Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1236
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: 102558
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:2451 original size:26 final size:26
Alignment explanation
Indices: 2356--2449 Score: 136
Period size: 26 Copynumber: 3.6 Consensus size: 26
2346 TTGATAAAAA
* *
2356 GGTTAGGGTAAATATTCCATGATAATA
1 GGTTA-GGTAAATGTTCCATGATAATG
2383 GGTTAGGTAAATGTTCCATGAT-ATG
1 GGTTAGGTAAATGTTCCATGATAATG
*
2408 GGTTAGGTAAATGTTTTCATGATAATG
1 GGTTAGGTAAATG-TTCCATGATAATG
2435 GGTTAGGTAAATGTT
1 GGTTAGGTAAATGTT
2450 TCTAAATAAG
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
25 15 0.24
26 26 0.42
27 21 0.34
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.37
Consensus pattern (26 bp):
GGTTAGGTAAATGTTCCATGATAATG
Found at i:2458 original size:26 final size:27
Alignment explanation
Indices: 2356--2453 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
2346 TTGATAAAAA
* * *
2356 GGTTAGGGTAAAT-ATTCCATGATAATA
1 GGTTA-GGTAAATGTTTCTATGATAATG
*
2383 GGTTAGGTAAATG-TTCCATGAT-ATG
1 GGTTAGGTAAATGTTTCTATGATAATG
2408 GGTTAGGTAAATGTTT-TCATGATAATG
1 GGTTAGGTAAATGTTTCT-ATGATAATG
2435 GGTTAGGTAAATGTTTCTA
1 GGTTAGGTAAATGTTTCTA
2454 AATAAGAATT
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
25 15 0.23
26 23 0.36
27 25 0.39
28 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.38
Consensus pattern (27 bp):
GGTTAGGTAAATGTTTCTATGATAATG
Found at i:6174 original size:26 final size:26
Alignment explanation
Indices: 6118--6224 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
6108 TGAAATGCCC
6118 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
6143 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
6169 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
6195 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6221 ATCA
1 ATCA
6225 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 20 0.26
26 57 0.74
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11555 original size:26 final size:26
Alignment explanation
Indices: 11509--11561 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
11499 TCAAACATGC
*
11509 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
11535 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
11561 A
1 A
11562 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:13085 original size:26 final size:26
Alignment explanation
Indices: 13055--13136 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
13045 TGAAATGCCC
13055 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13081 ATCATGGAACGTTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13107 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13133 ATCA
1 ATCA
13137 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15527 original size:21 final size:23
Alignment explanation
Indices: 15494--15536 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
15484 AATTTTTTAT
*
15494 TTTTAACTCTTTC-TTTTATAAG
1 TTTTAACTCTTTCATTTGATAAG
*
15516 TTTTAGCT-TTTCATTTGATAA
1 TTTTAACTCTTTCATTTGATAA
15537 ACTTTTATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.58
Consensus pattern (23 bp):
TTTTAACTCTTTCATTTGATAAG
Found at i:17320 original size:15 final size:14
Alignment explanation
Indices: 17302--17332 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
17292 ATTTGGGAAC
17302 ACCAAATTGTATGTT
1 ACCAAATTGTAT-TT
17317 ACCAAATTGTATTT
1 ACCAAATTGTATTT
17331 AC
1 AC
17333 ATACTCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (14 bp):
ACCAAATTGTATTT
Found at i:19182 original size:20 final size:19
Alignment explanation
Indices: 19156--19199 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
19146 AACAATGAAT
19156 CTGTTCACCAAAAGATACAA
1 CTGTTCA-CAAAAGATACAA
*
19176 TTGTT--CAAAAGATACAA
1 CTGTTCACAAAAGATACAA
19193 CTGTTCA
1 CTGTTCA
19200 TTAAGATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 5
0.74 0.07 0.19
Matches are distributed among these distances:
17 16 0.80
20 4 0.20
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.27
Consensus pattern (19 bp):
CTGTTCACAAAAGATACAA
Found at i:19207 original size:18 final size:17
Alignment explanation
Indices: 19164--19199 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
19154 ATCTGTTCAC
*
19164 CAAAAGATACAATTGTT
1 CAAAAGATACAACTGTT
19181 CAAAAGATACAACTGTT
1 CAAAAGATACAACTGTT
19198 CA
1 CA
19200 TTAAGATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.25
Consensus pattern (17 bp):
CAAAAGATACAACTGTT
Found at i:21217 original size:6 final size:6
Alignment explanation
Indices: 21206--21233 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21196 GTGAATCATA
21206 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
21234 AAAGTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:21944 original size:18 final size:18
Alignment explanation
Indices: 21917--21955 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21907 ATTGGTTTTC
* *
21917 ATATAATTGATGTGGAGG
1 ATATAATTGAGGAGGAGG
*
21935 ATATATTTGAGGAGGAGG
1 ATATAATTGAGGAGGAGG
21953 ATA
1 ATA
21956 CATGAGAGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.31
Consensus pattern (18 bp):
ATATAATTGAGGAGGAGG
Found at i:22900 original size:19 final size:18
Alignment explanation
Indices: 22876--22913 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
22866 TGTACAATAT
22876 AATTAAATAATATAAATTA
1 AATTAAATAAT-TAAATTA
22895 AATTAAATAATTAAATTA
1 AATTAAATAATTAAATTA
22913 A
1 A
22914 TTGTTTACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTAAATAATTAAATTA
Found at i:22911 original size:13 final size:14
Alignment explanation
Indices: 22871--22914 Score: 65
Period size: 13 Copynumber: 3.2 Consensus size: 14
22861 CAAAATGTAC
22871 AATATAATTAAA-T
1 AATATAATTAAATT
22884 AATATAAATTAAATT
1 AATAT-AATTAAATT
22899 AA-ATAATTAAATT
1 AATATAATTAAATT
22912 AAT
1 AAT
22915 TGTTTACCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 16 0.57
14 9 0.32
15 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:28768 original size:18 final size:19
Alignment explanation
Indices: 28725--28760 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
28715 AATTTAGTCC
*
28725 TATATTTGTTCTATATATA
1 TATATTTGTTATATATATA
28744 TATATTT-TTATATATAT
1 TATATTTGTTATATATAT
28761 TGATATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
TATATTTGTTATATATATA
Found at i:32889 original size:14 final size:15
Alignment explanation
Indices: 32857--32890 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
32847 AAAAAAATAA
32857 AAATTAAAAATGTCC
1 AAATTAAAAATGTCC
32872 -AATTAAAAA-GTCC
1 AAATTAAAAATGTCC
32885 AAATTA
1 AAATTA
32891 CAAGGTCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (15 bp):
AAATTAAAAATGTCC
Found at i:34336 original size:22 final size:20
Alignment explanation
Indices: 34306--34348 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
34296 TTTTCACAAA
34306 TTATTATTATTAACATTATTT
1 TTATTATTATTAACA-TATTT
*
34327 TTATATATTATTAATATATTT
1 TTAT-TATTATTAACATATTT
34348 T
1 T
34349 ACTTGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTATTATTAACATATTT
Found at i:34500 original size:23 final size:24
Alignment explanation
Indices: 34452--34515 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
34442 ATATATTCAA
34452 ATTATGTTTTATTCTATA--ACGTTT
1 ATTAT-TTTTATTCTATATTACG-TT
34476 ATTATTTTTATTCTATATTAC-TT
1 ATTATTTTTATTCTATATTACGTT
*
34499 ATTGTTTTT-TT-TATATT
1 ATTATTTTTATTCTATATT
34516 TTTATATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
21 6 0.16
22 2 0.05
23 22 0.59
24 5 0.14
25 2 0.05
ACGTcount: A:0.23, C:0.06, G:0.05, T:0.66
Consensus pattern (24 bp):
ATTATTTTTATTCTATATTACGTT
Found at i:34557 original size:15 final size:14
Alignment explanation
Indices: 34512--34553 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
34502 GTTTTTTTTA
34512 TATTT-TTATATAT
1 TATTTATTATATAT
34525 ATATGTTATGTATATAT
1 -TAT-TTAT-TATATAT
34542 TATTTATTATAT
1 TATTTATTATAT
34554 TATTTGCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 8 0.32
15 6 0.24
16 4 0.16
17 7 0.28
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (14 bp):
TATTTATTATATAT
Found at i:43954 original size:9 final size:8
Alignment explanation
Indices: 43938--43987 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
43928 AACCCACATA
43938 TATTTTTT
1 TATTTTTT
43946 TATTTTTT
1 TATTTTTT
43954 TATTTTTT
1 TATTTTTT
** *
43962 TCGTATTT
1 TATTTTTT
43970 TATTTTTT
1 TATTTTTT
*
43978 GTACTTTTT
1 -TATTTTTT
43987 T
1 T
43988 GATCACTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
8 27 0.79
9 7 0.21
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.80
Consensus pattern (8 bp):
TATTTTTT
Found at i:52228 original size:7 final size:7
Alignment explanation
Indices: 52216--52245 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
52206 TTTCTAAGAA
52216 AAAATTC
1 AAAATTC
52223 AAAATTC
1 AAAATTC
52230 AAAATTC
1 AAAATTC
52237 AAAATTC
1 AAAATTC
52244 AA
1 AA
52246 GCCGATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTC
Found at i:52745 original size:25 final size:24
Alignment explanation
Indices: 52689--52739 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
52679 ATTAATAACT
52689 AGTTAAGTT-AATTAAATTATGATTA
1 AGTTAA-TTAAATTAAATTA-GATTA
52714 AGTTAATTAAATTAAATTA-ATTA
1 AGTTAATTAAATTAAATTAGATTA
52737 AGT
1 AGT
52740 CTTAATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 7 0.28
24 2 0.08
25 16 0.64
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (24 bp):
AGTTAATTAAATTAAATTAGATTA
Found at i:57114 original size:43 final size:43
Alignment explanation
Indices: 57040--57406 Score: 468
Period size: 43 Copynumber: 8.6 Consensus size: 43
57030 AATATTTTGC
* * * * *
57040 ACGCCGCTATAGAACATGACCTTTAGTGGCACTTTTACAACAA
1 ACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAA
* * * * *
57083 ACGCTGCTAAAGAACATGGCATTTAGCGGCACTTTTTCCACAA
1 ACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAA
* * * *
57126 ACGCCGTTAAAGAAAATGACCTTTAGTGGCGCTTTTCCCAAAA
1 ACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAA
*
57169 ACACCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAA
1 ACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAA
* *
57212 ATGCCACTAAAGAACATGACCTTTAGCGGCG-TTTTCCCACAA
1 ACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAA
* *
57254 ACGCCGCTATAGAACATGACCTTTAGCGGCGTTTTTCCCACAA
1 ACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAA
* *
57297 ACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACGA
1 ACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAA
* * * *
57340 ACACCGCTATAGAACA-GACCTTTACCGACGCTTTTCCCACAA
1 ACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAA
* * *
57382 ACGCCGATAAAGAATATGACTTTTA
1 ACGCCGCTAAAGAACATGACCTTTA
57407 AAAAATATTT
Statistics
Matches: 284, Mismatches: 38, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
42 74 0.26
43 210 0.74
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
ACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAA
Found at i:57316 original size:128 final size:128
Alignment explanation
Indices: 57040--57406 Score: 466
Period size: 128 Copynumber: 2.9 Consensus size: 128
57030 AATATTTTGC
* * * * * * *
57040 ACGCCGCTATAGAACATGACCTTTAGTGGCACTTTTACAACAAACGCTGCTAAAGAACATGGCAT
1 ACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCT
* * * *
57105 TTAGCGGCACTTTTTCCACAAACGCCGTTAAAGAAAATGACCTTTAGTGGCGCTTTTCCCAAAA
66 TTAGCGGC-GTTTTCCCACAAACGCCGATAAAGAAAATGACCTTTAGCGGCGCTTTTCCCAAAA
* * * *
57169 ACACCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATGCCACTAAAGAACATGACCT
1 ACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCT
* * * * *
57234 TTAGCGGCGTTTTCCCACAAACGCCGCTATAGAACATGACCTTTAGCGGCGTTTTTCCCACAA
66 TTAGCGGCGTTTTCCCACAAACGCCGATAAAGAAAATGACCTTTAGCGGCGCTTTTCCCAAAA
* * *
57297 ACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACGAACACCGCTATAGAACA-GACCT
1 ACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCT
* * * *
57361 TTACCGACGCTTTTCCCACAAACGCCGATAAAGAATATGACTTTTA
66 TTAGCGGCG-TTTTCCCACAAACGCCGATAAAGAAAATGACCTTTA
57407 AAAAATATTT
Statistics
Matches: 205, Mismatches: 32, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
127 12 0.06
128 131 0.64
129 62 0.30
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (128 bp):
ACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCT
TTAGCGGCGTTTTCCCACAAACGCCGATAAAGAAAATGACCTTTAGCGGCGCTTTTCCCAAAA
Found at i:57715 original size:17 final size:18
Alignment explanation
Indices: 57679--57716 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
57669 ATTTAGAATC
57679 AAAACTAAAATAAATAAT
1 AAAACTAAAATAAATAAT
* *
57697 AAAATTAAATTAAAT-AT
1 AAAACTAAAATAAATAAT
57714 AAA
1 AAA
57717 GATATCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAACTAAAATAAATAAT
Found at i:59274 original size:48 final size:47
Alignment explanation
Indices: 59173--59584 Score: 218
Period size: 48 Copynumber: 8.7 Consensus size: 47
59163 TCATTTGTGC
*
59173 GCTAGTATAAGA-CATGTCTGGGACAT-GCATCAGCCACATT---ATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G---CATTGAGATGAGA
* *
59219 GCCAGTGTAAGACCATGTTTGGGACATGGCATCTGCATTGAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GCATTGAGATGAGA
* * *
59267 GCTAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GCATTGAGATG-AGA
* * * * *
59313 GCCAGTGTAAGA-CATGTATGGGATAT-GCATCG-AGT-ACGAT-ATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGCATTGA-GATGA-GA
* * *
59357 G-TCAGTGAAAGACCATGTCTGGGACATGGCAACAGCACGTAT-AGA-G-GT
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATC-GCA--T-TGAGATGAGA
* * * *
59405 GTTAGTGTAAGACCATGTCTAGGACATGGCATCAGCATGGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GCATTGAGA--TGAGA
* * * * ** *
59455 GCTAATGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATTTCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCA-TCGCATTGAGAT-GAGA
* *
59504 G-TCAGTGTACGACCATGTATGGGACATGGCATCG-ACTT--GATGGATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGCA-TTGAGAT-GA-GA
*
59551 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
59585 GTATTACACC
Statistics
Matches: 285, Mismatches: 51, Indels: 59
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 12 0.04
45 17 0.06
46 62 0.22
47 58 0.20
48 63 0.22
49 31 0.11
50 37 0.13
51 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGCATTGAGATGAGA
Found at i:63510 original size:46 final size:45
Alignment explanation
Indices: 63334--63511 Score: 146
Period size: 46 Copynumber: 3.7 Consensus size: 45
63324 TTGAGCATCT
* * *
63334 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGTGAACGCCC
* *
63380 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGT-AACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGTGAAC---GC--CC
*
63427 GAACTCGTTGAGTCCGAGTTTAGTCCGAGTTCACTTATTGATGTGAACGCCC
1 GAACTCG-T---T--GAGTTGAGTCCGAGTTCACTTA-TGATGTGAACGCCC
* *
63479 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
63512 GGCGGGTTAC
Statistics
Matches: 106, Mismatches: 11, Indels: 31
0.72 0.07 0.21
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 46 0.43
47 9 0.08
48 2 0.02
51 2 0.02
52 8 0.08
53 16 0.15
54 4 0.04
56 5 0.05
57 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGTGAACGCCC
Found at i:70120 original size:32 final size:32
Alignment explanation
Indices: 70068--70129 Score: 74
Period size: 32 Copynumber: 1.9 Consensus size: 32
70058 TTGATTGCAT
* *
70068 ACTGTACTGATTCTGTAAT-GGCTTAGGCCCC
1 ACTGTACTGATTCTGAAATGGGCTCAGGCCCC
70099 ACTGATACTG-TTACTGAAATGGGCTCAGGCC
1 ACTG-TACTGATT-CTGAAATGGGCTCAGGCC
70130 TACACTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
31 6 0.23
32 11 0.42
33 9 0.35
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (32 bp):
ACTGTACTGATTCTGAAATGGGCTCAGGCCCC
Found at i:70832 original size:22 final size:22
Alignment explanation
Indices: 70807--70849 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
70797 GCTGATAAAT
70807 GGTAAGCTCTGAAGAGCTGAAC
1 GGTAAGCTCTGAAGAGCTGAAC
*
70829 GGTAAGCTCTGTAGAGCTGAA
1 GGTAAGCTCTGAAGAGCTGAA
70850 ACAAAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.33, T:0.21
Consensus pattern (22 bp):
GGTAAGCTCTGAAGAGCTGAAC
Found at i:74621 original size:40 final size:40
Alignment explanation
Indices: 74577--74672 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
74567 CAGTTATTTG
74577 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* * *
74617 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* *
74657 CGACACTTAGT-TGCGA
1 TGGCACTTAGTGTGCGA
74673 GATATCGAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 5 0.10
40 46 0.90
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
Found at i:77395 original size:43 final size:42
Alignment explanation
Indices: 77347--77451 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 42
77337 GATTACCGAG
* * *
77347 ATATGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTT
1 ATATGATTACATGTAAGACC-TGTTTGGGACAGTGGCATCGGT
* * *
77390 ATATGATTTCTTGTAAGATCCTGTTTGGGATAGTGGCATCGGT
1 ATATGATTACATGTAAGA-CCTGTTTGGGACAGTGGCATCGGT
* * *
77433 ATGTGATAATATGTAAGAC
1 ATATGATTACATGTAAGAC
77452 TATATCTAGG
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 1 0.02
43 47 0.94
44 2 0.04
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (42 bp):
ATATGATTACATGTAAGACCTGTTTGGGACAGTGGCATCGGT
Found at i:81218 original size:27 final size:26
Alignment explanation
Indices: 81180--81423 Score: 227
Period size: 27 Copynumber: 9.2 Consensus size: 26
81170 GCAGTTAAGT
81180 CCCCGATTTGTAAAATTACCAAAATA
1 CCCCGATTTGTAAAATTACCAAAATA
* *
81206 CTCCCAATTTGTAAAATTATCAAAATA
1 C-CCCGATTTGTAAAATTACCAAAATA
** *
81233 CACGTGATTTGTAAAATTACTAAAATA
1 C-CCCGATTTGTAAAATTACCAAAATA
* * *
81260 CCCCTGATTTGTGAAATTATCAAAGTA
1 CCCC-GATTTGTAAAATTACCAAAATA
** ** *
81287 CATCGGGTTGTAAAATTACCGAAATA
1 CCCCGATTTGTAAAATTACCAAAATA
* ** *
81313 TCTCTAATTTGTGAAATTACCAAAATA
1 -CCCCGATTTGTAAAATTACCAAAATA
* *
81340 CCCTGATTTGTAAAATTACCGAAATA
1 CCCCGATTTGTAAAATTACCAAAATA
* *
81366 CCCCTAATTTGTGAAATTACCAAAATA
1 CCCC-GATTTGTAAAATTACCAAAATA
* *
81393 CCCCCGATTTGTAAAATAACCATAATA
1 -CCCCGATTTGTAAAATTACCAAAATA
81420 CCCC
1 CCCC
81424 TGTAGGGTAA
Statistics
Matches: 171, Mismatches: 42, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
26 47 0.27
27 120 0.70
28 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (26 bp):
CCCCGATTTGTAAAATTACCAAAATA
Found at i:81270 original size:54 final size:54
Alignment explanation
Indices: 81184--81424 Score: 290
Period size: 53 Copynumber: 4.5 Consensus size: 54
81174 TTAAGTCCCC
* * *
81184 GATTTGTAAAATTACCAAAATACTCCC-AATTTGTAAAATTATCAAAATACACGT
1 GATTTGTAAAATTACCAAAATAC-CCCTAATTTGTGAAATTACCAAAATACACCT
* * * * *
81238 GATTTGTAAAATTACTAAAATACCCCTGATTTGTGAAATTATCAAAGTACATC-
1 GATTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACCAAAATACACCT
** * * *
81291 GGGTTGTAAAATTACCGAAATATCTCTAATTTGTGAAATTACCAAAATAC-CCT
1 GATTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACCAAAATACACCT
* * *
81344 GATTTGTAAAATTACCGAAATACCCCTAATTTGTGAAATTACCAAAATACCCCC
1 GATTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACCAAAATACACCT
* *
81398 GATTTGTAAAATAACCATAATACCCCT
1 GATTTGTAAAATTACCAAAATACCCCT
81425 GTAGGGTAAA
Statistics
Matches: 160, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
52 1 0.01
53 90 0.56
54 69 0.43
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
GATTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACCAAAATACACCT
Found at i:81383 original size:80 final size:79
Alignment explanation
Indices: 81180--81425 Score: 237
Period size: 80 Copynumber: 3.1 Consensus size: 79
81170 GCAGTTAAGT
* *
81180 CCCC-GATTTGTAAAATTACCAAAATACTCCCAATTTGTAAAATTATCAAAATACACGTGATTTG
1 CCCCTGATTTGTAAAATTACC-AAATAC-CCCAATTTGTAAAATTACCAAAATACACGTAATTTG
*
81244 TAAAATTACTAAAATA
64 TAAAATTACCAAAATA
* * ** *** * *
81260 CCCCTGATTTGTGAAATTATCAAAGTACATCGGGTTGTAAAATTACCGAAATATCTC-TAATTTG
1 CCCCTGATTTGTAAAATTACCAAA-TACCCCAATTTGTAAAATTACCAAAATA-CACGTAATTTG
*
81324 TGAAATTACCAAAATA
64 TAAAATTACCAAAATA
* * ***
81340 -CCCTGATTTGTAAAATTACCGAAATACCCCTAATTTGTGAAATTACCAAAATACCCCCGATTTG
1 CCCCTGATTTGTAAAATTACC-AAATACCCC-AATTTGTAAAATTACCAAAATACACGTAATTTG
* *
81404 TAAAATAACCATAATA
64 TAAAATTACCAAAATA
81420 CCCCTG
1 CCCCTG
81426 TAGGGTAAAA
Statistics
Matches: 131, Mismatches: 28, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
79 24 0.18
80 83 0.63
81 24 0.18
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (79 bp):
CCCCTGATTTGTAAAATTACCAAATACCCCAATTTGTAAAATTACCAAAATACACGTAATTTGTA
AAATTACCAAAATA
Found at i:81433 original size:27 final size:27
Alignment explanation
Indices: 81403--81488 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
81393 CCCCCGATTT
* *
81403 GTAAAATAACCATAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
81430 GTAAAATGACCGTAATA-CCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
81456 GTAAAATGACCGTAATACCCCTATATG
1 GTAAAATGACCGTAATACCCCTGTAGG
81483 GTAAAA
1 GTAAAA
81489 AGACGATTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 26 0.48
27 28 0.52
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:81457 original size:26 final size:26
Alignment explanation
Indices: 81403--81475 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
81393 CCCCCGATTT
* *
81403 GTAAAATAACCATAATACCCCTGTAGG
1 GTAAAATGACCGTAATA-CCCTGTAGG
81430 GTAAAATGACCGTAATACCCTGTAGG
1 GTAAAATGACCGTAATACCCTGTAGG
81456 GTAAAATGACCGTAATACCC
1 GTAAAATGACCGTAATACCC
81476 CTATATGGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
26 29 0.66
27 15 0.34
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (26 bp):
GTAAAATGACCGTAATACCCTGTAGG
Found at i:81718 original size:26 final size:27
Alignment explanation
Indices: 81633--81727 Score: 84
Period size: 27 Copynumber: 3.6 Consensus size: 27
81623 GGATGTAATG
** * *
81633 TACTGGTGATTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATTTACTGT
* * * *
81660 TACTGGTGGTTATGCCACAATTGCTGA
1 TACTGGTGGCTATGCCACATTTACTGT
81687 TACTGGTGGCT-TGCCACATTTACTGT
1 TACTGGTGGCTATGCCACATTTACTGT
* **
81713 TTCTGGCAGCTATGC
1 TACTGGTGGCTATGC
81728 TGCATTATTA
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 20 0.37
27 34 0.63
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACATTTACTGT
Found at i:87676 original size:47 final size:47
Alignment explanation
Indices: 87592--88141 Score: 870
Period size: 47 Copynumber: 11.6 Consensus size: 47
87582 TATTTGAATA
87592 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
87641 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
87688 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
87737 AATGTGAAATTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
87783 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
87832 AATGTGAAATTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
87879 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
87926 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
87973 AATGTGAAAGTGCATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
88022 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
88069 AATGTGAAAGTGTATATATGCGACAGGGCCGAGTGGCCAACG-GATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
88115 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
88142 TCCGAAGGGC
Statistics
Matches: 468, Mismatches: 26, Indels: 17
0.92 0.05 0.03
Matches are distributed among these distances:
46 45 0.10
47 277 0.59
48 25 0.05
49 121 0.26
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:87704 original size:96 final size:96
Alignment explanation
Indices: 87592--88147 Score: 899
Period size: 96 Copynumber: 5.9 Consensus size: 96
87582 TATTTGAATA
87592 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
87657 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCGATGTGATG
*
87688 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
87753 TATGTGATAAGGCCGAATGGCC-ATGTGATG
66 TATGTGATAAGGCCGAATGGCCGATGTGATG
*
87783 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
87848 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCGATGTGATG
87879 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
87942 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCGATGTGATG
*
87973 AATGTGAAAGTGCATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
88038 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCGATGTGATG
* * * * * * * *
88069 AATGTGAAAGTG--TATATATGCGACAGGGCCGAGTGGCCAACG-GATGGATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
88131 AATGTGATAAGTCCGAA
66 TATGTGATAAGGCCGAA
88148 GGGCAATTGT
Statistics
Matches: 441, Mismatches: 16, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
93 33 0.07
94 116 0.26
95 93 0.21
96 199 0.45
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCGAATGGCCGATGTGATG
Found at i:91297 original size:27 final size:26
Alignment explanation
Indices: 91057--91303 Score: 102
Period size: 27 Copynumber: 8.8 Consensus size: 26
91047 GCAGTTAAGT
91057 CCCGATTTCGTAAAATTACCAAAATAC
1 CCCGATTT-GTAAAATTACCAAAATAC
* *
91084 CCCAATTTGTAAAATCTATCACTAAATAC
1 CCCGATTTGTAAAAT-TA-C-CAAAATAC
* * **
91113 ACGGATTTGTAAAATTACTTAAA-AC
1 CCCGATTTGTAAAATTACCAAAATAC
* **
91138 CCCTGATTTGTGAAATTACTCAAGTTAC
1 CCC-GATTTGTAAAATTAC-CAAAATAC
* * * *
91166 ATCGGGTTTGTACAAAATTACCGAAATATC
1 -CCCGATTTGT--AAAATTACCAAAATA-C
** *
91196 TCCTAATTTGTGAAATTACCAAAATAC
1 -CCCGATTTGTAAAATTACCAAAATAC
* *
91223 CTCTGATTTGTCAAAAATTAACCTGCAAAGTA-
1 C-CCGATTTGT--AAAATT-A-C--CAAAATAC
**
91255 CCTAATTTTGTGAAAATTACCAAAATAC
1 CCCGA-TTTGT-AAAATTACCAAAATAC
*
91283 CCCGATTTTGTAAAATAACCA
1 CCCGA-TTTGTAAAATTACCA
91304 TAACTTACCC
Statistics
Matches: 165, Mismatches: 36, Indels: 38
0.69 0.15 0.16
Matches are distributed among these distances:
25 3 0.02
26 26 0.16
27 35 0.21
28 33 0.20
29 30 0.18
30 16 0.10
31 10 0.06
32 6 0.04
33 6 0.04
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (26 bp):
CCCGATTTGTAAAATTACCAAAATAC
Found at i:97531 original size:49 final size:49
Alignment explanation
Indices: 97470--98026 Score: 671
Period size: 49 Copynumber: 11.7 Consensus size: 49
97460 GAAGTATATT
*
97470 TGATAAATGTGAAAGTGTATATATATGTGATGAAGG-CTAATGGCCGATG
1 TGATGAATGTGAAAGTGTATATATATGTGAT-AAGGCCTAATGGCCGATG
* *
97519 TGATGAATGTG-AAGTG--TATATATGTGATAA-GCTCGAATGGCCAATG
1 TGATGAATGTGAAAGTGTATATATATGTGATAAGGC-CTAATGGCCGATG
97565 TGATGAATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCG-TG
1 TGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
* * * *
97612 TGATTTGAATGTGAAATTG-GTATATATGTGATAAGGCCGAATGG-CAATG
1 TGA--TGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
97661 TGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGGCCGATG
1 TGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT-GGCCGATG
*
97711 TTGATGAATGTGAAA-TG---ATATATGTGATAAGGCCTAATAGCCGATG
1 -TGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
97757 TGATGAATGTGAAAGTGTATATATTAT-T--TAAGGCCTAAT-GCCGATG
1 TGATGAATGTGAAAGTGTATATA-TATGTGATAAGGCCTAATGGCCGATG
*
97803 TGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATG
1 TGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
*
97850 TGAT-AATGTGAAAGTGCATGATATATGTGATAAGGCCTAATGGCCGAT-
1 TGATGAATGTGAAAGTGTAT-ATATATGTGATAAGGCCTAATGGCCGATG
*
97898 TGGAT-AATGGTGAAAGTGTATATAGATGTGATAAGGCCTAATGGCCGATG
1 T-GATGAAT-GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
* * * * * * *
97948 TGATGAATGTG-AAGTGTA-ATATATGCGACAGGGCCGAGTGGCCAACG
1 TGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
*
97995 TGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TGATGAATGTGAAAGTGTATATATATGTGATAAG
98027 TCCCGAAGGG
Statistics
Matches: 447, Mismatches: 29, Indels: 66
0.82 0.05 0.12
Matches are distributed among these distances:
43 3 0.01
44 6 0.01
45 16 0.04
46 90 0.20
47 104 0.23
48 65 0.15
49 125 0.28
50 24 0.05
51 14 0.03
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
Found at i:97670 original size:142 final size:142
Alignment explanation
Indices: 97470--98026 Score: 669
Period size: 142 Copynumber: 3.9 Consensus size: 142
97460 GAAGTATATT
*
97470 TGATAAATGTGAAAGTGTATATATATGTGATGAAGG-CTAATGGCCGATGTGATGAATGTG-AAG
1 TGATGAATGTGAAAGTG--TATATATGTGAT-AAGGCCTAATGGCCGATGTGATGAATGTGAAAG
97533 TGTATATATGTGATAA-GCTCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAA
63 TGTATATATGTGATAAGGC-CGAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAA
97597 GGCCTAATGGCCG-TG
127 GGCCTAATGGCCGATG
* * *
97612 TGATTTGAATGTGAAATTGGTATATATGTGATAAGGCCGAATGG-CAATGTGATGAATGTGAAAG
1 TGA--TGAATGTGAAAGT-GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
97676 TGTATATATATGTGATAAGGCCTAATGGGCCGATGTTGATGAATGTGAAA-TG-ATAT-ATGTGA
63 TG--TATATATGTGATAAGGCCGAAT-GGCCAATG-TGATGAATGTGAAAGTGTATATAATGTGA
*
97738 TAAGGCCTAATAGCCGATG
124 TAAGGCCTAATGGCCGATG
97757 TGATGAATGTGAAAGTGTATATAT-T-ATTTAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGT
1 TGATGAATGTGAAAGTGTATATATGTGA--TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * * *
97819 GTATATATGTGATAAGGCCTAATAGCCGATGTGAT-AATGTGAAAGTGCATGATATATGTGATAA
64 GTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT-ATA-ATGTGATAA
97883 GGCCTAATGGCCGAT-
127 GGCCTAATGGCCGATG
97898 TGGAT-AATGGTGAAAGTGTATATAGATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AA
1 T-GATGAAT-GTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * * * *
97961 GTGTAATATATGCGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-AATGTGATA
62 GTGT-ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATA
98025 AG
126 AG
98027 TCCCGAAGGG
Statistics
Matches: 365, Mismatches: 22, Indels: 55
0.83 0.05 0.12
Matches are distributed among these distances:
137 9 0.02
138 6 0.02
139 9 0.02
140 25 0.07
141 6 0.02
142 101 0.28
143 45 0.12
144 52 0.14
145 73 0.20
146 25 0.07
147 14 0.04
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (142 bp):
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGCC
TAATGGCCGATG
Found at i:97913 original size:238 final size:237
Alignment explanation
Indices: 97470--98026 Score: 697
Period size: 238 Copynumber: 2.3 Consensus size: 237
97460 GAAGTATATT
*
97470 TGATAAATGTGAAAGTGTATATATATGTGATGAAGG-CTAATGGCCGATGTGATGAATGTG-AAG
1 TGATGAATGTGAAA-TG-A-ATATATGTGAT-AAGGCCTAATGGCCGATGTGATGAATGTGAAAG
97533 TGTATATATGTGATAAGCTCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAG
62 TGTATATATGTGATAAGCTCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAG
* * *
97598 GCCTAATGGCCGTGTGATTTGAATGTGAAATTGGTATATATGTGATAAGGCCGAATGGCAATGTG
127 GCCTAATAGCCGTGTGA-TTGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCAATGTG
*
97663 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGGCCGATG
191 ATGAATGTGAAAGTGTATATAGATGTGATAAGGCCTAAT-GGCCGATG
*
97711 TTGATGAATGTGAAATG-ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
1 -TGATGAATGTGAAATGAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
97775 ATATAT-T-ATTTAAGGC-CTAAT-GCCGATGTGATGAATGTGAAAGTGTATAT-ATGTGATAAG
65 ATATATGTGA--TAA-GCTCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAG
* *
97835 GCCTAATAGCCGATGTGA-T-AATGTGAAAGTGCATGATATATGTGATAAGGCCTAATGGCCGAT
127 GCCTAATAGCCG-TGTGATTGAATGTGAAAGTG-AT-ATATATGTGATAAGGCCGAATGG-CAAT
97898 -TGGAT-AATGGTGAAAGTGTATATAGATGTGATAAGGCCTAATGGCCGATG
188 GT-GATGAAT-GTGAAAGTGTATATAGATGTGATAAGGCCTAATGGCCGATG
* * * * * * * * *
97948 TGATGAATGTGAAGTGTAATATATGCGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 TGATGAATGTGAAATG-AATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
98013 ATAAATGTGATAAG
65 ATATATGTGATAAG
98027 TCCCGAAGGG
Statistics
Matches: 279, Mismatches: 21, Indels: 35
0.83 0.06 0.10
Matches are distributed among these distances:
235 11 0.04
236 17 0.06
237 61 0.22
238 152 0.54
239 20 0.07
240 3 0.01
241 2 0.01
242 13 0.05
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (237 bp):
TGATGAATGTGAAATGAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
TATATGTGATAAGCTCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGCCT
AATAGCCGTGTGATTGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCAATGTGATGAA
TGTGAAAGTGTATATAGATGTGATAAGGCCTAATGGCCGATG
Found at i:99959 original size:13 final size:13
Alignment explanation
Indices: 99941--99965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99931 AGAGATTGGG
99941 GGATTGCTTTTGT
1 GGATTGCTTTTGT
99954 GGATTGCTTTTG
1 GGATTGCTTTTG
99966 AAGCTGAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.32, T:0.52
Consensus pattern (13 bp):
GGATTGCTTTTGT
Found at i:100395 original size:41 final size:39
Alignment explanation
Indices: 100307--100660 Score: 226
Period size: 41 Copynumber: 8.8 Consensus size: 39
100297 ATATGCATCG
* *
100307 CGGGCTAAGTCCCGAAGAGCATTTGTGCTTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAG-AATTCTGC-TAGTGATGTATC
*
100348 CGGGCTAAATCCCCGAAGAGAATTCTGCTAGTGATGTATC
1 CGGGCTAAGT-CCCGAAGAGAATTCTGCTAGTGATGTATC
*
100388 CGCGGCTAAGTCCCGAAGAGCGATTCTGCTAGT-ATGTATC
1 CG-GGCTAAGTCCCGAAGAG-AATTCTGCTAGTGATGTATC
* *
100428 CGGGC--AGTCCCGAAGA-CATTCTGCTAGTGATGTAACC
1 CGGGCTAAGTCCCGAAGAGAATTCTGCTAGTGATGT-ATC
* *
100465 CGGGGCTAAGT-CCGAAGAGGATTCGGCTAGATGATGGTGAGTC
1 C-GGGCTAAGTCCCGAAGAGAATTCTGCTAG-TGAT-GT-A-TC
* *
100508 CGGGCTTAAAGTCTCGAAGAGCATTCGTGCTAGTGAT-TAT-
1 CGGGC-T-AAGTCCCGAAGAGAATTC-TGCTAGTGATGTATC
* ** * *
100548 CGGACTTAAGTTTCGAAGAGCATTCGGTGGCTAGTGATATATC
1 CGGGC-TAAGTCCCGAAGAGAATTC--T-GCTAGTGATGTATC
* ** * * * *
100591 CGTG-TAAACCCCGAAGAGCATTC-GTCTGGTGTTAATATC
1 CGGGCTAAGTCCCGAAGAGAATTCTG-CTAGTGAT-GTATC
*
100630 CGGGCTAGGT-CCGAAGAGCAA-TCATGCTAGT
1 CGGGCTAAGTCCCGAAGAG-AATTC-TGCTAGT
100661 ACGTGTATTC
Statistics
Matches: 257, Mismatches: 30, Indels: 53
0.76 0.09 0.16
Matches are distributed among these distances:
35 11 0.04
36 4 0.02
37 15 0.06
38 10 0.04
39 45 0.18
40 59 0.23
41 63 0.25
42 20 0.08
43 6 0.02
44 4 0.02
45 15 0.06
46 5 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGAGAATTCTGCTAGTGATGTATC
Found at i:100480 original size:76 final size:80
Alignment explanation
Indices: 100308--100544 Score: 238
Period size: 76 Copynumber: 2.9 Consensus size: 80
100298 TATGCATCGC
*
100308 GGGCTAAGTCCCGAAGAGC-ATTTGTGCTTAGTGATGTATCCGGGCTAAATCCCCGAAGAGAATT
1 GGGCTAAGTCCCGAAGAGCGA-TTCTGC-TAGTGATGTATCCGGGC-AAATCCCCGAAGAGAATT
*
100372 CTGCTAGTGATGTATCCG
63 CTGCTAGTGATGTACCCG
* * *
100390 CGGCTAAGTCCCGAAGAGCGATTCTGCTAGT-ATGTATCCGGGC-AGT-CCCGAAGA-CATTCTG
1 GGGCTAAGTCCCGAAGAGCGATTCTGCTAGTGATGTATCCGGGCAAATCCCCGAAGAGAATTCTG
100451 CTAGTGATGTAACCCG
66 CTAGTGATGT-ACCCG
* *
100467 GGGCTAAGT-CCGAAGAG-GATTCGGCTAGATGATGGTGAGTCCGGGCTTAAAGT-CTCGAAGAG
1 GGGCTAAGTCCCGAAGAGCGATTCTGCTAG-TGAT-GT-A-TCCGGGC--AAA-TCCCCGAAGAG
*
100529 CATTCGTGCTAGTGAT
59 AATTC-TGCTAGTGAT
100545 TATCGGACTT
Statistics
Matches: 133, Mismatches: 9, Indels: 22
0.81 0.05 0.13
Matches are distributed among these distances:
75 10 0.08
76 25 0.19
77 22 0.17
78 4 0.03
79 1 0.01
80 19 0.14
81 4 0.03
82 23 0.17
83 2 0.02
84 8 0.06
85 5 0.04
86 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGAGCGATTCTGCTAGTGATGTATCCGGGCAAATCCCCGAAGAGAATTCTG
CTAGTGATGTACCCG
Found at i:101226 original size:41 final size:40
Alignment explanation
Indices: 101159--101277 Score: 127
Period size: 44 Copynumber: 2.9 Consensus size: 40
101149 CTCTCGGGGT
101159 TTAGCACGGATA-TATCACTAGCACGAAT-CTCTTCGAAAC
1 TTAGC-CGGATACTATCACTAGCACGAATCCTCTTCGAAAC
* **
101198 TTAGTCGGATACTTATCACCTAGCACGAATCGCCTCTTCGACGC
1 TTAGCCGGATAC-TATCA-CTAGCACGAAT--CCTCTTCGAAAC
*
101242 TTAGCCGGATAC-ATCACTAGCCACGAATGCTCTTCG
1 TTAGCCGGATACTATCACTAG-CACGAATCCTCTTCG
101278 GACTTACCCG
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
38 6 0.09
39 4 0.06
40 12 0.18
41 15 0.22
42 11 0.16
44 20 0.29
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (40 bp):
TTAGCCGGATACTATCACTAGCACGAATCCTCTTCGAAAC
Found at i:101245 original size:44 final size:40
Alignment explanation
Indices: 101159--101320 Score: 136
Period size: 43 Copynumber: 3.9 Consensus size: 40
101149 CTCTCGGGGT
101159 TTAGCACGGATA-TATCACTAGCACGAAT-CTCTTCGAAAC
1 TTAGC-CGGATACTATCACTAGCACGAATGCTCTTCGAAAC
* **
101198 TTAGTCGGATACTTATCACCTAGCACGAATCGCCTCTTCGACGC
1 TTAGCCGGATAC-TATCA-CTAGCACGAAT-G-CTCTTCGAAAC
*
101242 TTAGCCGGATAC-ATCACTAGCCACGAATGCTCTTCG-GAC
1 TTAGCCGGATACTATCACTAG-CACGAATGCTCTTCGAAAC
* *
101281 TTACCCGGGGTTCAAC-ATCACTAGCACGACATGCTCTTCG
1 TTAGCC--GGAT--ACTATCACTAGCACGA-ATGCTCTTCG
101321 GGACTACCCG
Statistics
Matches: 103, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
38 6 0.06
39 10 0.10
40 12 0.12
41 19 0.18
42 16 0.16
43 20 0.19
44 20 0.19
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (40 bp):
TTAGCCGGATACTATCACTAGCACGAATGCTCTTCGAAAC
Found at i:101447 original size:44 final size:46
Alignment explanation
Indices: 101369--101454 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 46
101359 CTCGTCGGTT
* *
101369 AGCCCGGATTACATCCACTAGCACGAATTCTCTTC-GGACTTTTAC
1 AGCCCGGATTACATCCACTAGCACAAATGCTCTTCGGGACTTTTAC
101414 AGCCCGGATTACAT-CACTAGCACAAATGCTCTTCGGGACTT
1 AGCCCGGATTACATCCACTAGCACAAATGCTCTTCGGGACTT
101455 AGCCCGTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 18 0.47
45 20 0.53
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (46 bp):
AGCCCGGATTACATCCACTAGCACAAATGCTCTTCGGGACTTTTAC
Done.