Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1115
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: 45359
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:11132 original size:45 final size:44
Alignment explanation
Indices: 11024--11176 Score: 130
Period size: 45 Copynumber: 3.4 Consensus size: 44
11014 ATACAGGTCT
* * * * * *
11024 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGATCT
1 TATCTCCTTGAGATTACAGCGGAGCAGATCAAAGAGA-GT--GATCC
* * **
11070 TATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAG-GATCC
1 TATCTCCTTGAGATTACAGCGGAGCAGATCAAAG--AGAGTGATCC
* * *
11115 TATCTCCTTGAGATTACAGCGGGGCAGATCAAAGATAGTAATCC
1 TATCTCCTTGAGATTACAGCGGAGCAGATCAAAGAGAGTGATCC
11159 TATCTCCTTGAGATTACA
1 TATCTCCTTGAGATTACA
11177 ATGGAGCGGA
Statistics
Matches: 88, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
43 3 0.03
44 22 0.25
45 33 0.38
46 28 0.32
48 1 0.01
49 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (44 bp):
TATCTCCTTGAGATTACAGCGGAGCAGATCAAAGAGAGTGATCC
Found at i:11346 original size:44 final size:43
Alignment explanation
Indices: 11021--11401 Score: 199
Period size: 44 Copynumber: 8.8 Consensus size: 43
11011 ATTATACAGG
* *** * *
11021 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
* *
11067 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGA-GA
* * * * ** *
11112 TCCTATCTCCTTGAGATTACAGCGGGGCAGATCAAAG-ATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAG--A
* * * *
11156 TCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
* * * * *
11195 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGCAGAGA
* * * ** * * *
11236 TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
*
11282 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* * **
11326 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* *
11369 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT
11402 AAAATAAAGG
Statistics
Matches: 261, Mismatches: 56, Indels: 39
0.73 0.16 0.11
Matches are distributed among these distances:
38 2 0.01
39 24 0.09
40 1 0.00
41 28 0.11
42 6 0.02
43 32 0.12
44 69 0.26
45 34 0.13
46 63 0.24
47 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
Found at i:11415 original size:87 final size:87
Alignment explanation
Indices: 11285--11446 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 87
11275 TTTCAGATCT
* * ** * *
11285 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATCACAGCA
11350 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
* * * *
11372 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCTCTCTGAGGTCACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAGAAAGAGATCTTATCTCCCTGAGATCACAGC
*
11436 AGAGTAGATCG
65 AGAGCAGATCG
11447 CATCAAGTCT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
87 59 0.94
88 4 0.06
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATCACAGCA
GAGCAGATCGAAGACACTATCC
Found at i:12396 original size:11 final size:11
Alignment explanation
Indices: 12380--12412 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
12370 TTCTTATTCA
12380 TTTTATTTTTC
1 TTTTATTTTTC
12391 TTTTATTTTT-
1 TTTTATTTTTC
*
12401 GTTTATTTTTC
1 TTTTATTTTTC
12412 T
1 T
12413 GCAATCGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.82
Consensus pattern (11 bp):
TTTTATTTTTC
Found at i:13195 original size:3 final size:3
Alignment explanation
Indices: 13187--13227 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
13177 GAATTAGTCC
* * *
13187 TAT TAT TAT TAT TAT TAT TAC TAC TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13228 CCTATTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:13203 original size:21 final size:21
Alignment explanation
Indices: 13179--13233 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
13169 CCCGTTTTGA
* *
13179 ATTAGTCCTATTATTATTATT
1 ATTATTCCTATTACTATTATT
* *
13200 ATTATTACTACTACTATTATT
1 ATTATTCCTATTACTATTATT
13221 ATTATTACCTATT
1 ATTATT-CCTATT
13234 TATTTATATT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.31, C:0.13, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTATTCCTATTACTATTATT
Found at i:18630 original size:22 final size:21
Alignment explanation
Indices: 18604--18653 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
18594 AAATTAAAAA
18604 TAAATTTCACAATTT-AATTATT
1 TAAATTTCAC-ATTTAAATT-TT
*
18626 TAAATTTAACATTTAAATTTT
1 TAAATTTCACATTTAAATTTT
18647 T-AATTTC
1 TAAATTTC
18654 TCAAATATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 5 0.20
21 7 0.28
22 13 0.52
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (21 bp):
TAAATTTCACATTTAAATTTT
Found at i:23127 original size:16 final size:16
Alignment explanation
Indices: 23106--23148 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
23096 GTGAAATATA
23106 AATATTTTATTAAAAT
1 AATATTTTATTAAAAT
*
23122 AATATTTTAATTAAGAT
1 AATATTTT-ATTAAAAT
*
23139 TAT-TTTTATT
1 AATATTTTATT
23149 TAATAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 12 0.50
17 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
AATATTTTATTAAAAT
Found at i:23928 original size:6 final size:6
Alignment explanation
Indices: 23917--24047 Score: 262
Period size: 6 Copynumber: 21.8 Consensus size: 6
23907 AAAAACAATA
23917 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
23965 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
24013 TATATG TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATAT
24048 ATAATACTAA
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 125 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:25837 original size:24 final size:26
Alignment explanation
Indices: 25805--25852 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
25795 ATCAATTGCC
25805 GGAAAAAG-AGAAAAAAA-TAAGGAA
1 GGAAAAAGAAGAAAAAAACTAAGGAA
*
25829 GGAAGAAGAAGAAAAAAACTAAGG
1 GGAAAAAGAAGAAAAAAACTAAGG
25853 TTTTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 9 0.43
26 5 0.24
ACGTcount: A:0.67, C:0.02, G:0.27, T:0.04
Consensus pattern (26 bp):
GGAAAAAGAAGAAAAAAACTAAGGAA
Found at i:27378 original size:36 final size:37
Alignment explanation
Indices: 27292--27378 Score: 90
Period size: 36 Copynumber: 2.4 Consensus size: 37
27282 GATATTAGAA
*
27292 TAATAAATAAATAA--ATAATAAAATAAAATAACCATGC
1 TAATAAAT-AATAATGAGAATAAAAT-AAATAACCATGC
* * *
27329 TAGTAGATAATAATGAGAATAAAAT-AATAATCATGC
1 TAATAAATAATAATGAGAATAAAATAAATAACCATGC
*
27365 TAATAAATCATAAT
1 TAATAAATAATAAT
27379 AATACATCTA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
36 26 0.63
37 6 0.15
38 9 0.22
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (37 bp):
TAATAAATAATAATGAGAATAAAATAAATAACCATGC
Found at i:28827 original size:38 final size:38
Alignment explanation
Indices: 28785--28864 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
28775 GGCTTTGGGC
*
28785 TTTTAGGATTTTTAGGTTAGCAGATTGGGTATTCAAGG
1 TTTTAGGATTTTTAGGTTAGCAGATTAGGTATTCAAGG
*
28823 TTTTAGGATTTTTAGGTTAGCAGATTAGGTATTCAGGG
1 TTTTAGGATTTTTAGGTTAGCAGATTAGGTATTCAAGG
28861 TTTT
1 TTTT
28865 GGGCTTATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.23, C:0.05, G:0.28, T:0.45
Consensus pattern (38 bp):
TTTTAGGATTTTTAGGTTAGCAGATTAGGTATTCAAGG
Found at i:32884 original size:47 final size:47
Alignment explanation
Indices: 32832--32942 Score: 113
Period size: 47 Copynumber: 2.4 Consensus size: 47
32822 AAAAATATTG
*
32832 AATATATATAATATAATATAATTATTAGA-TATATATTAAAGTTTATA
1 AATATATATAATATAATATAATT-TTAGACTATATATTAAAGTATATA
* ** *
32879 AATATATA-GAT-TCGTAATAATTTTAGACGTATATATTATAGTATATA
1 AATATATATAATATAAT-ATAATTTTAGAC-TATATATTAAAGTATATA
*
32926 AAAATA-ATAATATAATA
1 AATATATATAATATAATA
32943 ATAAATAAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
45 7 0.14
46 9 0.18
47 32 0.64
48 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.41
Consensus pattern (47 bp):
AATATATATAATATAATATAATTTTAGACTATATATTAAAGTATATA
Found at i:34423 original size:44 final size:44
Alignment explanation
Indices: 34375--34691 Score: 145
Period size: 44 Copynumber: 7.3 Consensus size: 44
34365 CTCTACTGCC
*
34375 ACTTCAGAGAGATAAAACTCTTTATTTTAATCCGCTCCACTGTA
1 ACTTCAGAGAGATAAGACTCTTTATTTTAATCCGCTCCACTGTA
* * * *** ** * *
34419 ACTTCAGGGAGATAGGAC-C-TGA-TGCGATCTACTCTATTGTA
1 ACTTCAGAGAGATAAGACTCTTTATTTTAATCCGCTCCACTGTA
34460 ACTTCAGAGAGATAAGA-TCCTTTATTTTAATCCGCTCCACTGTA
1 ACTTCAGAGAGATAAGACT-CTTTATTTTAATCCGCTCCACTGTA
* * * * * ** * *
34504 ACTTCAGGGAGATAGGA-TAGTGT-CTTCGATCTGCTCCGCTGTA
1 ACTTCAGAGAGATAAGACT-CTTTATTTTAATCCGCTCCACTGTA
* ** *** *
34547 A-TCTCAGGGAGATAAGA-TCTGAAATTCTTTGGCCTACTCCACTGTA
1 ACT-TCAGAGAGATAAGACTCT-TTATT-TTAATCC-GCTCCACTGTA
* * * * *** ** *
34593 ACCTCAGGGAAATAAGAC-C-TGA-TGCGATCTACTCTACTGTA
1 ACTTCAGAGAGATAAGACTCTTTATTTTAATCCGCTCCACTGTA
34634 ACTTCAGAGAGATAAGA-TCCTTTATTTTAATCCGCTCCACTGTA
1 ACTTCAGAGAGATAAGACT-CTTTATTTTAATCCGCTCCACTGTA
*
34678 ACTTCAGGGAGATA
1 ACTTCAGAGAGATA
34692 GGATTATATC
Statistics
Matches: 193, Mismatches: 65, Indels: 30
0.67 0.23 0.10
Matches are distributed among these distances:
41 51 0.26
42 7 0.04
43 36 0.19
44 73 0.38
45 2 0.01
46 24 0.12
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
ACTTCAGAGAGATAAGACTCTTTATTTTAATCCGCTCCACTGTA
Found at i:34467 original size:85 final size:85
Alignment explanation
Indices: 34360--34831 Score: 425
Period size: 87 Copynumber: 5.5 Consensus size: 85
34350 CTTGGATGTA
** *
34360 ATCTACTCTACTGCCACTTCAGAGAGATAA-AACTCTTTATTTTAATCCGCTCCACTGTAACTTC
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACTTC
34424 AGGGAGATAGGACCTGATGCG
65 AGGGAGATAGGACCTGATGCG
*
34445 ATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
** * *
34510 GGGAGATAGGATAGTGTCTTCG
66 GGGAGATAGGA-CCTG-ATGCG
* ** * ** *** *
34532 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGAT-CTGAAATTCTTTGGCCTACTCCACTGTAAC
1 ATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCT-TTATT-TTAATCC-GCTCCACTGTAAC
* * *
34595 CTCAGGGAAATAAGACCTGATGCG
62 TTCAGGGAGATAGGACCTGATGCG
34619 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
* * *
34684 GGGAGATAGGA-TTATATCTTCG
66 GGGAGATAGGACCT-GA--TGCG
* ** * * * * *** * *
34706 ATCTGCTCCGCTGTAACCTCAGGGAGACAAGATCTGCATTT-CTTCGGTCTGTTCCACTGTAA-T
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATC--C-TTTATTTTAATCCGCTCCACTGTAACT
* *
34769 CTCAGGGAGATAAGACCTGATGTG
63 -TCAGGGAGATAGGACCTGATGCG
*
34793 ATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
34832 ATCCGCTCCA
Statistics
Matches: 304, Mismatches: 65, Indels: 36
0.75 0.16 0.09
Matches are distributed among these distances:
84 4 0.01
85 95 0.31
86 11 0.04
87 126 0.41
88 10 0.03
89 54 0.18
90 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (85 bp):
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
GGGAGATAGGACCTGATGCG
Found at i:34599 original size:46 final size:46
Alignment explanation
Indices: 34493--34788 Score: 190
Period size: 46 Copynumber: 6.7 Consensus size: 46
34483 ATTTTAATCC
* * *
34493 GCTCCACTGTAACTTCAGGGAGATAGGA--T--AGTGTCTTCGATCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGATCT
* * * **
34536 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGCCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* * * *
34582 ACTCCACTGTAACCTCAGGGAAATAAGACCTG--A---TGCGATCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* * * * ** * *
34623 ACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATT-TT-AATCC
1 GCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGATCT
* * *
34667 GCTCCACTGTAACTTCAGGGAGATAGGAT-T-ATA-TCTTCGATCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* * * * *
34710 GCTCCGCTGTAACCTCAGGGAGACAAGATCTGCATTTCTTCGGTCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* * *
34756 GTTCCACTGTAATCTCAGGGAGATAAGACCTGA
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTGA
34789 TGTGATCTTC
Statistics
Matches: 193, Mismatches: 46, Indels: 25
0.73 0.17 0.09
Matches are distributed among these distances:
41 29 0.15
42 7 0.04
43 53 0.27
44 30 0.16
45 2 0.01
46 70 0.36
47 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (46 bp):
GCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
Found at i:34649 original size:41 final size:41
Alignment explanation
Indices: 34409--34824 Score: 201
Period size: 41 Copynumber: 9.7 Consensus size: 41
34399 TTTTAATCCG
* *
34409 CTCCACTGTAACTTCAGGGAGATAGGACCTGATGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGATCTA
* * * * ** **
34450 CTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGA-CC-TGA-TTCGATCTA
* ** * *
34494 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGA-CCTG-ATTCGATCTA
* * **
34537 CTCCGCTGTAA-TCTCAGGGAGATAAGATCTGAAATTCTTTGGCCTA
1 CTCCACTGTAACT-TCAGGGAGATAAGACCTG--ATTC---GATCTA
* * *
34583 CTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGATCTA
* * * ** **
34624 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGA-CC-TGA-TTCGATCTA
* * * *
34668 CTCCACTGTAACTTCAGGGAGATAGGA-TTATATCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGACCT-GA--TTCGATCTA
* * * * * *
34711 CTCCGCTGTAACCTCAGGGAGACAAGATCTGCATTTCTTCGGTCTG
1 CTCCACTGTAACTTCAGGGAGATAAGACCTG-A----TTCGATCTA
* *
34757 TTCCACTGTAA-TCTCAGGGAGATAAGACCTGATGT-GATCTT
1 CTCCACTGTAACT-TCAGGGAGATAAGACCTGAT-TCGATCTA
* *
34798 CTCTACTGTAACTTCAGAGAGATAAGA
1 CTCCACTGTAACTTCAGGGAGATAAGA
34825 TCCTTTAATC
Statistics
Matches: 281, Mismatches: 72, Indels: 44
0.71 0.18 0.11
Matches are distributed among these distances:
41 78 0.28
42 11 0.04
43 66 0.23
44 61 0.22
45 1 0.00
46 64 0.23
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (41 bp):
CTCCACTGTAACTTCAGGGAGATAAGACCTGATTCGATCTA
Found at i:34706 original size:174 final size:175
Alignment explanation
Indices: 34409--34889 Score: 708
Period size: 174 Copynumber: 2.8 Consensus size: 175
34399 TTTTAATCCG
* * *
34409 CTCCACTGTAACTTCAGGGAGATAGGACCTGATGCGATCTACTCTATTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
* *
34474 AGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TAGTGTCTTCGATCTGC
66 AGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTACTATCTTCGATCTGC
* * *
34538 TCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGCCTA
131 TCCGCTGTAACCTCAGGGAGACAAGATCTGAAATTCTTCGGCCTA
*
34583 CTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
34648 AGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTA-TATCTTCGATCTGC
66 AGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTACTATCTTCGATCTGC
* * * *
34712 TCCGCTGTAACCTCAGGGAGACAAGATCTGCATTTCTTCGGTCTG
131 TCCGCTGTAACCTCAGGGAGACAAGATCTGAAATTCTTCGGCCTA
* * * *
34757 TTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
* * *
34822 AGATCC-----TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCTG
66 AGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGGATTACTATCTTCGATCTG
*
34881 CTTCGCTGT
130 CTCCGCTGT
34890 TAATGCAGGA
Statistics
Matches: 283, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
168 1 0.00
169 35 0.12
170 20 0.07
174 225 0.80
175 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (175 bp):
CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
AGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTACTATCTTCGATCTGC
TCCGCTGTAACCTCAGGGAGACAAGATCTGAAATTCTTCGGCCTA
Found at i:36237 original size:1 final size:1
Alignment explanation
Indices: 36231--36257 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
36221 CTCTCCAAAG
36231 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
36258 AGGAAGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Done.