Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2354
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: 52069
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Found at i:5019 original size:17 final size:17
Alignment explanation
Indices: 4999--5032 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4989 ATTATTAAGA
4999 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
5016 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
5033 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:5252 original size:44 final size:45
Alignment explanation
Indices: 5189--5286 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
5179 CTATTACACC
*
5189 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * **
5233 TCCATTACATTCAACCAAACAATTGATTTGTTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
5278 TCCATTACA
1 TCCATTACA
5287 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:14622 original size:54 final size:54
Alignment explanation
Indices: 14520--14627 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
14510 TGGATTTATA
* * * *
14520 CACTTAATAATTTTAAATCAAATTTTATTTAAAAAAGGTATTTTAATCTTAAAT
1 CACTTAATAATCTTAAATCAAATTTGATTTAAAAAAGGGATTTCAATCTTAAAT
* *
14574 CACTTAATAATCTTAAATCGAATTTGA-TTAGAAACAGGGATTTCAATCTTAAAT
1 CACTTAATAATCTTAAATCAAATTTGATTTA-AAAAAGGGATTTCAATCTTAAAT
14628 TAGTGACGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.06
54 44 0.94
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (54 bp):
CACTTAATAATCTTAAATCAAATTTGATTTAAAAAAGGGATTTCAATCTTAAAT
Found at i:15913 original size:14 final size:15
Alignment explanation
Indices: 15878--15919 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
15868 TATTTTAAGG
*
15878 TTTAGGGAGTATGAA
1 TTTAGGGATTATGAA
15893 TTTAGGGATTATGAA
1 TTTAGGGATTATGAA
15908 -TTAGGGATTATG
1 TTTAGGGATTATG
15920 GTTTAAGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
TTTAGGGATTATGAA
Found at i:15951 original size:15 final size:15
Alignment explanation
Indices: 15921--16009 Score: 62
Period size: 14 Copynumber: 6.1 Consensus size: 15
15911 GGGATTATGG
*
15921 TTTAAGGGTT-GGGA
1 TTTAAGGTTTAGGGA
15935 TTTAAGGTTTAGGGA
1 TTTAAGGTTTAGGGA
*
15950 -TTAGGGGTTTAGGG-
1 TTTA-AGGTTTAGGGA
* * *
15964 GTT-AGATGTTAGGGG
1 TTTAAGGT-TTAGGGA
* *
15979 TTAAAAG-TTAGGGA
1 TTTAAGGTTTAGGGA
15993 TTTAAGGTTTAGGGA
1 TTTAAGGTTTAGGGA
16008 TT
1 TT
16010 CAGAAGAATT
Statistics
Matches: 57, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
13 2 0.04
14 29 0.51
15 25 0.44
16 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.37
Consensus pattern (15 bp):
TTTAAGGTTTAGGGA
Found at i:17025 original size:14 final size:15
Alignment explanation
Indices: 16938--17026 Score: 62
Period size: 14 Copynumber: 6.1 Consensus size: 15
16928 AATTCTTCTG
16938 AATCCCTAAACCTTA
1 AATCCCTAAACCTTA
* *
16953 AATCCCT-AACTTTT
1 AATCCCTAAACCTTA
* *
16967 AACCCCT-AACATCT-
1 AATCCCTAAACCT-TA
* *
16981 AACCCCTAAACCCCT-
1 AATCCCTAAA-CCTTA
16996 AATCCCTAAACCTTA
1 AATCCCTAAACCTTA
*
17011 AATCCC-AACCCTTA
1 AATCCCTAAACCTTA
17025 AA
1 AA
17027 CCATAATCCC
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
14 34 0.56
15 26 0.43
16 1 0.02
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (15 bp):
AATCCCTAAACCTTA
Found at i:17056 original size:15 final size:15
Alignment explanation
Indices: 17028--17069 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
17018 ACCCTTAAAC
17028 CATAATCCCT-AATT
1 CATAATCCCTAAATT
17042 CATAATCCCTAAATT
1 CATAATCCCTAAATT
*
17057 CATACTCCCTAAA
1 CATAATCCCTAAA
17070 CCTTAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (15 bp):
CATAATCCCTAAATT
Found at i:17273 original size:15 final size:15
Alignment explanation
Indices: 17255--17305 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
17245 CCTAGCATGT
17255 CTAACCCTTAAATCC
1 CTAACCCTTAAATCC
*
17270 CTAACCCTCT-AACCC
1 CTAACCCT-TAAATCC
* *
17285 CTAAACATTAAATCC
1 CTAACCCTTAAATCC
17300 C-AACCC
1 CTAACCC
17306 CTAATCCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
14 4 0.14
15 23 0.82
16 1 0.04
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (15 bp):
CTAACCCTTAAATCC
Found at i:18406 original size:54 final size:54
Alignment explanation
Indices: 18319--18426 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
18309 TTCGTCACTA
* * * *
18319 ATTTAAGATTGAAATCCCTGTTTCTAATCAAATTCGATTTAAGATTATTAAGTG
1 ATTTAAGATTAAAATACCTGTTTCTAATAAAATTCGATTTAAAATTATTAAGTG
* *
18373 ATTTAAGATTAAAATACCT-TTTTTAAATAAAATTTGATTTAAAATTATTAAGTG
1 ATTTAAGATTAAAATACCTGTTTCT-AATAAAATTCGATTTAAAATTATTAAGTG
18427 TATAAATCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 4 0.09
54 43 0.91
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (54 bp):
ATTTAAGATTAAAATACCTGTTTCTAATAAAATTCGATTTAAAATTATTAAGTG
Found at i:29992 original size:34 final size:32
Alignment explanation
Indices: 29952--30033 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 32
29942 GATCCAAAGT
*
29952 TTTATGTAAGTTATGATATGATATAT-ATTTATGTA
1 TTTATGTAAGTTATGATAAG-T-TATGA--TATGTA
29987 -TTATGTAAGTTAT-ATAAGTTATGATATGTA
1 TTTATGTAAGTTATGATAAGTTATGATATGTA
30017 TTTATGTAAGTTATGAT
1 TTTATGTAAGTTATGAT
30034 CCAAAGTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
30 6 0.14
31 16 0.37
32 4 0.09
33 4 0.09
34 13 0.30
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (32 bp):
TTTATGTAAGTTATGATAAGTTATGATATGTA
Found at i:31035 original size:14 final size:14
Alignment explanation
Indices: 31018--31096 Score: 72
Period size: 13 Copynumber: 5.4 Consensus size: 14
31008 TTTAAAATTA
*
31018 TAAAAATAAAAAAT
1 TAAAAATATAAAAT
31032 T-AAAAT-TAAAAT
1 TAAAAATATAAAAT
31044 TAAAAATATAAAAT
1 TAAAAATATAAAAT
31058 ATAAAAAATTCATAGAAAT
1 -T-AAAAA-T-ATA-AAAT
*
31077 TCAAAATATTAAAAT
1 TAAAAATA-TAAAAT
31092 TAAAA
1 TAAAA
31097 TGCATTCATA
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
12 6 0.11
13 10 0.19
14 7 0.13
15 10 0.19
16 8 0.15
17 5 0.09
18 4 0.07
19 4 0.07
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (14 bp):
TAAAAATATAAAAT
Found at i:31044 original size:12 final size:13
Alignment explanation
Indices: 31020--31097 Score: 59
Period size: 14 Copynumber: 5.4 Consensus size: 13
31010 TAAAATTATA
*
31020 AAAATAAAAAATT
1 AAAATATAAAATT
31033 AAAAT-TAAAATT
1 AAAATATAAAATT
31045 AAAAATATAAAATAT
1 -AAAATATAAAAT-T
31060 AAAAAATTCATAGAAATT
1 --AAAA-T-ATA-AAATT
31078 CAAAATATTAAAATT
1 -AAAATA-TAAAATT
31093 AAAAT
1 AAAAT
31098 GCATTCATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
12 6 0.11
13 10 0.18
14 11 0.20
15 7 0.13
16 8 0.15
17 5 0.09
18 4 0.07
19 4 0.07
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (13 bp):
AAAATATAAAATT
Found at i:31077 original size:33 final size:34
Alignment explanation
Indices: 31009--31096 Score: 94
Period size: 34 Copynumber: 2.6 Consensus size: 34
30999 AACAAATAAT
*
31009 TTAAAATTATAAAA-ATAAAAAATTAAAATTAAAA
1 TTAAAAATATAAAATATAAAAAATT-AAATTAAAA
*
31043 TTAAAAATATAAAATATAAAAAATT-CA-TAGAAA
1 TTAAAAATATAAAATATAAAAAATTAAATTA-AAA
*
31076 TTCAAAATATTAAAAT-TAAAA
1 TTAAAAATA-TAAAATATAAAA
31097 TGCATTCATA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
32 2 0.04
33 17 0.35
34 19 0.40
35 10 0.21
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (34 bp):
TTAAAAATATAAAATATAAAAAATTAAATTAAAA
Found at i:33769 original size:13 final size:13
Alignment explanation
Indices: 33751--33801 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
33741 AAAATAAATA
33751 TTAATTAATTAAT
1 TTAATTAATTAAT
* *
33764 TTAATTAATCAAA
1 TTAATTAATTAAT
*
33777 TTAACTAAATTAAT
1 TTAA-TTAATTAAT
*
33791 TT-CTTAATTAA
1 TTAATTAATTAA
33802 ATAGTTTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
12 7 0.23
13 15 0.50
14 8 0.27
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAATTAATTAAT
Found at i:36233 original size:43 final size:43
Alignment explanation
Indices: 36040--36456 Score: 234
Period size: 43 Copynumber: 9.7 Consensus size: 43
36030 TGTTGGTCCA
* * *** *
36040 TAGCGGCGCTTCT-AGCACAAACGCCGCTGAAGACTAAGACCTT
1 TAGCGGCGCTT-TGACCACAAACGCCGCTAAAGACCCTGATCTT
**** *
36083 TAGCGGCGCTTT-AGTGGAAGCGCCGCTAAAGACCCTGATCTT
1 TAGCGGCGCTTTGACCACAAACGCCGCTAAAGACCCTGATCTT
* ** ** * * * ** *
36125 TAGCGACATTTTTG-GGAGAAGCGCCGCTAAAGATCAGGGTCTT
1 TAGCGGC-GCTTTGACCACAAACGCCGCTAAAGACCCTGATCTT
* *** * *
36168 TAGCGGCGTTTTTTTCTCAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTGACCACAAACGCCGCTAA-AGACCCTGATCTT
* * * * *
36211 TACCGGCGCTTTGACCATAAACGCC-ATGAAAGAACCTAATCTT
1 TAGCGGCGCTTTGACCACAAACGCCGCT-AAAGACCCTGATCTT
** * * * *
36254 TAGCGGCGCTTTCCCCTCAAACACTGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTGACCACAAACGCCGCTAA-AGACCCTGATCTT
* * * * *
36297 TAGCGGCGCTTCGACCACAAACACCACTAAAGAACCTAATCTT
1 TAGCGGCGCTTTGACCACAAACGCCGCTAAAGACCCTGATCTT
* ** *
36340 TAGCGGTGCTTTCCCCACAAACGCCGCTAAAGACCATGATCTT
1 TAGCGGCGCTTTGACCACAAACGCCGCTAAAGACCCTGATCTT
* * ** *
36383 TAGTGGCGTTTTTTCCACAAACGCCGCTAAAGACCCTTATCTT
1 TAGCGGCGCTTTGACCACAAACGCCGCTAAAGACCCTGATCTT
* * * *
36426 TAGCGGCACTTTGACAAAAAACGCCACTAAA
1 TAGCGGCGCTTTGACCACAAACGCCGCTAAA
36457 TATGGCAGAT
Statistics
Matches: 279, Mismatches: 86, Indels: 18
0.73 0.22 0.05
Matches are distributed among these distances:
42 36 0.13
43 239 0.86
44 4 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
TAGCGGCGCTTTGACCACAAACGCCGCTAAAGACCCTGATCTT
Found at i:36401 original size:86 final size:86
Alignment explanation
Indices: 36185--36437 Score: 276
Period size: 86 Copynumber: 2.9 Consensus size: 86
36175 GTTTTTTTCT
* * * * * *
36185 CAAACGCCGCAATAGACCCTGATCTATACCGGCGCTTTGACCATAAACGCCA-TGAAAGAACCTA
1 CAAACACCGCAATAGACCATGATCTATAGCGGCGCTTCGACCACAAACACCACT-AAAGAACCTA
*
36249 ATCTTTAGCGGCGCTTTCCCCT
65 ATCTTTAGCGGCGCTTTCCCCA
* *
36271 CAAACACTGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAACACCACTAAAGAACCTAA
1 CAAACACCGCAATAGACCATGATCTATAGCGGCGCTTCGACCACAAACACCACTAAAGAACCTAA
*
36336 TCTTTAGCGGTGCTTTCCCCA
66 TCTTTAGCGGCGCTTTCCCCA
* * * * *** * * * *
36357 CAAACGCCGCTAA-AGACCATGATCTTTAGTGGCGTTTTTTCCACAAACGCCGCTAAAGACCCTT
1 CAAACACCGC-AATAGACCATGATCTATAGCGGCGCTTCGACCACAAACACCACTAAAGAACCTA
*
36421 ATCTTTAGCGGCACTTT
65 ATCTTTAGCGGCGCTTT
36438 GACAAAAAAC
Statistics
Matches: 142, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
86 139 0.98
87 3 0.02
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (86 bp):
CAAACACCGCAATAGACCATGATCTATAGCGGCGCTTCGACCACAAACACCACTAAAGAACCTAA
TCTTTAGCGGCGCTTTCCCCA
Found at i:36943 original size:66 final size:65
Alignment explanation
Indices: 36805--36974 Score: 225
Period size: 66 Copynumber: 2.6 Consensus size: 65
36795 CTCGTTGCCG
* * * *
36805 CCTCTGCTTCTCTTGCTGCTGCATCTGCTTTAAGCTGTGCTGGAGTTCTTCATACTTTCGTTGAA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTGCTAGAGTTCTTCATACTTTCGTTGAA
* *
36870 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTAGAGTTCTTCATATCTTT-TTTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT-GCTAGAGTTCTTCATA-CTTTCGTTG
36934 AA
64 AA
* * * *
36936 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTG
36975 TAATTTGCTC
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 35 0.38
66 53 0.58
67 4 0.04
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (65 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTGCTAGAGTTCTTCATACTTTCGTTGAA
Found at i:42382 original size:9 final size:9
Alignment explanation
Indices: 42346--42707 Score: 161
Period size: 9 Copynumber: 43.0 Consensus size: 9
42336 AATTGCACGG
42346 GTAAGTTAT
1 GTAAGTTAT
*
42355 GT-A-TTGT
1 GTAAGTTAT
*
42362 GTAAGCTAT
1 GTAAGTTAT
*
42371 GTAAGTTGT
1 GTAAGTTAT
42380 GT-A-TTAT
1 GTAAGTTAT
42387 GTAAGTTAT
1 GTAAGTTAT
42396 -T-A-TTAT
1 GTAAGTTAT
42402 GCTTTAAGTTAT
1 G---TAAGTTAT
*
42414 GTAAGTAAT
1 GTAAGTTAT
42423 GT-A-TTAT
1 GTAAGTTAT
*
42430 GTAAGTTGT
1 GTAAGTTAT
*
42439 GT-A-TAAT
1 GTAAGTTAT
*
42446 GTTAGTTAT
1 GTAAGTTAT
**
42455 CAAAGTTAT
1 GTAAGTTAT
42464 GT-A-TTAT
1 GTAAGTTAT
42471 GTAAGTTAT
1 GTAAGTTAT
*
42480 TTAAGTTAT
1 GTAAGTTAT
*
42489 GTAA--CAT
1 GTAAGTTAT
*
42496 GTAAATTAT
1 GTAAGTTAT
*
42505 GTAAGTTGT
1 GTAAGTTAT
*
42514 GT-A-TAAT
1 GTAAGTTAT
*
42521 GTTAGTTAT
1 GTAAGTTAT
**
42530 CAAAGTTAT
1 GTAAGTTAT
42539 GT-A-TTAT
1 GTAAGTTAT
42546 GTAAGTTAT
1 GTAAGTTAT
*
42555 TTAAGTTAT
1 GTAAGTTAT
*
42564 GTAA--CAT
1 GTAAGTTAT
*
42571 GTAAATTAT
1 GTAAGTTAT
42580 GTAAGTTAT
1 GTAAGTTAT
* *
42589 GTAGGCTAT
1 GTAAGTTAT
* *
42598 GTATGTTAA
1 GTAAGTTAT
*
42607 GTAAGTAAT
1 GTAAGTTAT
42616 GT-A-TTAT
1 GTAAGTTAT
*
42623 GTAAGTTGT
1 GTAAGTTAT
*
42632 GT-A-TAAT
1 GTAAGTTAT
*
42639 GTTAGTTAT
1 GTAAGTTAT
**
42648 CAAAGTTAT
1 GTAAGTTAT
42657 GT-A-TTAT
1 GTAAGTTAT
***
42664 GTGTTTCTAT
1 GTAAGT-TAT
*
42674 TTAAGTTAT
1 GTAAGTTAT
*
42683 GTAAGTTGT
1 GTAAGTTAT
*
42692 GT-A-TTGT
1 GTAAGTTAT
42699 GTAAGTTAT
1 GTAAGTTAT
42708 TAAAAATTGA
Statistics
Matches: 258, Mismatches: 62, Indels: 66
0.67 0.16 0.17
Matches are distributed among these distances:
6 4 0.02
7 69 0.27
8 22 0.09
9 151 0.59
10 6 0.02
11 1 0.00
12 5 0.02
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:42387 original size:16 final size:16
Alignment explanation
Indices: 42368--42647 Score: 99
Period size: 16 Copynumber: 17.8 Consensus size: 16
42358 TTGTGTAAGC
*
42368 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
42384 TATGTAAGTTAT-TAT
1 TATGTAAGTTATGTAT
*
42399 TATGCT---TTAAG--T
1 TATG-TAAGTTATGTAT
*
42411 TATGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
*
42427 TATGTAAGTTGTGTA-
1 TATGTAAGTTATGTAT
*
42442 TA---ATGTTA-G--T
1 TATGTAAGTTATGTAT
**
42452 TATCAAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
42468 TATGTAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
42486 TATGTAA--CATGTAAAT
1 TATGTAAGTTATGT--AT
*
42502 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * **
42518 AATGTTAGTTATCAAAGT
1 TATGTAAGTTAT-GTA-T
42536 TATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
42552 TATTTAAGTTATGTAA
1 TATGTAAGTTATGTAT
* *
42568 CATGTAAATTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
42586 TATGTAGGCTATGTATGT
1 TATGTAAGTTATGTA--T
* *
42604 TAAGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
*
42620 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* *
42636 AATGTTAGTTAT
1 TATGTAAGTTAT
42648 CAAAGTTATG
Statistics
Matches: 193, Mismatches: 44, Indels: 54
0.66 0.15 0.19
Matches are distributed among these distances:
10 2 0.01
11 2 0.01
12 9 0.05
13 8 0.04
14 4 0.02
15 9 0.05
16 105 0.54
17 9 0.05
18 45 0.23
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:42454 original size:25 final size:25
Alignment explanation
Indices: 42406--42634 Score: 189
Period size: 25 Copynumber: 9.1 Consensus size: 25
42396 TATTATGCTT
42406 TAAGTTATGTAAGTAATGT-A-TTATG
1 TAAGTTATGT-A-TAATGTAAGTTATG
* * *
42431 TAAGTTGTGTATAATGTTAGTTATC
1 TAAGTTATGTATAATGTAAGTTATG
* * *
42456 AAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATAATGTAAGTTATG
*
42481 TAAGTTATGTA-ACATGTAAATTATG
1 TAAGTTATGTATA-ATGTAAGTTATG
* * *
42506 TAAGTTGTGTATAATGTTAGTTATC
1 TAAGTTATGTATAATGTAAGTTATG
* * *
42531 AAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATAATGTAAGTTATG
*
42556 TAAGTTATGTA-ACATGTAAATTATG
1 TAAGTTATGTATA-ATGTAAGTTATG
* *
42581 TAAGTTATGTAGGCT-ATGTATGTTAAG
1 TAAGTTATGTA---TAATGTAAGTTATG
* * *
42608 TAAGTAATGTATTATGTAAGTTGTG
1 TAAGTTATGTATAATGTAAGTTATG
42633 TA
1 TA
42635 TAATGTTAGT
Statistics
Matches: 163, Mismatches: 31, Indels: 20
0.76 0.14 0.09
Matches are distributed among these distances:
23 6 0.04
24 3 0.02
25 134 0.82
26 1 0.01
27 19 0.12
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (25 bp):
TAAGTTATGTATAATGTAAGTTATG
Found at i:42485 original size:50 final size:50
Alignment explanation
Indices: 42426--42665 Score: 171
Period size: 50 Copynumber: 4.9 Consensus size: 50
42416 AAGTAATGTA
*
42426 TTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAG
* * * ** * * *
42476 TTATTTAAGTTATGTA-ACATGTAAATTATGTAAGTTGTGTATAATGTTAG
1 TTATGTAAGTTATGTATA-ATGTTAGTTATCAAAGTTATGTATTATGTAAG
** * * ** ** *
42526 TTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTATGTAACATGTAAA
1 TTATGTAAGTTATGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAG
*
42576 TTATGTAAGTTATGTAGGCT-ATG-TA-TGT-T--AAG-TAAGTA--ATGT-A-
1 TTATGTAAGTTATGTA---TAATGTTAGT-TATCAAAGTTATGTATTATGTAAG
*
42619 TTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTATGT
1 TTATGTAAGTTATGTATAATGTTAGTTATCAAAGTTATGTATTATGT
42666 GTTTCTATTT
Statistics
Matches: 150, Mismatches: 25, Indels: 32
0.72 0.12 0.15
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
42 3 0.02
43 17 0.11
44 1 0.01
45 7 0.05
46 5 0.03
47 5 0.03
48 7 0.05
49 1 0.01
50 94 0.63
51 2 0.01
52 3 0.02
53 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (50 bp):
TTATGTAAGTTATGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAG
Found at i:42485 original size:75 final size:74
Alignment explanation
Indices: 42404--42591 Score: 306
Period size: 75 Copynumber: 2.5 Consensus size: 74
42394 ATTATTATGC
42404 TTTAAGTTATGTAAGTAATGT-ATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTAT
1 TTTAAGTTATGTAA--AATGTAATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTAT
42468 TATGTAAGTTA
64 TATGTAAGTTA
*
42479 TTTAAGTTATGTAACATGTAAATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATT
1 TTTAAGTTATGTAAAATGT-AATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATT
42544 ATGTAAGTTA
65 ATGTAAGTTA
* *
42554 TTTAAGTTATGTAACATGTAAATTATGTAAGTTATGTA
1 TTTAAGTTATGTAAAATGT-AATTATGTAAGTTGTGTA
42592 GGCTATGTAT
Statistics
Matches: 109, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
73 4 0.04
75 105 0.96
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.46
Consensus pattern (74 bp):
TTTAAGTTATGTAAAATGTAATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTA
TGTAAGTTA
Found at i:42647 original size:25 final size:24
Alignment explanation
Indices: 42612--42665 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
42602 GTTAAGTAAG
** *
42612 TAATG-TATTATGTAAGTTGTGTA
1 TAATGTTATTATCAAAGTTATGTA
42635 TAATGTTAGTTATCAAAGTTATGTA
1 TAATGTTA-TTATCAAAGTTATGTA
*
42660 TTATGT
1 TAATGT
42666 GTTTCTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 5 0.20
24 2 0.08
25 18 0.72
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (24 bp):
TAATGTTATTATCAAAGTTATGTA
Found at i:42806 original size:26 final size:27
Alignment explanation
Indices: 42763--42817 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
42753 ATTTATTAAA
*
42763 ATATAGGTTTTAATATTTTAAAATAAC
1 ATATAGGTTTTAATATTTAAAAATAAC
42790 ATATAGG-TTTAATATTTAAAAATAAC
1 ATATAGGTTTTAATATTTAAAAATAAC
42816 AT
1 AT
42818 TTACAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (27 bp):
ATATAGGTTTTAATATTTAAAAATAAC
Found at i:42933 original size:120 final size:120
Alignment explanation
Indices: 42790--43012 Score: 412
Period size: 120 Copynumber: 1.9 Consensus size: 120
42780 TTAAAATAAC
*
42790 ATATAGGTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATT-TCAA
1 ATATAGGTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTGACAA
42854 TAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
66 TAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
*
42909 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTTATTGACA
1 ATATAGG-TTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTGACA
42974 ATAAAATTGAAATATAGGTTATATATCCATACCATATAT
65 ATAAAATTGAAATATAGGTTATATATCCATACCATATAT
43013 ATAAATTTTA
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
119 7 0.07
120 52 0.52
121 41 0.41
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (120 bp):
ATATAGGTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTGACAA
TAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
Found at i:43062 original size:18 final size:17
Alignment explanation
Indices: 43039--43108 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 17
43029 ATATATAAAG
43039 TTTAAGTAATGTAATATA
1 TTTAAGTAA-GTAATATA
43057 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAA-GTAA--TAT--A
**
43079 TTTTTGTAAGTAATATA
1 TTTAAGTAAGTAATATA
43096 TTT-AGTAAGTAAT
1 TTTAAGTAAGTAAT
43109 GTAAGTAATG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 9 0.20
17 4 0.09
18 14 0.31
19 3 0.07
20 3 0.07
21 4 0.09
22 8 0.18
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (17 bp):
TTTAAGTAAGTAATATA
Found at i:43098 original size:17 final size:16
Alignment explanation
Indices: 43066--43108 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
43056 ATTTAAGTAA
*
43066 TGTAAGTTATAAATTTT
1 TGTAAGTAATAAA-TTT
*
43083 TGTAAGTAATATATTT
1 TGTAAGTAATAAATTT
*
43099 AGTAAGTAAT
1 TGTAAGTAAT
43109 GTAAGTAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (16 bp):
TGTAAGTAATAAATTT
Found at i:43165 original size:13 final size:13
Alignment explanation
Indices: 43149--43239 Score: 73
Period size: 13 Copynumber: 6.9 Consensus size: 13
43139 GTAAGTCATG
43149 TATTTAAGTAATA
1 TATTTAAGTAATA
43162 TATTTAA-TCCAAT-
1 TATTTAAGT--AATA
* * *
43175 TCTAGTAAGTAATG
1 TAT-TTAAGTAATA
43189 TATTTAAGTAATA
1 TATTTAAGTAATA
43202 TATTTAAGTAA-A
1 TATTTAAGTAATA
*
43214 T-TTAGTAATTAATA
1 TATT--TAAGTAATA
43228 TATTTAAGTAAT
1 TATTTAAGTAAT
43240 GTAAGTTATA
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
11 2 0.03
12 3 0.05
13 44 0.71
14 10 0.16
15 3 0.05
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (13 bp):
TATTTAAGTAATA
Found at i:43190 original size:40 final size:38
Alignment explanation
Indices: 43089--43239 Score: 162
Period size: 39 Copynumber: 3.9 Consensus size: 38
43079 TTTTTGTAAG
* **
43089 TAATATATTTAGTAAGTAATGTAAGTAATGTAATATATACT
1 TAATAAATTTAGTAAGTAATGTATTTAA-GTAATATAT--T
* *
43130 T--TAATTTTAGTAAGTCATGTATTTAAGTAATATATT
1 TAATAAATTTAGTAAGTAATGTATTTAAGTAATATATT
*
43166 TAATCCAATTCTAGTAAGTAATGTATTTAAGTAATATATT
1 TAAT-AAATT-TAGTAAGTAATGTATTTAAGTAATATATT
* *
43206 TAAGTAAATTTAGTAATTAATATATTTAAGTAAT
1 TAA-TAAATTTAGTAAGTAATGTATTTAAGTAAT
43240 GTAAGTTATA
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
36 2 0.02
38 10 0.11
39 45 0.48
40 35 0.37
41 2 0.02
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (38 bp):
TAATAAATTTAGTAAGTAATGTATTTAAGTAATATATT
Found at i:43305 original size:11 final size:11
Alignment explanation
Indices: 43274--43306 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
43264 ATATATTAAT
43274 AATTCATTGAC
1 AATTCATTGAC
43285 -ATTCATTGAC
1 AATTCATTGAC
*
43295 AATTCACTGAC
1 AATTCATTGAC
43306 A
1 A
43307 GTCACAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (11 bp):
AATTCATTGAC
Found at i:46215 original size:8 final size:8
Alignment explanation
Indices: 46204--46238 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
46194 TTTTTATTTC
46204 ATTTTTAT
1 ATTTTTAT
46212 ATTTTTAT
1 ATTTTTAT
46220 ATTTTTAT
1 ATTTTTAT
*
46228 ATTTTTTT
1 ATTTTTAT
46236 ATT
1 ATT
46239 CCAAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
ATTTTTAT
Found at i:46884 original size:16 final size:15
Alignment explanation
Indices: 46863--46892 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46853 CTAACCTTAA
46863 CCCCTAAATCTCCTAG
1 CCCCTAAAT-TCCTAG
46879 CCCCTAAATTCCTA
1 CCCCTAAATTCCTA
46893 ACCCTAACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.43, G:0.03, T:0.27
Consensus pattern (15 bp):
CCCCTAAATTCCTAG
Found at i:46886 original size:43 final size:42
Alignment explanation
Indices: 46837--46919 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 42
46827 TTAATTGACA
46837 CCCTAAATTCCTAACCCTAAC-CTTAACCCCTAAATCTCCTAGC
1 CCCTAAATTCCTAACCCTAACTCTTAA-CCCTAAATC-CCTAGC
46880 CCCTAAATTCCTAACCCTAACTCTTAACCCTAAATCCCTA
1 CCCTAAATTCCTAACCCTAACTCTTAACCCTAAATCCCTA
46920 ACACTAACCC
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
42 4 0.10
43 30 0.77
44 5 0.13
ACGTcount: A:0.31, C:0.41, G:0.01, T:0.27
Consensus pattern (42 bp):
CCCTAAATTCCTAACCCTAACTCTTAACCCTAAATCCCTAGC
Found at i:46918 original size:21 final size:21
Alignment explanation
Indices: 46894--46934 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46884 AAATTCCTAA
*
46894 CCCTAACTCTTAA-CCCTAAAT
1 CCCTAACAC-TAACCCCTAAAT
46915 CCCTAACACTAACCCCTAAA
1 CCCTAACACTAACCCCTAAA
46935 CCTTATATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCTAACACTAACCCCTAAAT
Found at i:47647 original size:19 final size:20
Alignment explanation
Indices: 47623--47667 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
47613 GAAAAATTAT
47623 ATTTTTTATTTTT-TATTTC
1 ATTTTTTATTTTTGTATTTC
*
47642 A-TTTTTATTTTTGTATTTT
1 ATTTTTTATTTTTGTATTTC
47661 ATTTTTT
1 ATTTTTT
47668 CTTATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 7 0.30
20 5 0.22
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (20 bp):
ATTTTTTATTTTTGTATTTC
Found at i:48078 original size:21 final size:20
Alignment explanation
Indices: 48048--48088 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
48038 CCTAACTCCT
*
48048 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
48069 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
48089 TAAATCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:49049 original size:41 final size:41
Alignment explanation
Indices: 48989--49268 Score: 375
Period size: 41 Copynumber: 6.8 Consensus size: 41
48979 TTATTATTAC
* * * *
48989 TAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCACAGCAA
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* * ** *
49030 TACCGGCGCTTCTTTAAAAACGCCGCTAAAGATCTGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* *
49071 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* *
49112 TAGCGGCGCATT-TTCAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGC-TTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
*
49153 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
*
49194 TAGCGGCACTTAC-TCAAAAACGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTT-CTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* *
49235 TAGCGGCGTTTATTCAAAAACGCCGCTAAAGGCC
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
49269 CCAAAAACTC
Statistics
Matches: 215, Mismatches: 20, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
40 2 0.01
41 211 0.98
42 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (41 bp):
TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
Found at i:49358 original size:39 final size:40
Alignment explanation
Indices: 49304--49455 Score: 107
Period size: 40 Copynumber: 3.8 Consensus size: 40
49294 TGGCTTAGGC
* *
49304 TTTTT-GCGGCTTTTTTCAGA-AAACGCCGGTAATGCT-TA
1 TTTTTAGCGGCATTTTT-AGATAAACGCCGCTAATGCTCTA
* *
49342 TTTTTAGCGGCATTTTTGGATAAGCGCCGCTAATGCTCTA
1 TTTTTAGCGGCATTTTTAGATAAACGCCGCTAATGCTCTA
** * ** * *
49382 CCTTTAGTGGCATTTTTTTA-AAAGCGCCGCTAATACTCGA
1 TTTTTAGCGGCATTTTTAGATAAA-CGCCGCTAATGCTCTA
* * *
49422 TTTTTAGTGGCGTTTTTTG-TCCAAACGCCGCTAA
1 TTTTTAGCGGCATTTTTAGAT--AAACGCCGCTAA
49456 AAGCCTGTTT
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
38 7 0.08
39 26 0.29
40 46 0.51
41 9 0.10
42 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (40 bp):
TTTTTAGCGGCATTTTTAGATAAACGCCGCTAATGCTCTA
Found at i:49388 original size:40 final size:39
Alignment explanation
Indices: 49322--49415 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 39
49312 GCTTTTTTCA
* **
49322 GAAAA-CGCCGGTAATGCTTATTTTTAGCGGCATTTTTG
1 GAAAAGCGCCGCTAATGCTTACCTTTAGCGGCATTTTTG
* * *
49360 GATAAGCGCCGCTAATGCTCTACCTTTAGTGGCATTTTTT
1 GAAAAGCGCCGCTAATGCT-TACCTTTAGCGGCATTTTTG
*
49400 TAAAAGCGCCGCTAAT
1 GAAAAGCGCCGCTAAT
49416 ACTCGATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 4 0.09
39 12 0.26
40 30 0.65
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (39 bp):
GAAAAGCGCCGCTAATGCTTACCTTTAGCGGCATTTTTG
Found at i:49428 original size:40 final size:40
Alignment explanation
Indices: 49341--49440 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
49331 GGTAATGCTT
* * * * *
49341 ATTTTTAGCGGCATTTTTGGATAAGCGCCGCTAATGCTCT
1 ATTTTTAGTGGCATTTTTTGAAAAGCGCCGCTAATACTCG
** *
49381 ACCTTTAGTGGCATTTTTTTAAAAGCGCCGCTAATACTCG
1 ATTTTTAGTGGCATTTTTTGAAAAGCGCCGCTAATACTCG
*
49421 ATTTTTAGTGGCGTTTTTTG
1 ATTTTTAGTGGCATTTTTTG
49441 TCCAAACGCC
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (40 bp):
ATTTTTAGTGGCATTTTTTGAAAAGCGCCGCTAATACTCG
Done.