Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1420
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: 30907
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Found at i:80 original size:13 final size:13
Alignment explanation
Indices: 62--87 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52 TACAATAACT
62 TGTATCGATACAA
1 TGTATCGATACAA
75 TGTATCGATACAA
1 TGTATCGATACAA
88 AGCAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:689 original size:14 final size:15
Alignment explanation
Indices: 649--695 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
639 AAGATTTCTC
*
649 CCCTTAAAAGGAAGTTT
1 CCCTTAAAA--AAATTT
666 CCCTTAAAAAAATTT
1 CCCTTAAAAAAATTT
681 CCC-TAAAAAAATTT
1 CCCTTAAAAAAATTT
695 C
1 C
696 TCCCCCTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 12 0.41
15 8 0.28
17 9 0.31
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (15 bp):
CCCTTAAAAAAATTT
Found at i:6731 original size:13 final size:13
Alignment explanation
Indices: 6713--6743 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6703 ACATTTCTTC
6713 ATGTATCGATACA
1 ATGTATCGATACA
6726 ATGTATCGATACA
1 ATGTATCGATACA
*
6739 TTGTA
1 ATGTA
6744 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6731 original size:33 final size:33
Alignment explanation
Indices: 6693--6759 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
6683 GTTACAAACT
6693 ATGTATCCATACATT-T-CTTCATGTATCGATACA
1 ATGTATCCATACATTGTAC--CATGTATCGATACA
*
6726 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCCATACATTGTACCATGTATCGATACA
6759 A
1 A
6760 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (33 bp):
ATGTATCCATACATTGTACCATGTATCGATACA
Found at i:6832 original size:19 final size:20
Alignment explanation
Indices: 6788--6841 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
6778 CTGCCAGTTG
**
6788 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
6808 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
6827 CATGTATCGATACAA
1 CATGTATCGATACAA
6842 AGCAATATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:6857 original size:20 final size:19
Alignment explanation
Indices: 6808--6859 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
6798 TACAATTGTC
* *
6808 CATGTATCGATACAATGAA
1 CATGCATCGATACAAAGAA
*
6827 CATGTATCGATACAAAGCAA
1 CATGCATCGATACAAAG-AA
*
6847 TATGCATCGATAC
1 CATGCATCGATAC
6860 TTCTGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (19 bp):
CATGCATCGATACAAAGAA
Found at i:10694 original size:197 final size:194
Alignment explanation
Indices: 10362--10752 Score: 566
Period size: 197 Copynumber: 2.0 Consensus size: 194
10352 TCATATAAGG
* *
10362 TATACAAATCACGAAGTAATAAAGTATATATATCAATGATTAAGTAAAAATATAAGCATTAAAGA
1 TATACAAATCACGAAGTAATAAAGTATATATACCAATGATTAAGTAAAAAAATAAGCATTAAAGA
* * *
10427 TCATACAACAATTCAAATTTCTTGTATTTATTTGAAAAATTTTAAGCACAATCAAGATTATAAGT
66 TCATACAACAATTCAAAGTTCATGTATTTATTTGAAAAATTTTAAGCACAATCAAGATCATAAGT
* * * * *
10492 AAAGAAGACATTCTAATTGTTGTCTATATGCATAATTAATATCTATTATTTAAATTTTAGTTCA
131 AAAGAAAACATTCAAATTGCTGTCTATATGCATAATTAATATCTACTATTGAAATTTTAGTTCA
* * * *
10556 TATACAAATCATGAAGTAATAAAGTACATGTATACCAATTATTAAGTAAAAAAAATAAGCATTTA
1 TATACAAATCACGAAGTAATAAAGT--ATATATACCAATGATTAAGT-AAAAAAATAAGCATTAA
* * * * *
10621 AGATCATACAACAGTTCAAAGTTCATGTATTTATTTGGAAACTTTTATGCACAATCAAGATCATG
63 AGATCATACAACAATTCAAAGTTCATGTATTTATTTGAAAAATTTTAAGCACAATCAAGATCATA
* *
10686 AGTAAAGAAAACATTCAAATTGCTGTCTATATGCATAATTGATATTTACTATTGAAATTTTAGTT
128 AGTAAAGAAAACATTCAAATTGCTGTCTATATGCATAATTAATATCTACTATTGAAATTTTAGTT
10751 CA
193 CA
10753 AATGCGTACT
Statistics
Matches: 173, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
194 24 0.14
196 17 0.10
197 132 0.76
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.35
Consensus pattern (194 bp):
TATACAAATCACGAAGTAATAAAGTATATATACCAATGATTAAGTAAAAAAATAAGCATTAAAGA
TCATACAACAATTCAAAGTTCATGTATTTATTTGAAAAATTTTAAGCACAATCAAGATCATAAGT
AAAGAAAACATTCAAATTGCTGTCTATATGCATAATTAATATCTACTATTGAAATTTTAGTTCA
Found at i:15909 original size:21 final size:21
Alignment explanation
Indices: 15862--15940 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
15852 AATTATTATC
*
15862 CAAATGTATCGATACATTTGTA
1 CAAATGTATCGATACA-TTCTA
* *
15884 -GAATGTATCGATACATTCCA
1 CAAATGTATCGATACATTCTA
*
15904 CAAATGTATTGATACATTCTA
1 CAAATGTATCGATACATTCTA
15925 CAAATGTATCGATACA
1 CAAATGTATCGATACA
15941 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (21 bp):
CAAATGTATCGATACATTCTA
Found at i:16001 original size:19 final size:19
Alignment explanation
Indices: 15977--16043 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
15967 TTTTAGCGAT
15977 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
15996 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
16010 -TGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
16028 TTGTATCGATACATAA
1 TTGTATCGATACATAA
16044 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 1 0.02
19 27 0.64
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:16014 original size:32 final size:32
Alignment explanation
Indices: 15978--16040 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
15968 TTTAGCGATT
15978 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
16010 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
16041 TAATTAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:16015 original size:13 final size:13
Alignment explanation
Indices: 15997--16021 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15987 ACATAAGTAT
15997 TGTATCGATACAA
1 TGTATCGATACAA
16010 TGTATCGATACA
1 TGTATCGATACA
16022 TAAGTATTGT
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:16101 original size:13 final size:13
Alignment explanation
Indices: 16083--16108 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16073 CATTTTTCTG
16083 TGTATCGATACAT
1 TGTATCGATACAT
16096 TGTATCGATACAT
1 TGTATCGATACAT
16109 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16126 original size:34 final size:33
Alignment explanation
Indices: 16063--16129 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
16053 GCCAAGGGAA
*
16063 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
16096 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
16130 CTAGAAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:18532 original size:51 final size:51
Alignment explanation
Indices: 18476--18573 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 51
18466 AATTCTCCGC
18476 AATCGGGGATA-TCCCAACTCCGATTTTATTT-TCAAAACACT-AATTTTCTAT
1 AATCGGGGATACT-CCAACTCCGATTTTATTTCT-AAAACA-TAAATTTTCTAT
18527 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATAAATTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATAAATTTT
18574 TCATCGATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
50 1 0.02
51 41 0.93
52 2 0.05
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATAAATTTTCTAT
Found at i:18776 original size:51 final size:51
Alignment explanation
Indices: 18716--18883 Score: 194
Period size: 52 Copynumber: 3.3 Consensus size: 51
18706 ATCTCCGAGG
* *
18716 GGATACTCCAACCCCGGTTTTATTTCCAAATCA-TCGATTTTCCACAATCGA
1 GGATACTCCAACCCCGGTTTTATTTCCAAAACACT-AATTTTCCACAATCGA
* * ** *
18767 GGATACTCCAACCCCGGCTTTATTTTCAAAACACTAATTTTCCTTTAATCGG
1 GGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTCC-ACAATCGA
* * * *
18819 GGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATTGA
1 GGATACTCCAACCCCGGTTTTATTTCC-AAAACACTAATTTTCCACAATCGA
*
18871 GGATACTCTAACC
1 GGATACTCCAACC
18884 TCGTTATTTC
Statistics
Matches: 96, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
51 37 0.39
52 44 0.46
53 15 0.16
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.33
Consensus pattern (51 bp):
GGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTCCACAATCGA
Found at i:24566 original size:28 final size:28
Alignment explanation
Indices: 24526--24590 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
24516 TAGGTTTGGA
24526 TTATTAGCTAAATATAACTCATCCAAGT
1 TTATTAGCTAAATATAACTCATCCAAGT
*
24554 TTATTAGCTAAATATACCTCATCCAAGT
1 TTATTAGCTAAATATAACTCATCCAAGT
*
24582 ATATTAGCT
1 TTATTAGCT
24591 CTAGAGCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (28 bp):
TTATTAGCTAAATATAACTCATCCAAGT
Found at i:25405 original size:3 final size:3
Alignment explanation
Indices: 25397--25441 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
25387 GGTTTAATTT
25397 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25442 AGCAACTCTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:25676 original size:47 final size:45
Alignment explanation
Indices: 25614--25718 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
25604 AAATAATCAG
*
25614 ATATATTT-AATATAAATTATTATTATATTAAAATTTATATAAATATATA
1 ATAT-TTTAAATA-AAATTA-TATTA-ATT-AAATTTACATAAATATATA
*
25663 ATATTTTAAATAAAATTATATTACTTAAATTTACATAAATATATA
1 ATATTTTAAATAAAATTATATTAATTAAATTTACATAAATATATA
25708 A-ATTATTAAAT
1 ATATT-TTAAAT
25719 TTAAAACTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
44 3 0.06
45 25 0.48
46 2 0.04
47 5 0.10
48 9 0.17
49 8 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (45 bp):
ATATTTTAAATAAAATTATATTAATTAAATTTACATAAATATATA
Found at i:25700 original size:25 final size:26
Alignment explanation
Indices: 25623--25723 Score: 75
Period size: 27 Copynumber: 3.8 Consensus size: 26
25613 GATATATTTA
* **
25623 ATATAAATTATTATTATATTAAA-ATTT
1 ATATAAATTATTA-AAT-TTAAATAAAT
25650 ATATAAA-TATATAATATTTTAAATAAA-
1 ATATAAATTAT-TAA-A-TTTAAATAAAT
* *
25677 AT-TATATTACTTAAATTTACATAAAT
1 ATATAAATTA-TTAAATTTAAATAAAT
25703 ATATAAATTATTAAATTTAAA
1 ATATAAATTATTAAATTTAAA
25724 ACTCATAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
25 9 0.15
26 19 0.32
27 28 0.47
28 3 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
ATATAAATTATTAAATTTAAATAAAT
Found at i:26043 original size:23 final size:22
Alignment explanation
Indices: 26016--26065 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
26006 TATGTCATTT
26016 TTAAATTAATATTA-AAATTTTAA
1 TTAAATTAATATTACAAA--TTAA
26039 TTAAATTAATATTACAAATTAA
1 TTAAATTAATATTACAAATTAA
26061 TTAAA
1 TTAAA
26066 CATTAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 9 0.35
23 14 0.54
24 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAATTAATATTACAAATTAA
Found at i:26250 original size:52 final size:55
Alignment explanation
Indices: 26165--26267 Score: 160
Period size: 52 Copynumber: 1.9 Consensus size: 55
26155 AAATTTCAAA
26165 AATTACTCACATACATCTAACATCGACTAACAACAAATAA-TTTTGTTTTACATAT
1 AATTACTCACATA-ATCTAACATCGACTAACAACAAATAATTTTTGTTTTACATAT
26220 AATTACTCACAT-ATCT-ACATCCG-CTAACAACAAATAATTTTTGTTTTA
1 AATTACTCACATAATCTAACAT-CGACTAACAACAAATAATTTTTGTTTTA
26268 GATAAAATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
52 18 0.39
53 16 0.35
55 12 0.26
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (55 bp):
AATTACTCACATAATCTAACATCGACTAACAACAAATAATTTTTGTTTTACATAT
Found at i:26968 original size:18 final size:19
Alignment explanation
Indices: 26930--26968 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
26920 AAATAGATTT
26930 TTTTAAATAAAAAATAAAA
1 TTTTAAATAAAAAATAAAA
* *
26949 TTTTAAA-AATAAATATAA
1 TTTTAAATAAAAAATAAAA
26967 TT
1 TT
26969 ATATTTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTTAAATAAAAAATAAAA
Found at i:27290 original size:13 final size:14
Alignment explanation
Indices: 27265--27304 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
27255 AATTTTTAAT
27265 AACTAATTATATAA
1 AACTAATTATATAA
* *
27279 AAC-AATTCTATAT
1 AACTAATTATATAA
27292 AACTAATTATATA
1 AACTAATTATATA
27305 TAAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTAATTATATAA
Found at i:27304 original size:14 final size:14
Alignment explanation
Indices: 27263--27307 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
27253 TTAATTTTTA
27263 ATAACTAATTATAT
1 ATAACTAATTATAT
* *
27277 AAAAC-AATTCTAT
1 ATAACTAATTATAT
27290 ATAACTAATTATAT
1 ATAACTAATTATAT
27304 ATAA
1 ATAA
27308 AATAAATAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAACTAATTATAT
Found at i:27464 original size:20 final size:20
Alignment explanation
Indices: 27439--27492 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
27429 ATAAAATTTT
27439 TAAAATTTTAAAATATTAAA
1 TAAAATTTTAAAATATTAAA
*
27459 TAAAA--TTAAAATATTATA
1 TAAAATTTTAAAATATTAAA
*
27477 -AAAATGTATAAAATAT
1 TAAAAT-TTTAAAATAT
27493 AATAAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 4 0.14
18 12 0.41
20 13 0.45
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAATTTTAAAATATTAAA
Found at i:27687 original size:24 final size:24
Alignment explanation
Indices: 27664--27722 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 24
27654 AATTTTTAAT
*
27664 TTTTAATTTTATTTTTAT-AATAA
1 TTTTAATTTTATTATTATCAATAA
**
27687 --TTAATTTTATTATTATCGTTAA
1 TTTTAATTTTATTATTATCAATAA
27709 TTTTAATTTTATTA
1 TTTTAATTTTATTA
27723 AAATTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 15 0.50
22 3 0.10
24 12 0.40
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTAATTTTATTATTATCAATAA
Found at i:27690 original size:21 final size:21
Alignment explanation
Indices: 27666--27736 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
27656 TTTTTAATTT
27666 TTAATTTTATTTTTATAATAA
1 TTAATTTTATTTTTATAATAA
* **
27687 TTAATTTTA---TTATTATCG
1 TTAATTTTATTTTTATAATAA
*
27705 TTAATTTTAATTTTATTAA-AA
1 TTAATTTTATTTTTA-TAATAA
27726 TTAATTTTATT
1 TTAATTTTATT
27737 ATCGATCTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 15 0.38
21 22 0.56
22 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (21 bp):
TTAATTTTATTTTTATAATAA
Done.