Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold837
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: 55061
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Found at i:178 original size:18 final size:19
Alignment explanation
Indices: 157--193 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
147 ATAAATAATT
157 AAAATAT-AATATGTAAAA
1 AAAATATAAATATGTAAAA
*
175 AAAATATAAATATTTAAAA
1 AAAATATAAATATGTAAAA
194 TTATACATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAATATAAATATGTAAAA
Found at i:208 original size:33 final size:32
Alignment explanation
Indices: 143--208 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 32
133 CGGGCATAGT
*
143 AAAAATAAATAATTAAAATATAATATGTAAAAA
1 AAAAATAAATAATTAAAATATAACATG-AAAAA
* *
176 AAATATAAATATTTAAAAT-TATACATGAAAAA
1 AAAAATAAATAATTAAAATATA-ACATGAAAAA
208 A
1 A
209 GATTAATATC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 8 0.28
33 21 0.72
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (32 bp):
AAAAATAAATAATTAAAATATAACATGAAAAA
Found at i:3767 original size:6 final size:5
Alignment explanation
Indices: 3736--3768 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
3726 GGATTTATTG
3736 AAAGA AAA-A AAAGA AAAGA AAAGA AAAGGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAA-GA AAA
3769 AAGAAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:5310 original size:29 final size:31
Alignment explanation
Indices: 5242--5315 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 31
5232 TTTCACCAAT
5242 ACTTTTAAAAATTACATTTTATTTATCTATA
1 ACTTTTAAAAATTACATTTTATTTATCTATA
*
5273 A-TCTTTAAAAATTATA-TTTATTGT-T-TATA
1 ACT-TTTAAAAATTACATTTTATT-TATCTATA
5302 ACTTTTAAAAATTA
1 ACTTTTAAAAATTA
5316 GATTATCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
29 16 0.41
30 9 0.23
31 14 0.36
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (31 bp):
ACTTTTAAAAATTACATTTTATTTATCTATA
Found at i:5330 original size:28 final size:29
Alignment explanation
Indices: 5242--5331 Score: 69
Period size: 29 Copynumber: 3.1 Consensus size: 29
5232 TTTCACCAAT
* *
5242 ACTTTTAAAAATTACATTTTAT-TTATCTATA
1 ACTTTTAAAAATTAGA-TTTATCAT-TC-ATA
* ** *
5273 A-TCTTTAAAAATTATATTTATTGTTTATA
1 ACT-TTTAAAAATTAGATTTATCATTCATA
5302 ACTTTTAAAAATTAGA-TTATCATTCATA
1 ACTTTTAAAAATTAGATTTATCATTCATA
5330 AC
1 AC
5332 CTGTGAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
28 11 0.22
29 16 0.33
30 8 0.16
31 14 0.29
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (29 bp):
ACTTTTAAAAATTAGATTTATCATTCATA
Found at i:6466 original size:2 final size:2
Alignment explanation
Indices: 6461--6489 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6451 TTTTTAAAAT
6461 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6490 CCAACTGGTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6890 original size:22 final size:22
Alignment explanation
Indices: 6865--6906 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6855 ATTAAATAAA
* *
6865 TGTTAGGTTGGGTCAATTTTAG
1 TGTTAAGTTGGATCAATTTTAG
*
6887 TGTTAAGTTGGATGAATTTT
1 TGTTAAGTTGGATCAATTTT
6907 TTTTTTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (22 bp):
TGTTAAGTTGGATCAATTTTAG
Found at i:13040 original size:2 final size:2
Alignment explanation
Indices: 12988--13026 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
12978 ATAAATAAAA
*
12988 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13027 CACACACATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19089 original size:11 final size:11
Alignment explanation
Indices: 19073--19102 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
19063 TGATCGATTC
19073 AAATTTAATTA
1 AAATTTAATTA
*
19084 AAATTTTATTA
1 AAATTTAATTA
19095 AAATTTAA
1 AAATTTAA
19103 AAAGTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAATTTAATTA
Found at i:19374 original size:12 final size:12
Alignment explanation
Indices: 19341--19374 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19331 ACTACCTTCA
19341 TCTTCTTTTTTC
1 TCTTCTTTTTTC
*
19353 TCCTCTTTTTTC
1 TCTTCTTTTTTC
19365 TTCTTCTTTT
1 -TCTTCTTTT
19375 CATGTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TCTTCTTTTTTC
Found at i:20276 original size:15 final size:16
Alignment explanation
Indices: 20256--20289 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
20246 GGATTTATTG
20256 AAAGAAAA-AAAAAGA
1 AAAGAAAAGAAAAAGA
*
20271 AAAGAAAAGAAAAGGA
1 AAAGAAAAGAAAAAGA
20287 AAA
1 AAA
20290 AAGAAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAGAAAAGAAAAAGA
Found at i:20288 original size:6 final size:5
Alignment explanation
Indices: 20256--20289 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
20246 GGATTTATTG
*
20256 AAAGA AAAAA AAAGA AAAGA AAAGA AAAGGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAA-GA AAA
20290 AAGAAATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:21836 original size:29 final size:30
Alignment explanation
Indices: 21768--21848 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 30
21758 TTTCACCAAT
21768 ACTTTTAAAAATTACATTTTATTTATCTATA
1 ACTTTTAAAAATTACA-TTTATTTATCTATA
*
21799 A-TCTTTAAAAATTATATTTATTGT-T-TATA
1 ACT-TTTAAAAATTACATTTATT-TATCTATA
*
21828 ACTTTTAAAAATTAGATTTAT
1 ACTTTTAAAAATTACATTTAT
21849 CATTCATAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
29 22 0.49
30 9 0.20
31 14 0.31
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (30 bp):
ACTTTTAAAAATTACATTTATTTATCTATA
Found at i:21857 original size:29 final size:28
Alignment explanation
Indices: 21768--21858 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 28
21758 TTTCACCAAT
*
21768 ACTTTTAAAAATTACATTTTATTTATCTATA
1 ACTTTTAAAAATTACA-TTTATAT-TC-ATA
* * *
21799 A-TCTTTAAAAATTATATTTATTGTTTATA
1 ACT-TTTAAAAATTACATTTA-TATTCATA
*
21828 ACTTTTAAAAATTAGATTTATCATTCATA
1 ACTTTTAAAAATTACATTTAT-ATTCATA
21857 AC
1 AC
21859 CTGTGAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
28 1 0.02
29 27 0.54
30 7 0.14
31 15 0.30
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (28 bp):
ACTTTTAAAAATTACATTTATATTCATA
Found at i:24803 original size:46 final size:46
Alignment explanation
Indices: 24753--24843 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
24743 TTAAACTAAT
* *
24753 ATCCTAAATTTCATTGAATTAATTAAATACC-GAAATATTCCTAAGA
1 ATCCTAAACTTCATTGAATTAATTAAATACCTG-AATAATCCTAAGA
*
24799 ATCCTAAACTTCATTGAATTAATTGAATACCTGAATAATCCTAAG
1 ATCCTAAACTTCATTGAATTAATTAAATACCTGAATAATCCTAAG
24844 GGGAATGCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 40 0.98
47 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (46 bp):
ATCCTAAACTTCATTGAATTAATTAAATACCTGAATAATCCTAAGA
Found at i:25515 original size:2 final size:2
Alignment explanation
Indices: 25508--25540 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25498 ATTTATATTT
25508 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25541 TTGAACTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29544 original size:14 final size:14
Alignment explanation
Indices: 29525--29557 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
29515 ATAAATAAAA
29525 ATATATATGTATAT
1 ATATATATGTATAT
29539 ATATATATGTATAT
1 ATATATATGTATAT
29553 ATATA
1 ATATA
29558 CACACACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (14 bp):
ATATATATGTATAT
Found at i:30151 original size:33 final size:34
Alignment explanation
Indices: 30113--30176 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
30103 CAATGATAAT
30113 ATTTTAGTTGA-AAAAAATTTT-TATAACAATTTA
1 ATTTTAGTT-ACAAAAAATTTTATATAACAATTTA
* *
30146 ATTTTAGTTACTAAAACTTTTATATAACAAT
1 ATTTTAGTTACAAAAAATTTTATATAACAAT
30177 ATTATTATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 1 0.04
33 17 0.63
34 9 0.33
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (34 bp):
ATTTTAGTTACAAAAAATTTTATATAACAATTTA
Found at i:31645 original size:6 final size:6
Alignment explanation
Indices: 31616--31664 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
31606 AAAATTTTAA
* * * *
31616 ATCATT AT-ATC ATCATC ATCATT ATTATT ATCGTT ATCATT ATCATT
1 ATCATT ATCATT ATCATT ATCATT ATCATT ATCATT ATCATT ATCATT
31663 AT
1 AT
31665 TATTTTGCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
5 4 0.11
6 32 0.89
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (6 bp):
ATCATT
Found at i:34985 original size:2 final size:2
Alignment explanation
Indices: 34978--35015 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
34968 TAAGATTTTA
34978 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35016 GCAAGCTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37036 original size:28 final size:28
Alignment explanation
Indices: 37004--37058 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
36994 CAAATGCCAC
*
37004 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTATATTTGTCAAATATGGTGGTTT
37032 CCTTTATATTTGTCAAATATGGTGGTT
1 CCTTTATATTTGTCAAATATGGTGGTT
37059 ATTTTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.49
Consensus pattern (28 bp):
CCTTTATATTTGTCAAATATGGTGGTTT
Found at i:37100 original size:24 final size:24
Alignment explanation
Indices: 37063--37108 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
37053 GTGGTTATTT
37063 TTGTTTGTACAAATTGGTGGCTTG
1 TTGTTTGTACAAATTGGTGGCTTG
37087 TTGTTTGT-CAAAATTGGTGGCT
1 TTGTTTGTAC-AAATTGGTGGCT
37109 AATTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.17, C:0.09, G:0.28, T:0.46
Consensus pattern (24 bp):
TTGTTTGTACAAATTGGTGGCTTG
Found at i:39683 original size:21 final size:22
Alignment explanation
Indices: 39654--39699 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
39644 TGTTCAGACA
** *
39654 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
39676 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
39697 AGT
1 AGT
39700 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:41635 original size:28 final size:28
Alignment explanation
Indices: 41603--41657 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
41593 CAAATGCCAC
*
41603 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTATATTTGTCAAATATGGTGGTTT
41631 CCTTTATATTTGTCAAATATGGTGGTT
1 CCTTTATATTTGTCAAATATGGTGGTT
41658 ATTTTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.49
Consensus pattern (28 bp):
CCTTTATATTTGTCAAATATGGTGGTTT
Found at i:42343 original size:15 final size:16
Alignment explanation
Indices: 42323--42356 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
42313 GGATTTATTG
42323 AAAGAAAA-AAAAAGA
1 AAAGAAAAGAAAAAGA
*
42338 AAAGAAAAGAAAAGGA
1 AAAGAAAAGAAAAAGA
42354 AAA
1 AAA
42357 AAGAAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAGAAAAGAAAAAGA
Found at i:42355 original size:6 final size:5
Alignment explanation
Indices: 42323--42356 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
42313 GGATTTATTG
*
42323 AAAGA AAAAA AAAGA AAAGA AAAGA AAAGGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAA-GA AAA
42357 AAGAAATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:43901 original size:29 final size:30
Alignment explanation
Indices: 43833--43913 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 30
43823 TTTCACCAAT
43833 ACTTTTAAAAATTACATTTTATTTATCTATA
1 ACTTTTAAAAATTACA-TTTATTTATCTATA
*
43864 A-TCTTTAAAAATTATATTTATTGT-T-TATA
1 ACT-TTTAAAAATTACATTTATT-TATCTATA
*
43893 ACTTTTAAAAATTAGATTTAT
1 ACTTTTAAAAATTACATTTAT
43914 CATTCATAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
29 22 0.49
30 9 0.20
31 14 0.31
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (30 bp):
ACTTTTAAAAATTACATTTATTTATCTATA
Found at i:43922 original size:29 final size:28
Alignment explanation
Indices: 43833--43923 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 28
43823 TTTCACCAAT
*
43833 ACTTTTAAAAATTACATTTTATTTATCTATA
1 ACTTTTAAAAATTACA-TTTATAT-TC-ATA
* * *
43864 A-TCTTTAAAAATTATATTTATTGTTTATA
1 ACT-TTTAAAAATTACATTTA-TATTCATA
*
43893 ACTTTTAAAAATTAGATTTATCATTCATA
1 ACTTTTAAAAATTACATTTAT-ATTCATA
43922 AC
1 AC
43924 CTGTGAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
28 1 0.02
29 27 0.54
30 7 0.14
31 15 0.30
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (28 bp):
ACTTTTAAAAATTACATTTATATTCATA
Found at i:45067 original size:2 final size:2
Alignment explanation
Indices: 45062--45092 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
45052 TTTTTAAAAT
45062 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45093 CCAACTGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45496 original size:23 final size:23
Alignment explanation
Indices: 45470--45513 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
45460 ATTAAATAAA
* *
45470 TGTTAGGTTGGGTCAATTTTTAG
1 TGTTAAGTTGGATCAATTTTTAG
*
45493 TGTTAAGTTGGATGAATTTTT
1 TGTTAAGTTGGATCAATTTTT
45514 TTTTTTAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.50
Consensus pattern (23 bp):
TGTTAAGTTGGATCAATTTTTAG
Found at i:51655 original size:2 final size:2
Alignment explanation
Indices: 51595--51641 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
51585 ATAAATAAAA
* *
51595 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51637 AT AT A
1 AT AT A
51642 CACACACATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Done.