Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold633
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: 82281
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:6419 original size:19 final size:20
Alignment explanation
Indices: 6392--6441 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
6382 TATGCTTTGC
**
6392 ATCGATACATGTTC-ATTGT
1 ATCGATACATGGACAATTGT
*
6411 ATTGATACATGGACAATTGT
1 ATCGATACATGGACAATTGT
6431 ATCGATACATG
1 ATCGATACATG
6442 AAACTGGCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (20 bp):
ATCGATACATGGACAATTGT
Found at i:15821 original size:18 final size:19
Alignment explanation
Indices: 15794--15849 Score: 78
Period size: 18 Copynumber: 2.9 Consensus size: 19
15784 ATGTACTCTA
15794 AAAAATGTATCGATACATT
1 AAAAATGTATCGATACATT
* *
15813 -CATATGTATCGATACATT
1 AAAAATGTATCGATACATT
15831 GAAAAATGTATCGATACAT
1 -AAAAATGTATCGATACAT
15850 CTGGGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 16 0.52
20 15 0.48
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (19 bp):
AAAAATGTATCGATACATT
Found at i:15841 original size:20 final size:20
Alignment explanation
Indices: 15794--15899 Score: 81
Period size: 20 Copynumber: 4.9 Consensus size: 20
15784 ATGTACTCTA
15794 AAAAATGTATCGATACATT-
1 AAAAATGTATCGATACATTG
* *
15813 -CATATGTATCGATACATTG
1 AAAAATGTATCGATACATTG
15832 AAAAATGTATCGATACATCTGGG
1 AAAAATGTATCGATACAT-T--G
15855 TAAAAGACAGAATGTATCGATACATTG
1 ----A-A-A-AATGTATCGATACATTG
*
15882 AAAAGTGTATCGATACAT
1 AAAAATGTATCGATACAT
15900 CTGGGTAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 23
0.71 0.05 0.23
Matches are distributed among these distances:
18 16 0.23
20 29 0.41
21 2 0.03
22 1 0.01
23 2 0.03
27 2 0.03
28 1 0.01
29 2 0.03
30 15 0.21
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (20 bp):
AAAAATGTATCGATACATTG
Found at i:17312 original size:44 final size:44
Alignment explanation
Indices: 17247--17334 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
17237 AGTGTACTCC
*
17247 ACAGTTTCCAGGACCAAAACTGCTGAGAGAAAGGCACCGAAACA
1 ACAGTTTCCAGGACCAAAACTGCAGAGAGAAAGGCACCGAAACA
* *
17291 ACAGTTTCCAGGACCAGAACTGCAGAGAGAAAGGCACTGAAACA
1 ACAGTTTCCAGGACCAAAACTGCAGAGAGAAAGGCACCGAAACA
17335 CAGCACGACC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.11
Consensus pattern (44 bp):
ACAGTTTCCAGGACCAAAACTGCAGAGAGAAAGGCACCGAAACA
Found at i:18602 original size:13 final size:13
Alignment explanation
Indices: 18584--18611 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18574 GCGATCAATT
18584 ATAATAAATATTA
1 ATAATAAATATTA
18597 ATAATAAATATTA
1 ATAATAAATATTA
18610 AT
1 AT
18612 GATGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAATAAATATTA
Found at i:21816 original size:20 final size:20
Alignment explanation
Indices: 21791--21833 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
21781 CACTCTATGG
21791 TCAATGTTTAAGCTAGCATC
1 TCAATGTTTAAGCTAGCATC
21811 TCAATGTTTAAGCTAGCATC
1 TCAATGTTTAAGCTAGCATC
21831 TCA
1 TCA
21834 TAAGCATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (20 bp):
TCAATGTTTAAGCTAGCATC
Found at i:23327 original size:97 final size:98
Alignment explanation
Indices: 23214--23458 Score: 250
Period size: 97 Copynumber: 2.5 Consensus size: 98
23204 AATTTTATTT
* * * *
23214 ATCGAAAATATTCCAACCCCA-TCTTCCGAAGAGATACTCCAACACCATTTTTTAAAC-TCGTCA
1 ATCGAAGATACTCCAACCCCATTCTTTCGAAGGGATACTCCAACACCATTTTTTAAACTTC-TCA
* **
23277 AGACTT-AAATTTTATTTTTGCTTAAATTATCAAC
65 AGA-TTGAAATCTTATTTTTGCCCAAATTATCAAC
* * * * * *
23311 CTCGAAGATACTCCAACCCTATTCTTTTGAGGGGATACT-CTA-ACCATGTTTTTAAACTTCTTA
1 ATCGAAGATACTCCAACCCCATTCTTTCGAAGGGATACTCCAACACCAT-TTTTTAAACTTCTCA
* * *
23374 AGATTGAAATCTTATTTTTTCCCAAATTGTCATC
65 AGATTGAAATCTTATTTTTGCCCAAATTATCAAC
* * *
23408 ATCGAAGATACTCTAACCCCATTCTTTCG-AGGGATGCTCCAACCCCATTTT
1 ATCGAAGATACTCCAACCCCATTCTTTCGAAGGGATACTCCAACACCATTTT
23459 CAACCAAAAA
Statistics
Matches: 118, Mismatches: 24, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
96 14 0.12
97 85 0.72
98 19 0.16
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.35
Consensus pattern (98 bp):
ATCGAAGATACTCCAACCCCATTCTTTCGAAGGGATACTCCAACACCATTTTTTAAACTTCTCAA
GATTGAAATCTTATTTTTGCCCAAATTATCAAC
Found at i:25746 original size:33 final size:34
Alignment explanation
Indices: 25702--25771 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
25692 ACAAGAGGGG
*
25702 AAAGAAAGGAAAAGAAAAATAGAGAAAA-AAAAT
1 AAAGAAAGGAAAAGAAAAAAAGAGAAAAGAAAAT
* *
25735 AAAGGAAGGAAAAGAAAAAAAGGGAAAAGAAAAT
1 AAAGAAAGGAAAAGAAAAAAAGAGAAAAGAAAAT
25769 AAA
1 AAA
25772 AAAAATTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 25 0.76
34 8 0.24
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.04
Consensus pattern (34 bp):
AAAGAAAGGAAAAGAAAAAAAGAGAAAAGAAAAT
Found at i:25757 original size:14 final size:15
Alignment explanation
Indices: 25702--25767 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 15
25692 ACAAGAGGGG
25702 AAAGAAAGGAAAAGAA
1 AAAG-AAGGAAAAGAA
* * *
25718 AAATAGAGAAAAAAAA
1 AAAGA-AGGAAAAGAA
25734 TAAAGGAAGGAAAAGAA
1 -AAA-GAAGGAAAAGAA
25751 AAA-AAGGGAAAAGAA
1 AAAGAA-GGAAAAGAA
25766 AA
1 AA
25768 TAAAAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
14 2 0.05
15 12 0.30
16 14 0.35
17 11 0.28
18 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (15 bp):
AAAGAAGGAAAAGAA
Found at i:25760 original size:15 final size:15
Alignment explanation
Indices: 25709--25767 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 15
25699 GGGAAAGAAA
*
25709 GGAAAAGAAAAATAG
1 GGAAAAGAAAAAAAG
*
25724 AGAAAA-AAAATAAAGG
1 GGAAAAGAAAA-AAA-G
25740 AAGGAAAAGAAAAAAAG
1 --GGAAAAGAAAAAAAG
25757 GGAAAAGAAAA
1 GGAAAAGAAAA
25768 TAAAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
14 4 0.11
15 18 0.50
16 1 0.03
17 1 0.03
18 8 0.22
19 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (15 bp):
GGAAAAGAAAAAAAG
Found at i:25896 original size:11 final size:11
Alignment explanation
Indices: 25880--25904 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25870 TTATGTCATA
25880 TTTTTTAATTT
1 TTTTTTAATTT
25891 TTTTTTAATTT
1 TTTTTTAATTT
25902 TTT
1 TTT
25905 ATTATATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTAATTT
Found at i:26319 original size:280 final size:279
Alignment explanation
Indices: 25801--26321 Score: 669
Period size: 281 Copynumber: 1.9 Consensus size: 279
25791 GTATGTGTAT
* *
25801 TTTAAAGTACTAAAAATTTGTTTATTTTTTCATTTTTAGACAAATCAAAAATTATATTTATATTA
1 TTTAAAGTACTAAAAATTTATTTATTTTTTCATTTTTAGACAAATCAAAAATCATATTTATATTA
* * * * * *
25866 TATTTTATGTCATATTTTTTAATTTTTTTTTAATTTTTTATTATATCTCAATTTATCTTATAATT
66 TATTTCATGTCATATGTTTTAATTATTTTTTAATTTTTTATCATATCTCAATTCATCTCATAATT
* * * * * **
25931 TACATAAGTTGTTATAGTAATTCAATTTTTACTTTAAATTAGATTATCTAATGTATTAAAATATA
131 TACATAAGTTATCATAATAATTCAAATTTGACTCCAAATTAGATTATCTAATGTATTAAAATATA
*
25996 AAAATTTATTTAAATAATTTATCAAAATTATTCAATCAAGAGAAAAATTTTCATATTTTGTTTTC
196 AAAAATTATTTAAATAATTTATCAAAATTATTCAATCAAGAGAAAAATTTTCATATTTTGTTTTC
26061 ATGTTATTTTTTTGTATGC
261 ATGTTATTTTTTTGTATGC
* * * *
26080 TTTAAAGTATTAAGAATTTATTTATTTCTTT-A-TTTTCGTACAAA-CTAAAAATCATATTTATG
1 TTTAAAGTACTAAAAATTTATTTATTT-TTTCATTTTTAG-ACAAATC-AAAAATCATATTTATA
* *
26142 TTAT-TTTCATTTCATGTTATGTTTTAATTATTTTTTAATTTTTTATCATATTTCAATTCATCTC
63 TTATATTTCATGTCA---TATGTTTTAATTATTTTTTAATTTTTTATCATATCTCAATTCATCTC
* * *
26206 ATAATTTGCATAATTTATCGTAATAATTCAAATTTGACTCCAAATTCA-ATTA-CTAA-GATATT
125 ATAATTTACATAAGTTATCATAATAATTCAAATTTGACTCCAAATT-AGATTATCTAATG-TATT
* * *
26268 AAAATATAAAAAATTATTTAAATAATTTATCACAGTTATTCAATTAAGAGAAAA
188 AAAATATAAAAAATTATTTAAATAATTTATCAAAATTATTCAATCAAGAGAAAA
26322 TTATTTTAGT
Statistics
Matches: 206, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
278 14 0.07
279 49 0.24
280 61 0.30
281 81 0.39
282 1 0.00
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (279 bp):
TTTAAAGTACTAAAAATTTATTTATTTTTTCATTTTTAGACAAATCAAAAATCATATTTATATTA
TATTTCATGTCATATGTTTTAATTATTTTTTAATTTTTTATCATATCTCAATTCATCTCATAATT
TACATAAGTTATCATAATAATTCAAATTTGACTCCAAATTAGATTATCTAATGTATTAAAATATA
AAAAATTATTTAAATAATTTATCAAAATTATTCAATCAAGAGAAAAATTTTCATATTTTGTTTTC
ATGTTATTTTTTTGTATGC
Found at i:27582 original size:16 final size:16
Alignment explanation
Indices: 27561--27593 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27551 TTTTTTTTTT
27561 AAATTTCAAGGATTTC
1 AAATTTCAAGGATTTC
27577 AAATTTCAAGGATTTC
1 AAATTTCAAGGATTTC
27593 A
1 A
27594 TGTACCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (16 bp):
AAATTTCAAGGATTTC
Found at i:30091 original size:35 final size:34
Alignment explanation
Indices: 30008--30125 Score: 164
Period size: 34 Copynumber: 3.4 Consensus size: 34
29998 TAAAATATCT
* * * *
30008 TGCTCACCTAACGCATTACCTAACACACTTAATA
1 TGCTTACCTAACACATCACCTAACACACCTAATA
30042 TGCTTACCTAACACATCACCTAACACACCTAATA
1 TGCTTACCTAACACATCACCTAACACACCTAATA
* *
30076 TACTTTACCTAACACACCACCTAACACACCTAATA
1 TGC-TTACCTAACACATCACCTAACACACCTAATA
*
30111 TGCTCACCTAACACA
1 TGCTTACCTAACACA
30126 CCTAATATGT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
34 43 0.57
35 32 0.43
ACGTcount: A:0.37, C:0.36, G:0.03, T:0.24
Consensus pattern (34 bp):
TGCTTACCTAACACATCACCTAACACACCTAATA
Found at i:30120 original size:22 final size:22
Alignment explanation
Indices: 30093--30148 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
30083 CCTAACACAC
30093 CACCTAACACACCTAATATGCT
1 CACCTAACACACCTAATATGCT
*
30115 CACCTAACACACCTAATATGTT
1 CACCTAACACACCTAATATGCT
*
30137 TACCTAACACAC
1 CACCTAACACAC
30149 TTAACAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.36, G:0.04, T:0.23
Consensus pattern (22 bp):
CACCTAACACACCTAATATGCT
Found at i:34837 original size:34 final size:34
Alignment explanation
Indices: 34794--34877 Score: 132
Period size: 34 Copynumber: 2.4 Consensus size: 34
34784 TAAAATATCT
* *
34794 TGCTCACCTAACACATTACCTAACACACCTAATA
1 TGCTTACCTAACACATCACCTAACACACCTAATA
*
34828 TGCTTACCTAACACATCACCTAACACACTTAATA
1 TGCTTACCTAACACATCACCTAACACACCTAATA
34862 TGCTTCACCTAACACA
1 TGCTT-ACCTAACACA
34878 CCTAATATGC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 36 0.78
35 10 0.22
ACGTcount: A:0.37, C:0.35, G:0.04, T:0.25
Consensus pattern (34 bp):
TGCTTACCTAACACATCACCTAACACACCTAATA
Found at i:34873 original size:23 final size:23
Alignment explanation
Indices: 34843--34922 Score: 119
Period size: 22 Copynumber: 3.6 Consensus size: 23
34833 ACCTAACACA
*
34843 TCACCTAACACACTTAATATGCT
1 TCACCTAACACACCTAATATGCT
34866 TCACCTAACACACCTAATATGC-
1 TCACCTAACACACCTAATATGCT
*
34888 TCACTTAACACACCTAATATG-T
1 TCACCTAACACACCTAATATGCT
*
34910 TTACCTAACACAC
1 TCACCTAACACAC
34923 TTAACAAGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
22 31 0.60
23 21 0.40
ACGTcount: A:0.36, C:0.33, G:0.04, T:0.28
Consensus pattern (23 bp):
TCACCTAACACACCTAATATGCT
Found at i:36072 original size:6 final size:6
Alignment explanation
Indices: 36063--36096 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
36053 GATTATGGTA
*
36063 CATATT CATATT CATATT CATATA CATATT CATA
1 CATATT CATATT CATATT CATATT CATATT CATA
36097 ACGATTTCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (6 bp):
CATATT
Found at i:36383 original size:141 final size:141
Alignment explanation
Indices: 36129--36386 Score: 426
Period size: 141 Copynumber: 1.8 Consensus size: 141
36119 ATTAGGCTAA
* * ** *
36129 AACCACTTTCACTCTAGTGTCAAGGTTTATATTCATAATATAACCTCAGAAAGGATACATAAATG
1 AACCACTTTCACCCTAGTGGCAAGGTCGATATTCATAAGATAACCTCAGAAAGGATACATAAATG
*
36194 CTAGCATACAGTACCATTGTATTTATCCCTAATGGCAGGGTCCAGAACATAGTTAGGTCAAATAA
66 CTAGCATACAGTACCATTGTATTCATCCCTAATGGCAGGGTCCAGAACATAGTTAGGTCAAATAA
36259 TACTAGACTAT
131 TACTAGACTAT
* ** *
36270 AACCACTTTCACCCTAGTGGCAAGGTCGATATTCATAAGGTAACCTCAGAAAGGATATGTTAATG
1 AACCACTTTCACCCTAGTGGCAAGGTCGATATTCATAAGATAACCTCAGAAAGGATACATAAATG
36335 CTAGCATACAGTACCATTGTATTCATCCCTAATGGCAGGGTCCAGAACATAG
66 CTAGCATACAGTACCATTGTATTCATCCCTAATGGCAGGGTCCAGAACATAG
36387 CTAAATTCAA
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
141 107 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (141 bp):
AACCACTTTCACCCTAGTGGCAAGGTCGATATTCATAAGATAACCTCAGAAAGGATACATAAATG
CTAGCATACAGTACCATTGTATTCATCCCTAATGGCAGGGTCCAGAACATAGTTAGGTCAAATAA
TACTAGACTAT
Found at i:41637 original size:20 final size:20
Alignment explanation
Indices: 41589--41638 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
41579 TTTTGACTTA
* *
41589 AATGTATCAATATATTTTTT
1 AATGTATCGACATATTTTTT
41609 AATGTATCGACATATTTTTT
1 AATGTATCGACATATTTTTT
41629 AATGTATCGA
1 AATGTATCGA
41639 TAAATCCAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.48
Consensus pattern (20 bp):
AATGTATCGACATATTTTTT
Found at i:44132 original size:97 final size:97
Alignment explanation
Indices: 44007--44203 Score: 218
Period size: 97 Copynumber: 2.0 Consensus size: 97
43997 CTTCGTTTTC
* ** * *
44007 TTTAAACTCATCAAGACTGAAATTTTATTTTTGCTTAAATTGTTAGCCTTGGGGATACTCTAACA
1 TTTAAACTCATCAAGACTGAAATCTTATTTTTGCCCAAATTGTTAGCCTCGGGGATACTCCAAC-
* * * *
44072 CT-ATTTTTTTGAGGGGATACTCTAACCTCATT
65 CTCATTCTTCTGAGGGGATAATCCAACCTCATT
* * * ***
44104 TTTAAACTTC-TCAAGATTTAAATCTTATTTTTTCCCAAATTGTTATTGTCGGGGATACTCCAAC
1 TTTAAAC-TCATCAAGACTGAAATCTTATTTTTGCCCAAATTGTTAGCCTCGGGGATACTCCAAC
*
44168 CTCATTCTTCTGAGGGGATAATCCAACCTCGTT
65 CTCATTCTTCTGAGGGGATAATCCAACCTCATT
44201 TTT
1 TTT
44204 CAACCAAAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
96 2 0.02
97 78 0.95
98 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (97 bp):
TTTAAACTCATCAAGACTGAAATCTTATTTTTGCCCAAATTGTTAGCCTCGGGGATACTCCAACC
TCATTCTTCTGAGGGGATAATCCAACCTCATT
Found at i:45865 original size:90 final size:90
Alignment explanation
Indices: 45709--45884 Score: 307
Period size: 90 Copynumber: 2.0 Consensus size: 90
45699 GCTGCTAGAA
* *
45709 TAACCCAGAGAATAGGTTTATTCAGAGAAACACTTCTAACCACTACTTTCATTTATCATGTGCAT
1 TAACCCAGAGAATAGGTTTACTCAGAGAAACACTTCTAACCACTACTTTCATTTATCATGTACAT
*
45774 GTAGGTGATAATGAATGAACACTTC
66 GTAGGTGATAATGAATAAACACTTC
*
45799 TAACCCAGAGAATAGGTTTACTCAGAGAAACACTTCTAACCTCTACTTTCATTTATCATGTACAT
1 TAACCCAGAGAATAGGTTTACTCAGAGAAACACTTCTAACCACTACTTTCATTTATCATGTACAT
*
45864 GTAGGTGATAATTAATAAACA
66 GTAGGTGATAATGAATAAACA
45885 TTGCCATCTA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (90 bp):
TAACCCAGAGAATAGGTTTACTCAGAGAAACACTTCTAACCACTACTTTCATTTATCATGTACAT
GTAGGTGATAATGAATAAACACTTC
Found at i:50373 original size:19 final size:19
Alignment explanation
Indices: 50330--50402 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
50320 CACATTCAGA
*
50330 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
50350 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
50369 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
50389 TGTATCGATACATG
1 TGTATCGATACATG
50403 AAACCGGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:50470 original size:13 final size:13
Alignment explanation
Indices: 50452--50476 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50442 CATGGCACAT
50452 TGTATCGATACAA
1 TGTATCGATACAA
50465 TGTATCGATACA
1 TGTATCGATACA
50477 TGTTGAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:50474 original size:33 final size:32
Alignment explanation
Indices: 50432--50496 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
50422 TACCATTGTT
50432 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGTG-A-ATTGTATCGATACAA
50465 TGTATCGATACATGTTGAATTGTATCGATACA
1 TGTATCGATACATG-TGAATTGTATCGATACA
50497 TTGCTTCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATGTGAATTGTATCGATACAA
Found at i:52086 original size:3 final size:3
Alignment explanation
Indices: 52071--52104 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
52061 AACCATCAAA
*
52071 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
52105 GTGACTCGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:56291 original size:20 final size:20
Alignment explanation
Indices: 56266--56373 Score: 106
Period size: 20 Copynumber: 5.8 Consensus size: 20
56256 TTTTCACAAT
* *
56266 TTGTATCAATACATTGTTCA
1 TTGTATCGATACATTGCTCA
56286 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGCTCA
56306 TTGTATCGAT--A-----CA
1 TTGTATCGATACATTGCTCA
56319 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGCTCA
* *
56339 TTGTATCAATACATT-TTACA
1 TTGTATCGATACATTGCT-CA
*
56359 ATGTATCGATACATT
1 TTGTATCGATACATT
56374 CAGGCATTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
13 12 0.16
15 1 0.01
18 1 0.01
19 1 0.01
20 59 0.80
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATTGCTCA
Found at i:56326 original size:33 final size:33
Alignment explanation
Indices: 56284--56353 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
56274 ATACATTGTT
*
56284 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCAATA
56317 CATTGTATCGATACATTGCTCATTGTATCAATA
1 CATTGTATCGATACATTGCTCATTGTATCAATA
56350 CATT
1 CATT
56354 TTACAATGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCAATA
Found at i:56351 original size:53 final size:53
Alignment explanation
Indices: 56266--56373 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
56256 TTTTCACAAT
* * *
56266 TTGTATCAATACATTGTTCATTGTATCGATACATTGCT-CATTGTATCGATACA
1 TTGTATCAATACATTGCTCATTGTATCAATACATT-CTACAATGTATCGATACA
* *
56319 TTGTATCGATACATTGCTCATTGTATCAATACATTTTACAATGTATCGATACA
1 TTGTATCAATACATTGCTCATTGTATCAATACATTCTACAATGTATCGATACA
56372 TT
1 TT
56374 CAGGCATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
52 1 0.02
53 48 0.98
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (53 bp):
TTGTATCAATACATTGCTCATTGTATCAATACATTCTACAATGTATCGATACA
Found at i:56353 original size:13 final size:13
Alignment explanation
Indices: 56304--56334 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
56294 ATACATTGCT
56304 CATTGTATCGATA
1 CATTGTATCGATA
56317 CATTGTATCGATA
1 CATTGTATCGATA
56330 CATTG
1 CATTG
56335 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:58792 original size:51 final size:51
Alignment explanation
Indices: 58680--58998 Score: 209
Period size: 51 Copynumber: 6.3 Consensus size: 51
58670 TTTTCATCTT
* * * * **
58680 GGGGATACTCCAA-TCTCGGTTTCATTT-TCAAAACATCAATTTTTCTTAATC
1 GGGGATACTCCAACTC-CGATTTTATTTCT-AAAGCATCGATTTTTCGCAATC
* * *
58731 -GGGATACTCCAACTCCGATTTTATTTCTAAAGCATTGATTTATCGCAACC
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTTTCGCAATC
* * * * * * **
58781 GGGGATACTCCAA-TCCCGGTTTCATCTCCAAAACATCAATTTTTCTTAATC
1 GGGGATACTCCAACT-CCGATTTTATTTCTAAAGCATCGATTTTTCGCAATC
* * * *
58832 AGAGATACTCCAACTCTGATTTTGTTTCTAAAGCATCGATTTTTCGCAATC
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTTTCGCAATC
* * * * * **
58883 GGGGATACTCCAA-TCTCGGTTTCATCTCCACAA-CATCAATTTTTCTTAATC
1 GGGGATACTCCAACTC-CGATTTTATTTCTA-AAGCATCGATTTTTCGCAATC
* * * ** * * * *
58934 GAGGATACTCCAACTCTGATTTTATTTCCAAAATACCAATTTTTCACAATT
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTTTCGCAATC
*
58985 GGGAATACTCCAAC
1 GGGGATACTCCAAC
58999 CCTGTCATTT
Statistics
Matches: 204, Mismatches: 55, Indels: 18
0.74 0.20 0.06
Matches are distributed among these distances:
50 41 0.20
51 158 0.77
52 5 0.02
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTTTCGCAATC
Found at i:58886 original size:102 final size:101
Alignment explanation
Indices: 58680--58997 Score: 456
Period size: 102 Copynumber: 3.1 Consensus size: 101
58670 TTTTCATCTT
* * *
58680 GGGGATACTCCAATCTCGGTTTCATTTTCAAAACATCAATTTTTCTTAATCGGGATACTCCAACT
1 GGGGATACTCCAATCTCGGTTTCATCTCCAAAACATCAATTTTTCTTAATCGAGATACTCCAACT
* * * *
58745 CCGATTTTATTTCTAAAGCATTGATTTATCGCAACC
66 CTGATTTTATTTCTAAAGCATCGATTTTTCGCAATC
*
58781 GGGGATACTCCAATCCCGGTTTCATCTCCAAAACATCAATTTTTCTTAATCAGAGATACTCCAAC
1 GGGGATACTCCAATCTCGGTTTCATCTCCAAAACATCAATTTTTCTTAATC-GAGATACTCCAAC
*
58846 TCTGATTTTGTTTCTAAAGCATCGATTTTTCGCAATC
65 TCTGATTTTATTTCTAAAGCATCGATTTTTCGCAATC
*
58883 GGGGATACTCCAATCTCGGTTTCATCTCCACAACATCAATTTTTCTTAATCGAGGATACTCCAAC
1 GGGGATACTCCAATCTCGGTTTCATCTCCAAAACATCAATTTTTCTTAATCGA-GATACTCCAAC
* ** * * * *
58948 TCTGATTTTATTTCCAAAATACCAATTTTTCACAATT
65 TCTGATTTTATTTCTAAAGCATCGATTTTTCGCAATC
*
58985 GGGAATACTCCAA
1 GGGGATACTCCAA
58998 CCCTGTCATT
Statistics
Matches: 195, Mismatches: 20, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
101 50 0.26
102 145 0.74
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (101 bp):
GGGGATACTCCAATCTCGGTTTCATCTCCAAAACATCAATTTTTCTTAATCGAGATACTCCAACT
CTGATTTTATTTCTAAAGCATCGATTTTTCGCAATC
Found at i:59036 original size:28 final size:27
Alignment explanation
Indices: 58989--59057 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
58979 ACAATTGGGA
**
58989 ATACTCCAACCCTGTCA-TTTCATCGGGG
1 ATACTCCAACCCCATCATTTTCA--GGGG
*
59017 ATACTCCAACCCCATTATTTTCGAGGGG
1 ATACTCCAACCCCATCATTTTC-AGGGG
59045 ATACTCCAACCCC
1 ATACTCCAACCCC
59058 GGCTTTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 31 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.26
Consensus pattern (27 bp):
ATACTCCAACCCCATCATTTTCAGGGG
Found at i:59211 original size:51 final size:51
Alignment explanation
Indices: 59150--59266 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
59140 TTATTTCCGA
* * * *
59150 GGGGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCAATTTTAGTTCCAAAACACCAATTTCTCACAATC
* *
59201 GGGGATACTCCAACTCCGATTTTAGTTCCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCCCAATTTTAGTTCCAAAACACCAATTTCTCACAATC
**
59252 GAAGATACTCCAACC
1 GGGGATACTCCAACC
59267 TTGTTATTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.28
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTAGTTCCAAAACACCAATTTCTCACAATC
Found at i:59410 original size:132 final size:132
Alignment explanation
Indices: 59150--59527 Score: 503
Period size: 132 Copynumber: 2.9 Consensus size: 132
59140 TTATTTCCGA
**** ** * *
59150 GGGGATACTCCAACCCCAATTTTATTTCTAAAATACCAA-TTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCAATTTTTTCACAATCGGGGATACTCTAA
* ** * * * * * *
59214 -CTCCGATTTTA-GTTCCAAAACACC-AATTTCTCACAATCGAAGATACTCCAACCTTGTTATTT
66 CCT-CGATTTTATTTTTTAGAACACCGATTTTC-CATAATCGAGGATACTCTAACCTCGTTATTT
59276 TCAC
129 TCAC
* *
59280 GGGGATACTTCGACCCCGGCCTTATTTCTAAAGCATCAATTTTTTCACAATCGGGGATACTCTAA
1 GGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCAATTTTTTCACAATCGGGGATACTCTAA
*
59345 CCTCGATTTTATTTTTTAGAACACCGATTTTCCATAATCGGGGATACTCTAACCTCGTTATTTTC
66 CCTCGATTTTATTTTTTAGAACACCGATTTTCCATAATCGAGGATACTCTAACCTCGTTATTTTC
59410 AC
131 AC
* *
59412 GGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTTTCACAATCGAGGATACTCTAA
1 GGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCAATTTTTTCACAATCGGGGATACTCTAA
*
59477 CCTTGATTTTATTTTTTAGAACACCGATTTTCCATAATCGAGGATACTCTA
66 CCTCGATTTTATTTTTTAGAACACCGATTTTCCATAATCGAGGATACTCTA
59528 GCCCTGTTGT
Statistics
Matches: 218, Mismatches: 26, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
130 30 0.14
131 32 0.15
132 151 0.69
133 5 0.02
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (132 bp):
GGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCAATTTTTTCACAATCGGGGATACTCTAA
CCTCGATTTTATTTTTTAGAACACCGATTTTCCATAATCGAGGATACTCTAACCTCGTTATTTTC
AC
Found at i:61621 original size:4 final size:4
Alignment explanation
Indices: 61614--61642 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
61604 TATTTTGAGG
61614 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
61643 GTTTTGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:71969 original size:97 final size:97
Alignment explanation
Indices: 71793--72020 Score: 239
Period size: 97 Copynumber: 2.3 Consensus size: 97
71783 AATTTTATTT
* * * * *
71793 ATCGAAAATATTCCAACCCCA-TC-TTCAGAGGAGATACTCCAACACCATTTTTTTAAACTCGTC
1 ATCGAAAATACTCCAACCCCATTCTTTC-GAGGGGACACT-CTA-ACCATGTTTTTAAACTCGTC
* **
71856 AAGACTTAAATTTTATTTTTGCTTAAATTATCAAC
63 AAGACTTAAATCTTATTTTTGCCCAAATTATCAAC
* * * * * *
71891 CTCGGAGATACTCCAACCCTATTCTTTTGAGGGGACACTCTAACCATGTTTTTAAACTTC-TTAA
1 ATCGAAAATACTCCAACCCCATTCTTTCGAGGGGACACTCTAACCATGTTTTTAAAC-TCGTCAA
* *
71955 GA-TTCAAATCTTATTTTTGCCCAAATTGTCATC
65 GACTT-AAATCTTATTTTTGCCCAAATTATCAAC
71988 ATCGAAAATACTCCAACCCCATTCTTTCGAGGG
1 ATCGAAAATACTCCAACCCCATTCTTTCGAGGG
72021 ATGCTCCAGC
Statistics
Matches: 105, Mismatches: 21, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
96 2 0.02
97 70 0.67
98 20 0.19
99 11 0.10
100 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (97 bp):
ATCGAAAATACTCCAACCCCATTCTTTCGAGGGGACACTCTAACCATGTTTTTAAACTCGTCAAG
ACTTAAATCTTATTTTTGCCCAAATTATCAAC
Found at i:73104 original size:15 final size:15
Alignment explanation
Indices: 73080--73121 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
73070 TAAACACGAG
73080 TAAT-CTTATTTTTT
1 TAATACTTATTTTTT
73094 TAATACTTATTTTTT
1 TAATACTTATTTTTT
*
73109 AAATA-TT-TTTTTT
1 TAATACTTATTTTTT
73122 ATCCAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 6 0.23
14 6 0.23
15 14 0.54
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (15 bp):
TAATACTTATTTTTT
Found at i:74216 original size:33 final size:34
Alignment explanation
Indices: 74172--74241 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
74162 ACAAGAGGGG
*
74172 AAAGAAAGGAAAAGAAAAATAGAGAAAA-AAAAT
1 AAAGAAAGGAAAAGAAAAAAAGAGAAAAGAAAAT
* *
74205 AAAGGAAGGAAAAGAAAAAAAGGGAAAAGAAAAT
1 AAAGAAAGGAAAAGAAAAAAAGAGAAAAGAAAAT
74239 AAA
1 AAA
74242 AAAAATTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 25 0.76
34 8 0.24
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.04
Consensus pattern (34 bp):
AAAGAAAGGAAAAGAAAAAAAGAGAAAAGAAAAT
Found at i:74227 original size:14 final size:15
Alignment explanation
Indices: 74172--74237 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 15
74162 ACAAGAGGGG
74172 AAAGAAAGGAAAAGAA
1 AAAG-AAGGAAAAGAA
* * *
74188 AAATAGAGAAAAAAAA
1 AAAGA-AGGAAAAGAA
74204 TAAAGGAAGGAAAAGAA
1 -AAA-GAAGGAAAAGAA
74221 AAA-AAGGGAAAAGAA
1 AAAGAA-GGAAAAGAA
74236 AA
1 AA
74238 TAAAAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
14 2 0.05
15 12 0.30
16 14 0.35
17 11 0.28
18 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (15 bp):
AAAGAAGGAAAAGAA
Found at i:74230 original size:15 final size:15
Alignment explanation
Indices: 74179--74237 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 15
74169 GGGAAAGAAA
*
74179 GGAAAAGAAAAATAG
1 GGAAAAGAAAAAAAG
*
74194 AGAAAA-AAAATAAAGG
1 GGAAAAGAAAA-AAA-G
74210 AAGGAAAAGAAAAAAAG
1 --GGAAAAGAAAAAAAG
74227 GGAAAAGAAAA
1 GGAAAAGAAAA
74238 TAAAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
14 4 0.11
15 18 0.50
16 1 0.03
17 1 0.03
18 8 0.22
19 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (15 bp):
GGAAAAGAAAAAAAG
Found at i:76036 original size:16 final size:16
Alignment explanation
Indices: 76015--76045 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
76005 TTTTATTTTT
76015 AAATTTCAAGGATTTC
1 AAATTTCAAGGATTTC
76031 AAATTTCAAGGATTT
1 AAATTTCAAGGATTT
76046 GATGTACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (16 bp):
AAATTTCAAGGATTTC
Found at i:78570 original size:35 final size:34
Alignment explanation
Indices: 78487--78604 Score: 164
Period size: 34 Copynumber: 3.4 Consensus size: 34
78477 TAAAATATCT
* * * *
78487 TGCTCACCTAACGCATTACCTAACACATCTAATA
1 TGCTTACCTAACACATCACCTAACACACCTAATA
78521 TGCTTACCTAACACATCACCTAACACACCTAATA
1 TGCTTACCTAACACATCACCTAACACACCTAATA
* *
78555 TGCTTTACCTAACACACCACCTAATACACCTAATA
1 TGC-TTACCTAACACATCACCTAACACACCTAATA
*
78590 TGCTCACCTAACACA
1 TGCTTACCTAACACA
78605 CCTAATATGT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
34 44 0.58
35 32 0.42
ACGTcount: A:0.36, C:0.35, G:0.04, T:0.25
Consensus pattern (34 bp):
TGCTTACCTAACACATCACCTAACACACCTAATA
Found at i:78599 original size:22 final size:22
Alignment explanation
Indices: 78572--78627 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
78562 CCTAACACAC
*
78572 CACCTAATACACCTAATATGCT
1 CACCTAACACACCTAATATGCT
*
78594 CACCTAACACACCTAATATGTT
1 CACCTAACACACCTAATATGCT
*
78616 TACCTAACACAC
1 CACCTAACACAC
78628 TTAACAAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.34, G:0.04, T:0.25
Consensus pattern (22 bp):
CACCTAACACACCTAATATGCT
Done.