGGTTAAAAATGA-G
1 ATTTTTGGAA-GTTCGGGGGT-AAAATGATA
** *
94889 ATTTTTGGAAGTTTAGGGGTAAAATGGTA
1 ATTTTTGGAAGTTCGGGGGTAAAATGATA
* **
94918 ATTTTTGGAAAGTT-TGGGGTCAAAAATG-GG
1 ATTTTTGG-AAGTTCGGGGGT--AAAATGATA
94948 ATTTTTGGAAGTTCGGGGGTAAAATGATA
1 ATTTTTGGAAGTTCGGGGGTAAAATGATA
94977 ATTTTT
1 ATTTTT
94983 TGATAGTTTA
Statistics
Matches: 99, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
28 12 0.12
29 40 0.40
30 36 0.36
31 11 0.11
ACGTcount: A:0.29, C:0.03, G:0.31, T:0.37
Consensus pattern (29 bp):
ATTTTTGGAAGTTCGGGGGTAAAATGATA
Found at i:96119 original size:30 final size:30
Alignment explanation
Indices: 96067--96123 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
96057 GCTATTATTA
* * *
96067 AATGTTATTATTGATGTCATTATTATTGTT
1 AATGATATTAGTGATATCATTATTATTGTT
*
96097 AATGATATTAGTGATATGATTATTATT
1 AATGATATTAGTGATATCATTATTATT
96124 ATTGCCAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.53
Consensus pattern (30 bp):
AATGATATTAGTGATATCATTATTATTGTT
Found at i:96834 original size:6 final size:6
Alignment explanation
Indices: 96815--96905 Score: 57
Period size: 6 Copynumber: 15.5 Consensus size: 6
96805 AAATCCATTC
*** *
96815 AAATTT -AA-TT AAATTT AAATTT -AAGGC AAATTT AAATTT AAAAAGTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT --AAATTT
* **
96862 AAATTT AAATTT AACA--T AAATTT AAATCT AAAAAT AAATTT AAA
1 AAATTT AAATTT AA-ATTT AAATTT AAATTT AAATTT AAATTT AAA
96906 CGAATTTAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
4 3 0.05
5 9 0.14
6 46 0.72
7 1 0.02
8 5 0.08
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (6 bp):
AAATTT
Found at i:96868 original size:37 final size:36
Alignment explanation
Indices: 96821--96905 Score: 118
Period size: 37 Copynumber: 2.4 Consensus size: 36
96811 ATTCAAATTT
** *
96821 AATTAAATTTAAATTTAAGGCAAATTTAAATTTAAA
1 AATTAAATTTAAATTTAACACAAATTTAAATCTAAA
*
96857 AAGTTAAATTTAAATTTAACATAAATTTAAATCTAAA
1 AA-TTAAATTTAAATTTAACACAAATTTAAATCTAAA
96894 AA-TAAATTTAAA
1 AATTAAATTTAAA
96906 CGAATTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
35 10 0.23
36 2 0.05
37 32 0.73
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (36 bp):
AATTAAATTTAAATTTAACACAAATTTAAATCTAAA
Found at i:96883 original size:17 final size:17
Alignment explanation
Indices: 96815--96905 Score: 85
Period size: 17 Copynumber: 5.2 Consensus size: 17
96805 AAATCCATTC
*
96815 AAATTT-AATTAAATTT
1 AAATTTAAAATAAATTT
***
96831 AAATTTAAGGCAAATTT
1 AAATTTAAAATAAATTT
96848 AAATTTAAAAAGTTAAATTT
1 AAATTT-AAAA--TAAATTT
*
96868 AAATTTAACATAAATTT
1 AAATTTAAAATAAATTT
*
96885 AAATCTAAAAATAAATTT
1 AAAT-TTAAAATAAATTT
96903 AAA
1 AAA
96906 CGAATTTAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
16 6 0.10
17 24 0.39
18 16 0.26
19 3 0.05
20 12 0.20
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTTAAAATAAATTT
Done.