Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014187.1 Kokia drynarioides strain JFW-HI SEQ_129220, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 150406
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Warning! 39 characters in sequence are not A, C, G, or T
Found at i:11812 original size:41 final size:41
Alignment explanation
Indices: 11767--11852 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
11757 TTGTCTATTA
11767 ATTTGGATATGTATAAATCAACATTTTAATCCAAATGAAGT
1 ATTTGGATATGTATAAATCAACATTTTAATCCAAATGAAGT
* * *
11808 ATTTGGGTATGTATACATCAGCATTTTAATCCAAATGAAGT
1 ATTTGGATATGTATAAATCAACATTTTAATCCAAATGAAGT
11849 ATTT
1 ATTT
11853 TAATGGTGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.38
Consensus pattern (41 bp):
ATTTGGATATGTATAAATCAACATTTTAATCCAAATGAAGT
Found at i:16233 original size:30 final size:30
Alignment explanation
Indices: 16199--16271 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
16189 AACTTTAATT
*
16199 AAACTTTAATTTGGTGT-AATTATACACTTA
1 AAACTTTAATTTGGT-TCAAATATACACTTA
* * *
16229 AAACTCTAATTGTGGTTCAAATATATACTTG
1 AAACTTTAATT-TGGTTCAAATATACACTTA
16260 AAACTTTAATTT
1 AAACTTTAATTT
16272 TGATTTAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 12 0.33
31 24 0.67
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (30 bp):
AAACTTTAATTTGGTTCAAATATACACTTA
Found at i:18069 original size:58 final size:60
Alignment explanation
Indices: 17964--18081 Score: 168
Period size: 58 Copynumber: 2.0 Consensus size: 60
17954 AGATTTTAAG
* * *
17964 TACTTAAATTTATCACATTTTTTCTTAAGTTGATACCTAAAT-TTTTTTAACCCAATTTGA
1 TACTTAAATTTA-CACATGTTTTCCTAAGTTGACACCTAAATCTTTTTTAACCCAATTTGA
* *
18024 TACTTAAATTTA-ACATGTTTTCCTAATTTGACACTTAAATCTTTTTTAACCCAATTTG
1 TACTTAAATTTACACATGTTTTCCTAAGTTGACACCTAAATCTTTTTTAACCCAATTTG
18082 GTACCTAAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
58 23 0.44
59 17 0.33
60 12 0.23
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.47
Consensus pattern (60 bp):
TACTTAAATTTACACATGTTTTCCTAAGTTGACACCTAAATCTTTTTTAACCCAATTTGA
Found at i:18358 original size:31 final size:30
Alignment explanation
Indices: 18327--18453 Score: 109
Period size: 31 Copynumber: 4.3 Consensus size: 30
18317 CCTAAAAAGT
*
18327 TTTAAGTACCAACTTAAAAAAAATATCAAG
1 TTTAAGTACCAAATTAAAAAAAATATCAAG
* * *
18357 TTTAAGTACCAAATTAAGAAAAAGTGTCAAA
1 TTTAAGTACCAAATTAA-AAAAAATATCAAG
* *
18388 TTTAAATACCAAATTAAACCAAAA-A--AA-
1 TTTAAGTACCAAATTAAA-AAAAATATCAAG
* * * *
18415 TTTAAATATCAAATTAAGGAAAAATGTCAAG
1 TTTAAGTACCAAATTAA-AAAAAATATCAAG
18446 TTTAAGTA
1 TTTAAGTA
18454 AATGTTACAT
Statistics
Matches: 77, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
27 20 0.26
28 2 0.03
30 19 0.25
31 36 0.47
ACGTcount: A:0.54, C:0.10, G:0.09, T:0.28
Consensus pattern (30 bp):
TTTAAGTACCAAATTAAAAAAAATATCAAG
Found at i:38242 original size:20 final size:20
Alignment explanation
Indices: 38203--38243 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
38193 AATAAGAACA
**
38203 ATATTTTAATTTTAGGATAT
1 ATATTTTAATTTTAAAATAT
*
38223 ATATTTTATTTTTAAAATAT
1 ATATTTTAATTTTAAAATAT
38243 A
1 A
38244 ATTATATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTTTAATTTTAAAATAT
Found at i:41367 original size:9 final size:9
Alignment explanation
Indices: 41355--41491 Score: 151
Period size: 9 Copynumber: 15.9 Consensus size: 9
41345 GCAACAACAG
41355 CAGCAGCAA
1 CAGCAGCAA
41364 CAGCAGCAA
1 CAGCAGCAA
*
41373 CAGCAGCAG
1 CAGCAGCAA
*
41382 CAGCAGCAG
1 CAGCAGCAA
41391 CAGCAGCAA
1 CAGCAGCAA
*
41400 CAACAGCAA
1 CAGCAGCAA
41409 CAGCAG---
1 CAGCAGCAA
41415 CAGCAGCAA
1 CAGCAGCAA
* *
41424 CAACAACAA
1 CAGCAGCAA
*
41433 CAACAGCAA
1 CAGCAGCAA
41442 CAGCAGC-A
1 CAGCAGCAA
41450 -A-CAGCAA
1 CAGCAGCAA
41457 CAGCAGCAA
1 CAGCAGCAA
*
41466 CAGCAACAA
1 CAGCAGCAA
**
41475 CAGCAGCCG
1 CAGCAGCAA
41484 CAGCAGCA
1 CAGCAGCA
41492 GTCGCCCCAG
Statistics
Matches: 109, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
6 10 0.09
7 2 0.02
8 2 0.02
9 95 0.87
ACGTcount: A:0.45, C:0.34, G:0.21, T:0.00
Consensus pattern (9 bp):
CAGCAGCAA
Found at i:41370 original size:24 final size:24
Alignment explanation
Indices: 41343--41488 Score: 148
Period size: 24 Copynumber: 5.8 Consensus size: 24
41333 GAGGCATGCT
41343 CAGCAACAACAGCAGCAGCAACAG
1 CAGCAACAACAGCAGCAGCAACAG
*
41367 CAGCAACAGCAGCAGCAGCAGCAGCAG
1 CAGCAACA--A-CAGCAGCAGCAACAG
*
41394 CAGCAACAACAGCAACAGCAGCAGCAG
1 CAGCAACAACAG---CAGCAGCAACAG
* * *
41421 CAACAACAACAACAACAGCAACAG
1 CAGCAACAACAGCAGCAGCAACAG
* *
41445 CAGCAACAGCAACAGCAGCAACAG
1 CAGCAACAACAGCAGCAGCAACAG
* * *
41469 CAACAACAGCAGCCGCAGCA
1 CAGCAACAACAGCAGCAGCA
41489 GCAGTCGCCC
Statistics
Matches: 105, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
24 59 0.56
25 1 0.01
26 1 0.01
27 44 0.42
ACGTcount: A:0.45, C:0.34, G:0.21, T:0.00
Consensus pattern (24 bp):
CAGCAACAACAGCAGCAGCAACAG
Found at i:41505 original size:3 final size:3
Alignment explanation
Indices: 41352--41492 Score: 129
Period size: 3 Copynumber: 47.0 Consensus size: 3
41342 TCAGCAACAA
* * *
41352 CAG CAG CAG CAA CAG CAG CAA CAG CAG CAG CAG CAG CAG CAG CAG CAA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * * * * * * *
41400 CAA CAG CAA CAG CAG CAG CAG CAA CAA CAA CAA CAA CAG CAA CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * * * * *
41448 CAA CAG CAA CAG CAG CAA CAG CAA CAA CAG CAG CCG CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
41493 TCGCCCCAGC
Statistics
Matches: 116, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 116 1.00
ACGTcount: A:0.44, C:0.34, G:0.22, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:42272 original size:14 final size:13
Alignment explanation
Indices: 42253--42291 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
42243 GGTTTGTTTA
42253 ATCTCTTTCACTTG
1 ATCTCTTTCA-TTG
42267 ATCTCTTAT-ATTG
1 ATCTCTT-TCATTG
42280 ATCTCTTTCATT
1 ATCTCTTTCATT
42292 TGATGCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 13 0.57
14 8 0.35
15 1 0.04
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.54
Consensus pattern (13 bp):
ATCTCTTTCATTG
Found at i:43264 original size:9 final size:9
Alignment explanation
Indices: 43250--43290 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
43240 TCAGTTGCAA
43250 CAGCAACAG
1 CAGCAACAG
*
43259 CAGCAACTG
1 CAGCAACAG
* *
43268 CAACAACAA
1 CAGCAACAG
43277 CAGCAACAG
1 CAGCAACAG
43286 CAGCA
1 CAGCA
43291 GAACAGTAGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.34, G:0.17, T:0.02
Consensus pattern (9 bp):
CAGCAACAG
Found at i:47256 original size:9 final size:9
Alignment explanation
Indices: 47242--47272 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47232 AATCACTGGT
*
47242 TTGTGGCTG
1 TTGTGGGTG
47251 TTGTGGGTG
1 TTGTGGGTG
47260 TTGTGGGTG
1 TTGTGGGTG
47269 TTGT
1 TTGT
47273 TCAATGTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.03, G:0.48, T:0.48
Consensus pattern (9 bp):
TTGTGGGTG
Found at i:47904 original size:30 final size:30
Alignment explanation
Indices: 47858--47962 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
47848 ATATTTAAAA
47858 TATT-AATATAAAATATTATATTTTTAATAT
1 TATTAAATAT-AAATATTATATTTTTAATAT
*
47888 TATTAAATATACATATT-TGATTATTT-ATAT
1 TATTAAATATAAATATTAT-ATT-TTTAATAT
* *
47918 TCAGTTATATAATAAATTATTATTTTTTTAATAAT
1 T-A-TTAAAT-ATAAA-TATTATATTTTTAAT-AT
*
47953 TATTCAATAT
1 TATTAAATAT
47963 TTCAATTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
29 1 0.02
30 18 0.31
31 9 0.15
32 7 0.12
33 11 0.19
34 9 0.15
35 4 0.07
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (30 bp):
TATTAAATATAAATATTATATTTTTAATAT
Found at i:48005 original size:16 final size:17
Alignment explanation
Indices: 47977--48008 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47967 ATTTTATTTT
47977 AATAATAAATTTTAAAA
1 AATAATAAATTTTAAAA
47994 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
48009 TAATGACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAATAAATTTTAAAA
Found at i:49214 original size:25 final size:24
Alignment explanation
Indices: 49164--49214 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
49154 TAATGTAAAT
* * **
49164 TAAAAAATTTTAATAATTTTTTTA
1 TAAAAAAATTTAATAATATTAATA
49188 TAAAAAAATTTAATATATATTAATA
1 TAAAAAAATTTAATA-ATATTAATA
49213 TA
1 TA
49215 TTAAGTATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TAAAAAAATTTAATAATATTAATA
Found at i:52861 original size:49 final size:49
Alignment explanation
Indices: 52804--52902 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
52794 AAAAATAAAA
*
52804 AATCCCGTAATATTAATGTCTGAGTAACACTAACATGAGTGTTGTATTT
1 AATCCCGTAATATTAATGACTGAGTAACACTAACATGAGTGTTGTATTT
52853 AATCCCGTAATATTAATGACTGAGTAACACTAACATGAGTGTTGTATTT
1 AATCCCGTAATATTAATGACTGAGTAACACTAACATGAGTGTTGTATTT
52902 A
1 A
52903 TGCTTGTTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (49 bp):
AATCCCGTAATATTAATGACTGAGTAACACTAACATGAGTGTTGTATTT
Found at i:61061 original size:22 final size:22
Alignment explanation
Indices: 61036--61079 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
61026 TTTAAAGTTC
61036 AATTTGATA-TCTAAATTTTTTT
1 AATTTGATACT-TAAATTTTTTT
*
61058 AATTTGATACTTGAATTTTTTT
1 AATTTGATACTTAAATTTTTTT
61080 CCCTATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (22 bp):
AATTTGATACTTAAATTTTTTT
Found at i:61223 original size:12 final size:12
Alignment explanation
Indices: 61206--61230 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61196 AATTAATAAA
61206 ATTAAAAATTAT
1 ATTAAAAATTAT
61218 ATTAAAAATTAT
1 ATTAAAAATTAT
61230 A
1 A
61231 AAACCCGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTAAAAATTAT
Found at i:88797 original size:2 final size:2
Alignment explanation
Indices: 88790--88823 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
88780 TGGACTAAGG
*
88790 TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
88824 ACACACACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:88828 original size:2 final size:2
Alignment explanation
Indices: 88823--88856 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
88813 CTCTCTCTCT
* *
88823 CA CA CA CA CA CA CA CA CA CA CA TA CA GA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
88857 AAAATAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.44, G:0.03, T:0.03
Consensus pattern (2 bp):
CA
Found at i:96077 original size:2 final size:2
Alignment explanation
Indices: 96070--96098 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
96060 CAAAAATAAT
96070 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
96099 TATACAAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:111427 original size:30 final size:30
Alignment explanation
Indices: 111393--111740 Score: 338
Period size: 30 Copynumber: 11.8 Consensus size: 30
111383 GTTTCAAGGG
* * *
111393 CAAAATTGGAATTTTTGGAAGTTTTGGGGT
1 CAAAAATGGGATTTTTGGAAGTTTCGGGGT
* *
111423 CAAAAATGTGA-TTTTGGAAGTTTGGGGGT
1 CAAAAATGGGATTTTTGGAAGTTTCGGGGT
* * *
111452 --AAAATAGAATTTTTGGAAGTTTCGAGGT
1 CAAAAATGGGATTTTTGGAAGTTTCGGGGT
111480 CAAAAATGGGATTTTTGGAAG-TTCGGGGGT
1 CAAAAATGGGATTTTTGGAAGTTTC-GGGGT
** **
111510 -AAAAATGGGATTTTTTAAAAGTTTCGCTGT
1 CAAAAATGGGA-TTTTTGGAAGTTTCGGGGT
* * *
111540 CAAAATTTGAATTTTTGGAAG-TTCGGGTGT
1 CAAAAATGGGATTTTTGGAAGTTTCGGG-GT
* * *
111570 -TAAAATGGGATTTTTTGAAGTTTCGAGGT
1 CAAAAATGGGATTTTTGGAAGTTTCGGGGT
*
111599 CAAAAATGGGATTTTTAGAAG-TTCGGGGGT
1 CAAAAATGGGATTTTTGGAAGTTTC-GGGGT
* *
111629 AAAAAATGGGATTTTTGGAAGTTTTGGGGT
1 CAAAAATGGGATTTTTGGAAGTTTCGGGGT
*
111659 TAAAAATGGGATTTTTGGAAG-TTCGAGGGT
1 CAAAAATGGGATTTTTGGAAGTTTCG-GGGT
*
111689 -AAAAATGGGATTTTTGGAAGTTTCGAGGT
1 CAAAAATGGGATTTTTGGAAGTTTCGGGGT
* * * *
111718 TAAAAATGGAATTTCTAGAAGTT
1 CAAAAATGGGATTTTTGGAAGTT
111741 CGAGGGCAAT
Statistics
Matches: 262, Mismatches: 41, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
27 6 0.02
28 16 0.06
29 80 0.31
30 148 0.56
31 12 0.05
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.36
Consensus pattern (30 bp):
CAAAAATGGGATTTTTGGAAGTTTCGGGGT
Found at i:111554 original size:60 final size:60
Alignment explanation
Indices: 111394--111742 Score: 413
Period size: 60 Copynumber: 5.9 Consensus size: 60
111384 TTTCAAGGGC
* * * * * *
111394 AAAATTGGAATTTTTGGAAGTTTTGGGGTCAAAAATGTGA-TTTTGGAAGTTTGGGGGT-
1 AAAATGGGATTTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTA
* *
111452 AAAAT-AGAATTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTA
1 AAAATGGGATTTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTA
** ** * * * * *
111511 AAAATGGGATTTTTTAAAAGTTTCGCTGTCAAAATTTGAATTTTTGGAAGTTCGGGTGTT
1 AAAATGGGATTTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTA
*
111571 AAAATGGGATTTTTT-GAAGTTTCGAGGTCAAAAATGGGATTTTTAGAAGTTCGGGGGTAA
1 AAAATGGGATTTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGT-A
* * * *
111631 AAAATGGGA-TTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTCGAGGGTA
1 AAAATGGGATTTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTA
* * * *
111690 AAAATGGGA-TTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTCTAGAAGTTCG
1 AAAATGGGATTTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCG
111743 AGGGCAATAA
Statistics
Matches: 251, Mismatches: 35, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
57 30 0.12
58 22 0.09
59 94 0.37
60 105 0.42
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (60 bp):
AAAATGGGATTTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTA
Found at i:111606 original size:119 final size:118
Alignment explanation
Indices: 111411--111742 Score: 418
Period size: 119 Copynumber: 2.8 Consensus size: 118
111401 GAATTTTTGG
* * * * * *
111411 AAGTTTTGGGGTCAAAAATGTG-A-TTTTGGAAGTTTGGGGGTAAAATAGAATTTTTGGAAGTTT
1 AAGTTTCGCGGTCAAAAATG-GAATTTTTGGAAGTTCGGGGTTAAAATGGGATTTTTGGAAGTTT
*
111474 CGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGT-AAAAATGGGATTTTTTAA
65 CGAGGTCAAAAATGGGATTTTTAGAAGTTCGGGGGTAAAAAATGGGA-TTTTTAA
* * * *
111528 AAGTTTCGCTGTCAAAATTTGAATTTTTGGAAGTTCGGGTGTTAAAATGGGATTTTTTGAAGTTT
1 AAGTTTCGCGGTCAAAAATGGAATTTTTGGAAGTTCGGG-GTTAAAATGGGATTTTTGGAAGTTT
**
111593 CGAGGTCAAAAATGGGATTTTTAGAAGTTCGGGGGTAAAAAATGGGATTTTTGG
65 CGAGGTCAAAAATGGGATTTTTAGAAGTTCGGGGGTAAAAAATGGGATTTTTAA
* * * * *
111647 AAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATGGGATTTTTGGAAGTTT
1 AAGTTTCGCGGTCAAAAATGGAATTTTTGGAAGTTCG-GGGTTAAAATGGGATTTTTGGAAGTTT
* * *
111712 CGAGGTTAAAAATGGAATTTCTAGAAGTTCG
65 CGAGGTCAAAAATGGGATTTTTAGAAGTTCG
111743 AGGGCAATAA
Statistics
Matches: 185, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
116 1 0.01
117 16 0.09
118 14 0.08
119 142 0.77
120 12 0.06
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.36
Consensus pattern (118 bp):
AAGTTTCGCGGTCAAAAATGGAATTTTTGGAAGTTCGGGGTTAAAATGGGATTTTTGGAAGTTTC
GAGGTCAAAAATGGGATTTTTAGAAGTTCGGGGGTAAAAAATGGGATTTTTAA
Found at i:113604 original size:6 final size:6
Alignment explanation
Indices: 113594--113663 Score: 74
Period size: 6 Copynumber: 12.0 Consensus size: 6
113584 TAATGGACTT
* *
113594 TTTAAT TTTAAA ATTAAA TTTAAA TTTAAA TTTAAGA -TT-AA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA
* *
113641 TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
113664 ATAAATTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
4 1 0.02
5 7 0.13
6 45 0.83
7 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:113610 original size:12 final size:12
Alignment explanation
Indices: 113595--113674 Score: 71
Period size: 12 Copynumber: 7.0 Consensus size: 12
113585 AATGGACTTT
*
113595 TTAATTTTAAAA
1 TTAAATTTAAAA
*
113607 TTAAATTTAAAT
1 TTAAATTTAAAA
*
113619 TTAAATTTAAGA
1 TTAAATTTAAAA
*
113631 TT-AATTTAAAT
1 TTAAATTTAAAA
*
113642 TTAAA-AT-AAA
1 TTAAATTTAAAA
113652 TCTAAATTTAAAA
1 T-TAAATTTAAAA
113665 -TAAA-TTAAAA
1 TTAAATTTAAAA
113675 AGGGGCTCGG
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
10 9 0.16
11 18 0.33
12 25 0.45
13 3 0.05
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (12 bp):
TTAAATTTAAAA
Found at i:113636 original size:17 final size:17
Alignment explanation
Indices: 113600--113670 Score: 88
Period size: 17 Copynumber: 4.1 Consensus size: 17
113590 ACTTTTTAAT
* *
113600 TTTAAAATTAAATTTAAA
1 TTTAAATTTAAA-ATAAA
* *
113618 TTTAAATTTAAGATTAA
1 TTTAAATTTAAAATAAA
113635 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
113652 TCTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
113669 TT
1 TT
113671 AAAAAGGGGC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 35 0.78
18 10 0.22
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:113659 original size:23 final size:23
Alignment explanation
Indices: 113604--113663 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
113594 TTTAATTTTA
*
113604 AAATTAAATTTAAATTTAAATTT
1 AAATTAAATTTAAATTTAAATAT
113627 AAGATT-AATTTAAATTTAAA-AT
1 AA-ATTAAATTTAAATTTAAATAT
113649 AAATCTAAATTTAAA
1 AAAT-TAAATTTAAA
113664 ATAAATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 2 0.06
22 4 0.12
23 24 0.73
24 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATTAAATTTAAATTTAAATAT
Found at i:114341 original size:205 final size:200
Alignment explanation
Indices: 113989--114444 Score: 635
Period size: 205 Copynumber: 2.3 Consensus size: 200
113979 TTGACTTGAC
* * * *
113989 CTTCTTCTCACTATCTCATCAGGAAGATGAGC-ATGTCGTTTGTTTCAATTCGCTTCTCTGTATC
1 CTTCTTCTCAGTATCTCATCAGGAAGATGACCGA-GCCGTTTGTTTCAATTCGCCTCTCTGTATC
114053 TCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCCCATCAGGAAGCTAACCTTTTATTGCTT
65 TCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCCCATCAGGAAGCTAACCTTTTATTGCTT
* * * *
114118 CGACCTGCTTCTTAGTGTCTCATCAGGAAGCTGGAGTTTGAAGATTTACTCACATCGAGTGCGGG
130 CAACCTGCTTCTTAGTGTCTCATCAAGAAGCTGGAGTTCGAAGATTTACTC-CAGC-A-T--GGG
114183 TTTGATTTGGA
190 TTTGATTTGGA
* * ** *
114194 CTTCTTCACAGTATCTCATCAGGAAGATGACCGAGCCGTTTGTTTCCATTTTCCTCTTTGTATCT
1 CTTCTTCTCAGTATCTCATCAGGAAGATGACCGAGCCGTTTGTTTCAATTCGCCTCTCTGTATCT
* * *
114259 CATCAGGAAGATGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAGCTAACCTTTTATTGCTTC
66 CATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCCCATCAGGAAGCTAACCTTTTATTGCTTC
* * * *
114324 AACCTGCTTCTTAGTGTCTTATCAAGAAGCTGGGGTTCGAAGATTTGCTCGAGCATGGGTTTGAT
131 AACCTGCTTCTTAGTGTCTCATCAAGAAGCTGGAGTTCGAAGATTTACTCCAGCATGGGTTTGAT
*
114389 TTGGT
196 TTGGA
* * *
114394 CTTCTTCTCAGTATCTCATCAGGAAGATGATCGCGCTGTTTGTTTCAATTC
1 CTTCTTCTCAGTATCTCATCAGGAAGATGACCGAGCCGTTTGTTTCAATTC
114445 ACTTCCAGTT
Statistics
Matches: 223, Mismatches: 27, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
200 58 0.26
202 1 0.00
203 1 0.00
204 2 0.01
205 160 0.72
206 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.36
Consensus pattern (200 bp):
CTTCTTCTCAGTATCTCATCAGGAAGATGACCGAGCCGTTTGTTTCAATTCGCCTCTCTGTATCT
CATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCCCATCAGGAAGCTAACCTTTTATTGCTTC
AACCTGCTTCTTAGTGTCTCATCAAGAAGCTGGAGTTCGAAGATTTACTCCAGCATGGGTTTGAT
TTGGA
Found at i:124738 original size:12 final size:13
Alignment explanation
Indices: 124721--124759 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
124711 AACGCGAAGT
124721 AAGAT-AAATAAA
1 AAGATAAAATAAA
*
124733 AAGATAAAATGAA
1 AAGATAAAATAAA
124746 AA-ATAAAATAAA
1 AAGATAAAATAAA
124758 AA
1 AA
124760 ATGCAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AAGATAAAATAAA
Found at i:124878 original size:29 final size:29
Alignment explanation
Indices: 124853--124908 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
124843 GACTTTTCGG
*
124853 ATACTCGGGGG-CAAAATGGTAATTTTGA
1 ATACTCGGGGGTAAAAATGGTAATTTTGA
* *
124881 ATTCTTGGGGGTAAAAATGGTAATTTTG
1 ATACTCGGGGGTAAAAATGGTAATTTTG
124909 GGAAATTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.30, C:0.07, G:0.29, T:0.34
Consensus pattern (29 bp):
ATACTCGGGGGTAAAAATGGTAATTTTGA
Found at i:125028 original size:30 final size:29
Alignment explanation
Indices: 124885--125268 Score: 339
Period size: 30 Copynumber: 13.0 Consensus size: 29
124875 TTTTGAATTC
* *
124885 TTGGGGGTAAAAATGGTAATTTTGGGAAAT
1 TTGGGGGTAAAAATGG-AATTTTTGGAAGT
** *
124915 TTAGGGTTTAAAAATGGAATTTTTAGAAGT
1 TT-GGGGGTAAAAATGGAATTTTTGGAAGT
* *
124945 TTGAGGGT-AAAAGGGTAA-TTTT-GAGAGT
1 TTGGGGGTAAAAATGG-AATTTTTGGA-AGT
** *
124973 TTCAAGGATAAAAATGGAA--TTTGGAAGT
1 TT-GGGGGTAAAAATGGAATTTTTGGAAGT
125001 TTCGGGGGTAAAAATGGAATTTTTGGAAGT
1 TT-GGGGGTAAAAATGGAATTTTTGGAAGT
* * *
125031 TTCGAGGTAAAAAATGGGATTTTTGGAAGT
1 TTGGGGGT-AAAAATGGAATTTTTGGAAGT
*** *
125061 TCAAGGGTAAAAATAGAATTTTTGGAAGT
1 TTGGGGGTAAAAATGGAATTTTTGGAAGT
* * *
125090 TTTGAGGTCAAAAATGGGATTTTTTGGAAGT
1 TTGGGGGT-AAAAAT-GGAATTTTTGGAAGT
* *
125121 TTAGGGGTAAAAATGGGATTTTTGGAAGT
1 TTGGGGGTAAAAATGGAATTTTTGGAAGT
* * *
125150 TTTGAGGTCAAAAATGGGATTTTT-GAAGTT
1 TTGGGGGT-AAAAATGGAATTTTTGGAAG-T
* *
125180 TTGGGGTTAAAAATGGGATTTTTGGAAGT
1 TTGGGGGTAAAAATGGAATTTTTGGAAGT
* *
125209 TTTGGGGTCAAAAATAGAATTTTTGGAAGT
1 TTGGGGGT-AAAAATGGAATTTTTGGAAGT
* *
125239 TCGGGTGTAAAAATGGAATTTTTGGAAGT
1 TTGGGGGTAAAAATGGAATTTTTGGAAGT
125268 T
1 T
125269 CAAGGTAAAA
Statistics
Matches: 292, Mismatches: 47, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
27 2 0.01
28 37 0.13
29 106 0.36
30 116 0.40
31 31 0.11
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.35
Consensus pattern (29 bp):
TTGGGGGTAAAAATGGAATTTTTGGAAGT
Found at i:125083 original size:59 final size:59
Alignment explanation
Indices: 124992--125268 Score: 387
Period size: 59 Copynumber: 4.7 Consensus size: 59
124982 AAAAATGGAA
* * *
124992 TTTGGAAGTTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCGAGGTAAAAAATGGGATT
1 TTTGGAAG-TTCAGGGGTAAAAATGGAATTTTTGGAAGTTTTGAGGTCAAAAATGGGATT
* *
125052 TTTGGAAGTTCAAGGGTAAAAATAGAATTTTTGGAAGTTTTGAGGTCAAAAATGGGATTT
1 TTTGGAAGTTCAGGGGTAAAAATGGAATTTTTGGAAGTTTTGAGGTCAAAAATGGGA-TT
* *
125112 TTTGGAAGTTTAGGGGTAAAAATGGGATTTTTGGAAGTTTTGAGGTCAAAAATGGGATT
1 TTTGGAAGTTCAGGGGTAAAAATGGAATTTTTGGAAGTTTTGAGGTCAAAAATGGGATT
** * * * *
125171 TTT-GAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGTCAAAAATAGAATT
1 TTTGGAAGTTCAGGGG-TAAAAATGGAATTTTTGGAAGTTTTGAGGTCAAAAATGGGATT
125230 TTTGGAAGTTC-GGGTGTAAAAATGGAATTTTTGGAAGTT
1 TTTGGAAGTTCAGGG-GTAAAAATGGAATTTTTGGAAGTT
125269 CAAGGTAAAA
Statistics
Matches: 198, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
58 11 0.06
59 117 0.59
60 70 0.35
ACGTcount: A:0.31, C:0.03, G:0.30, T:0.36
Consensus pattern (59 bp):
TTTGGAAGTTCAGGGGTAAAAATGGAATTTTTGGAAGTTTTGAGGTCAAAAATGGGATT
Found at i:127135 original size:6 final size:6
Alignment explanation
Indices: 127126--127199 Score: 50
Period size: 6 Copynumber: 13.0 Consensus size: 6
127116 CTTTTTAATT
* * * * *
127126 TTAAAA TTAAAA TTAAAT TTAAAT TTAAGA TT-AAT TTAAAT TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
*
127173 -T-AAA TCTAAAT TTAAAA -T-AAA TTAAAA
1 TTAAAA T-TAAAA TTAAAA TTAAAA TTAAAA
127200 AGGGGTCCGG
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
4 6 0.11
5 6 0.11
6 39 0.72
7 3 0.06
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (6 bp):
TTAAAA
Found at i:127135 original size:12 final size:12
Alignment explanation
Indices: 127120--127199 Score: 62
Period size: 12 Copynumber: 7.0 Consensus size: 12
127110 AATGAACTTT
*
127120 TTAATTTTAAAA
1 TTAAATTTAAAA
* *
127132 TTAAAATTAAAT
1 TTAAATTTAAAA
*
127144 TTAAATTTAAGA
1 TTAAATTTAAAA
*
127156 TT-AATTTAAAT
1 TTAAATTTAAAA
*
127167 TTAAA-AT-AAA
1 TTAAATTTAAAA
127177 TCTAAATTTAAAA
1 T-TAAATTTAAAA
127190 -TAAA-TTAAAA
1 TTAAATTTAAAA
127200 AGGGGTCCGG
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
10 9 0.17
11 18 0.34
12 23 0.43
13 3 0.06
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (12 bp):
TTAAATTTAAAA
Found at i:127149 original size:11 final size:11
Alignment explanation
Indices: 127129--127195 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
127119 TTTAATTTTA
*
127129 AAATTAAAATT
1 AAATTAAATTT
127140 AAATTTAAATTT
1 AAA-TTAAATTT
127152 AAGATT-AATTT
1 AA-ATTAAATTT
*
127163 AAATTTAAA-AT
1 AAA-TTAAATTT
127174 AAATCTAAATTT
1 AAAT-TAAATTT
*
127186 AAAATAAATT
1 AAATTAAATT
127196 AAAAAGGGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
10 2 0.04
11 26 0.57
12 17 0.37
13 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (11 bp):
AAATTAAATTT
Found at i:127161 original size:17 final size:17
Alignment explanation
Indices: 127120--127195 Score: 89
Period size: 17 Copynumber: 4.4 Consensus size: 17
127110 AATGAACTTT
*
127120 TTAATTTTAAAATTAAAA
1 TTAA-TTTAAATTTAAAA
*
127138 TTAAATTTAAATTTAAGA
1 TT-AATTTAAATTTAAAA
127156 TTAATTTAAATTTAAAA
1 TTAATTTAAATTTAAAA
* *
127173 TAAATCTAAATTTAAAA
1 TTAATTTAAATTTAAAA
*
127190 TAAATT
1 TTAATT
127196 AAAAAGGGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
17 34 0.67
18 15 0.29
19 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
TTAATTTAAATTTAAAA
Found at i:128034 original size:194 final size:196
Alignment explanation
Indices: 127793--128184 Score: 698
Period size: 195 Copynumber: 2.0 Consensus size: 196
127783 AAGGAAGAGA
*
127793 AAGGAATCTATTGAGAATTCCATAAAACAAAATTAACATTTGAACCAC-AAAAAAAATTCTATAA
1 AAGGAATCTATTGAGAATTCCATAAAACAAAATTAACATTTGAACCACAAAAAAAAATTATATAA
* * *
127857 CTACACAAAATTAAGATTAATATATCAAATTATAAATTAAAACAAAATTAACGTATAAATTTAAG
66 CTACACAAAATTAAGATTAATATATCAAATTACAAATTAAAACAAAAGTAACGTATAAATTTAAA
* *
127922 ATTTATCCCTTAAATTTTATTCCAATGTTTTTGCTCATGGGCTTTCATC-TTTTTTATATAATTA
131 ATTTATCCCCTAAATTTTATTCCAATGTTTTTGCCCATGGGCTTTCATCTTTTTTTATATAATTA
127986 C
196 C
127987 AAGGAATCTATTGAGAATTCCATAAAACAAAATTAACATTTGAACCACAAAAAAAAATTATATAA
1 AAGGAATCTATTGAGAATTCCATAAAACAAAATTAACATTTGAACCACAAAAAAAAATTATATAA
* *
128052 TTACACGAAATTAAGATTAATATATCAAATTACAAATTAAAACAAAAGTAACGTATAAATTTAAA
66 CTACACAAAATTAAGATTAATATATCAAATTACAAATTAAAACAAAAGTAACGTATAAATTTAAA
128117 ATTTATCCCCTAAATTTTATTCCAATGTTTTTGCCCATGGGCTTTCATCTTTTTTTATATAATTA
131 ATTTATCCCCTAAATTTTATTCCAATGTTTTTGCCCATGGGCTTTCATCTTTTTTTATATAATTA
128182 C
196 C
128183 AA
1 AA
128185 TCATATTAAA
Statistics
Matches: 188, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
194 48 0.26
195 122 0.65
196 18 0.10
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (196 bp):
AAGGAATCTATTGAGAATTCCATAAAACAAAATTAACATTTGAACCACAAAAAAAAATTATATAA
CTACACAAAATTAAGATTAATATATCAAATTACAAATTAAAACAAAAGTAACGTATAAATTTAAA
ATTTATCCCCTAAATTTTATTCCAATGTTTTTGCCCATGGGCTTTCATCTTTTTTTATATAATTA
C
Found at i:128517 original size:12 final size:12
Alignment explanation
Indices: 128500--128525 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
128490 AAGAGAACGT
128500 ATATTCAAATGC
1 ATATTCAAATGC
128512 ATATTCAAATGC
1 ATATTCAAATGC
128524 AT
1 AT
128526 TCAAACGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATATTCAAATGC
Found at i:129362 original size:225 final size:224
Alignment explanation
Indices: 128972--129423 Score: 886
Period size: 225 Copynumber: 2.0 Consensus size: 224
128962 TAAAATGAAC
128972 CTATAAAAGTAGATATTATTGAAAAGAGTGGCACAGGGAGACATTTTCTCAAATAACAATAAAAA
1 CTATAAAAGTAGATATTATTGAAAAGAGTGGCACAGGGAGACATTTTCTCAAATAACAATAAAAA
129037 GGAATAGTTCACCATTTTCCCAATACCTTTTGCAATTTACATGTACCGACACATACATACATACA
66 GGAATAGTTCACCATTTTCCCAATACCTTTTGCAATTTACATGTACCGACACATACATACATACA
129102 CATCATGGTAAACAAAAAGTTACAATTCTGCAGGACTGGATGGTGACTTTAAAGAAAAAGGAAAA
131 CATCATGGTAAACAAAAAGTTACAATTCTGCAGGACTGGATGGTGACTTTAAAGAAAAAGGAAAA
129167 ATGATGCAATATATGAAAAGAATAGAAGG
196 ATGATGCAATATATGAAAAGAATAGAAGG
129196 CTATAAAAGTAGATATTATTGAAAAGAGTGGCACAGGGAGACATTTTCTCAAATAACAATAAAAA
1 CTATAAAAGTAGATATTATTGAAAAGAGTGGCACAGGGAGACATTTTCTCAAATAACAATAAAAA
129261 GGAATAGTTCAGCCATTTTCCCAATACCTTTTGCAATTTACATGTACCGACACATACATACATAC
66 GGAATAGTTCA-CCATTTTCCCAATACCTTTTGCAATTTACATGTACCGACACATACATACATAC
129326 ACATCATGGTAAACAAAAAGTTACAATTCTGCAGGACTGGATGGTGACTTTAAAGAAAAAGGAAA
130 ACATCATGGTAAACAAAAAGTTACAATTCTGCAGGACTGGATGGTGACTTTAAAGAAAAAGGAAA
*
129391 AATGATTCAATATATGAAAAGAATAGAAGG
195 AATGATGCAATATATGAAAAGAATAGAAGG
129421 CTA
1 CTA
129424 AGAAAAGGAT
Statistics
Matches: 226, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
224 76 0.34
225 150 0.66
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (224 bp):
CTATAAAAGTAGATATTATTGAAAAGAGTGGCACAGGGAGACATTTTCTCAAATAACAATAAAAA
GGAATAGTTCACCATTTTCCCAATACCTTTTGCAATTTACATGTACCGACACATACATACATACA
CATCATGGTAAACAAAAAGTTACAATTCTGCAGGACTGGATGGTGACTTTAAAGAAAAAGGAAAA
ATGATGCAATATATGAAAAGAATAGAAGG
Found at i:134137 original size:20 final size:20
Alignment explanation
Indices: 134085--134139 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 20
134075 TATCACTATT
*
134085 TTTAAAAAT-TAAATACATTA
1 TTTAAAAATATAAATA-AATA
* *
134105 TCT-AAATTA-AAATAAATA
1 TTTAAAAATATAAATAAATA
134123 TTTAAAAATATAAATAA
1 TTTAAAAATATAAATAA
134140 TCTTACATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
18 5 0.19
19 14 0.52
20 8 0.30
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTAAAAATATAAATAAATA
Found at i:146160 original size:29 final size:33
Alignment explanation
Indices: 146121--146181 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 33
146111 TATATAATGA
146121 TTAAAGAATT-AAAT-TAAATTT-TTATTATTT
1 TTAAAGAATTAAAATGTAAATTTATTATTATTT
*
146151 TTAAA-AATTAAAATGTAATTTTATTATTATT
1 TTAAAGAATTAAAATGTAAATTTATTATTATT
146182 AATATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 4 0.15
30 9 0.33
31 6 0.22
32 8 0.30
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (33 bp):
TTAAAGAATTAAAATGTAAATTTATTATTATTT
Done.