Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3255
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: 36316
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Found at i:3167 original size:23 final size:23
Alignment explanation
Indices: 3121--3284 Score: 147
Period size: 23 Copynumber: 7.2 Consensus size: 23
3111 GATATGTTGA
*
3121 AGGGTAT-ATTGATTGTGTTTGG
1 AGGGTATAATTGGTTGTGTTTGG
* *
3143 AGGGTATAGTTGGTTGTGTTCGG
1 AGGGTATAATTGGTTGTGTTTGG
* *
3166 AGGTTATATATATGGTT-TGTTTTG
1 AGGGTATA-AT-TGGTTGTGTTTGG
* * *
3190 AGGGTACATTTGGTTGTGTTCGG
1 AGGGTATAATTGGTTGTGTTTGG
*
3213 AGGGTA-AATTAGTTGTGTTTGG
1 AGGGTATAATTGGTTGTGTTTGG
* ** *
3235 AGGCTATGTTTTGTTGTGTTTGG
1 AGGGTATAATTGGTTGTGTTTGG
*
3258 AGGGTA-AATTGGTTGTATTTGG
1 AGGGTATAATTGGTTGTGTTTGG
*
3280 TGGGT
1 AGGGT
3285 GATAGATTTA
Statistics
Matches: 112, Mismatches: 25, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
22 46 0.41
23 49 0.44
24 12 0.11
25 5 0.04
ACGTcount: A:0.16, C:0.02, G:0.37, T:0.45
Consensus pattern (23 bp):
AGGGTATAATTGGTTGTGTTTGG
Found at i:3253 original size:45 final size:45
Alignment explanation
Indices: 3121--3284 Score: 170
Period size: 45 Copynumber: 3.6 Consensus size: 45
3111 GATATGTTGA
* *
3121 AGGGTATATTGATTGTGTTTGGAGGGTATAG-TTGGTTGTGTTCGG
1 AGGGTAAATTGGTTGTGTTTGGAGGGTAT-GTTTGGTTGTGTTCGG
* * **
3166 AGGTTATATATATGGTT-TGTTTTGAGGGTACATTTGGTTGTGTTCGG
1 AGGGTA-A-AT-TGGTTGTGTTTGGAGGGTATGTTTGGTTGTGTTCGG
* * * *
3213 AGGGTAAATTAGTTGTGTTTGGAGGCTATGTTTTGTTGTGTTTGG
1 AGGGTAAATTGGTTGTGTTTGGAGGGTATGTTTGGTTGTGTTCGG
* *
3258 AGGGTAAATTGGTTGTATTTGGTGGGT
1 AGGGTAAATTGGTTGTGTTTGGAGGGT
3285 GATAGATTTA
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
44 4 0.04
45 54 0.56
46 1 0.01
47 33 0.34
48 4 0.04
ACGTcount: A:0.16, C:0.02, G:0.37, T:0.45
Consensus pattern (45 bp):
AGGGTAAATTGGTTGTGTTTGGAGGGTATGTTTGGTTGTGTTCGG
Found at i:6330 original size:27 final size:27
Alignment explanation
Indices: 6286--6564 Score: 346
Period size: 27 Copynumber: 10.4 Consensus size: 27
6276 TGCGATTTGT
* *
6286 GGGTAAAATGATCAAAATACCCTTGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
* * *
6313 GGTTAAAATGACCGAAATACGCTCGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
* *
6340 GGGTAAAATAACCGAAATACCCTCGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
* *
6367 GGGTAAAATAACCGAAATACCCTCGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
*
6394 GGGTAAAATGATCGAAATACCCTCCAA
1 GGGTAAAATGATCGAAATACCCTCGAA
* *
6421 GGGTAAAATGAAT-AAAACACCCTCGAA
1 GGGTAAAATG-ATCGAAATACCCTCGAA
*
6448 GGGTAAAATGACCGAAATACCCTCGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
*
6475 -GGTAAAATGATTGAAATACCCTCGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
* * * *
6501 GAGTAAAATGATAGAAATACCCCCGAT
1 GGGTAAAATGATCGAAATACCCTCGAA
* * *
6528 GTGTAAAATGATCGAAATACCCCCAAA
1 GGGTAAAATGATCGAAATACCCTCGAA
6555 GGGTAAAATG
1 GGGTAAAATG
6565 TCTGCTATAC
Statistics
Matches: 221, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
26 25 0.11
27 194 0.88
28 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (27 bp):
GGGTAAAATGATCGAAATACCCTCGAA
Found at i:6577 original size:107 final size:108
Alignment explanation
Indices: 6338--6564 Score: 307
Period size: 107 Copynumber: 2.1 Consensus size: 108
6328 AATACGCTCG
* *
6338 AAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAAT
1 AAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCGAAGAGTAAAAT
* * *
6403 GATCGAAATACCCTCCAAGGGTAAAATGAATAAAACACCCTCG
66 GATAGAAATACCCTCCAAGGGTAAAATGAATAAAACACCCCCA
* **
6446 AAGGGTAAAATGACCGAAATACCCTCGAA-GGTAAAATGATTGAAATACCCTCGAAGAGTAAAAT
1 AAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCGAAGAGTAAAAT
* * * *
6510 GATAGAAATACCC-CCGATGTGTAAAATG-ATCGAAATACCCCCA
66 GATAGAAATACCCTCC-AAGGGTAAAATGAAT-AAAACACCCCCA
6553 AAGGGTAAAATG
1 AAGGGTAAAATG
6565 TCTGCTATAC
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
106 4 0.04
107 73 0.70
108 28 0.27
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (108 bp):
AAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCGAAGAGTAAAAT
GATAGAAATACCCTCCAAGGGTAAAATGAATAAAACACCCCCA
Found at i:6810 original size:25 final size:25
Alignment explanation
Indices: 6751--6846 Score: 122
Period size: 25 Copynumber: 3.8 Consensus size: 25
6741 TACTGTTACC
* * *
6751 GGCAGCTTTGCTGCGTTACTGTTATT
1 GGCAGCTTTGCTGCGTTATTATT-CT
6777 GGCAGCTTTGCTGCGTTATTATTCT
1 GGCAGCTTTGCTGCGTTATTATTCT
6802 GGCAGCTTT-CTTGCGTTATTATTCT
1 GGCAGCTTTGC-TGCGTTATTATTCT
* *
6827 GGTAGCTTTGCTGCGATATT
1 GGCAGCTTTGCTGCGTTATT
6847 GGTGTGTTGG
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.02
25 40 0.63
26 22 0.35
ACGTcount: A:0.12, C:0.19, G:0.25, T:0.44
Consensus pattern (25 bp):
GGCAGCTTTGCTGCGTTATTATTCT
Found at i:7211 original size:21 final size:21
Alignment explanation
Indices: 7185--7234 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
7175 ACAACTAAAC
*
7185 TAAACTAAACTTTGTATTGAT
1 TAAACTAAACTTTGTATTCAT
*
7206 TAAACTAAACTTTTTATTCAT
1 TAAACTAAACTTTGTATTCAT
7227 TAAACTAA
1 TAAACTAA
7235 GTGAGTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (21 bp):
TAAACTAAACTTTGTATTCAT
Found at i:7948 original size:121 final size:124
Alignment explanation
Indices: 7725--7970 Score: 471
Period size: 121 Copynumber: 2.0 Consensus size: 124
7715 TTAATGTGTG
7725 TGAAAAGGTGTCAAACTCGTTGAGAGATTCTACAAGCAAGGACAAAGGCAAACCATGGCTTATTA
1 TGAAAAGGTGTCAAACTCGTTGAGAGATTCTACAAGCAAGGACAAAGGCAAACCATGGCTTATTA
7790 AAAGTCAAGATTGCAAGGTGAGTGGTTTGGTGTTCTAAAATAATTAATTTAAAATTTAC
66 AAAGTCAAGATTGCAAGGTGAGTGGTTTGGTGTTCTAAAATAATTAATTTAAAATTTAC
7849 TGAAAA-GTGTCAAACTCGTTGAGAGATTCTACAAGCAAGGAC-AAGGCAAACCATGGCTTATT-
1 TGAAAAGGTGTCAAACTCGTTGAGAGATTCTACAAGCAAGGACAAAGGCAAACCATGGCTTATTA
7911 AAAGTCAAGATTGCAAGGTGAGTGGTTTGGTGTTCTAAAATAATTAATTTAAAATTTAC
66 AAAGTCAAGATTGCAAGGTGAGTGGTTTGGTGTTCTAAAATAATTAATTTAAAATTTAC
7970 T
1 T
7971 TGATAATAAA
Statistics
Matches: 122, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
121 60 0.49
122 20 0.16
123 36 0.30
124 6 0.05
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (124 bp):
TGAAAAGGTGTCAAACTCGTTGAGAGATTCTACAAGCAAGGACAAAGGCAAACCATGGCTTATTA
AAAGTCAAGATTGCAAGGTGAGTGGTTTGGTGTTCTAAAATAATTAATTTAAAATTTAC
Found at i:9600 original size:22 final size:22
Alignment explanation
Indices: 9558--9600 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9548 TGATGTGTAA
*
9558 ATATAATATAATTAATAATAAC
1 ATATAATATAATTAAGAATAAC
9580 ATATAATATAA-TAAGACATAA
1 ATATAATATAATTAAGA-ATAA
9601 GAAAATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (22 bp):
ATATAATATAATTAAGAATAAC
Found at i:16388 original size:43 final size:43
Alignment explanation
Indices: 16029--16387 Score: 441
Period size: 43 Copynumber: 8.3 Consensus size: 43
16019 TTTTAGAAAT
* * * * * **
16029 AAACGCCGCTAAAGAACAAGGCCTTTAGCGACGCTATTCTGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
16072 AAACGCCGCTAATAG-CCATGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAA-AGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
16115 AAACGCCGCTAAAGACCATGACCTTTAACGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
16158 AAACGTCACTAAAGACCATGACCTTTAGTGGCACTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
16201 AAACGCCGCTAAAGACCATGACATTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
16244 AAACGCCGTTAATGACCAAGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
16287 AAACACCGCTAAAGACTATGACCTTTAGTGGCGATTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * **
16330 AAACGCCTCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
16373 AAATGCCGCTAAAGA
1 AAACGCCGCTAAAGA
16388 ATAAACCTTT
Statistics
Matches: 269, Mismatches: 45, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
42 2 0.01
43 265 0.99
44 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:20567 original size:14 final size:15
Alignment explanation
Indices: 20539--20569 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
20529 ACATAAATCG
20539 TAAACCCCTAACCCT
1 TAAACCCCTAACCCT
20554 TAAACCCC-AACCCT
1 TAAACCCCTAACCCT
20568 TA
1 TA
20570 TAATTGTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
TAAACCCCTAACCCT
Found at i:21628 original size:41 final size:40
Alignment explanation
Indices: 21516--21709 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
21506 TAAATCTGAG
* * * * *
21516 CATTAGCGGCCCTTTTCAACAAACACCGCTAAAGCCCTGAG
1 CATTAGCGGCGCTTTTTAA-AAACGCCGCTAAAGCCCTAAA
* * *
21557 CATTAGCGGCGCTTATTAAAAATGCCGCTAAATCCCTAAA
1 CATTAGCGGCGCTTTTTAAAAACGCCGCTAAAGCCCTAAA
* * *
21597 CATTAGCGTCGCTTCTTTAAAAACGCCGCTAAAGCCCTGAG
1 CATTAGCGGCGCTT-TTTAAAAACGCCGCTAAAGCCCTAAA
* * *
21638 CATTAGCGGCGCTTTTAAAAAACGCCGCTAAAACCCAAAA
1 CATTAGCGGCGCTTTTTAAAAACGCCGCTAAAGCCCTAAA
* *
21678 CATTAGCGGCGCTTTTTCAAAATCGCCACTAA
1 CATTAGCGGCGCTTTTT-AAAAACGCCGCTAA
21710 TGCCTCAAAA
Statistics
Matches: 128, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
40 66 0.52
41 62 0.48
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (40 bp):
CATTAGCGGCGCTTTTTAAAAACGCCGCTAAAGCCCTAAA
Found at i:21631 original size:81 final size:81
Alignment explanation
Indices: 21516--21709 Score: 268
Period size: 81 Copynumber: 2.4 Consensus size: 81
21506 TAAATCTGAG
* *
21516 CATTAGCGGC-CCTTTTCAACAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTATT-AAAAA
1 CATTAGCGGCGCTTTTTCAA-AAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT-TTAAAAAA
* * *
21579 TGCCGCTAAATCCCTAAA
64 CGCCGCTAAAACCCAAAA
*
21597 CATTAGCGTCGCTTCTTT-AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTAAAAAAC
1 CATTAGCGGCGCTT-TTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTAAAAAAC
21661 GCCGCTAAAACCCAAAA
65 GCCGCTAAAACCCAAAA
* *
21678 CATTAGCGGCGCTTTTTCAAAATCGCCACTAA
1 CATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
21710 TGCCTCAAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
80 5 0.05
81 88 0.88
82 4 0.04
83 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (81 bp):
CATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTAAAAAACG
CCGCTAAAACCCAAAA
Found at i:21838 original size:40 final size:40
Alignment explanation
Indices: 21788--21871 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
21778 CTAATGCTCA
* *
21788 TTTAGAAAGCGCCGCTAATACTTGATCTTTAGTGGCATTT
1 TTTAAAAAGCGCCGCTAATACTTGATCTTTAGCGGCATTT
* * * *
21828 TTTAAAAAGCGCCGTTAATGCTTGATTTTTAGCGGCGTTT
1 TTTAAAAAGCGCCGCTAATACTTGATCTTTAGCGGCATTT
21868 TTTA
1 TTTA
21872 TCCAAGCGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.40
Consensus pattern (40 bp):
TTTAAAAAGCGCCGCTAATACTTGATCTTTAGCGGCATTT
Found at i:24438 original size:9 final size:9
Alignment explanation
Indices: 24424--24448 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24414 TGTGTAAATG
24424 TAATATAAT
1 TAATATAAT
24433 TAATATAAT
1 TAATATAAT
24442 TAATATA
1 TAATATA
24449 TAATTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATATAAT
Found at i:26565 original size:19 final size:19
Alignment explanation
Indices: 26541--26580 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
26531 ATGATTTATA
26541 TAAGTACTTAGATGATATT
1 TAAGTACTTAGATGATATT
26560 TAAGTACTTAGATGATATT
1 TAAGTACTTAGATGATATT
26579 TA
1 TA
26581 GGATGTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (19 bp):
TAAGTACTTAGATGATATT
Found at i:33257 original size:20 final size:21
Alignment explanation
Indices: 33234--33277 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
33224 GGTATGCAGT
33234 TTTTAG-ATGATTTA-AATGTG
1 TTTTAGTATG-TTTATAATGTG
*
33254 TTTTAGTTTGTTTATAATGTG
1 TTTTAGTATGTTTATAATGTG
33275 TTT
1 TTT
33278 GTAATGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.59
Consensus pattern (21 bp):
TTTTAGTATGTTTATAATGTG
Found at i:35249 original size:32 final size:32
Alignment explanation
Indices: 35211--35337 Score: 159
Period size: 32 Copynumber: 4.0 Consensus size: 32
35201 CCATAAGTAC
* * *
35211 AGTAATATGATTGGCACAAAACCATCAGTAGT
1 AGTAATATGATCGGCACAAAGCCATCAGTAGA
35243 AGTAATATGATCGGCACAAAGCCATCAGTAGA
1 AGTAATATGATCGGCACAAAGCCATCAGTAGA
* *
35275 AGTGATATGATCGGCACACAGCCTAT-AGTA-A
1 AGTAATATGATCGGCACAAAGCC-ATCAGTAGA
* *
35306 CGGTAATATGATCGGCACAAAGCCATTAGTAG
1 -AGTAATATGATCGGCACAAAGCCATCAGTAG
35338 CATCGCAGCA
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
31 3 0.04
32 78 0.94
33 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (32 bp):
AGTAATATGATCGGCACAAAGCCATCAGTAGA
Found at i:35368 original size:26 final size:26
Alignment explanation
Indices: 35339--35404 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
35329 CATTAGTAGC
*
35339 ATCGCAGCAAAGCTGCCAACAATAGT
1 ATCGTAGCAAAGCTGCCAACAATAGT
*
35365 ATCGTAGAAAAGCTGCCAACAATAGT
1 ATCGTAGCAAAGCTGCCAACAATAGT
*
35391 AACGTAGCAAAGCT
1 ATCGTAGCAAAGCT
35405 ACAGTAACAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.17
Consensus pattern (26 bp):
ATCGTAGCAAAGCTGCCAACAATAGT
Found at i:35588 original size:24 final size:24
Alignment explanation
Indices: 35505--35639 Score: 117
Period size: 24 Copynumber: 5.6 Consensus size: 24
35495 GCCATGCACA
** *
35505 AAATCAGTCATACAATTCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
*** *
35529 AAATCAGTCATACCAATCACAAAC
1 AAATCAGTCATTTAAATCACAGAC
*
35553 AAATCAGTCATTTAAATCATAGAC
1 AAATCAGTCATTTAAATCACAGAC
* * *
35577 AAATCAGTCATTTATATCTCGGAC
1 AAATCAGTCATTTAAATCACAGAC
* * * * *
35601 AAATTAATCACTTACATCACAGAT
1 AAATCAGTCATTTAAATCACAGAC
*
35625 AAATCAATCATTTAA
1 AAATCAGTCATTTAA
35640 CCTCGAGGGC
Statistics
Matches: 89, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 89 1.00
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.27
Consensus pattern (24 bp):
AAATCAGTCATTTAAATCACAGAC
Found at i:35790 original size:27 final size:27
Alignment explanation
Indices: 35704--35799 Score: 142
Period size: 26 Copynumber: 3.6 Consensus size: 27
35694 TAACAGAGGT
*
35704 ATTACAATCATTTTAC-CTACAGGGGC
1 ATTACGATCATTTTACACTACAGGGGC
* * *
35730 ATCACGGTCATTTTACCCTACA-GGGC
1 ATTACGATCATTTTACACTACAGGGGC
35756 ATTACGATCATTTTACACTACAGGGGC
1 ATTACGATCATTTTACACTACAGGGGC
35783 ATTACGATCATTTTACA
1 ATTACGATCATTTTACA
35800 AATATTGAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
26 36 0.58
27 26 0.42
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (27 bp):
ATTACGATCATTTTACACTACAGGGGC
Done.