Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2806
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: 22541
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Found at i:143 original size:46 final size:46
Alignment explanation
Indices: 2--673 Score: 715
Period size: 46 Copynumber: 14.6 Consensus size: 46
1 T
* *
2 TGAAGTGTAAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGA
1 TGAA-TGTGAAAGTGTATATATGTGATAA-GCCTAATGGCCGATGTGA
* *
50 TGAATGTGAAAG-GTATATATATGATAAGGCTAAT-GCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGCCTAATGGCCGATGTGA
*
94 TG-ATGTGAAAGCGTATATAATGTGATAAGCCTAATGGCCGATGTGA
1 TGAATGTGAAAGTGTATAT-ATGTGATAAGCCTAATGGCCGATGTGA
* *
140 TG-ATGTG-AAG-GTAT-TATGTGATAGGCCTAAT-GCTGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGCCTAATGGCCGATGTGA
*
181 TGAATGTGAAAGTGTATATTATGTGATAAGGCCTAATGACCGATGTGA
1 TGAATGTGAAAGTGTATA-TATGTGATAA-GCCTAATGGCCGATGTGA
*
229 TGAATGTGAAAGTGTATAATATGTGATAAAGGCCTAATAGCCGAT-TGAA
1 TGAATGTGAAAGTGTAT-ATATGTGAT-AA-GCCTAATGGCCGATGTG-A
* *
278 TGAATGTGAAAGTGTATATATGTGATAGGCCTAAATGGCAGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGCCT-AATGGCCGATGTGA
* *
325 TGAATGTGAAATGTATATATATGTGATAAGGCTAATGG-C-ATGT-A
1 TGAATGTGAAA-GTGTATATATGTGATAAGCCTAATGGCCGATGTGA
*
369 TGAATGTGAAAGTGTATAT-TGTGATAAGGCCTAATAGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAA-GCCTAATGGCCGATGTGA
415 TGAATGTGAAAGTGTA-ATATGTGATAAGGCCTAATGGCCGATGTG-
1 TGAATGTGAAAGTGTATATATGTGATAA-GCCTAATGGCCGATGTGA
** *
460 TGAATGT-AAAGTGGTAATATATGTGATAAGGTTAATAGCCGGATGTGAA
1 TGAATGTGAAAGT-GT-ATATATGTGATAAGCCTAATGGCC-GATGTG-A
* *
509 TGAATGTAAAAGTGTAATATATTGTG-TAAAGGCCTAATCGCCCGATG-GA
1 TGAATGTGAAAGTGT-ATATA-TGTGAT-AA-GCCTAAT-GGCCGATGTGA
* * *
558 TGAATGTGAAAGTATATAT-TGTGATAAGGCTAATGACCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGCCTAATGGCCGATGTGA
* * * * *
603 -GAATGTGAAAG-GTATATATGTGA-CAGGC-AGTGGCCAACGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGCCTAATGGCCGATGTGA
* * *
645 AGGATGTGAAAGTGTAAATATGTGATAAG
1 TGAATGTGAAAGTGTATATATGTGATAAG
674 TCCGCAGGGC
Statistics
Matches: 543, Mismatches: 43, Indels: 79
0.82 0.06 0.12
Matches are distributed among these distances:
41 11 0.02
42 38 0.07
43 46 0.08
44 78 0.14
45 52 0.10
46 101 0.19
47 58 0.11
48 72 0.13
49 64 0.12
50 12 0.02
51 9 0.02
52 2 0.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (46 bp):
TGAATGTGAAAGTGTATATATGTGATAAGCCTAATGGCCGATGTGA
Found at i:589 original size:231 final size:228
Alignment explanation
Indices: 2--673 Score: 806
Period size: 231 Copynumber: 2.9 Consensus size: 228
1 T
* * *
2 TGAAGTGTAAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGAATGTGAAAG-GTA
1 TGAA-TGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAATGAATGTGAAAGTGTA
* * *
65 TATATATGATAAGG-CTAATGCCGATGTGATG-ATGTGAAAGCGTATATAATGTGATAAGCCTAA
65 TATATGTGA-AAGGCCTAATGCCGATGTGATGAATGTGAAA-CGTATATATTGTGATAAGGCTAA
*
128 TGGCCGATGTGATG-ATGTG-AAGGTAT-TATGTGATAGGCCTAATGCTGATGTGATGAATGTGA
128 TGG-CGATGTGATGAATGTGAAAGGTATATATGTGATAGGCCTAATGCCGATGTGATGAATGTGA
190 AAGTGTATATTATGTGATAAGGCCTAATGACCGATGTGA
192 AAGTGTA-A-TATGTGATAAGGCCTAATGACCGATGTGA
229 TGAATGTGAAAGTGTATAATATGTGATAAAGGCCTAATAGCCGAT-TGAATGAATGTGAAAGTGT
1 TGAATGTGAAAGTGTAT-ATATGTGAT-AAGGCCTAATAGCCGATGTGAATGAATGTGAAAGTGT
* * *
293 ATATATGTGATAGGCCTAAATGGCAGATGTGATGAATGTGAAATGTATATATATGTGATAAGGCT
64 ATATATGTGAAAGGCCT-AAT-GCCGATGTGATGAATGTGAAACGTATATAT-TGTGATAAGGCT
358 AATGGC-ATGT-ATGAATGTGAAAGTGTATAT-TGTGATAAGGCCTAATAGCCGATGTGATGAAT
126 AATGGCGATGTGATGAATGTGAAAG-GTATATATGTGAT-AGGCCTAAT-GCCGATGTGATGAAT
*
420 GTGAAAGTGTAATATGTGATAAGGCCTAATGGCCGATGTG-
188 GTGAAAGTGTAATATGTGATAAGGCCTAATGACCGATGTGA
* *
460 TGAATGT-AAAGTGGTAATATATGTGATAAGG-TTAATAGCCGGATGTGAATGAATGTAAAAGTG
1 TGAATGTGAAAGT-GT-ATATATGTGATAAGGCCTAATAGCC-GATGTGAATGAATGTGAAAGTG
523 TAATATATTGTGTAAAGGCCTAATCGCCCGATG-GATGAATGTGAAA-GTATATATTGTGATAAG
63 T-ATATA-TGTG-AAAGGCCTAAT-G-CCGATGTGATGAATGTGAAACGTATATATTGTGATAAG
* * * * * * *
586 GCTAATGACCGATGTGA-GAATGTGAAAGGTATATATGTGACAGG-C-AGTGGCCAACGTGAAGG
123 GCTAATG-GCGATGTGATGAATGTGAAAGGTATATATGTGATAGGCCTAAT-GCCGATGTGATGA
648 ATGTGAAAGTGTAAATATGTGATAAG
186 ATGTGAAAGTGT-AATATGTGATAAG
674 TCCGCAGGGC
Statistics
Matches: 393, Mismatches: 24, Indels: 52
0.84 0.05 0.11
Matches are distributed among these distances:
226 11 0.03
227 15 0.04
228 32 0.08
229 24 0.06
230 47 0.12
231 88 0.22
232 86 0.22
233 52 0.13
234 38 0.10
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (228 bp):
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAATGAATGTGAAAGTGTAT
ATATGTGAAAGGCCTAATGCCGATGTGATGAATGTGAAACGTATATATTGTGATAAGGCTAATGG
CGATGTGATGAATGTGAAAGGTATATATGTGATAGGCCTAATGCCGATGTGATGAATGTGAAAGT
GTAATATGTGATAAGGCCTAATGACCGATGTGA
Found at i:1222 original size:47 final size:47
Alignment explanation
Indices: 1089--1611 Score: 880
Period size: 47 Copynumber: 11.1 Consensus size: 47
1079 GTTATGTGAA
*
1089 ACATTCATTCACATCGGCTATTA-GCCTTATCACATATATACACTTT-
1 ACATTCA-TCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1135 -CATTCATCACATCGGCCTATTAGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCC-ATTAGGCCTTATCACATATATACACTTTC
1182 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1229 ACATTCATTCACATCGGCCATTA-GCCTTATCACATATATACACTTTC
1 ACATTCA-TCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
* *
1276 ACATTCATCACTTCGGCCATTAGGCCTTATCGCATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
1323 ACATTCATCACATC-GCTATTAGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
1369 ACATTCATCACATCGGCCATTAGGCCTTATCACACATTATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATA-TATACACTTTC
1417 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTC
1466 ACA-TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTC
1514 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1561 ACATTCATCACATC-GCCATTAGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1607 ACATT
1 ACATT
1612 TATTCAAATA
Statistics
Matches: 457, Mismatches: 9, Indels: 22
0.94 0.02 0.05
Matches are distributed among these distances:
44 10 0.02
45 10 0.02
46 118 0.26
47 150 0.33
48 124 0.27
49 43 0.09
50 2 0.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
Found at i:3115 original size:13 final size:13
Alignment explanation
Indices: 3097--3121 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3087 TACTAAATTT
3097 TCATGGATTCAAA
1 TCATGGATTCAAA
3110 TCATGGATTCAA
1 TCATGGATTCAA
3122 TATACCATTA
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):
TCATGGATTCAAA
Found at i:3774 original size:40 final size:39
Alignment explanation
Indices: 3719--3799 Score: 153
Period size: 40 Copynumber: 2.1 Consensus size: 39
3709 TGCAAGTCCT
3719 CCCTTTTGATTACATGCACTATTAGGTCCTTGTAGATTAG
1 CCCTTTTGATTACATGCACTATTAGGT-CTTGTAGATTAG
3759 CCCTTTTGATTACATGCACTATTAGGTCTTGTAGATTAG
1 CCCTTTTGATTACATGCACTATTAGGTCTTGTAGATTAG
3798 CC
1 CC
3800 TATCACATTC
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 14 0.34
40 27 0.66
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (39 bp):
CCCTTTTGATTACATGCACTATTAGGTCTTGTAGATTAG
Found at i:5930 original size:40 final size:40
Alignment explanation
Indices: 5341--5921 Score: 893
Period size: 40 Copynumber: 14.6 Consensus size: 40
5331 CCAGCATGAT
* * * * * **
5341 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCATAAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* ** * *
5381 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
5421 TGCTC-TCG-GACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
5459 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
5499 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* * *
5539 TGCTCTTTG-GAACTTAGTCCAGATACATCACTAGCACGAA
1 TGCTCTTCGAG-ACTTAGCCCGGATACATCACTAGCACGAA
*
5579 TGCTCTTCGAGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
5619 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
5659 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
5699 TGCTCTTCG-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAG-ACTTAGCCCGGATACATCACTAGCACGAA
*
5739 TGCTCTTCGAGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
5779 TGCTCTTCGCGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
5819 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
5859 TGCTCTTCG-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAG-ACTTAGCCCGGATACATCACTAGCACGAA
*
5899 TGCTCTTCGAGATTTAGCCCGGA
1 TGCTCTTCGAGACTTAGCCCGGA
5922 CATTTCACTC
Statistics
Matches: 505, Mismatches: 28, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
38 30 0.06
39 9 0.02
40 463 0.92
41 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:7460 original size:47 final size:47
Alignment explanation
Indices: 7382--8396 Score: 1800
Period size: 47 Copynumber: 21.6 Consensus size: 47
7372 CCCTTCGGGA
* * * * * *
7382 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
7429 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7476 CTTATCACATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
7521 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
7568 CTTATCACATATATACACTTTCACATTCAACACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
7615 CTTATCACATATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7662 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
7709 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
7758 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATAAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
7805 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
7852 CTTATCACATATATACCCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7899 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
7946 TTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7993 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8040 CTTATCACATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8087 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8134 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8181 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8228 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8275 CTTATCATATATATACACTTTCACATTCATCACATCAGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATC-GGCCATTAGGC
8323 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8370 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
8397 TATTCAAATA
Statistics
Matches: 927, Mismatches: 36, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
45 45 0.05
47 790 0.85
48 46 0.05
49 46 0.05
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:9926 original size:13 final size:13
Alignment explanation
Indices: 9908--9932 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9898 TACTAAATTT
9908 TCATGGATTCAAA
1 TCATGGATTCAAA
9921 TCATGGATTCAA
1 TCATGGATTCAA
9933 TATACCATTA
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):
TCATGGATTCAAA
Found at i:11889 original size:27 final size:27
Alignment explanation
Indices: 11859--11927 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
11849 ATATTGAGTC
* * *
11859 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
11886 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
11913 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11928 GTCCAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:12691 original size:2 final size:2
Alignment explanation
Indices: 12684--12722 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
12674 GAATGGGCTC
* *
12684 AT AT AT AT GT GT AT AT AT AT AT AT AT AT AT 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
12723 GCCGAATATG
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:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20041 original size:26 final size:27
Alignment explanation
Indices: 19985--20052 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 27
19975 ATATTGAGTC
* * *
19985 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
20012 CGCACACTTAGTGCTACGT-ATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
20038 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20053 GTCAATTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 21 0.57
27 16 0.43
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:20809 original size:2 final size:2
Alignment explanation
Indices: 20802--20836 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
20792 AATGGGCTAC
* *
20802 AT AT AT AT GT GT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20837 GCCGAATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21585 original size:23 final size:24
Alignment explanation
Indices: 21554--21600 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
21544 TCCTCCCTTA
21554 TTTTATTCA-TCCTTTT-TTTTCT
1 TTTTATTCACTCCTTTTATTTTCT
*
21576 TTTTAATTCACTTCTTTTATTTTCT
1 TTTT-ATTCACTCCTTTTATTTTCT
21601 AATCTACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 5 0.24
24 6 0.29
25 6 0.29
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTATTCACTCCTTTTATTTTCT
Done.