Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011752.1 Kokia drynarioides strain JFW-HI SEQ_126746, 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: 217851
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Warning! 14 characters in sequence are not A, C, G, or T
Found at i:7563 original size:100 final size:100
Alignment explanation
Indices: 7390--7589 Score: 382
Period size: 100 Copynumber: 2.0 Consensus size: 100
7380 CTGGCGGCTG
7390 GCCATTGTTTTAATCTTAATAGTAGCACATAATCAACTGAGTTTAAACCTGTTATTTGTTACAAA
1 GCCATTGTTTTAATCTTAATAGTAGCACATAATCAACTGAGTTTAAACCTGTTATTTGTTACAAA
* *
7455 ATTATGTATATTATCTGCGAAATACATTATTGTTA
66 ATTATGTATATTATCTACAAAATACATTATTGTTA
7490 GCCATTGTTTTAATCTTAATAGTAGCACATAATCAACTGAGTTTAAACCTGTTATTTGTTACAAA
1 GCCATTGTTTTAATCTTAATAGTAGCACATAATCAACTGAGTTTAAACCTGTTATTTGTTACAAA
7555 ATTATGTATATTATCTACAAAATACATTATTGTTA
66 ATTATGTATATTATCTACAAAATACATTATTGTTA
7590 TTTACAGTTA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (100 bp):
GCCATTGTTTTAATCTTAATAGTAGCACATAATCAACTGAGTTTAAACCTGTTATTTGTTACAAA
ATTATGTATATTATCTACAAAATACATTATTGTTA
Found at i:15304 original size:14 final size:12
Alignment explanation
Indices: 15279--15307 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15269 ATATCGAATA
15279 ATTTTTTATATT
1 ATTTTTTATATT
15291 ATTTTTTAT-TT
1 ATTTTTTATATT
15302 ATTTTT
1 ATTTTT
15308 AAATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTTATATT
Found at i:15780 original size:3 final size:3
Alignment explanation
Indices: 15774--15799 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15764 AATATAGTAA
15774 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
15800 ATATAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:17665 original size:17 final size:18
Alignment explanation
Indices: 17639--17701 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 18
17629 AGTTTTTATT
17639 ATAATTTTTATA-AGTTA
1 ATAATTTTTATATAGTTA
* *
17656 ATACTTTTTA-ATATTTA
1 ATAATTTTTATATAGTTA
17673 ATAATTTTTATGAT-GTTTA
1 ATAATTTTTAT-ATAG-TTA
*
17692 ATATTTTTTA
1 ATAATTTTTA
17702 ATAATTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
16 1 0.03
17 22 0.59
19 14 0.38
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (18 bp):
ATAATTTTTATATAGTTA
Found at i:17691 original size:26 final size:26
Alignment explanation
Indices: 17662--17714 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
17652 GTTAATACTT
17662 TTTAATA-TTTAATAATTTTTATGATG
1 TTTAATATTTTAATAA-TTTTATGATG
17688 TTTAATATTTTTTAATAATTTTATGAT
1 TTTAATA--TTTTAATAATTTTATGAT
17715 TTTTTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 7 0.29
28 9 0.38
29 8 0.33
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (26 bp):
TTTAATATTTTAATAATTTTATGATG
Found at i:17710 original size:19 final size:18
Alignment explanation
Indices: 17653--17719 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
17643 TTTTTATAAG
*
17653 TTAATACTTTTTAATA-T
1 TTAATATTTTTTAATATT
*
17670 TTAATAATTTTT-ATGATGT
1 TTAATATTTTTTAAT-AT-T
17689 TTAATATTTTTTAATAATT
1 TTAATATTTTTTAAT-ATT
17708 TT-ATGATTTTTT
1 TTAAT-ATTTTTT
17720 TTATAAGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
16 2 0.05
17 12 0.29
18 2 0.05
19 22 0.52
20 4 0.10
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (18 bp):
TTAATATTTTTTAATATT
Found at i:17742 original size:20 final size:20
Alignment explanation
Indices: 17718--17762 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
17708 TTATGATTTT
*
17718 TTTTATAAGTTTTGA-ATAA
1 TTTTACAAGTTTTGATATAA
*
17737 TATTTACACGTTTTGATATAA
1 T-TTTACAAGTTTTGATATAA
17758 TTTTA
1 TTTTA
17763 AATATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 16 0.73
21 5 0.23
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (20 bp):
TTTTACAAGTTTTGATATAA
Found at i:18764 original size:3 final size:3
Alignment explanation
Indices: 18752--18781 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
18742 CATAAAAAAT
18752 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18782 AACACCAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:20982 original size:22 final size:22
Alignment explanation
Indices: 20944--20994 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
20934 GTTGCACATA
*
20944 ATTTTATATATAATTTAA-TTC
1 ATTTAATATATAATTTAATTTC
*
20965 ATTTAATAGTATATTTTAATTTC
1 ATTTAATA-TATAATTTAATTTC
20988 ATTTAAT
1 ATTTAAT
20995 TATTGTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 7 0.27
22 9 0.35
23 10 0.38
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTAATATATAATTTAATTTC
Found at i:21789 original size:96 final size:96
Alignment explanation
Indices: 21605--21796 Score: 221
Period size: 96 Copynumber: 2.0 Consensus size: 96
21595 AAATTTGCAG
** *
21605 AAGGATATTCGATTATCTCGATTCGAAGAAAGGTTGAACCTAGTAAGTTAAGGCGCAATATTTCA
1 AAGGATATTCGATTATCTCGATTCGAAGAAAAATTGAACCTAGTAAGTTAAGGCACAATATTTCA
* *
21670 GAATCGAGGATAAGGAAACATTACCTCGATT
66 GAATCGAGAATAAAGAAACATTACCTCGATT
* * * * *
21701 AAGGGTATTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTGAGTTAAGGCACAA-ATCTTC
1 AAGGATATTCGATTATCTCGATTCGAAGAAAAATTGAACCTAGTAAGTTAAGGCACAATAT-TTC
*
21765 -GAAACTCGA-AATAAA-AGAATATTACCTCGATT
65 AG-AA-TCGAGAATAAAGA-AACATTACCTCGATT
21797 TTTAAAGCTT
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
95 4 0.05
96 73 0.90
97 4 0.05
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (96 bp):
AAGGATATTCGATTATCTCGATTCGAAGAAAAATTGAACCTAGTAAGTTAAGGCACAATATTTCA
GAATCGAGAATAAAGAAACATTACCTCGATT
Found at i:22181 original size:30 final size:29
Alignment explanation
Indices: 22145--22378 Score: 221
Period size: 29 Copynumber: 7.9 Consensus size: 29
22135 GTCTTCGATA
22145 TTCGGGGGT-AAAATGGTAATTTTTGGAAG
1 TTCGGGGGTAAAAATGG-AATTTTTGGAAG
* * *
22174 TTTC-GGGGTCAAAATGGGATTTTTAGAAG
1 -TTCGGGGGTAAAAATGGAATTTTTGGAAG
* *
22203 TTCGAGGGTAAAAATAGAATTTTTGGAAG
1 TTCGGGGGTAAAAATGGAATTTTTGGAAG
22232 TTTC-GGGGTCAAAAAATGGGAA-TTTTGGAAG
1 -TTCGGGGGT--AAAAAT-GGAATTTTTGGAAG
* * *
22263 TTCGAGAGTAAAAATGGGATTTTTGGAAG
1 TTCGGGGGTAAAAATGGAATTTTTGGAAG
*
22292 TTC-GGGGTCAAAAATTGG-ATTTCTGGAAG
1 TTCGGGGGT-AAAAA-TGGAATTTTTGGAAG
*
22321 TTCGAGGGTCAAAAATGGGAA-TTTTGGAAG
1 TTCGGGGGT-AAAAAT-GGAATTTTTGGAAG
*
22351 TTCGGGGGTAAAAAATGAAATTTTTGGA
1 TTCGGGGGT-AAAAATGGAATTTTTGGA
22379 CATTTTAGGG
Statistics
Matches: 170, Mismatches: 20, Indels: 28
0.78 0.09 0.13
Matches are distributed among these distances:
28 9 0.05
29 79 0.46
30 60 0.35
31 19 0.11
32 3 0.02
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (29 bp):
TTCGGGGGTAAAAATGGAATTTTTGGAAG
Found at i:22195 original size:29 final size:28
Alignment explanation
Indices: 22149--22357 Score: 222
Period size: 29 Copynumber: 7.1 Consensus size: 28
22139 TCGATATTCG
*
22149 GGGGT-AAAATGGTAATTTTTGGAAGTTTC
1 GGGGTCAAAATGG-GATTTTTGGAAG-TTC
*
22178 GGGGTCAAAATGGGATTTTTAGAAGTTC
1 GGGGTCAAAATGGGATTTTTGGAAGTTC
* * *
22206 GAGGGTAAAAATAGAATTTTTGGAAGTTTC
1 G-GGGTCAAAATGGGATTTTTGGAAG-TTC
*
22236 GGGGTCAAAAAATGGGAATTTTGGAAGTTC
1 GGGGTC--AAAATGGGATTTTTGGAAGTTC
* *
22266 GAGAGTAAAAATGGGATTTTTGGAAGTTC
1 G-GGGTCAAAATGGGATTTTTGGAAGTTC
* *
22295 GGGGTCAAAAATTGGATTTCTGGAAGTTC
1 GGGGTC-AAAATGGGATTTTTGGAAGTTC
*
22324 GAGGGTCAAAAATGGGAATTTTGGAAGTTC
1 G-GGGTC-AAAATGGGATTTTTGGAAGTTC
22354 GGGG
1 GGGG
22358 GTAAAAAATG
Statistics
Matches: 152, Mismatches: 20, Indels: 16
0.81 0.11 0.09
Matches are distributed among these distances:
28 7 0.05
29 85 0.56
30 41 0.27
31 19 0.12
ACGTcount: A:0.31, C:0.06, G:0.33, T:0.31
Consensus pattern (28 bp):
GGGGTCAAAATGGGATTTTTGGAAGTTC
Found at i:22212 original size:58 final size:58
Alignment explanation
Indices: 22145--22378 Score: 285
Period size: 60 Copynumber: 4.0 Consensus size: 58
22135 GTCTTCGATA
* *
22145 TTCGGGGGT-AAAATGGTAATTTTTGGAAGTTTCGGGGTC-AAAATGGGATTTTTAGAAG
1 TTCGAGGGTAAAAATGG-AATTTTTGGAAG-TTCGGGGTCAAAAATGGGATTTTTGGAAG
* *
22203 TTCGAGGGTAAAAATAGAATTTTTGGAAGTTTCGGGGTCAAAAAATGGGAATTTTGGAAG
1 TTCGAGGGTAAAAATGGAATTTTTGGAAG-TTCGGGGTC-AAAAATGGGATTTTTGGAAG
* * * *
22263 TTCGAGAGTAAAAATGGGATTTTTGGAAGTTCGGGGTCAAAAATTGGATTTCTGGAAG
1 TTCGAGGGTAAAAATGGAATTTTTGGAAGTTCGGGGTCAAAAATGGGATTTTTGGAAG
* **
22321 TTCGAGGGTCAAAAATGGGAA-TTTTGGAAGTTCGGGGGTAAAAAATGAAATTTTTGGA
1 TTCGAGGGT-AAAAAT-GGAATTTTTGGAAGTTC-GGGGTCAAAAATGGGATTTTTGGA
22379 CATTTTAGGG
Statistics
Matches: 153, Mismatches: 17, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
58 55 0.36
59 33 0.22
60 65 0.42
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (58 bp):
TTCGAGGGTAAAAATGGAATTTTTGGAAGTTCGGGGTCAAAAATGGGATTTTTGGAAG
Found at i:22365 original size:89 final size:89
Alignment explanation
Indices: 22154--22378 Score: 287
Period size: 89 Copynumber: 2.5 Consensus size: 89
22144 ATTCGGGGGT
* * *
22154 AAAATGGTAATTTTTGGAAGTTTC-GGGGTCAAAATGGGATTTTTAGAAGTTCGAGGGTAAAAAT
1 AAAATGGGAA-TTTTGGAAG-TTCGGGGGTAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAAT
*
22218 AGAATTTTTGGAAGTTTCGGGGTCAA
64 AGAATTTCTGGAAGTTTCGGGGTCAA
* * *
22244 AAAATGGGAATTTTGGAAGTTCGAGAGTAAAAATGGGATTTTTGGAAGTTCG-GGGTCAAAAATT
1 AAAATGGGAATTTTGGAAGTTCGGGGGTAAAAATGGGATTTTTGGAAGTTCGAGGGT-AAAAATA
*
22308 GGATTTCTGGAAG-TTCGAGGGTC-A
65 GAATTTCTGGAAGTTTCG-GGGTCAA
**
22332 AAAATGGGAATTTTGGAAGTTCGGGGGTAAAAAATGAAATTTTTGGA
1 AAAATGGGAATTTTGGAAGTTCGGGGGT-AAAAATGGGATTTTTGGA
22379 CATTTTAGGG
Statistics
Matches: 119, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
88 38 0.32
89 72 0.61
90 9 0.08
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.31
Consensus pattern (89 bp):
AAAATGGGAATTTTGGAAGTTCGGGGGTAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATAG
AATTTCTGGAAGTTTCGGGGTCAA
Found at i:24138 original size:15 final size:15
Alignment explanation
Indices: 24118--24158 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
24108 GTTTGGAATC
24118 TTGGGCCATTTGTAA
1 TTGGGCCATTTGTAA
*
24133 TTGGGCCATCTGTAA
1 TTGGGCCATTTGTAA
24148 TTGGGCCATTT
1 TTGGGCCATTT
24159 AGATCTGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.39
Consensus pattern (15 bp):
TTGGGCCATTTGTAA
Found at i:25500 original size:11 final size:11
Alignment explanation
Indices: 25481--25513 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
25471 TTATGATATT
25481 ATTTATATTTA
1 ATTTATATTTA
*
25492 ATTTGTATTTA
1 ATTTATATTTA
25503 ATTTATATTTA
1 ATTTATATTTA
25514 TCTTTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
ATTTATATTTA
Found at i:25541 original size:14 final size:14
Alignment explanation
Indices: 25504--25533 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25494 TTGTATTTAA
*
25504 TTTATATTTATCTT
1 TTTAGATTTATCTT
25518 TTTAGATTTATCTT
1 TTTAGATTTATCTT
25532 TT
1 TT
25534 AGAGTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTAGATTTATCTT
Found at i:29242 original size:41 final size:41
Alignment explanation
Indices: 29151--29246 Score: 149
Period size: 41 Copynumber: 2.3 Consensus size: 41
29141 TTGTTCGTAG
* *
29151 AGAATTCTTATCAAGGTAGAGATTGTTAGAATTAGGTGACT
1 AGAATTCTTGTTAAGGTAGAGATTGTTAGAATTAGGTGACT
*
29192 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATT-GGTTGACT
1 AGAATTCTTGTTAAGGTAGAGATTGTTAGAATTAGG-TGACT
29233 AGAATTCTTGTTAA
1 AGAATTCTTGTTAA
29247 AATAAAATTC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 2 0.04
41 49 0.96
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (41 bp):
AGAATTCTTGTTAAGGTAGAGATTGTTAGAATTAGGTGACT
Found at i:31717 original size:21 final size:21
Alignment explanation
Indices: 31687--31726 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31677 TTCAATTATT
*
31687 TAATTAAAATTAATTAAATAA
1 TAATTAAAATAAATTAAATAA
*
31708 TAATTCAAATAAATTAAAT
1 TAATTAAAATAAATTAAAT
31727 TGATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATTAAAATAAATTAAATAA
Found at i:32802 original size:26 final size:25
Alignment explanation
Indices: 32764--32825 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
32754 CAAGAAGAAA
* * * *
32764 TAAAACAATAAAAATAAAATCTATTC
1 TAAAA-AAGAAAAAAAAAACCTAATC
32790 TGAAAAAAGAAAAAAAAAACCTAATC
1 T-AAAAAAGAAAAAAAAAACCTAATC
32816 TAAAAAAGAA
1 TAAAAAAGAA
32826 TTCCAATCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 9 0.29
26 18 0.58
27 4 0.13
ACGTcount: A:0.68, C:0.10, G:0.05, T:0.18
Consensus pattern (25 bp):
TAAAAAAGAAAAAAAAAACCTAATC
Found at i:39026 original size:21 final size:20
Alignment explanation
Indices: 39004--39075 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 20
38994 ATTATGTATA
39004 AATTATAATTAAATTAAACT
1 AATTATAATTAAATTAAACT
* *
39024 AAAATATGATTTAATAATT-AACT
1 -AATTAT-AATT-A-AATTAAACT
* *
39047 AATTAT-GTTTAATTAAACT
1 AATTATAATTAAATTAAACT
39066 AATTA-AATTA
1 AATTATAATTA
39076 CAAAAATTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
18 4 0.10
19 11 0.28
20 2 0.05
21 5 0.13
22 8 0.21
23 5 0.13
24 4 0.10
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (20 bp):
AATTATAATTAAATTAAACT
Found at i:42020 original size:2 final size:2
Alignment explanation
Indices: 42013--42041 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
42003 ATTAAACATC
42013 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42042 GAGATATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66387 original size:29 final size:30
Alignment explanation
Indices: 66341--66398 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
66331 GACTTGGATT
*
66341 AAATCAAAATTTCATGTATAAAATTACACG
1 AAATCAAAAGTTCATGTATAAAATTACACG
*
66371 AAATC-AAAGTTCATGTATACAATTACAC
1 AAATCAAAAGTTCATGTATAAAATTACAC
66399 ATTAAACTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTACACG
Found at i:66674 original size:15 final size:15
Alignment explanation
Indices: 66648--66685 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
66638 GCTATAATAT
66648 TTAAAT-TTTA-TTA
1 TTAAATATTTATTTA
66661 TTCAAATATTTATTTA
1 TT-AAATATTTATTTA
66677 TTAAATATT
1 TTAAATATT
66686 ACATTTCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 4 0.18
15 11 0.50
16 5 0.23
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAAATATTTATTTA
Found at i:66878 original size:15 final size:15
Alignment explanation
Indices: 66841--66879 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
66831 CTCGTAAAAA
66841 TATAATTTATCATTT
1 TATAATTTATCATTT
66856 TAATAATTTAT-ATGTT
1 T-ATAATTTATCAT-TT
66872 TATAATTT
1 TATAATTT
66880 TTAAAAGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (15 bp):
TATAATTTATCATTT
Found at i:66922 original size:29 final size:30
Alignment explanation
Indices: 66870--66942 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 30
66860 AATTTATATG
* * **
66870 TTTATAATTTTTAAAAGATGAAAA-CAAAT
1 TTTATCATTATTAAAAGAACAAAATCAAAT
**
66899 TTTATCATTATTAAAAGAACAAAATGTAAT
1 TTTATCATTATTAAAAGAACAAAATCAAAT
*
66929 TTCATCATTATTAA
1 TTTATCATTATTAA
66943 TTCAAAATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 20 0.56
30 16 0.44
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (30 bp):
TTTATCATTATTAAAAGAACAAAATCAAAT
Found at i:73241 original size:21 final size:20
Alignment explanation
Indices: 73217--73287 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
73207 CCCAAACCAA
*
73217 AAATCTTGAATCTCAAACCCC
1 AAATCTTAAAT-TCAAACCCC
* * *
73238 AAATCATGACATT-AAACCCT
1 AAATC-TTAAATTCAAACCCC
*
73258 AAA-CTTCAAATTCGAACCCC
1 AAATCTT-AAATTCAAACCCC
73278 AAATCTTAAA
1 AAATCTTAAA
73288 CCTCAAACTT
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 20 0.53
21 9 0.24
22 3 0.08
ACGTcount: A:0.44, C:0.28, G:0.04, T:0.24
Consensus pattern (20 bp):
AAATCTTAAATTCAAACCCC
Found at i:73287 original size:27 final size:27
Alignment explanation
Indices: 73257--73320 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
73247 CATTAAACCC
*
73257 TAAACTTCAAA-TTCGAACCCCAAATCT
1 TAAACCTCAAACTT-GAACCCCAAATCT
*
73284 TAAACCTCAAACTTGAACCCTAAATCT
1 TAAACCTCAAACTTGAACCCCAAATCT
*
73311 TGAACCTCAA
1 TAAACCTCAA
73321 GTCTTGATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.41, C:0.30, G:0.05, T:0.25
Consensus pattern (27 bp):
TAAACCTCAAACTTGAACCCCAAATCT
Found at i:73294 original size:14 final size:14
Alignment explanation
Indices: 73271--73327 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
73261 CTTCAAATTC
*
73271 GAACCCCAAATCTT
1 GAACCTCAAATCTT
*
73285 AAACCTCAAA-CTT
1 GAACCTCAAATCTT
73298 GAACC-CTAAATCTT
1 GAACCTC-AAATCTT
*
73312 GAACCTCAAGTCTT
1 GAACCTCAAATCTT
73326 GA
1 GA
73328 TTTTGAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 1 0.03
13 10 0.28
14 24 0.67
15 1 0.03
ACGTcount: A:0.37, C:0.30, G:0.09, T:0.25
Consensus pattern (14 bp):
GAACCTCAAATCTT
Found at i:76959 original size:27 final size:27
Alignment explanation
Indices: 76929--76987 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
76919 TATATATGTA
76929 ATTAAATAATTATGATTAAATTCTGTT
1 ATTAAATAATTATGATTAAATTCTGTT
*
76956 ATTAAATAATTATGGTTAAATTCTGTT
1 ATTAAATAATTATGATTAAATTCTGTT
*
76983 GTTAA
1 ATTAA
76988 TTAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.47
Consensus pattern (27 bp):
ATTAAATAATTATGATTAAATTCTGTT
Found at i:76994 original size:31 final size:28
Alignment explanation
Indices: 76927--77000 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 28
76917 TTTATATATG
76927 TAATTAAATAATTATGATTAAATTCTGT
1 TAATTAAATAATTATGATTAAATTCTGT
*
76955 T-ATTAAATAATTATGGTTAAATTCTGTTGT
1 TAATTAAATAATTATGATTAAATTC---TGT
76985 TAATTAAATAAATTAT
1 TAATTAAAT-AATTAT
77001 AAATTACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 22 0.55
28 1 0.03
30 4 0.10
31 7 0.17
32 6 0.15
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (28 bp):
TAATTAAATAATTATGATTAAATTCTGT
Found at i:82387 original size:36 final size:36
Alignment explanation
Indices: 82347--82436 Score: 119
Period size: 35 Copynumber: 2.5 Consensus size: 36
82337 TCTGTTGGCG
* *
82347 ATATAAAACATAAGAAATGTGTACTATTTGCTAGTA
1 ATATAAAACATAAGAAATGTGTACCATTTGCTAGCA
* * *
82383 ATATAAAACACAAG-AATGTGTACCATTTGTTGGCA
1 ATATAAAACATAAGAAATGTGTACCATTTGCTAGCA
*
82418 ATATAAAACGTAAGAAATG
1 ATATAAAACATAAGAAATG
82437 CATAATGTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
35 29 0.63
36 17 0.37
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.29
Consensus pattern (36 bp):
ATATAAAACATAAGAAATGTGTACCATTTGCTAGCA
Found at i:110242 original size:25 final size:26
Alignment explanation
Indices: 110187--110245 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
110177 ATTAAGTTTT
110187 AATTTT-ATTTTAATTATAAATATCAA
1 AATTTTAATTTTAATTATAAATAT-AA
110213 AATTTTAATTTTAATT-T-AATATATA
1 AATTTTAATTTTAATTATAAATATA-A
*
110238 CATTTTAA
1 AATTTTAA
110246 AAAATAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 1 0.03
25 13 0.43
26 7 0.23
27 9 0.30
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (26 bp):
AATTTTAATTTTAATTATAAATATAA
Found at i:123607 original size:6 final size:6
Alignment explanation
Indices: 123596--123631 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
123586 ACCAATTGAC
123596 ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA
1 ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA
123632 GACGTTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
ATGAAA
Found at i:128887 original size:22 final size:20
Alignment explanation
Indices: 128871--128913 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
128861 TAAAATTAGA
128871 TAAA-AAAAATACAAAAATT
1 TAAAGAAAAATACAAAAATT
128890 TAAATGAAAAATACAAAAATT
1 TAAA-GAAAAATACAAAAATT
128911 TAA
1 TAA
128914 TTTCTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 4 0.18
21 18 0.82
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (20 bp):
TAAAGAAAAATACAAAAATT
Found at i:134951 original size:23 final size:20
Alignment explanation
Indices: 134920--134966 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 20
134910 ATATTCAAAT
*
134920 AATATTAAAAAAGACAGTAAAA
1 AATAGTAAAAAAG-CA-TAAAA
134942 CAATAGTAAAAAAGCATAAAA
1 -AATAGTAAAAAAGCATAAAA
134963 AATA
1 AATA
134967 ACACCCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 5 0.22
22 2 0.09
23 12 0.52
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.17
Consensus pattern (20 bp):
AATAGTAAAAAAGCATAAAA
Found at i:134994 original size:20 final size:20
Alignment explanation
Indices: 134971--135010 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
134961 AAAATAACAC
134971 CCAAACAACAA-AAACAATAA
1 CCAAACAACAACAAA-AATAA
*
134991 CCAAACACCAACAAAAATAA
1 CCAAACAACAACAAAAATAA
135011 TAGCAAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.68, C:0.28, G:0.00, T:0.05
Consensus pattern (20 bp):
CCAAACAACAACAAAAATAA
Found at i:135053 original size:13 final size:13
Alignment explanation
Indices: 135035--135086 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
135025 CCAAAACATT
135035 AAAAAACAGCAAA
1 AAAAAACAGCAAA
135048 AAAAAACA-CACCAA
1 AAAAAACAGCA--AA
* *
135062 AAACAACAACAAA
1 AAAAAACAGCAAA
135075 AAAAAACAGCAA
1 AAAAAACAGCAA
135087 TATAAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 2 0.06
13 20 0.61
14 9 0.27
15 2 0.06
ACGTcount: A:0.75, C:0.21, G:0.04, T:0.00
Consensus pattern (13 bp):
AAAAAACAGCAAA
Found at i:136979 original size:23 final size:23
Alignment explanation
Indices: 136949--136994 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
136939 GTTCGCAGTG
136949 GAATCTAAATCACTTCTTTAAAT
1 GAATCTAAATCACTTCTTTAAAT
136972 GAATCTAAATCACTTCTTTAAAT
1 GAATCTAAATCACTTCTTTAAAT
136995 AAATAGCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.39
Consensus pattern (23 bp):
GAATCTAAATCACTTCTTTAAAT
Found at i:146326 original size:13 final size:13
Alignment explanation
Indices: 146302--146335 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
146292 TTGTTTGACC
146302 TAAATA-TAAAAT
1 TAAATATTAAAAT
146314 TAAATATTAAAAT
1 TAAATATTAAAAT
*
146327 CAAATATTA
1 TAAATATTA
146336 TCAAATGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAATATTAAAAT
Found at i:146949 original size:18 final size:19
Alignment explanation
Indices: 146915--146950 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
146905 ACCAAAATAA
*
146915 TCAAAATAATTTTTAAAAT
1 TCAAAATAATTTATAAAAT
146934 TCAAAAT-ATTTATAAAA
1 TCAAAATAATTTATAAAA
146951 AAATAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
TCAAAATAATTTATAAAAT
Found at i:148200 original size:32 final size:30
Alignment explanation
Indices: 148164--148222 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
148154 TAATAAAGTG
*
148164 AAAATTACACTTTAACCTCTTTTAAAAATGAT
1 AAAATTACAATTTAA--TCTTTTAAAAATGAT
**
148196 AAAATTTTAATTTAATCTTTTAAAAAT
1 AAAATTACAATTTAATCTTTTAAAAAT
148223 TACATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 12 0.50
32 12 0.50
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (30 bp):
AAAATTACAATTTAATCTTTTAAAAATGAT
Found at i:149699 original size:28 final size:29
Alignment explanation
Indices: 149622--149706 Score: 109
Period size: 29 Copynumber: 3.0 Consensus size: 29
149612 ACATTTTATT
* * **
149622 GTGTGATATTACTCTTTGTTGTGTTATTT
1 GTGTGATATTATTCTGTGTTGTGTTATCA
* *
149651 GTGTGATGTTATTCTGAGTTGTGTTATCA
1 GTGTGATATTATTCTGTGTTGTGTTATCA
149680 GTGTGAT-TTATTCTGTGTTGTGTTATC
1 GTGTGATATTATTCTGTGTTGTGTTATC
149707 GAATATTGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 19 0.39
29 30 0.61
ACGTcount: A:0.14, C:0.07, G:0.25, T:0.54
Consensus pattern (29 bp):
GTGTGATATTATTCTGTGTTGTGTTATCA
Found at i:154929 original size:28 final size:28
Alignment explanation
Indices: 154897--154950 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
154887 ACTCTACGAG
154897 ATGAATTGGTACGGTGTGACTTAAACTC
1 ATGAATTGGTACGGTGTGACTTAAACTC
* *
154925 ATGAATTGTTACTGTGTGACTTAAAC
1 ATGAATTGGTACGGTGTGACTTAAAC
154951 GCTTCGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (28 bp):
ATGAATTGGTACGGTGTGACTTAAACTC
Found at i:184455 original size:3 final size:3
Alignment explanation
Indices: 184441--184484 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
184431 TCTTATCTAC
*
184441 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
184485 ACCATCCGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:195554 original size:31 final size:31
Alignment explanation
Indices: 195519--195579 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
195509 TTAACAATTG
* * *
195519 AATTAATTTAGATGATAAAATATGATTTAAA
1 AATTAATTTAAATAATAAAATATAATTTAAA
* *
195550 AATTATTTTAAATAATAAATTATAATTTAA
1 AATTAATTTAAATAATAAAATATAATTTAA
195580 GTACCACTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (31 bp):
AATTAATTTAAATAATAAAATATAATTTAAA
Found at i:200743 original size:17 final size:16
Alignment explanation
Indices: 200710--200760 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
200700 AATTATAAAT
*
200710 ATTCCAAATATAAAAAA
1 ATTCAAAATA-AAAAAA
200727 ATTCAAAATAAATAAAA
1 ATTCAAAATAAA-AAAA
*
200744 GTTCATAAA-AAAAAAA
1 ATTCA-AAATAAAAAAA
200760 A
1 A
200761 AAAGAAACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 6 0.21
17 20 0.69
18 3 0.10
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.22
Consensus pattern (16 bp):
ATTCAAAATAAAAAAA
Found at i:204634 original size:21 final size:22
Alignment explanation
Indices: 204595--204644 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
204585 AGATAATTAT
*
204595 ATTATTTTCTTTAAATTAA-GA
1 ATTATTTTCTTAAAATTAATGA
*
204616 ATTATTTT-TTAAAATTTAATGT
1 ATTATTTTCTTAAAA-TTAATGA
204638 ATTATTT
1 ATTATTT
204645 GTTCATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.20
21 12 0.48
22 8 0.32
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (22 bp):
ATTATTTTCTTAAAATTAATGA
Found at i:207244 original size:20 final size:18
Alignment explanation
Indices: 207192--207250 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 18
207182 AAAAAGTAAC
207192 TAAAATTTATTAAAATAA
1 TAAAATTTATTAAAATAA
*
207210 TTAAATTTCATTTAAAATAA
1 TAAAATTT-A-TTAAAATAA
*
207230 TAAAAAATTTATTAAAGTAA
1 T--AAAATTTATTAAAATAA
207250 T
1 T
207251 TGCCAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.21
19 1 0.03
20 19 0.56
21 1 0.03
22 6 0.18
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
TAAAATTTATTAAAATAA
Found at i:216638 original size:17 final size:17
Alignment explanation
Indices: 216616--216656 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
216606 TACCTCGTTT
216616 TATTTCATCACACAAAA
1 TATTTCATCACACAAAA
216633 TATTTCATCACACAAAA
1 TATTTCATCACACAAAA
*
216650 CATTTCA
1 TATTTCA
216657 AAACAACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (17 bp):
TATTTCATCACACAAAA
Found at i:217125 original size:22 final size:22
Alignment explanation
Indices: 217071--217150 Score: 106
Period size: 23 Copynumber: 3.5 Consensus size: 22
217061 GCTAGGGAAA
* *
217071 CAGTAAGCACACACAGTGCAAT
1 CAGTAGGCACACATAGTGCAAT
217093 CCAGTAGGCACACATAGTGCAAT
1 -CAGTAGGCACACATAGTGCAAT
* *
217116 CATTAGGCACACATAGCGCAAAT
1 CAGTAGGCACACATAGTGC-AAT
217139 CAGTAGGCACAC
1 CAGTAGGCACAC
217151 GAGGTGCGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
22 17 0.33
23 34 0.67
ACGTcount: A:0.38, C:0.28, G:0.20, T:0.15
Consensus pattern (22 bp):
CAGTAGGCACACATAGTGCAAT
Found at i:217165 original size:23 final size:23
Alignment explanation
Indices: 217043--217192 Score: 98
Period size: 23 Copynumber: 6.4 Consensus size: 23
217033 CGAAGTACTT
217043 AACAGTAAGCACAC-AAGTGCTAGGGA
1 AACAGTAAGCACACGAAGTGC----GA
217069 AACAGTAAGCACAC-ACAGTGC-A
1 AACAGTAAGCACACGA-AGTGCGA
* *
217091 ATCCAGTAGGCACAC-ATAGTGC-A
1 A-ACAGTAAGCACACGA-AGTGCGA
* * * *
217114 ATCATTAGGCACAC-ATAGCGC-A
1 AACAGTAAGCACACGA-AGTGCGA
* *
217136 AATCAGTAGGCACACGAGGTGCGA
1 AA-CAGTAAGCACACGAAGTGCGA
217160 AACAGTAAGCACACGAAGTGCGA
1 AACAGTAAGCACACGAAGTGCGA
217183 AACAGTAAGC
1 AACAGTAAGC
217193 GCGCTAGCGT
Statistics
Matches: 107, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
22 21 0.20
23 62 0.58
24 4 0.04
26 15 0.14
27 5 0.05
ACGTcount: A:0.40, C:0.23, G:0.24, T:0.13
Consensus pattern (23 bp):
AACAGTAAGCACACGAAGTGCGA
Done.