Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005928.1 Kokia drynarioides strain JFW-HI SEQ_120305, 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: 175765
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 17 characters in sequence are not A, C, G, or T
Found at i:4950 original size:16 final size:17
Alignment explanation
Indices: 4929--4961 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4919 AACCATTTGT
4929 CATTTA-ATTTATTAAA
1 CATTTAGATTTATTAAA
*
4945 CATTTAGATTTTTTAAA
1 CATTTAGATTTATTAAA
4962 ATATTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (17 bp):
CATTTAGATTTATTAAA
Found at i:10433 original size:20 final size:19
Alignment explanation
Indices: 10410--10477 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
10400 ATATTATAAA
10410 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
**
10429 CAAAAATTCAAAA-AAAATT
1 -AAAAATTCAAAATAATTTT
10448 -AAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
10466 AAAAACTTCAAA
1 AAAAA-TTCAAA
10478 TTTTATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 13 0.32
18 1 0.03
19 8 0.20
20 18 0.45
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:13379 original size:2 final size:2
Alignment explanation
Indices: 13366--13402 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
13356 CTTCAAAAGA
*
13366 AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
13403 TATACACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.46, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15434 original size:31 final size:31
Alignment explanation
Indices: 15381--15439 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
15371 AAGGTTATTA
*
15381 AACTATTCGAAAGTTTTCATTTAAGTCATTG
1 AACTATTCGAAAATTTTCATTTAAGTCATTG
*
15412 AACTAGTT-GAAAATTTTTATTTAAGTCA
1 AACTA-TTCGAAAATTTTCATTTAAGTCA
15440 CTAGATTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (31 bp):
AACTATTCGAAAATTTTCATTTAAGTCATTG
Found at i:17343 original size:102 final size:102
Alignment explanation
Indices: 17167--17365 Score: 328
Period size: 102 Copynumber: 2.0 Consensus size: 102
17157 GGATCTCCCC
*
17167 GAAACATTTCAGTGGAATCTTCCTGAAGAAATTGCAGCGGAGTACCAGTCCACTTTTCTATAGGG
1 GAAACATTTCAGTGGAATCTTCCTGAAGAAATTGCAGCGGAGTACCAGTCCACTTTTCTATAGGA
* *
17232 ATGTTGTTGGTGTTTATTCCATTGTCTCCATCTGGGA
66 ATATTGTTGGTGTTTAATCCATTGTCTCCATCTGGGA
* * *
17269 GAAACATTTCAGTGGAATCTTCCTGAAGAGATTGCAGTGGAGTACCAGTCCTCTCTTT-TATAGG
1 GAAACATTTCAGTGGAATCTTCCTGAAGAAATTGCAGCGGAGTACCAGTCCACT-TTTCTATAGG
17333 AATATTGTTGGTGTTTAATCCATTGTCTCCATC
65 AATATTGTTGGTGTTTAATCCATTGTCTCCATC
17366 CACTGGAATG
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 87 0.97
103 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (102 bp):
GAAACATTTCAGTGGAATCTTCCTGAAGAAATTGCAGCGGAGTACCAGTCCACTTTTCTATAGGA
ATATTGTTGGTGTTTAATCCATTGTCTCCATCTGGGA
Found at i:20327 original size:17 final size:18
Alignment explanation
Indices: 20291--20336 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
20281 ACAATTTTGG
*
20291 TTATTATTTTGGTATTTT
1 TTATTGTTTTGGTATTTT
20309 TTATTGTTTTGGT-TTTT
1 TTATTGTTTTGGTATTTT
20326 TTATTGTTTTG
1 TTATTGTTTTG
20337 ATTGTTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.11, C:0.00, G:0.15, T:0.74
Consensus pattern (18 bp):
TTATTGTTTTGGTATTTT
Found at i:20368 original size:21 final size:23
Alignment explanation
Indices: 20344--20391 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
20334 TTGATTGTTG
*
20344 TTTTGGTGTT-TTTTT-TTACTA
1 TTTTGATGTTGTTTTTGTTACTA
20365 TTTTGATGTTGTTTTTGTTACTA
1 TTTTGATGTTGTTTTTGTTACTA
20388 TTTT
1 TTTT
20392 TATTGTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 9 0.38
22 5 0.21
23 10 0.42
ACGTcount: A:0.10, C:0.04, G:0.15, T:0.71
Consensus pattern (23 bp):
TTTTGATGTTGTTTTTGTTACTA
Found at i:20398 original size:24 final size:24
Alignment explanation
Indices: 20350--20450 Score: 75
Period size: 23 Copynumber: 4.4 Consensus size: 24
20340 GTTGTTTTGG
*
20350 TGTT-TTTTT-TTACTATTTTGA-
1 TGTTGTTTTTGTTACTATTTTTAT
20371 TGTTGTTTTTGTTACTATTTTTAT
1 TGTTGTTTTTGTTACTATTTTTAT
* * * * *
20395 TGTTATTTTTATTATTGTTTTTTT
1 TGTTGTTTTTGTTACTATTTTTAT
* * * *
20419 TGTCG-TTTTGCTATTATTTTTGT
1 TGTTGTTTTTGTTACTATTTTTAT
*
20442 CGTTGTTTT
1 TGTTGTTTT
20451 GAACGTTATT
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
21 4 0.06
22 5 0.08
23 28 0.45
24 25 0.40
ACGTcount: A:0.11, C:0.05, G:0.13, T:0.71
Consensus pattern (24 bp):
TGTTGTTTTTGTTACTATTTTTAT
Found at i:22254 original size:20 final size:20
Alignment explanation
Indices: 22222--22306 Score: 116
Period size: 20 Copynumber: 4.2 Consensus size: 20
22212 GTACCTAGAG
22222 GTGGCATTCTGTTAGCCTTT
1 GTGGCATTCTGTTAGCCTTT
* *
22242 GTGGTATTTTGTTAGCCTTT
1 GTGGCATTCTGTTAGCCTTT
*
22262 GTGACATTCTGTTAGCCTTT
1 GTGGCATTCTGTTAGCCTTT
* * *
22282 GGGGCATTCTGCTAGCCCTT
1 GTGGCATTCTGTTAGCCTTT
22302 GTGGC
1 GTGGC
22307 GTATTCTGTC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.11, C:0.20, G:0.27, T:0.42
Consensus pattern (20 bp):
GTGGCATTCTGTTAGCCTTT
Found at i:23624 original size:25 final size:24
Alignment explanation
Indices: 23585--23633 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
23575 AGTAAAAATG
* *
23585 TATTTTTATCATTTTAATAGTTTA
1 TATTTTTATAATTTTAAAAGTTTA
23609 TATTTTTATAATTTTTAAAAGTTTA
1 TATTTTTATAA-TTTTAAAAGTTTA
23634 AATTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (24 bp):
TATTTTTATAATTTTAAAAGTTTA
Found at i:26971 original size:13 final size:13
Alignment explanation
Indices: 26953--26977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26943 CTTTTAGGCT
26953 TTTAGGATTAATA
1 TTTAGGATTAATA
26966 TTTAGGATTAAT
1 TTTAGGATTAAT
26978 TACCACTTCC
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTTAGGATTAATA
Found at i:32158 original size:20 final size:20
Alignment explanation
Indices: 32135--32180 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
32125 AAATATTATA
*
32135 AAAAATTAATAAAAACATTT
1 AAAAATTAATAAAAACATAT
* * *
32155 AAAATTTCATAAAAACGTAT
1 AAAAATTAATAAAAACATAT
32175 AAAAAT
1 AAAAAT
32181 CTTAAAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAAATTAATAAAAACATAT
Found at i:32873 original size:19 final size:19
Alignment explanation
Indices: 32846--32895 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
32836 TCAATTTTAA
*
32846 TATATTTTTTAATAACATT
1 TATAATTTTTAATAACATT
* **
32865 TATAATTTTCAATAATTTT
1 TATAATTTTTAATAACATT
32884 TATACATTTTTA
1 TATA-ATTTTTA
32896 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (19 bp):
TATAATTTTTAATAACATT
Found at i:33029 original size:29 final size:30
Alignment explanation
Indices: 32929--33028 Score: 75
Period size: 29 Copynumber: 3.4 Consensus size: 30
32919 AATTTTAAAA
*
32929 AATTTTATAATTTATTA-AATTTTATTA-G
1 AATTTTATAATTTATTATAATTTTTTTATG
* * * * * *
32957 -ATTTTTTATGTTTGTTATAA-GTTTATATC
1 AATTTTATA-ATTTATTATAATTTTTTTATG
*
32986 AATCTTAATAATTT-TTATAATTTTTTTATG
1 AAT-TTTATAATTTATTATAATTTTTTTATG
33016 AATTTTATAATTT
1 AATTTTATAATTT
33029 TCCTGATGTT
Statistics
Matches: 52, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
27 7 0.13
28 10 0.19
29 17 0.33
30 14 0.27
31 4 0.08
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (30 bp):
AATTTTATAATTTATTATAATTTTTTTATG
Found at i:34574 original size:2 final size:2
Alignment explanation
Indices: 34567--34592 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34557 CTAGAAATTA
34567 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
34593 GAAAATGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36618 original size:30 final size:28
Alignment explanation
Indices: 36545--36625 Score: 76
Period size: 30 Copynumber: 2.8 Consensus size: 28
36535 ATAATTTAAC
36545 ATTTTCATTGAA-TTTT-TAAATTTTTAT
1 ATTTTC-TTGAATTTTTGTAAATTTTTAT
** *
36572 ATTCGCTATGATTTTTTGTAGAATTTTTAT
1 ATTTTCT-TGAATTTTTGTA-AATTTTTAT
*
36602 ATTTTTCTTGAATTTTTGAAAATT
1 A-TTTTCTTGAATTTTTGTAAATT
36626 ATTTTGAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
26 1 0.02
27 7 0.17
28 4 0.10
29 6 0.14
30 20 0.48
31 4 0.10
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.59
Consensus pattern (28 bp):
ATTTTCTTGAATTTTTGTAAATTTTTAT
Found at i:37806 original size:34 final size:36
Alignment explanation
Indices: 37754--37821 Score: 88
Period size: 34 Copynumber: 1.9 Consensus size: 36
37744 ATGATAAAAA
*
37754 TAATTAAAATAACTATGC-ATTAAATAATTAAAAATG
1 TAATTAAAATAACTATGCAAAT-AATAATTAAAAATG
*
37790 TAATTCAAA-AAC-ATGCAAATAATAATTAAAAA
1 TAATTAAAATAACTATGCAAATAATAATTAAAAA
37822 ATAATCTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 16 0.55
35 5 0.17
36 8 0.28
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.29
Consensus pattern (36 bp):
TAATTAAAATAACTATGCAAATAATAATTAAAAATG
Found at i:47429 original size:5 final size:6
Alignment explanation
Indices: 47404--47428 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
47394 GATCAATTAA
47404 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
47429 ACCAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:48173 original size:89 final size:89
Alignment explanation
Indices: 48071--48362 Score: 423
Period size: 89 Copynumber: 3.3 Consensus size: 89
48061 ATTTTTTTTA
* * * *
48071 TTTTTGCATTCAATTGAGTATTTGAACTATT-AAAATGCATAAAAAAGGTCCTCAAACTTTTTCA
1 TTTTTGCACTCAATTGGGTACTTGAACT-TTCAAAATGCATAAAAAAAGTCCTCAAACTTTTTCA
48135 CAAAAAGCAATTAAGCCCCTACATT
65 CAAAAAGCAATTAAGCCCCTACATT
48160 TTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAAGTCCTCAAACTTTTTCAC
1 TTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAAGTCCTCAAACTTTTTCAC
48225 AAAAAGCAATTAAGCCCCTACATT
66 AAAAAGCAATTAAGCCCCTACATT
* ** *
48249 TTTTTGCACAT-AATTGGGTACTTGAACTTTCAAAATACATAACAATTA-TCCTCAAAATTTTTC
1 TTTTTGCAC-TCAATTGGGTACTTGAACTTTCAAAATGCATAA-AAAAAGTCCTCAAACTTTTTC
* * *
48312 AAAAAAAGTAATTAAACCCCT--ATT
64 ACAAAAAGCAATTAAGCCCCTACATT
48336 TTTTTGCACTCAATTGGGTACTTGAAC
1 TTTTTGCACTCAATTGGGTACTTGAAC
48363 CACCTTAATT
Statistics
Matches: 188, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
86 1 0.01
87 28 0.15
88 2 0.01
89 153 0.81
90 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (89 bp):
TTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAAGTCCTCAAACTTTTTCAC
AAAAAGCAATTAAGCCCCTACATT
Found at i:48455 original size:10 final size:9
Alignment explanation
Indices: 48426--48571 Score: 55
Period size: 10 Copynumber: 15.4 Consensus size: 9
48416 ACATGTGACA
*
48426 AAAAATGAT
1 AAAAATTAT
48435 AAAAA--AT
1 AAAAATTAT
*
48442 AAAAGTTAT
1 AAAAATTAT
48451 AAAAATTATT
1 AAAAATTA-T
**
48461 AAATTTTTAT
1 AAA-AATTAT
*
48471 AAAAAACTAT
1 -AAAAATTAT
48481 AAAATATT-T
1 AAAA-ATTAT
**
48490 AAATTTTATT
1 AAAAATTA-T
*
48500 AAAAATTAGA
1 AAAAATTA-T
**
48510 AAAAAAAAT
1 AAAAATTAT
*
48519 ATAAAATTGT
1 A-AAAATTAT
*
48529 AAAAAATAT
1 AAAAATTAT
48538 AGAAAATATAT
1 A-AAAAT-TAT
* *
48549 AGAAATATAG
1 AAAAAT-TAT
48559 AAAAATTAT
1 AAAAATTAT
48568 AAAA
1 AAAA
48572 TTTTATGAAG
Statistics
Matches: 99, Mismatches: 27, Indels: 22
0.67 0.18 0.15
Matches are distributed among these distances:
7 6 0.06
8 2 0.02
9 36 0.36
10 45 0.45
11 10 0.10
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:48485 original size:21 final size:20
Alignment explanation
Indices: 48447--48490 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
48437 AAAATAAAAG
* * *
48447 TTATAAAAATTATTAAATTT
1 TTATAAAAACTATAAAATAT
48467 TTATAAAAAACTATAAAATAT
1 TTAT-AAAAACTATAAAATAT
48488 TTA
1 TTA
48491 AATTTTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TTATAAAAACTATAAAATAT
Found at i:48513 original size:29 final size:29
Alignment explanation
Indices: 48441--48513 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 29
48431 TGATAAAAAA
*
48441 TAAAAGTTATAAAAATTATTAAATTTTTAT
1 TAAAAATTA-AAAAATTATTAAATTTTTAT
* * *
48471 AAAAAACTATAAAA-TATTTAAA-TTTTAT
1 TAAAAATTAAAAAATTA-TTAAATTTTTAT
48499 TAAAAATTAGAAAAA
1 TAAAAATTA-AAAAA
48514 AAAATATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
28 15 0.44
29 13 0.38
30 6 0.18
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (29 bp):
TAAAAATTAAAAAATTATTAAATTTTTAT
Found at i:48524 original size:20 final size:19
Alignment explanation
Indices: 48501--48544 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
48491 AATTTTATTA
*
48501 AAAATTAGAAAAAAAAATAT
1 AAAATT-GAAAAAAAAATAG
* *
48521 AAAATTGTAAAAAATATAG
1 AAAATTGAAAAAAAAATAG
48540 AAAAT
1 AAAAT
48545 ATATAGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (19 bp):
AAAATTGAAAAAAAAATAG
Found at i:48563 original size:59 final size:59
Alignment explanation
Indices: 48500--48616 Score: 139
Period size: 59 Copynumber: 2.0 Consensus size: 59
48490 AAATTTTATT
*
48500 AAAAATTAGAAAAAAAAATATAAAATTGT-AAAAAA-TATAGAAAATATATAGAAATATAG
1 AAAAATT--AAAAAAAAATATAAAATTGTAAAAAAATTATAGAAAATATAAAGAAATATAG
* *** * *
48559 AAAAATTATAAAATTTTATGAAGTTGTAAAAAAATTATAGAAAATATAAAGAAATATA
1 AAAAATTAAAAAAAAATATAAAATTGTAAAAAAATTATAGAAAATATAAAGAAATATA
48617 AAATTCGTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
57 14 0.29
58 6 0.12
59 29 0.59
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (59 bp):
AAAAATTAAAAAAAAATATAAAATTGTAAAAAAATTATAGAAAATATAAAGAAATATAG
Found at i:48568 original size:19 final size:18
Alignment explanation
Indices: 48531--48572 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
48521 AAAATTGTAA
48531 AAAATATAGAAAATATAT
1 AAAATATAGAAAATATAT
48549 AGAAATATAGAAAA-ATTAT
1 A-AAATATAGAAAATA-TAT
48568 AAAAT
1 AAAAT
48573 TTTATGAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (18 bp):
AAAATATAGAAAATATAT
Found at i:48861 original size:8 final size:9
Alignment explanation
Indices: 48811--48862 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
48801 TTTTTAAGCA
48811 TTTTATAAT
1 TTTTATAAT
*
48820 TTTTAATAAAA
1 TTTT-AT-AAT
*
48831 GTTTATAATT
1 TTTTATAA-T
48841 TTTTATAAT
1 TTTTATAAT
48850 TTTTATAAT
1 TTTTATAAT
48859 TTTT
1 TTTT
48863 TTCTATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 20 0.56
10 11 0.31
11 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:48863 original size:10 final size:10
Alignment explanation
Indices: 48811--48910 Score: 69
Period size: 10 Copynumber: 9.6 Consensus size: 10
48801 TTTTTAAGCA
48811 TTTTATAATT
1 TTTTATAATT
* **
48821 TTTAATAAAA
1 TTTTATAATT
*
48831 GTTTATAATT
1 TTTTATAATT
48841 TTTTATAA-T
1 TTTTATAATT
48850 TTTTATAATT
1 TTTTATAATT
*
48860 TTTT-TCTATT
1 TTTTAT-AATT
48870 TTTTAATAAACTT
1 TTTT-AT-AA-TT
* *
48883 TATTTTTATTTT
1 T-TTTATA-ATT
48895 TTTTATAATT
1 TTTTATAATT
48905 TTTTAT
1 TTTTAT
48911 CACATGTCAC
Statistics
Matches: 68, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
9 10 0.15
10 40 0.59
11 5 0.07
12 6 0.09
13 4 0.06
14 3 0.04
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:48872 original size:19 final size:19
Alignment explanation
Indices: 48811--48863 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
48801 TTTTTAAGCA
* *
48811 TTTTATAATTTTTAATAAAA
1 TTTTATAATTTTTTAT-AAT
*
48831 GTTTATAATTTTTTATAAT
1 TTTTATAATTTTTTATAAT
48850 TTTTATAATTTTTT
1 TTTTATAATTTTTT
48864 TCTATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTTATAAT
Found at i:48909 original size:19 final size:19
Alignment explanation
Indices: 48832--48910 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 19
48822 TTAATAAAAG
**
48832 TTTATAATTTTTTATAATT
1 TTTATAATTTTTTATTTTT
48851 TTTATAATTTTTT-TCTATTT
1 TTTATAATTTTTTAT-T-TTT
48871 TTTAATAAACTTTATTTTTATTTTT
1 TTT-AT-AA---T-TTTTTATTTTT
48896 TTTATAATTTTTTAT
1 TTTATAATTTTTTAT
48911 CACATGTCAC
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
18 1 0.02
19 20 0.41
20 6 0.12
21 2 0.04
22 2 0.04
23 2 0.04
24 2 0.04
25 7 0.14
26 6 0.12
27 1 0.02
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTATAATTTTTTATTTTT
Found at i:63256 original size:2 final size:2
Alignment explanation
Indices: 63249--63274 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
63239 TCAATATTCA
63249 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
63275 TATTCCTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69500 original size:6 final size:6
Alignment explanation
Indices: 69489--69522 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
69479 AAATTAAGAT
*
69489 ATAATG ATAATG ATAATG ATAATG ATAATA ATAA
1 ATAATG ATAATG ATAATG ATAATG ATAATG ATAA
69523 AGAAACAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (6 bp):
ATAATG
Found at i:71506 original size:22 final size:22
Alignment explanation
Indices: 71478--71520 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
71468 GTACACGTAA
*
71478 ATTTAAAT-TCAAATTTATTTTG
1 ATTTAAATCT-AAATATATTTTG
71500 ATTTAAATCTAAATATATTTT
1 ATTTAAATCTAAATATATTTT
71521 AACTATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTTAAATCTAAATATATTTTG
Found at i:76623 original size:54 final size:54
Alignment explanation
Indices: 76463--76625 Score: 290
Period size: 54 Copynumber: 3.0 Consensus size: 54
76453 AATAATTGAT
*
76463 AAAAAAAATTAAGAAATTAGGAGAGTTCCTTTGATCTTATCAATTTTGAAAAAA
1 AAAAAAAATTAAGAAATTAGGAGAGTTCCTTTGATCTTATCAATTTTGAAAATA
*
76517 AAAAAAAACTAAGAAATTAGGAGAGTTCCTTTGATCTTATCAATTTTGAAAATA
1 AAAAAAAATTAAGAAATTAGGAGAGTTCCTTTGATCTTATCAATTTTGAAAATA
* *
76571 AAAAAAAATTAAGAAATAAGGAGAGTTCCTTTGATCTTATTAATTTTGAAAATA
1 AAAAAAAATTAAGAAATTAGGAGAGTTCCTTTGATCTTATCAATTTTGAAAATA
76625 A
1 A
76626 GCAAATTGGT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.32
Consensus pattern (54 bp):
AAAAAAAATTAAGAAATTAGGAGAGTTCCTTTGATCTTATCAATTTTGAAAATA
Found at i:77346 original size:28 final size:29
Alignment explanation
Indices: 77315--77390 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
77305 AACTTATATC
* *
77315 AATTTTAATATTTTTTTTA-TTTTT-AAG
1 AATTTTAACAATTTTTTTATTTTTTAAAG
*
77342 AAATTTTTACAATTTTTTTATTTTTTAAAG
1 -AATTTTAACAATTTTTTTATTTTTTAAAG
**
77372 AATTTTAACACGTTTTTTA
1 AATTTTAACAATTTTTTTA
77391 ATTTCAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 16 0.40
29 21 0.52
30 3 0.08
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (29 bp):
AATTTTAACAATTTTTTTATTTTTTAAAG
Found at i:77446 original size:45 final size:45
Alignment explanation
Indices: 77384--77486 Score: 117
Period size: 45 Copynumber: 2.3 Consensus size: 45
77374 TTTTAACACG
**
77384 TTTTTTAAT-TTCAAATAAGCTTTAT-T-AATTTTATATATTTT-TTA
1 TTTTTTAATATTTTAATAAG-TTTATATCAATTTT-TA-ATTTTCTTA
77428 TATTTTT-ATATTTTAATAAGTTTATATCAATTTTTAATTTTCTTA
1 T-TTTTTAATATTTTAATAAGTTTATATCAATTTTTAATTTTCTTA
77473 TTTTTTAATATTTT
1 TTTTTTAATATTTT
77487 TTTATGAGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
44 18 0.35
45 27 0.53
46 6 0.12
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (45 bp):
TTTTTTAATATTTTAATAAGTTTATATCAATTTTTAATTTTCTTA
Found at i:77454 original size:35 final size:37
Alignment explanation
Indices: 77404--77482 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
77394 TCAAATAAGC
* * *
77404 TTTATTAATTTTATAT--ATTTTTTATATTT-TTATAT
1 TTTAATAAGTTTATATCAATTTTTAAT-TTTCTTATAT
*
77439 TTTAATAAGTTTATATCAATTTTTAATTTTCTTATTT
1 TTTAATAAGTTTATATCAATTTTTAATTTTCTTATAT
77476 TTTAATA
1 TTTAATA
77483 TTTTTTTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 14 0.38
36 3 0.08
37 20 0.54
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (37 bp):
TTTAATAAGTTTATATCAATTTTTAATTTTCTTATAT
Found at i:93920 original size:14 final size:15
Alignment explanation
Indices: 93895--93923 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
93885 GTTCTGTCTA
93895 ATTTATTTTATAAAT
1 ATTTATTTTATAAAT
93910 ATTTA-TTTATAAAT
1 ATTTATTTTATAAAT
93924 CGACTAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTATTTTATAAAT
Found at i:95484 original size:18 final size:19
Alignment explanation
Indices: 95461--95503 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
95451 TAACAAATTT
95461 TTAATTAAAAAAATTT-AA
1 TTAATTAAAAAAATTTAAA
* *
95479 TTAATT-GAAAATTTTAAA
1 TTAATTAAAAAAATTTAAA
95497 TTAATTA
1 TTAATTA
95504 CAACTAAAAA
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:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TTAATTAAAAAAATTTAAA
Found at i:95679 original size:29 final size:29
Alignment explanation
Indices: 95640--95715 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
95630 AACGATAATG
*
95640 TAAGTGACTAAAACGTAAAATTTCAAACA
1 TAAGTGACTAAAATGTAAAATTTCAAACA
*
95669 TAAGTGACTAAAATGTAACATTTCAAACA
1 TAAGTGACTAAAATGTAAAATTTCAAACA
*
95698 TAGGTGACTAAAATGTAA
1 TAAGTGACTAAAATGTAA
95716 TCTGAGGCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.26
Consensus pattern (29 bp):
TAAGTGACTAAAATGTAAAATTTCAAACA
Found at i:104179 original size:62 final size:62
Alignment explanation
Indices: 104088--104211 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
104078 CTTGTGTGGC
104088 ACACAAGTCAAAATTGTTTTTTTAAAACGAAGGATATAATTTTATGCAAAATGACTTGGGAT
1 ACACAAGTCAAAATTGTTTTTTTAAAACGAAGGATATAATTTTATGCAAAATGACTTGGGAT
*
104150 ACACAAGTCAAAATTGTTTTTTTAGAACGAAGGATATAATTTTATGCAAAATGACTTGGGAT
1 ACACAAGTCAAAATTGTTTTTTTAAAACGAAGGATATAATTTTATGCAAAATGACTTGGGAT
104212 CAGTTGAAGG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.34
Consensus pattern (62 bp):
ACACAAGTCAAAATTGTTTTTTTAAAACGAAGGATATAATTTTATGCAAAATGACTTGGGAT
Found at i:110643 original size:30 final size:30
Alignment explanation
Indices: 110607--110678 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
110597 CAGAGACGTA
* *
110607 AACGGGGTTACCATGTTCGTCAGTCAA-TTG
1 AACGGGGTTACCATGCTCGTCAGT-AAGTGG
*
110637 AACGGGGTTGCCATGCTCGTCAGTAAGTGG
1 AACGGGGTTACCATGCTCGTCAGTAAGTGG
*
110667 AATGGGGTTACC
1 AACGGGGTTACC
110679 GTGTACATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 2 0.06
30 34 0.94
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.26
Consensus pattern (30 bp):
AACGGGGTTACCATGCTCGTCAGTAAGTGG
Found at i:111307 original size:19 final size:19
Alignment explanation
Indices: 111281--111326 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
111271 TATTGTTAAA
111281 ATTT-AATTAGAATAA-AAT
1 ATTTAAATTA-AATAATAAT
*
111299 ATTTAAATTAATTAATAAT
1 ATTTAAATTAAATAATAAT
111318 ATTATAAAT
1 ATT-TAAAT
111327 ATTACGTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 11 0.46
20 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTTAAATTAAATAATAAT
Found at i:120995 original size:6 final size:6
Alignment explanation
Indices: 120984--121011 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
120974 ATCAGGCTCA
120984 CAACTG CAACTG CAACTG CAACTG CAAC
1 CAACTG CAACTG CAACTG CAACTG CAAC
121012 ATCAATTTCA
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:0.36, G:0.14, T:0.14
Consensus pattern (6 bp):
CAACTG
Found at i:124976 original size:20 final size:20
Alignment explanation
Indices: 124951--124995 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
124941 TTATTTTTTT
*
124951 ATTTTTTTAAATATATATTA
1 ATTTTTTTAAATATATAATA
*
124971 ATTTTTTTAAATATTTAATA
1 ATTTTTTTAAATATATAATA
124991 ATTTT
1 ATTTT
124996 ATATATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTTTAAATATATAATA
Found at i:124988 original size:17 final size:17
Alignment explanation
Indices: 124951--125003 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
124941 TTATTTTTTT
124951 ATTTTTTTAAATATATATTA
1 ATTTTTTT-AA-ATAT-TTA
124971 ATTTTTTTAAATATTTA
1 ATTTTTTTAAATATTTA
** *
124988 ATAATTTTATATATTT
1 ATTTTTTTAAATATTT
125004 TTTATTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 16 0.53
18 4 0.13
19 2 0.07
20 8 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTTTAAATATTTA
Found at i:125013 original size:28 final size:28
Alignment explanation
Indices: 124938--125018 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
124928 AATCATGCTC
*
124938 ATATT-ATTTTTTTATTTTTTTAAATAT
1 ATATTAATTTTTTTATTTATTTAAATAT
**
124965 ATATTAATTTTTTTAAATATTT-AATA-
1 ATATTAATTTTTTTATTTATTTAAATAT
* *
124991 ATTTTATATATTTTTTATTTATTGAAAT
1 ATATTA-AT-TTTTTTATTTATTTAAAT
125019 TTTTTATATA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
26 5 0.12
27 11 0.26
28 24 0.56
29 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (28 bp):
ATATTAATTTTTTTATTTATTTAAATAT
Found at i:125254 original size:18 final size:18
Alignment explanation
Indices: 125213--125255 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
125203 TAAACGGATC
* *
125213 TAATTTTTTTTGCTCAAA
1 TAATTTTTTTGGATCAAA
* *
125231 TCATTTTTTTGGATCTAA
1 TAATTTTTTTGGATCAAA
125249 TAATTTT
1 TAATTTT
125256 ATTTAAATCG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.58
Consensus pattern (18 bp):
TAATTTTTTTGGATCAAA
Found at i:136026 original size:26 final size:26
Alignment explanation
Indices: 135997--136051 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
135987 TTAACTTTAG
* *
135997 AATTTTTTTACAAATTAAATAATATA
1 AATTTTTTTACAAATTAAAAAATAAA
* *
136023 AATTTTTTTATAAGTTAAAAAATAAA
1 AATTTTTTTACAAATTAAAAAATAAA
136049 AAT
1 AAT
136052 AAAGTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
AATTTTTTTACAAATTAAAAAATAAA
Found at i:141743 original size:2 final size:2
Alignment explanation
Indices: 141736--141760 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
141726 TTAAAATTTG
141736 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 A
141761 GAAATTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:143576 original size:2 final size:2
Alignment explanation
Indices: 143569--143599 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
143559 TATTTTTCAC
*
143569 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
143600 GTTTAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:143724 original size:25 final size:25
Alignment explanation
Indices: 143685--143732 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
143675 GTAATTATAG
*
143685 AAAAATTAAAATGA-TTAAAATAAA
1 AAAAATAAAAATGATTTAAAATAAA
143709 AAAAATAAAAACTGATTTAAAATA
1 AAAAATAAAAA-TGATTTAAAATA
143733 TTAAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 3 0.14
26 8 0.38
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAAATAAAAATGATTTAAAATAAA
Found at i:155190 original size:6 final size:6
Alignment explanation
Indices: 155179--155207 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
155169 CAAAAGGGAA
155179 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
155208 AGACAGGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:162675 original size:16 final size:16
Alignment explanation
Indices: 162656--162710 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 16
162646 TTTTAATTTT
162656 TTTTAATTTTAATCGA
1 TTTTAATTTTAATCGA
162672 TTTTAATTTT--T---
1 TTTTAATTTTAATCGA
*
162683 TTTTAATATTAATCGA
1 TTTTAATTTTAATCGA
162699 TTTTAATTTTAA
1 TTTTAATTTTAA
162711 CCTTTGCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
11 9 0.28
13 1 0.03
14 1 0.03
16 21 0.66
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (16 bp):
TTTTAATTTTAATCGA
Found at i:162694 original size:27 final size:27
Alignment explanation
Indices: 162637--162708 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
162627 AAGTTAGTTG
*
162637 ATTAATAGATTTTAA-TTTTTTTTAAT
1 ATTAATCGATTTTAATTTTTTTTTAAT
*
162663 TTTAATCGATTTTAATTTTTTTTTAAT
1 ATTAATCGATTTTAATTTTTTTTTAAT
162690 ATTAATCGATTTTAATTTT
1 ATTAATCGATTTTAATTTT
162709 AACCTTTGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 13 0.31
27 29 0.69
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (27 bp):
ATTAATCGATTTTAATTTTTTTTTAAT
Found at i:168046 original size:24 final size:24
Alignment explanation
Indices: 168002--168048 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
167992 TACCTATGTG
*
168002 TATTTATATTTTTTATTTTAAAAT
1 TATTTATATTTTTTATGTTAAAAT
168026 TATTTATATTTTTCTA-GTTAAAA
1 TATTTATATTTTT-TATGTTAAAA
168049 CTCAAAGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TATTTATATTTTTTATGTTAAAAT
Done.