Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1661
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: 51723
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Found at i:782 original size:25 final size:26
Alignment explanation
Indices: 746--796 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
736 TATAAAAATA
*
746 AATAAATTAAA-TAATATTATTTATT
1 AATAAATAAAATTAATATTATTTATT
* *
771 AATAAATAAAATTATTTTTATTTATT
1 AATAAATAAAATTAATATTATTTATT
797 TTTAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
AATAAATAAAATTAATATTATTTATT
Found at i:854 original size:18 final size:16
Alignment explanation
Indices: 840--873 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
830 GACATAATCT
840 AATTTATAATAATAAATA
1 AATTTAT-ATAAT-AATA
858 AATTTATATAATAATA
1 AATTTATATAATAATA
874 TACGTCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 5 0.31
18 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTTATATAATAATA
Found at i:1425 original size:2 final size:2
Alignment explanation
Indices: 1418--1450 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1408 CTAAAAAGTG
1418 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1451 GGAAAGACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1441 original size:15 final size:15
Alignment explanation
Indices: 1421--1450 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1411 AAAAGTGTAT
1421 ATATATATATATATA
1 ATATATATATATATA
1436 ATATATATATATATA
1 ATATATATATATATA
1451 GGAAAGACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:4671 original size:30 final size:31
Alignment explanation
Indices: 4602--4691 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 31
4592 ATAAAAATTC
* * **
4602 AAATATAATTAAAAATATAAAAATATTT-TT
1 AAATAAAAATAAAAATATAAAAATATTTAAA
*
4632 AATTAAAAAATAAAAATA-AAAAATATTTAAA
1 AAAT-AAAAATAAAAATATAAAAATATTTAAA
*
4663 AAATAAAAATAAAAGTATAAAAAT-TTTAA
1 AAATAAAAATAAAAATATAAAAATATTTAA
4692 CAAAGTTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
30 30 0.60
31 20 0.40
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (31 bp):
AAATAAAAATAAAAATATAAAAATATTTAAA
Found at i:4741 original size:26 final size:27
Alignment explanation
Indices: 4712--4776 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
4702 AAAACTTTAA
4712 AAAAAATCTAAAA-TCTAAAAAGTAT-T
1 AAAAAATCTAAAATTCTAAAAA-TATAT
* * *
4738 AAAAAACCTAAAATTTTAAAAATTTAT
1 AAAAAATCTAAAATTCTAAAAATATAT
4765 AAAAAAT-TAAAA
1 AAAAAATCTAAAA
4777 AAATTAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 19 0.58
27 14 0.42
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAAATCTAAAATTCTAAAAATATAT
Found at i:4741 original size:27 final size:26
Alignment explanation
Indices: 4701--4776 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 26
4691 ACAAAGTTAA
4701 AAAAACTTTAAAAAAAATCTAAAA-TCT
1 AAAAA-TTT-AAAAAAATCTAAAATTCT
* *
4728 AAAAAGTATT-AAAAAACCTAAAATTTT
1 AAAAA-T-TTAAAAAAATCTAAAATTCT
4755 AAAAATTTATAAAAAAT-TAAAA
1 AAAAATTTA-AAAAAATCTAAAA
4777 AAATTAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
25 2 0.05
26 18 0.44
27 19 0.46
28 2 0.05
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.28
Consensus pattern (26 bp):
AAAAATTTAAAAAAATCTAAAATTCT
Found at i:4838 original size:14 final size:14
Alignment explanation
Indices: 4808--4841 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4798 AATATGAAAA
*
4808 AATAAATTGAATAT
1 AATAAATTAAATAT
*
4822 AATAAATTAAATTT
1 AATAAATTAAATAT
4836 AATAAA
1 AATAAA
4842 AGGAATAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
AATAAATTAAATAT
Found at i:4901 original size:28 final size:28
Alignment explanation
Indices: 4861--4929 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
4851 GAGGAAAGTA
*
4861 AGAAAGGAAAAGAAATATGTAAGG-AATAAG
1 AGAAAGG--AAGAAAGA-GTAAGGAAATAAG
**
4891 AGAAAGGAAGAGCGAGTAAGGAAATAAG
1 AGAAAGGAAGAAAGAGTAAGGAAATAAG
*
4919 AGAAAAGAAGA
1 AGAAAGGAAGA
4930 GAAAGGAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 6 0.18
28 21 0.62
30 7 0.21
ACGTcount: A:0.59, C:0.01, G:0.30, T:0.09
Consensus pattern (28 bp):
AGAAAGGAAGAAAGAGTAAGGAAATAAG
Found at i:5346 original size:40 final size:37
Alignment explanation
Indices: 5251--5346 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 37
5241 TCTTATGTTT
5251 TTTTAGATTTAATTTTTTTAATTTTTATTTTCTTACAAA
1 TTTTA-ATTTAA-TTTTTTAATTTTTATTTTCTTACAAA
* * *
5290 TTTTAATTGTATATTTTTTATTTTTTATTTTTTTTACATA
1 TTTTAATT-TA-ATTTTTTAATTTTTA-TTTTCTTACAAA
5330 TTTTAATAATTAATTTT
1 TTTTAAT--TTAATTTT
5347 GAATTGTTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
38 3 0.06
39 20 0.41
40 23 0.47
41 2 0.04
42 1 0.02
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (37 bp):
TTTTAATTTAATTTTTTAATTTTTATTTTCTTACAAA
Found at i:5411 original size:15 final size:15
Alignment explanation
Indices: 5391--5454 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
5381 TAGATTTTTA
*
5391 TTATTTTTTGAATTT
1 TTATTTTTTTAATTT
**
5406 TTATTTTTAAAATTT
1 TTATTTTTTTAATTT
*
5421 TTACCTTTTTTTTATTTT
1 TTA---TTTTTTTAATTT
5439 TTATTTTTTTAATTT
1 TTATTTTTTTAATTT
5454 T
1 T
5455 ATTAAATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
15 28 0.70
18 12 0.30
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (15 bp):
TTATTTTTTTAATTT
Found at i:5421 original size:33 final size:33
Alignment explanation
Indices: 5384--5472 Score: 94
Period size: 33 Copynumber: 2.7 Consensus size: 33
5374 AATTTTATAG
5384 ATTTTTATTATTTTTTGAATTTTTATTTTTAAA
1 ATTTTTATTATTTTTTGAATTTTTATTTTTAAA
* **
5417 ATTTTTACCTT-TTTTTT-ATTTTTTATTTTTTTA
1 ATTTTTA--TTATTTTTTGAATTTTTATTTTTAAA
5450 A-TTTTATTAAATTTTTTGAATTT
1 ATTTTTATT--ATTTTTTGAATTT
5473 AAAAAATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
30 2 0.04
32 5 0.11
33 27 0.59
34 10 0.22
35 2 0.04
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (33 bp):
ATTTTTATTATTTTTTGAATTTTTATTTTTAAA
Found at i:7130 original size:39 final size:37
Alignment explanation
Indices: 7087--7169 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 37
7077 CAAAATTTTT
*
7087 TTTATCTAATACATTA-AAAAAGATAAAACAAAAATTAAC
1 TTTATCTAAT-CAGTACAAAAAGATAAAA-AAAAATT-AC
* *
7126 TTTATTTAATCCGTACAAAAAGATAAAAAAAAATTAC
1 TTTATCTAATCAGTACAAAAAGATAAAAAAAAATTAC
*
7163 TTGATCT
1 TTTATCT
7170 TTTATTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
37 7 0.18
38 10 0.26
39 21 0.55
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (37 bp):
TTTATCTAATCAGTACAAAAAGATAAAAAAAAATTAC
Found at i:7817 original size:15 final size:15
Alignment explanation
Indices: 7797--7825 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7787 GGCATAGGTA
7797 GGAAAGGAAATGGGG
1 GGAAAGGAAATGGGG
7812 GGAAAGGAAATGGG
1 GGAAAGGAAATGGG
7826 AAGTCTGGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.52, T:0.07
Consensus pattern (15 bp):
GGAAAGGAAATGGGG
Found at i:7953 original size:45 final size:45
Alignment explanation
Indices: 7902--7990 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
7892 AATGGTGCTA
7902 GAGGTGCTGGAGGAGGCAGAAATGGGCTTGGAGTTAGGGGAGCTT
1 GAGGTGCTGGAGGAGGCAGAAATGGGCTTGGAGTTAGGGGAGCTT
*
7947 GAGGTGCTGGAGGAGGCAGAAATGGGCTTGGATTTAGGGGAGCT
1 GAGGTGCTGGAGGAGGCAGAAATGGGCTTGGAGTTAGGGGAGCT
7991 GGTGGAGGCC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.22, C:0.09, G:0.48, T:0.20
Consensus pattern (45 bp):
GAGGTGCTGGAGGAGGCAGAAATGGGCTTGGAGTTAGGGGAGCTT
Found at i:8080 original size:36 final size:36
Alignment explanation
Indices: 7985--8067 Score: 166
Period size: 36 Copynumber: 2.3 Consensus size: 36
7975 TGGATTTAGG
7985 GGAGCTGGTGGAGGCCCAAAAGGGTTTGGAATTACT
1 GGAGCTGGTGGAGGCCCAAAAGGGTTTGGAATTACT
8021 GGAGCTGGTGGAGGCCCAAAAGGGTTTGGAATTACT
1 GGAGCTGGTGGAGGCCCAAAAGGGTTTGGAATTACT
8057 GGAGCTGGTGG
1 GGAGCTGGTGG
8068 CTGCTGAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.23, C:0.13, G:0.42, T:0.22
Consensus pattern (36 bp):
GGAGCTGGTGGAGGCCCAAAAGGGTTTGGAATTACT
Found at i:10076 original size:12 final size:14
Alignment explanation
Indices: 10055--10091 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
10045 ATATTGTATG
10055 ATTAAATATATAAA
1 ATTAAATATATAAA
10069 A-T-AATATA-AAA
1 ATTAAATATATAAA
10080 ATTAAATATATA
1 ATTAAATATATA
10092 TTTATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
11 4 0.20
12 7 0.35
13 7 0.35
14 2 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATTAAATATATAAA
Found at i:11741 original size:19 final size:20
Alignment explanation
Indices: 11701--11741 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11691 TATAATTTAA
*
11701 TTTAAATAAAAATATATTAT
1 TTTAAATAAAAATATATCAT
*
11721 TTTAATTAAAAAT-TATCAT
1 TTTAAATAAAAATATATCAT
11740 TT
1 TT
11742 CGAGCTGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTAAATAAAAATATATCAT
Found at i:11956 original size:20 final size:20
Alignment explanation
Indices: 11914--11956 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
11904 ATGAATAATT
* * * *
11914 TATATAAAATTATATGAATA
1 TATATAAAAGTAAATAAACA
11934 TATATAAAAGTAAATAAACA
1 TATATAAAAGTAAATAAACA
11954 TAT
1 TAT
11957 TTATTTATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (20 bp):
TATATAAAAGTAAATAAACA
Found at i:14161 original size:34 final size:34
Alignment explanation
Indices: 14096--14279 Score: 244
Period size: 34 Copynumber: 5.4 Consensus size: 34
14086 TATGTTATAT
* *
14096 TTGTTGATTAAAT-GGTGATTTGGTAGTTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* *
14129 TTGTTGACTAAATGGGAAATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
*
14163 TTGTTGATTAAATAGGAGATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* * * *
14197 TTATTGATTAAATGGGTGATTTGGTGGTTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* * **
14231 TTGTTGACTAAATGGGAGATTTGGTAGGTTGTCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
14265 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
14280 TGGTTTTTAC
Statistics
Matches: 130, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
33 12 0.09
34 118 0.91
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (34 bp):
TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
Found at i:18760 original size:34 final size:34
Alignment explanation
Indices: 18694--18878 Score: 246
Period size: 34 Copynumber: 5.5 Consensus size: 34
18684 AAGTGGGAGA
* *
18694 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
18727 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
18761 ATTGTTGATTAAATAGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
18795 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * **
18829 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGTC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
18863 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
18879 TGGTTTTTAC
Statistics
Matches: 131, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
33 13 0.10
34 118 0.90
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:19386 original size:2 final size:2
Alignment explanation
Indices: 19379--19407 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19369 AATCAATTCA
19379 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19408 CAATAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:19916 original size:2 final size:2
Alignment explanation
Indices: 19905--19958 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
19895 TATGTCTCCC
*
19905 TA TA -A TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19946 TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA
19959 CACTCAAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:29009 original size:2 final size:2
Alignment explanation
Indices: 29002--29031 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28992 ATGCACTAAC
29002 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29032 AAATATGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29269 original size:28 final size:29
Alignment explanation
Indices: 29210--29269 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
29200 GTAGATAGAA
* * *
29210 AAATAGAAAATAGAAAATTGGATATATAG
1 AAATAGAAAATAGAAAACTGGAAAAATAG
29239 AAAT-GAAAATAGAAAACTGGAGAAAAT-G
1 AAATAGAAAATAGAAAACTGGA-AAAATAG
29267 AAA
1 AAA
29270 AGTGAAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.62, C:0.02, G:0.18, T:0.18
Consensus pattern (29 bp):
AAATAGAAAATAGAAAACTGGAAAAATAG
Found at i:36059 original size:72 final size:72
Alignment explanation
Indices: 35923--36077 Score: 166
Period size: 72 Copynumber: 2.2 Consensus size: 72
35913 ATTTATACAT
* * * * * * *
35923 TGAAATGTCGATCAAACCTTTGAGGTCATTTTTAGTATTTATGCATAGTGATTGTATCACTCGCT
1 TGAAATGTCAATCAAACCTTTGAGGTCATTCTTAGCATATACGCATAGTGACTGCATCACTCGCT
* *
35988 TATATGC
66 CATATAC
** * * * *
35995 TGAAATGTCAATCAAACCTTTGAGGTTGTTCTTAGCATATGCGCATAGTGACTGCGTTATTCGCT
1 TGAAATGTCAATCAAACCTTTGAGGTCATTCTTAGCATATACGCATAGTGACTGCATCACTCGCT
*
36060 CATATAT
66 CATATAC
36067 TGAAATGTCAA
1 TGAAATGTCAA
36078 GTAGATTGTT
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (72 bp):
TGAAATGTCAATCAAACCTTTGAGGTCATTCTTAGCATATACGCATAGTGACTGCATCACTCGCT
CATATAC
Found at i:37315 original size:16 final size:16
Alignment explanation
Indices: 37294--37327 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37284 TAAAAAGAAA
*
37294 ATAATAGATCTTTTAT
1 ATAATAGATCTTTGAT
*
37310 ATAATATATCTTTGAT
1 ATAATAGATCTTTGAT
37326 AT
1 AT
37328 TTGCATACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (16 bp):
ATAATAGATCTTTGAT
Found at i:47319 original size:7 final size:7
Alignment explanation
Indices: 47299--47329 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
47289 AACTGCTATA
47299 TTTATTT
1 TTTATTT
47306 TTATATTT
1 TT-TATTT
47314 TTTATTT
1 TTTATTT
47321 TTTATTT
1 TTTATTT
47328 TT
1 TT
47330 AATATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:47319 original size:15 final size:14
Alignment explanation
Indices: 47299--47329 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
47289 AACTGCTATA
47299 TTTATTTTTATATTT
1 TTTATTTTT-TATTT
47314 TTTATTTTTTATTT
1 TTTATTTTTTATTT
47328 TT
1 TT
47330 AATATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTATTTTTTATTT
Done.