Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold3201.1
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: 153328
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 3182 characters in sequence are not A, C, G, or T
Found at i:2340 original size:64 final size:63
Alignment explanation
Indices: 2237--2365 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 63
2227 GGGAAAGAGT
* *
2237 CTACTAGTTTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATAACTGAACTAGAAAGATCG
1 CTACTAGTTTGCCAAGACGAGAAGACAGAGTTGAAGGTCCGGATAACCGAACTAGAAAGATCG
* *
2300 CTNACTAGTTTGCCGAGATGAGAAGACAGAGTTGAAGGTCCGGATAACCGAACTAGAAAGATCG
1 CT-ACTAGTTTGCCAAGACGAGAAGACAGAGTTGAAGGTCCGGATAACCGAACTAGAAAGATCG
2364 CT
1 CT
2366 TCACCAGTAC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
63 2 0.03
64 59 0.97
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (63 bp):
CTACTAGTTTGCCAAGACGAGAAGACAGAGTTGAAGGTCCGGATAACCGAACTAGAAAGATCG
Found at i:11576 original size:170 final size:173
Alignment explanation
Indices: 11294--11627 Score: 467
Period size: 170 Copynumber: 1.9 Consensus size: 173
11284 TCATTATAAA
*
11294 AGGTCTTATTCCCCTGAGATTACGGTGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGA
1 AGGTCTTATTCCCCTGAGATTACAGTGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGA
* * * * * *
11359 TTACAGCGGAGTAGATTGAATATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-A-A
66 TTACAGCGGAGCAGATTGAAGACAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAGA
* * *
11422 -AGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACC
131 CACGATCCTATCTCCCTGAAGTTACAGTAGAGCAGATCGCACC
* * * *
11464 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGG
1 AGGTCTTATTCCCCTGAGATTACAGTGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGA
* * * *
11529 TTACAGTGGAGCAGATTGAGGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
66 TTACAGCGGAGCAGATTGAAGACAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-AAG
*
11594 ACACTATCCTATCTCCCTGAAGTTACAGTAGAGC
130 ACACGATCCTATCTCCCTGAAGTTACAGTAGAGC
11628 GGATTAAAAT
Statistics
Matches: 141, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
170 111 0.79
172 1 0.01
173 1 0.01
174 28 0.20
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (173 bp):
AGGTCTTATTCCCCTGAGATTACAGTGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGA
TTACAGCGGAGCAGATTGAAGACAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAGA
CACGATCCTATCTCCCTGAAGTTACAGTAGAGCAGATCGCACC
Found at i:11577 original size:44 final size:40
Alignment explanation
Indices: 11339--11591 Score: 179
Period size: 44 Copynumber: 6.0 Consensus size: 40
11329 CAAAGAATTG
* * *
11339 CAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAATA
1 CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTG-A-C
* * *
11381 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-A-
1 CAG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAC
* * * *
11421 AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATCGCAC
1 CA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-AC
* * * * *
11463 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTT
1 CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-T--TG-A--C
*
11509 CAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAGGC
1 CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGA--C
*
11551 CAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
1 CAG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGA
11592 AGACACTATC
Statistics
Matches: 166, Mismatches: 30, Indels: 28
0.74 0.13 0.12
Matches are distributed among these distances:
38 1 0.01
39 27 0.16
40 1 0.01
41 28 0.17
42 10 0.06
43 1 0.01
44 66 0.40
45 1 0.01
46 31 0.19
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAC
Found at i:11621 original size:43 final size:43
Alignment explanation
Indices: 11512--11675 Score: 152
Period size: 44 Copynumber: 3.8 Consensus size: 43
11502 AGAATTTCAG
* ** * *
11512 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAGGCCAGAA
1 ATCTTATCTCCCTGAAGTTACAGCAGAGCAGATTGAAGACA-AA
* **
11556 ATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGACACT
1 ATCTTATCTCCCTGAAG-TTACAGCAGAGCAGATTGAAGACAAA
* * * * *
11599 ATCCTATCTCCCTGAAGTTACAGTAGAGCGGATT-AAAATAAA
1 ATCTTATCTCCCTGAAGTTACAGCAGAGCAGATTGAAGACAAA
*
11641 GGATCTTATCTCCCTGAAGTTACAGCAGAGTAGAT
1 --ATCTTATCTCCCTGAAGTTACAGCAGAGCAGAT
11676 CGCATCAAGT
Statistics
Matches: 98, Mismatches: 18, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 4 0.04
43 28 0.29
44 66 0.67
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTACAGCAGAGCAGATTGAAGACAAA
Found at i:11781 original size:218 final size:213
Alignment explanation
Indices: 11342--11763 Score: 478
Period size: 218 Copynumber: 2.0 Consensus size: 213
11332 AGAATTGCAG
* * * *
11342 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAATATAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGATTAC
* * * *
11407 AGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTA
66 AGTAGAGCGGATTAAAGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAAGTCTTA
** * * * *
11472 TTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTG
131 TTTCCCTGAGATTACAGTGGAACAGACTAAAGAATAACAGATC-TATCCCCCTAAAGTTACAGCG
** *
11537 GAGCAGATTGAGGCCAGAA
195 GAGCAGACAGAGGACAGAA
11556 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACT-ATCCTATCTCCCTGA-AGTTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGA-TTA
* *
11619 CAGTAGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAAGTTACAGCAGAGTAGATCGCATCAA
65 CAGTAGAGCGGA-T----TAAAGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAA
* * *
11684 GTCTTATTTCCCTGAAGA-TGCAGTGGAATAGACTGAA-AATAACA-AGTC-ATGCCCCTCTAAA
125 GTCTTATTTCCCTG-AGATTACAGTGGAACAGACTAAAGAATAACAGA-TCTAT-CCCC-CTAAA
** *
11745 GTTGTAGCGGAGCGGACAG
186 GTTACAGCGGAGCAGACAG
11764 TAGATAGCAA
Statistics
Matches: 174, Mismatches: 24, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
212 1 0.01
213 29 0.17
214 40 0.23
215 2 0.01
216 4 0.02
217 23 0.13
218 72 0.41
219 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (213 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGATTAC
AGTAGAGCGGATTAAAGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAAGTCTTA
TTTCCCTGAGATTACAGTGGAACAGACTAAAGAATAACAGATCTATCCCCCTAAAGTTACAGCGG
AGCAGACAGAGGACAGAA
Found at i:12669 original size:120 final size:120
Alignment explanation
Indices: 12513--12753 Score: 464
Period size: 120 Copynumber: 2.0 Consensus size: 120
12503 AATATCTCTG
*
12513 TACATTTGGAATGGACACTGCATTTTCGAATTGAAAAAAGAAAAAACAGATTAAAAAGGTTGACT
1 TACATTTGGAATGGACACTGCATTTTCGAATTGAAAAAAGAAAAAACAGATCAAAAAGGTTGACT
12578 CCCGTTTTTTTTTCTCTGTTCTTGTTTCTTATTCACTTTAATCTTTATTTATTGC
66 CCCGTTTTTTTTTCTCTGTTCTTGTTTCTTATTCACTTTAATCTTTATTTATTGC
*
12633 TACATTTGGAATGGACACTGCATTTTCGAATTGAAAAAAGAAAAAACAGATCAAAAGGGTTGACT
1 TACATTTGGAATGGACACTGCATTTTCGAATTGAAAAAAGAAAAAACAGATCAAAAAGGTTGACT
12698 CCCGTTTTTTTTTCTCTGTTCTTGTTTCTTATTCACTTTAATCTTTATTTATTGC
66 CCCGTTTTTTTTTCTCTGTTCTTGTTTCTTATTCACTTTAATCTTTATTTATTGC
12753 T
1 T
12754 TTTTTTCTCT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (120 bp):
TACATTTGGAATGGACACTGCATTTTCGAATTGAAAAAAGAAAAAACAGATCAAAAAGGTTGACT
CCCGTTTTTTTTTCTCTGTTCTTGTTTCTTATTCACTTTAATCTTTATTTATTGC
Found at i:16488 original size:13 final size:14
Alignment explanation
Indices: 16464--16498 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
16454 TAAGTATTTT
16464 ACAAAAAGAACTAA
1 ACAAAAAGAACTAA
16478 ACAAAAA-AACTAA
1 ACAAAAAGAACTAA
16491 ATCAAAAA
1 A-CAAAAA
16499 CATCAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.74, C:0.14, G:0.03, T:0.09
Consensus pattern (14 bp):
ACAAAAAGAACTAA
Found at i:24366 original size:24 final size:23
Alignment explanation
Indices: 24322--24366 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
24312 AATATGCTGT
* * *
24322 ATTTTTTATTTCAAGTTTTTTTA
1 ATTTTTTATTACAACTCTTTTTA
24345 ATTTTTTATTAACAACTCTTTT
1 ATTTTTTATT-ACAACTCTTTT
24367 ATTTATAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.64
Consensus pattern (23 bp):
ATTTTTTATTACAACTCTTTTTA
Found at i:25076 original size:25 final size:23
Alignment explanation
Indices: 25032--25077 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
25022 CATATCCCGG
**
25032 TAAATATAAAAAGACGGCATACT
1 TAAATATAAAAAGAAAGCATACT
25055 TAAATATTAGAAAAGAAAGCATA
1 TAAATA-TA-AAAAGAAAGCATA
25078 TTTCTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 2 0.11
25 11 0.58
ACGTcount: A:0.57, C:0.09, G:0.13, T:0.22
Consensus pattern (23 bp):
TAAATATAAAAAGAAAGCATACT
Found at i:25208 original size:30 final size:27
Alignment explanation
Indices: 25169--25223 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 27
25159 TAGAGGGTTG
25169 AAATTAATTTGTAATT-TTTATAATAGTAA
1 AAATTAATTT-T-ATTATTT-TAATAGTAA
25198 AAATGTAATTTTATTATTTTAATAGT
1 AAAT-TAATTTTATTATTTTAATAGT
25224 TTGTAGCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 10 0.42
29 8 0.33
30 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (27 bp):
AAATTAATTTTATTATTTTAATAGTAA
Found at i:32159 original size:48 final size:48
Alignment explanation
Indices: 32105--32201 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
32095 GCTTGTTTTA
32105 TAAATATCTTATATTTAATTATTACATTTTTAGCTTTAGTAGCTTAGG
1 TAAATATCTTATATTTAATTATTACATTTTTAGCTTTAGTAGCTTAGG
*
32153 TAAATATTTTATATTTAATTATTACATTTTTAGCTTTAGTAGCTTAGG
1 TAAATATCTTATATTTAATTATTACATTTTTAGCTTTAGTAGCTTAGG
32201 T
1 T
32202 TTAGATTATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (48 bp):
TAAATATCTTATATTTAATTATTACATTTTTAGCTTTAGTAGCTTAGG
Found at i:46493 original size:15 final size:15
Alignment explanation
Indices: 46469--46508 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
46459 ATTTTTATTT
46469 TTTTAATATTAAATG
1 TTTTAATATTAAATG
*
46484 TTTTACTATTAAATAG
1 TTTTAATATTAAAT-G
*
46500 TATTAATAT
1 TTTTAATAT
46509 AACTAATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (15 bp):
TTTTAATATTAAATG
Found at i:54641 original size:22 final size:22
Alignment explanation
Indices: 54600--54660 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
54590 TATCTAAATA
*
54600 ATAACAACAAAATAATAGCAAT
1 ATAACAACAAAATAACAGCAAT
* * *
54622 ATAATAACAAAATGACAGCAAC
1 ATAACAACAAAATAACAGCAAT
* * *
54644 ACATCAACAAAACAACA
1 ATAACAACAAAATAACA
54661 ATAGTTGATT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.62, C:0.20, G:0.05, T:0.13
Consensus pattern (22 bp):
ATAACAACAAAATAACAGCAAT
Found at i:58591 original size:20 final size:18
Alignment explanation
Indices: 58566--58617 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
58556 TAGAGTATTC
58566 TTTATATATTCTTTTTAAAT
1 TTTATATATT-TTTTT-AAT
58586 TTTATATATTTTTTTAAT
1 TTTATATATTTTTTTAAT
* *
58604 TTTACAAATTTTTT
1 TTTATATATTTTTT
58618 AGATATTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 15 0.50
19 5 0.17
20 10 0.33
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATATATTTTTTTAAT
Found at i:63962 original size:16 final size:16
Alignment explanation
Indices: 63941--63981 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
63931 ATATAAAACT
63941 AAAATTAATAAATT-C
1 AAAATTAATAAATTAC
63956 AAAAATTACA-AAATTAC
1 -AAAATTA-ATAAATTAC
63973 AAAATTAAT
1 AAAATTAAT
63982 TTTCATTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.05
16 19 0.86
17 2 0.09
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTAATAAATTAC
Found at i:67372 original size:15 final size:16
Alignment explanation
Indices: 67340--67373 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
67330 ATTATATGAT
*
67340 AAAGAATATAATATTA
1 AAAGAATATAATAATA
67356 AAAGAATAT-ATAATA
1 AAAGAATATAATAATA
67371 AAA
1 AAA
67374 AATTATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAGAATATAATAATA
Found at i:67832 original size:29 final size:30
Alignment explanation
Indices: 67798--67897 Score: 93
Period size: 30 Copynumber: 3.4 Consensus size: 30
67788 TATTTTTCAC
* *
67798 ATAAAAA-TATTAAAAATTTATATAAA-CTT
1 ATAAAAATTATAAAAAATTCATA-AAACCTT
67827 ATAAAAATTATAAAAAATTCATAAAACCTT
1 ATAAAAATTATAAAAAATTCATAAAACCTT
* * *
67857 ATGAATATTATAAAAACTT-ATAAATA--TT
1 ATAAAAATTATAAAAAATTCATAAA-ACCTT
*
67885 CTAAAAATTATAA
1 ATAAAAATTATAA
67898 TTTTAAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
28 12 0.20
29 15 0.25
30 33 0.55
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (30 bp):
ATAAAAATTATAAAAAATTCATAAAACCTT
Found at i:67837 original size:19 final size:21
Alignment explanation
Indices: 67808--67897 Score: 59
Period size: 19 Copynumber: 4.6 Consensus size: 21
67798 ATAAAAATAT
* *
67808 TAAAAATTTATATAAACTT-A
1 TAAAAATTTATAAAAAATTCA
67828 TAAAAA-TTATAAAAAATTCA
1 TAAAAATTTATAAAAAATTCA
** * *
67848 TAAAACCTTAT-GAATATT-A
1 TAAAAATTTATAAAAAATTCA
* *
67867 TAAAAACTTAT-AAATATTC-
1 TAAAAATTTATAAAAAATTCA
67886 TAAAAA-TTATAA
1 TAAAAATTTATAA
67898 TTTTAAATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.07
19 34 0.58
20 17 0.29
21 4 0.07
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.36
Consensus pattern (21 bp):
TAAAAATTTATAAAAAATTCA
Found at i:67839 original size:9 final size:9
Alignment explanation
Indices: 67798--67897 Score: 76
Period size: 9 Copynumber: 10.4 Consensus size: 9
67788 TATTTTTCAC
67798 ATAAAAA-T
1 ATAAAAATT
67806 ATTAAAAATTT
1 A-TAAAAA-TT
*
67817 ATATAAACTT
1 ATA-AAAATT
67827 ATAAAAATT
1 ATAAAAATT
67836 ATAAAAAATT
1 AT-AAAAATT
*
67846 CATAAAACCTT
1 -ATAAAA-ATT
* *
67857 ATGAATATT
1 ATAAAAATT
67866 ATAAAAACTT
1 ATAAAAA-TT
*
67876 ATAAATATT
1 ATAAAAATT
*
67885 CTAAAAATT
1 ATAAAAATT
67894 ATAA
1 ATAA
67898 TTTTAAATAA
Statistics
Matches: 72, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
8 1 0.01
9 32 0.44
10 30 0.42
11 9 0.12
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:67920 original size:9 final size:9
Alignment explanation
Indices: 67801--67929 Score: 61
Period size: 9 Copynumber: 13.8 Consensus size: 9
67791 TTTTCACATA
67801 AAAATATTA-
1 AAAAT-TTAT
67810 AAAATTTAT
1 AAAATTTAT
*
67819 ATAAACTTAT
1 A-AAATTTAT
*
67829 AAAAATTATAA
1 -AAAATT-TAT
*
67840 AAAATTCAT
1 AAAATTTAT
*
67849 AAAACCTTAT
1 AAAA-TTTAT
*
67859 -GAATATTAT
1 AAAAT-TTAT
*
67868 AAAAACTTAT
1 -AAAATTTAT
67878 AAATATTCTA-
1 AAA-ATT-TAT
67888 AAAA-TTAT
1 AAAATTTAT
* *
67896 -AATTTTAA
1 AAAATTTAT
67904 ATAAATTTAT
1 A-AAATTTAT
67914 AAAATTTAT
1 AAAATTTAT
67923 AAAATTT
1 AAAATTT
67930 TATTTATTGG
Statistics
Matches: 90, Mismatches: 16, Indels: 28
0.67 0.12 0.21
Matches are distributed among these distances:
7 4 0.04
8 7 0.08
9 36 0.40
10 36 0.40
11 7 0.08
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.39
Consensus pattern (9 bp):
AAAATTTAT
Found at i:68695 original size:20 final size:20
Alignment explanation
Indices: 68670--68707 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
68660 TTTAAATATG
* *
68670 TTTTTATTAATTTTATATTA
1 TTTTTATAAAGTTTATATTA
68690 TTTTTATAAAGTTTATAT
1 TTTTTATAAAGTTTATAT
68708 CAATTTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTTATAAAGTTTATATTA
Found at i:68714 original size:20 final size:20
Alignment explanation
Indices: 68671--68715 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
68661 TTAAATATGT
* * * *
68671 TTTTATTAATTTTATATTAT
1 TTTTATAAAGTTTATATCAA
68691 TTTTATAAAGTTTATATCAA
1 TTTTATAAAGTTTATATCAA
68711 TTTTA
1 TTTTA
68716 ATTTTTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATAAAGTTTATATCAA
Found at i:72848 original size:2 final size:2
Alignment explanation
Indices: 72841--72868 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
72831 ATCAATTTTA
72841 AT 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 AT
72869 CAAACCAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76072 original size:9 final size:9
Alignment explanation
Indices: 76058--76082 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
76048 ATAAATTCTT
76058 CATGTATTG
1 CATGTATTG
76067 CATGTATTG
1 CATGTATTG
76076 CATGTAT
1 CATGTAT
76083 GTGTGTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (9 bp):
CATGTATTG
Found at i:84695 original size:17 final size:17
Alignment explanation
Indices: 84644--84695 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
84634 TATCTGTTTA
*
84644 TTTTG-ATTTGGATCAA
1 TTTTGAATTTGGATCAT
* * *
84660 TTTCGAGTTTGGATTAT
1 TTTTGAATTTGGATCAT
84677 TTTTGAATTTGGATCAT
1 TTTTGAATTTGGATCAT
84694 TT
1 TT
84696 AGATTTAAGG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 4 0.14
17 24 0.86
ACGTcount: A:0.21, C:0.06, G:0.19, T:0.54
Consensus pattern (17 bp):
TTTTGAATTTGGATCAT
Found at i:88109 original size:3 final size:3
Alignment explanation
Indices: 88091--88125 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
88081 TGTTTAGAAC
* *
88091 AGA AGA TGA GGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
88126 GTGCAGCTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:88820 original size:21 final size:20
Alignment explanation
Indices: 88772--88812 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
88762 ATTAAAAAGC
*
88772 AAAAATATTTTTAATATTAAT
1 AAAAATATTTTT-ATAATAAT
88793 AAAAATATTTTT-TAATAAT
1 AAAAATATTTTTATAATAAT
88812 A
1 A
88813 CACAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAAATATTTTTATAATAAT
Found at i:89020 original size:20 final size:20
Alignment explanation
Indices: 88995--89038 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
88985 TTTATGTTAA
88995 ATTTAAAATAATATATATAT
1 ATTTAAAATAATATATATAT
* *
89015 ATTTAAATTTATATATATAT
1 ATTTAAAATAATATATATAT
89035 ATTT
1 ATTT
89039 CAGTCTTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTAAAATAATATATATAT
Found at i:89029 original size:18 final size:18
Alignment explanation
Indices: 88979--89034 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
88969 TTAGATGCTT
* *
88979 TTTAAATTTATGT-TAAA
1 TTTAAATTTATATATATA
*
88996 TTTAAAATAATATATATATA
1 TTT-AAAT-TTATATATATA
89016 TTTAAATTTATATATATA
1 TTTAAATTTATATATATA
89034 T
1 T
89035 ATTTCAGTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 3 0.09
18 15 0.47
19 8 0.25
20 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTAAATTTATATATATA
Found at i:90225 original size:18 final size:18
Alignment explanation
Indices: 90179--90229 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
90169 GAAAAATTCT
90179 TTTTTCAATTTTT-TAAAA
1 TTTTTC-ATTTTTATAAAA
90197 TTTAATT--TTTTTATAAAA
1 TTT--TTCATTTTTATAAAA
90215 TTTTTCATTTTTATA
1 TTTTTCATTTTTATA
90230 TATTATTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
16 2 0.07
17 5 0.18
18 19 0.68
20 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTCATTTTTATAAAA
Found at i:96709 original size:9 final size:9
Alignment explanation
Indices: 96697--96751 Score: 56
Period size: 10 Copynumber: 5.6 Consensus size: 9
96687 AAATTAATAT
96697 TTTTTATAA
1 TTTTTATAA
96706 TTTTTATAA
1 TTTTTATAA
*
96715 TTCTTAATAA
1 TT-TTTATAA
96725 TTATTTAAGTAA
1 TT-TTT-A-TAA
96737 TTTTCTATAA
1 TTTT-TATAA
96747 TTTTT
1 TTTTT
96752 TTTATAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 12 0.31
10 17 0.44
11 4 0.10
12 6 0.15
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:98095 original size:21 final size:18
Alignment explanation
Indices: 98084--98117 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
98074 TGATTTTTGG
98084 TTTATTTAAAGTATTTTT
1 TTTATTTAAAGTATTTTT
*
98102 TTTATTTCAAG-ATTTT
1 TTTATTTAAAGTATTTT
98118 ATATTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TTTATTTAAAGTATTTTT
Found at i:100610 original size:16 final size:16
Alignment explanation
Indices: 100589--100620 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
100579 TTGACACGGA
100589 TAAATGATATCGTGTT
1 TAAATGATATCGTGTT
100605 TAAATGATATCGTGTT
1 TAAATGATATCGTGTT
100621 GACACTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (16 bp):
TAAATGATATCGTGTT
Found at i:108470 original size:29 final size:28
Alignment explanation
Indices: 108438--108506 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
108428 AGTGGACTTG
* *
108438 AAATTTTAAATCCTAAAAGTAGAGGGACT
1 AAATTTTAAAT-ATAAAAGTAAAGGGACT
*
108467 AAATTTCTAGAA-ATAAAAGTAAATGGACT
1 AAATTT-TA-AATATAAAAGTAAAGGGACT
*
108496 AAATTTCAAAT
1 AAATTTTAAAT
108507 GTAGAAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 26 0.79
30 2 0.06
31 2 0.06
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (28 bp):
AAATTTTAAATATAAAAGTAAAGGGACT
Found at i:109306 original size:92 final size:92
Alignment explanation
Indices: 109145--109322 Score: 320
Period size: 92 Copynumber: 1.9 Consensus size: 92
109135 ACCTATGCAG
* *
109145 GTTTGTAACACCCCCGACCCAGCTTAGGAGTTTTGGCTAAGTTAAAGGCATTACATTGATCACTA
1 GTTTGTAACACCCCCGACCCAGCTTAAGAGTTTTGGCTAAGTCAAAGGCATTACATTGATCACTA
109210 AAGTGATCCTGTAAAGCCATTATACAA
66 AAGTGATCCTGTAAAGCCATTATACAA
* *
109237 GTTTGTAACACCCCCGACCCAGCTTAAGAGTTTTGGCTAAGTCGAAGGCATTACATTGATCACTG
1 GTTTGTAACACCCCCGACCCAGCTTAAGAGTTTTGGCTAAGTCAAAGGCATTACATTGATCACTA
109302 AAGTGATCCTGTAAAGCCATT
66 AAGTGATCCTGTAAAGCCATT
109323 CTTTTGCTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 82 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (92 bp):
GTTTGTAACACCCCCGACCCAGCTTAAGAGTTTTGGCTAAGTCAAAGGCATTACATTGATCACTA
AAGTGATCCTGTAAAGCCATTATACAA
Found at i:113050 original size:18 final size:17
Alignment explanation
Indices: 113007--113071 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 17
112997 CAAGGTTCAC
113007 ACATAGGGGTT-TGCATAT
1 ACATA-GGGTTCT-CATAT
113025 A-A-AGGGTTCTCATAT
1 ACATAGGGTTCTCATAT
*
113040 ATATGAGGG-T-TCATAT
1 ACAT-AGGGTTCTCATAT
*
113056 ACATAGGGTTCACATA
1 ACATAGGGTTCTCATA
113072 CATGGGTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
15 15 0.38
16 13 0.33
17 6 0.15
18 5 0.13
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (17 bp):
ACATAGGGTTCTCATAT
Found at i:113065 original size:15 final size:15
Alignment explanation
Indices: 113034--113081 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
113024 TAAAGGGTTC
*
113034 TCATATATATGAGGGT
1 TCATATACAT-AGGGT
113050 TCATATACATAGGGT
1 TCATATACATAGGGT
*
113065 TCACATACAT-GGGT
1 TCATATACATAGGGT
113079 TCA
1 TCA
113082 CATGGGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 7 0.23
15 14 0.47
16 9 0.30
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (15 bp):
TCATATACATAGGGT
Found at i:113080 original size:14 final size:15
Alignment explanation
Indices: 113045--113084 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
113035 CATATATATG
*
113045 AGGGTTCATATACAT
1 AGGGTTCACATACAT
113060 AGGGTTCACATACAT
1 AGGGTTCACATACAT
113075 -GGGTTCACAT
1 AGGGTTCACAT
113085 GGGGGTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (15 bp):
AGGGTTCACATACAT
Found at i:117094 original size:83 final size:83
Alignment explanation
Indices: 116953--117117 Score: 249
Period size: 83 Copynumber: 2.0 Consensus size: 83
116943 AGGTAAAGTG
* * *
116953 GATGTTTCTTTAGTGAGTTTACTAGATGATGCAATAGTGAGGTTGTAACGGTTAATAAGGAGTAG
1 GATGTTCCTTTAGTGAGTTCACTAGATGATGCAATAGTGAGGTTGTAACGGTTAATAAGGAGTAC
* *
117018 TGTACCAGTAAGTGTATC
66 AGTACCAATAAGTGTATC
* * * *
117036 GATGTTCCTTTGGTGAGTTCACTAGATGATGCACTAGTGAGGTTGTAATGGTTTATAAGGAGTAC
1 GATGTTCCTTTAGTGAGTTCACTAGATGATGCAATAGTGAGGTTGTAACGGTTAATAAGGAGTAC
117101 AGTACCAATAAGTGTAT
66 AGTACCAATAAGTGTAT
117118 TTATATCACT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 73 1.00
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.35
Consensus pattern (83 bp):
GATGTTCCTTTAGTGAGTTCACTAGATGATGCAATAGTGAGGTTGTAACGGTTAATAAGGAGTAC
AGTACCAATAAGTGTATC
Found at i:119665 original size:23 final size:24
Alignment explanation
Indices: 119639--119696 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 24
119629 AAGAATTTTT
* *
119639 TTTTAAATTTTCAC-ATATTTATA
1 TTTTAAATTTTCACAAAAATTATA
*
119662 TTTT-CATTTTC-CAAAAATTATA
1 TTTTAAATTTTCACAAAAATTATA
*
119684 TTGTAAATTTTCA
1 TTTTAAATTTTCA
119697 ACCAAACCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
21 1 0.04
22 16 0.59
23 10 0.37
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTTAAATTTTCACAAAAATTATA
Found at i:132814 original size:23 final size:23
Alignment explanation
Indices: 132788--132861 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
132778 ATATAATAAA
* *
132788 TATATATATTTTTTATTTTTAAT
1 TATATATATATTTTAATTTTAAT
*
132811 TATATTTATATTTTAATTTTAAT
1 TATATATATATTTTAATTTTAAT
* * * *
132834 TTTA-ATATA-ATCAATTTTTAT
1 TATATATATATTTTAATTTTAAT
132855 TATATAT
1 TATATAT
132862 TTTCAATTTG
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 12 0.29
22 6 0.15
23 23 0.56
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (23 bp):
TATATATATATTTTAATTTTAAT
Found at i:132867 original size:20 final size:19
Alignment explanation
Indices: 132813--132870 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
132803 TTTTTAATTA
132813 TATTTATATTTT-AATTTT
1 TATTTATATTTTCAATTTT
* **
132831 AATTTTAATATAATCAATTTT
1 TA-TTT-ATATTTTCAATTTT
132852 TATTATATATTTTCAATTT
1 TATT-TATATTTTCAATTT
132871 GTGTATTGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 1 0.03
19 3 0.10
20 18 0.60
21 8 0.27
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATATTTTCAATTTT
Found at i:132900 original size:40 final size:40
Alignment explanation
Indices: 132856--132936 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
132846 AATTTTTATT
132856 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * *
132896 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
132936 A
1 A
132937 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:133644 original size:19 final size:20
Alignment explanation
Indices: 133620--133657 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
133610 ATTACCCACC
*
133620 TCAAACAACAATA-AAAATT
1 TCAAACAAAAATATAAAATT
133639 TCAAACAAAAATATAAAAT
1 TCAAACAAAAATATAAAAT
133658 ATCTTCCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (20 bp):
TCAAACAAAAATATAAAATT
Found at i:133749 original size:28 final size:27
Alignment explanation
Indices: 133692--133742 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
133682 TAAATTATCA
*
133692 ATTTATAAAAAATTATTTAATATAAAT
1 ATTTATAAAAAATTATATAATATAAAT
133719 ATTT-TAAATAAATT-TATAATATAA
1 ATTTATAAA-AAATTATATAATATAA
133743 TAATATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
ATTTATAAAAAATTATATAATATAAAT
Found at i:140285 original size:72 final size:73
Alignment explanation
Indices: 140168--140302 Score: 245
Period size: 72 Copynumber: 1.9 Consensus size: 73
140158 NNNNNNNNNN
140168 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTGAAATT
1 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTGAAATT
140232 ACCTCAAC
66 ACCTCAAC
* *
140240 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
1 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTGAAA
140303 AGTAGAAATT
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
72 45 0.75
73 15 0.25
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (73 bp):
GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTGAAATT
ACCTCAAC
Found at i:140302 original size:14 final size:14
Alignment explanation
Indices: 140283--140317 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
140273 GAGTTGATTT
140283 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
140297 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
140311 TTGAAAA
1 TTGAAAA
140318 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:140367 original size:87 final size:87
Alignment explanation
Indices: 140211--140673 Score: 296
Period size: 91 Copynumber: 5.1 Consensus size: 87
140201 GAGTTGAATT
* * * * * **
140211 TTGAAAA-CAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC-TCGCAATATG
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTC-CAATATG
140274 AGTTGATTTTTGAAAAACAGAAA
65 AGTTGATTTTTGAAAAACAGAAA
*
140297 TTGAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTCCAATATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTCCAATATGA
*
140362 GTTGATTTTTTTTTGAAACACAGAAA
66 GTTGA----TTTTTGAAAAACAGAAA
* * * * ** * * * * *
140388 TTAAAAAAACAGAAATTAAAAACAGAATTTGAAAAGACCT-CAGCGTGTGGCCTGAGACTCAACT
1 TT-GAAAAGCAGAAATT-GAAA-A-TACCT---CAG-CGTGC--CCTGAGG-CTCA-ACT-----
* **
140452 CACCTCTTGCAATATGAGTTGA--TTTGAAAAGTAG-AA
49 CACCTCTTCCAATATGAGTTGATTTTTGAAAAACAGAAA
* *
140488 TTAGTAAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTC-TCGCAATAT
1 TT-GAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTC-CAATAT
* * * *
140552 AAGTTGATTTTTGAAAAGCATAGA
64 GAGTTGATTTTTGAAAAACAGAAA
* * * *
140576 TTGAAAAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAA
1 TTG--AAAAGCAGAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTTCCAA
*
140640 TATGAGTTGATTTTTGAAAAACAAAAA
61 TATGAGTTGATTTTTGAAAAACAGAAA
140667 TT-AAAAG
1 TTGAAAAG
140674 GCTTAACTCA
Statistics
Matches: 290, Mismatches: 53, Indels: 66
0.71 0.13 0.16
Matches are distributed among these distances:
84 1 0.00
85 18 0.06
86 7 0.02
87 62 0.21
88 9 0.03
89 24 0.08
90 3 0.01
91 69 0.24
92 18 0.06
93 5 0.02
94 4 0.01
95 2 0.01
97 2 0.01
98 4 0.01
99 5 0.02
100 21 0.07
101 12 0.04
102 3 0.01
107 21 0.07
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (87 bp):
TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTCCAATATGA
GTTGATTTTTGAAAAACAGAAA
Found at i:140401 original size:15 final size:15
Alignment explanation
Indices: 140381--140409 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
140371 TTTTTGAAAC
140381 ACAGAAATTAAAAAA
1 ACAGAAATTAAAAAA
140396 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
140410 CAGAATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (15 bp):
ACAGAAATTAAAAAA
Found at i:140410 original size:13 final size:14
Alignment explanation
Indices: 140381--140414 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
140371 TTTTTGAAAC
140381 ACAGAAATTAAAAAA
1 ACAGAAATT-AAAAA
140396 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
140409 ACAGAA
1 ACAGAA
140415 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
15 9 0.47
ACGTcount: A:0.71, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:140551 original size:85 final size:87
Alignment explanation
Indices: 140405--140652 Score: 308
Period size: 85 Copynumber: 2.8 Consensus size: 87
140395 AACAGAAATT
* * *
140405 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
140470 TTGATTTGAAAAG-TAGAATT-AG
65 TTGATTTGAAAAGATAG-ATTGAA
* * * *
140492 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
140555 TTGATTTTTGAAAAGCATAGATTGAA
65 TTGA--TTTGAAAAG-ATAGATTGAA
*
140581 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
140645 GTTGATTT
64 GTTGATTT
140653 TTGAAAAACA
Statistics
Matches: 138, Mismatches: 13, Indels: 18
0.82 0.08 0.11
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 32 0.23
88 3 0.02
89 31 0.22
91 33 0.24
93 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTGAAAAGATAGATTGAA
Found at i:140598 original size:15 final size:16
Alignment explanation
Indices: 140565--140598 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
140555 TTGATTTTTG
* *
140565 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
140581 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
140597 AA
1 AA
140599 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:140640 original size:91 final size:88
Alignment explanation
Indices: 140405--140659 Score: 324
Period size: 91 Copynumber: 2.9 Consensus size: 88
140395 AACAGAAATT
* * *
140405 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
140470 TTGA--TTTGAAAAGTAGAATTAG
65 TTGATTTTTGAAAAGTAGAATTAA
* * * *
140492 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
140555 TTGATTTTTGAAAAGCATAG-ATTGAA
65 TTGATTTTTGAAAAG--TAGAATT-AA
*
140581 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
140645 GTTGATTTTTGAAAA
64 GTTGATTTTTGAAAA
140660 ACAAAAATTA
Statistics
Matches: 145, Mismatches: 13, Indels: 16
0.83 0.07 0.09
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 32 0.22
88 3 0.02
89 28 0.19
91 43 0.30
93 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGTAGAATTAA
Found at i:140876 original size:112 final size:112
Alignment explanation
Indices: 140676--141026 Score: 549
Period size: 112 Copynumber: 3.0 Consensus size: 112
140666 ATTAAAAGGC
*
140676 TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATCCCTCGGCGTGCCCCG
1 TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
140741 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAAA
66 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAAA
140788 TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
1 TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
* **
140853 AGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAA
66 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT------TTAAAA--AAAA
140908 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
1 ---TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
* *
140973 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAAT
63 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAAA
141023 TTAA
1 TTAA
141027 AAATACCTCA
Statistics
Matches: 219, Mismatches: 9, Indels: 22
0.88 0.04 0.09
Matches are distributed among these distances:
112 104 0.47
115 3 0.01
117 3 0.01
118 4 0.02
120 4 0.02
123 101 0.46
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (112 bp):
TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAAA
Found at i:140883 original size:235 final size:236
Alignment explanation
Indices: 140582--141026 Score: 775
Period size: 235 Copynumber: 1.9 Consensus size: 236
140572 TAGATTGAAA
* * * **
140582 AAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAACATAAACTAAAAATACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTCACAATATGAGT
140647 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAAC
65 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAAC
*
140712 ATAAACTAAAAATCCCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
130 ATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
140777 TTTAAAAAAAATTAACTCACCTCTCGCAATATGAGTCAATTT
195 TTTAAAAAAAATTAACTCACCTCTCGCAATATGAGTCAATTT
* * *
140819 AAAACATAAACTAAAAATACCTCGGC-GTGCCCCGAGGCTCAACTCACTTCTCACAATATGAGTT
1 AAAACATAAACTAAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTT
140883 GATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACA
66 GATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACA
140948 TAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
131 TAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
* *
141013 TTTAAAAAATTTAA
196 TTAAAAAAAATTAA
141027 AAATACCTCA
Statistics
Matches: 197, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
235 174 0.88
237 23 0.12
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (236 bp):
AAAACATAAACTAAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTT
GATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACA
TAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
TTAAAAAAAATTAACTCACCTCTCGCAATATGAGTCAATTT
Found at i:140934 original size:123 final size:123
Alignment explanation
Indices: 140788--141012 Score: 441
Period size: 123 Copynumber: 1.8 Consensus size: 123
140778 TTAAAAAAAA
140788 TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
1 TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
*
140853 AGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGC
66 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGC
140911 TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
1 TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
140976 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
66 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
141013 TTTAAAAAAT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 101 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (123 bp):
TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGC
Found at i:152831 original size:17 final size:18
Alignment explanation
Indices: 152802--152857 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
152792 ACAAAATAAT
152802 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
* *
152820 GATTTTTG-AAACACAAA
1 AATTTTTGAAAACACGAA
152837 AATTTTTTGAAAACACGAA
1 AA-TTTTTGAAAACACGAA
152856 AA
1 AA
152858 CACAAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 9 0.28
18 13 0.41
19 10 0.31
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:152948 original size:21 final size:22
Alignment explanation
Indices: 152919--152960 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
152909 CATTAGAATT
*
152919 TTTTTAAAACAC-AAAATTTTA
1 TTTTGAAAACACAAAAATTTTA
152940 TTTTGAAAACACAAAAATTTT
1 TTTTGAAAACACAAAAATTTT
152961 GATAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTTGAAAACACAAAAATTTTA
Found at i:153014 original size:38 final size:39
Alignment explanation
Indices: 152967--153119 Score: 131
Period size: 37 Copynumber: 4.1 Consensus size: 39
152957 TTTTGATAAA
* *
152967 TTATGAAACACGAAGATTTTTTTTTG-AAACGCGGAAAT
1 TTATGAAACACGAAGATATTTTTTTGAAAACACGGAAAT
* * *
153005 TTATG-AA-AC-AAGGTCAATTTTTTGAAAACACGAAAAT
1 TTATGAAACACGAAGAT-ATTTTTTTGAAAACACGGAAAT
* * *
153042 TTTTGAAAGACG-AGA-ATTTTTTTGAAAACACGGAGAT
1 TTATGAAACACGAAGATATTTTTTTGAAAACACGGAAAT
* * * *
153079 TTATAAAACACGAA-AGTTTTTTTTTGAAAACAAGAAAAT
1 TTATGAAACACGAAGA-TATTTTTTTGAAAACACGGAAAT
153118 TT
1 TT
153120 TCAAAATACG
Statistics
Matches: 90, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
35 4 0.04
36 9 0.10
37 45 0.50
38 8 0.09
39 24 0.27
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (39 bp):
TTATGAAACACGAAGATATTTTTTTGAAAACACGGAAAT
Found at i:153026 original size:37 final size:37
Alignment explanation
Indices: 152967--153175 Score: 110
Period size: 37 Copynumber: 5.6 Consensus size: 37
152957 TTTTGATAAA
* * *
152967 TTATGAAACACGAAGATTTTTTTTTG-AAACGCGGAAAT
1 TTATGAAACAAG-AGA-ATTTTTTTGAAAACACGGAAAT
*
153005 TTATGAAACAAG-GTCAA-TTTTTTGAAAACACGAAAAT
1 TTATGAAACAAGAG--AATTTTTTTGAAAACACGGAAAT
* * * *
153042 TTTTGAAAGACGAGAATTTTTTTGAAAACACGGAGAT
1 TTATGAAACAAGAGAATTTTTTTGAAAACACGGAAAT
* * * *
153079 TTATAAAACACGA-AAGTTTTTTTTTGAAAACAAGAAAAT
1 TTATGAAACAAGAGAA---TTTTTTTGAAAACACGGAAAT
* *
153118 TT-TCAAA-ATACGAGAA--TTTTTGAAAACAGGGGAAAT
1 TTATGAAACA-A-GAGAATTTTTTTGAAAACA-CGGAAAT
* * *
153154 TTTTGAAAACATGAAAATTTTT
1 TTATG-AAACAAGAGAATTTTT
153176 GAAACACTAG
Statistics
Matches: 132, Mismatches: 22, Indels: 33
0.71 0.12 0.18
Matches are distributed among these distances:
35 12 0.09
36 19 0.14
37 53 0.40
38 20 0.15
39 26 0.20
40 2 0.02
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.33
Consensus pattern (37 bp):
TTATGAAACAAGAGAATTTTTTTGAAAACACGGAAAT
Found at i:153054 original size:17 final size:18
Alignment explanation
Indices: 153023--153314 Score: 174
Period size: 17 Copynumber: 16.2 Consensus size: 18
153013 CAAGGTCAAT
153023 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
**
153041 TTTTTGAAAGACGA-GAATT
1 TTTTTGAAA-AC-ACGAAAA
* *
153060 TTTTTGAAAACACGGAGA
1 TTTTTGAAAACACGAAAA
* *
153078 TTTAT-AAAACACGAAAGTTTT
1 TTTTTGAAAACACGAAA----A
*
153099 TTTTTGAAAACAAGAAAA
1 TTTTTGAAAACACGAAAA
* * *
153117 -TTTTCAAAATACGAGAA
1 TTTTTGAAAACACGAAAA
* *
153134 TTTTTGAAAACAGGGGAAA
1 TTTTTGAAAACA-CGAAAA
*
153153 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
153171 TTTTTG-AAACACTAGAA
1 TTTTTGAAAACACGAAAA
*
153188 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
* * *
153205 TTTTT-TAAACATGAGAA
1 TTTTTGAAAACACGAAAA
* *
153222 TTTTTGAAAACACGAGGAT
1 TTTTTGAAAACACGA-AAA
153241 TTTTTGAAAA-AC-AAACA
1 TTTTTGAAAACACGAAA-A
* *
153258 TTTTAG-AAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
153275 TTTTT-AAAACATGACAATT
1 TTTTTGAAAACACGA-AA-A
153294 TTTTTG-AAACACGAGAAA
1 TTTTTGAAAACACGA-AAA
153312 TTT
1 TTT
153315 ATTTTTTTAA
Statistics
Matches: 208, Mismatches: 45, Indels: 42
0.71 0.15 0.14
Matches are distributed among these distances:
16 9 0.04
17 72 0.35
18 57 0.27
19 55 0.26
20 1 0.00
21 4 0.02
22 10 0.05
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:153163 original size:76 final size:75
Alignment explanation
Indices: 153022--153175 Score: 193
Period size: 76 Copynumber: 2.0 Consensus size: 75
153012 ACAAGGTCAA
* ** *
153022 TTTTTTGAAAACACGAAAATTTTTGAAAGACGAGAATTTTTTTGAAAACACGGAGATTTATAAAA
1 TTTTTTGAAAACAAGAAAATTTTCAAAAGACGAGAA-TTTTTTGAAAACACGGAAATTTATAAAA
*
153087 CACGAAAGTTT
65 CACGAAAATTT
* * *
153098 TTTTTTGAAAACAAGAAAATTTTCAAAATACGAGAA-TTTTTGAAAACAGGGGAAATTTTTGAAA
1 TTTTTTGAAAACAAGAAAATTTTCAAAAGACGAGAATTTTTTGAAAACA-CGGAAATTTAT-AAA
*
153162 ACATGAAAATTT
64 ACACGAAAATTT
153174 TT
1 TT
153176 GAAACACTAG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
74 12 0.18
75 8 0.12
76 47 0.70
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.34
Consensus pattern (75 bp):
TTTTTTGAAAACAAGAAAATTTTCAAAAGACGAGAATTTTTTGAAAACACGGAAATTTATAAAAC
ACGAAAATTT
Done.