Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold756
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: 28434
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Found at i:3169 original size:20 final size:22
Alignment explanation
Indices: 3144--3183 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3134 TGATGTTCCA
3144 ATCATG-GTG-AAAAAGTTAAC
1 ATCATGAGTGTAAAAAGTTAAC
*
3164 ATCATGAGTGTAAAGAGTTA
1 ATCATGAGTGTAAAAAGTTA
3184 CCTTATCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 3 0.18
22 8 0.47
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (22 bp):
ATCATGAGTGTAAAAAGTTAAC
Found at i:8830 original size:20 final size:22
Alignment explanation
Indices: 8793--8832 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
8783 GTAGATAAGG
8793 TAACTCTTTACACTCATGATGT
1 TAACTCTTTACACTCATGATGT
*
8815 TAACT-TTTTCAC-CATGAT
1 TAACTCTTTACACTCATGAT
8833 TGGAACATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (22 bp):
TAACTCTTTACACTCATGATGT
Found at i:15141 original size:20 final size:19
Alignment explanation
Indices: 15116--15171 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
15106 GAATGTATCG
* *
15116 AATGTATCGATATATTCTTT
1 AATGTATCGATACATTC-AT
15136 AATGTATCGATACATTCAT
1 AATGTATCGATACATTCAT
15155 ACATGTATCGATACATT
1 A-ATGTATCGATACATT
15172 GAAAAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (19 bp):
AATGTATCGATACATTCAT
Found at i:15943 original size:48 final size:48
Alignment explanation
Indices: 15881--16188 Score: 374
Period size: 48 Copynumber: 6.5 Consensus size: 48
15871 AGAGGAGTGC
** * *
15881 CAATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* * *
15929 CAATGTGCTGATTCAAGGCCAGTGACATTAAGCTAAGGGAACAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* *
15977 CAATGTGCTGATTCAAGGCAAGTGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* * *
16025 CAACGTGCTGATTCAGGGCCAGCGACATTGAGCTAAAGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* * *
16073 CAATGTGCTGATTCAAGGCCAGTGACATTGAGCTAA--TAAAGGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* * * * * *
16119 CAACGTGTTGATTCAAGGCTAGCGACATTGAGCTAA--TAAAGGT-GC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* *
16164 CAATATGCTGATTCAATGCCAGCGA
1 CAATGTGCTGATTCAAGGCCAGCGA
16189 TATCGGACTT
Statistics
Matches: 230, Mismatches: 30, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
45 21 0.09
46 47 0.20
48 162 0.70
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
Found at i:16345 original size:32 final size:31
Alignment explanation
Indices: 16249--16726 Score: 261
Period size: 32 Copynumber: 15.8 Consensus size: 31
16239 GACTTGCATA
* * * * *
16249 GGCTTAAAAAAAGGTGCCACTAACTTATGTG
1 GGCTTTAAAAGAGTTGCCACTGACTTGTGTG
* *
16280 GGCTTT-GAAGAGATGCCACTGAC-T-TGTG
1 GGCTTTAAAAGAGTTGCCACTGACTTGTGTG
*
16308 GGCTTTAAAAAGAGTTGCCACTAACTTGTGTG
1 GGCTTT-AAAAGAGTTGCCACTGACTTGTGTG
* * *
16340 GGCTTTGAAAGGGTGTGCCATTGAC-T-TGTG
1 GGCTTTAAAAGAGT-TGCCACTGACTTGTGTG
* *
16370 GGCTTTGAAAG-GGTGCCACTGAAC-T-TGTG
1 GGCTTTAAAAGAGTTGCCACTG-ACTTGTGTG
*
16399 GGCTTTGAAAAG-GATGCCACTGAC-T-TGTG
1 GGCTTT-AAAAGAGTTGCCACTGACTTGTGTG
*
16428 GGCTTTGAAAAGA--TGCCACTGA-GT-TGTG
1 GGCTTT-AAAAGAGTTGCCACTGACTTGTGTG
* *
16456 GGCTTTGAAAG-GATGCCACTGAC-T-TGTG
1 GGCTTTAAAAGAGTTGCCACTGACTTGTGTG
* *
16484 GGCTTTGAAATGGGTTGCCA-TCGACTTGTGTG
1 GGCTTT-AAAAGAGTTGCCACT-GACTTGTGTG
* * *
16516 GGCTTTGAAAG-GATGCCACTGACTTGTGTA
1 GGCTTTAAAAGAGTTGCCACTGACTTGTGTG
* * * **
16546 AGCTTTCAAATGGGTTGCCACCAACTTGTGTG
1 GGCTTT-AAAAGAGTTGCCACTGACTTGTGTG
* * * **
16578 AGCTTTGAAATGGGTTGCCACCAACTTGTGTG
1 GGCTTT-AAAAGAGTTGCCACTGACTTGTGTG
** * *
16610 GGCTTTCAAATTAGTTGCCACCGACTTGTATG
1 GGCTTT-AAAAGAGTTGCCACTGACTTGTGTG
* *
16642 GGCTTTGAAATGGGTTGCCA-TCGACTTGTGTG
1 GGCTTT-AAAAGAGTTGCCACT-GACTTGTGTG
* * *
16674 GTC-ATAAAA-ATGGTGCCACTGA-TT-TGTG
1 GGCTTTAAAAGA-GTTGCCACTGACTTGTGTG
** *
16702 GGCTTTGGAAG-GGTGCCACTGACTT
1 GGCTTTAAAAGAGTTGCCACTGACTT
16727 ATGGGCTTAA
Statistics
Matches: 369, Mismatches: 52, Indels: 54
0.78 0.11 0.11
Matches are distributed among these distances:
27 4 0.01
28 74 0.20
29 45 0.12
30 95 0.26
31 23 0.06
32 128 0.35
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (31 bp):
GGCTTTAAAAGAGTTGCCACTGACTTGTGTG
Found at i:16544 original size:30 final size:29
Alignment explanation
Indices: 16258--16804 Score: 341
Period size: 28 Copynumber: 18.4 Consensus size: 29
16248 AGGCTTAAAA
*
16258 AAAGG-TGCCACTAACTTATGTGGGCTTTG
1 AAAGGTTGCCACTGACTT-TGTGGGCTTTG
* *
16287 -AAGAGATGCCACTGAC-TTGTGGGCTTTAA
1 AAAG-GTTGCCACTGACTTTGTGGGCTTT-G
*
16316 AAAGAGTTGCCACTAACTTGTGTGGGCTTTG
1 AAAG-GTTGCCACTGACTT-TGTGGGCTTTG
*
16347 AAAGGGTGTGCCATTGAC-TTGTGGGCTTTG
1 AAA-GGT-TGCCACTGACTTTGTGGGCTTTG
*
16377 AAAGGGTGCCACTGAAC-TTGTGGGCTTTG
1 AAAGGTTGCCACTG-ACTTTGTGGGCTTTG
*
16406 AAAAGGATGCCACTGAC-TTGTGGGCTTTG
1 -AAAGGTTGCCACTGACTTTGTGGGCTTTG
* * *
16435 AAAAGATGCCACTGA-GTTGTGGGCTTTG
1 AAAGGTTGCCACTGACTTTGTGGGCTTTG
*
16463 AAAGGATGCCACTGAC-TTGTGGGCTTTG
1 AAAGGTTGCCACTGACTTTGTGGGCTTTG
16491 AAATGGGTTGCCA-TCGACTTGTGTGGGCTTTG
1 AAA--GGTTGCCACT-GACTT-TGTGGGCTTTG
* ** *
16523 AAAGGATGCCACTGACTTGTGTAAGCTTTC
1 AAAGGTTGCCACTGACTT-TGTGGGCTTTG
** *
16553 AAATGGGTTGCCACCAACTTGTGTGAGCTTTG
1 AAA--GGTTGCCACTGACTT-TGTGGGCTTTG
** *
16585 AAATGGGTTGCCACCAACTTGTGTGGGCTTTC
1 AAA--GGTTGCCACTGACTT-TGTGGGCTTTG
* * *
16617 AAATTAGTTGCCACCGACTTGTATGGGCTTTG
1 AAA--GGTTGCCACTGACTT-TGTGGGCTTTG
* * **
16649 AAATGGGTTGCCA-TCGACTTGTGTGGTCATAA
1 AAA--GGTTGCCACT-GACTT-TGTGGGCTTTG
16681 AAATGG-TGCCACTGA-TTTGTGGGCTTTG
1 AAA-GGTTGCCACTGACTTTGTGGGCTTTG
* * * **
16709 GAAGGGTGCCACTGAC-TTATGGGCTTAA
1 AAAGGTTGCCACTGACTTTGTGGGCTTTG
* ** *
16737 AAAGGGTGCCA-TGAAATTGTGGACTTTG
1 AAAGGTTGCCACTGACTTTGTGGGCTTTG
* * * * **
16765 GAAGGGTGCCACTAAC-ATGTGGGCTTAA
1 AAAGGTTGCCACTGACTTTGTGGGCTTTG
*
16793 AAAGGATGCCAC
1 AAAGGTTGCCAC
16805 GAAGTTGTGG
Statistics
Matches: 431, Mismatches: 61, Indels: 53
0.79 0.11 0.10
Matches are distributed among these distances:
27 5 0.01
28 148 0.34
29 37 0.09
30 91 0.21
31 12 0.03
32 138 0.32
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (29 bp):
AAAGGTTGCCACTGACTTTGTGGGCTTTG
Found at i:16627 original size:64 final size:64
Alignment explanation
Indices: 16271--16674 Score: 298
Period size: 64 Copynumber: 6.7 Consensus size: 64
16261 GGTGCCACTA
* * * * * * * **
16271 ACTTATGTGGGCTTTG-AA-GAGATGCCACTGAC-T-TGTGGGCTTTAAAAAGAGTTGCCACTA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTCAAATGGGTTGCCACCG
** * *
16331 ACTTGTGTGGGCTTTGAAA-GGGTGTGCCATTGAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGT-TGCCACCGACTTGTGTGGGCTTTCAAATGGGTTGCCACCG
* * * * * * *
16391 AAC-T-TGTGGGCTTTGAAA-AGGATGCCACTGAC-T-TGTGGGCTTTGAAA--AGATGCCACTG
1 -ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTCAAATGGGTTGCCACCG
* * * * *
16449 A-GT-TGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAATGGGTTGCCATCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTCAAATGGGTTGCCACCG
* * ** *
16507 ACTTGTGTGGGCTTTGAAA--GGATGCCACTGACTTGTGTAAGCTTTCAAATGGGTTGCCACCA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTCAAATGGGTTGCCACCG
* * **
16569 ACTTGTGTGAGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATTAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTCAAATGGGTTGCCACCG
* *
16633 ACTTGTATGGGCTTTGAAATGGGTTGCCATCGACTTGTGTGG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
16675 TCATAAAAAT
Statistics
Matches: 297, Mismatches: 34, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
56 28 0.09
57 17 0.06
58 40 0.13
59 17 0.06
60 50 0.17
61 9 0.03
62 63 0.21
64 73 0.25
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.31
Consensus pattern (64 bp):
ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTCAAATGGGTTGCCACCG
Found at i:16830 original size:27 final size:27
Alignment explanation
Indices: 16736--17098 Score: 289
Period size: 27 Copynumber: 13.2 Consensus size: 27
16726 TATGGGCTTA
* * *
16736 AAAAGGGTGCCATGAAATTGTGGACTTT
1 AAAAGGATGCCACGAAGTTGTGGAC-TT
** * * ** *
16764 GGAAGGGTGCCACTAACATGTGGGCTT
1 AAAAGGATGCCACGAAGTTGTGGACTT
16791 AAAAAGGATGCCACGAAGTTGTGGACTT
1 -AAAAGGATGCCACGAAGTTGTGGACTT
16819 AAAAGGATGCCACGAAGTTGTGGACTT
1 AAAAGGATGCCACGAAGTTGTGGACTT
*
16846 AAAA-GAGTGCCACAAAGTTGTGGACTT
1 AAAAGGA-TGCCACGAAGTTGTGGACTT
* * *
16873 AAAAGGGTGCCACGGAGTTATGGACTTT
1 AAAAGGATGCCACGAAGTTGTGGAC-TT
* * * * *
16901 AAAAGAACGCAACGGAGTTGTGAACTT
1 AAAAGGATGCCACGAAGTTGTGGACTT
* * * * *
16928 AAAAGGGTGCAATGGAGTGGTGGACTT
1 AAAAGGATGCCACGAAGTTGTGGACTT
* * *
16955 TAAAGGATGCCGCGGAGTTGTGGACTTT
1 AAAAGGATGCCACGAAGTTGTGGAC-TT
* * *
16983 AAAAGGGTGCCACGGAGTTATGGACTTT
1 AAAAGGATGCCACGAAGTTGTGGAC-TT
* *
17011 AAAAGGATGCCATGAAGTTGTAGACTT
1 AAAAGGATGCCACGAAGTTGTGGACTT
* *
17038 AAAAAGATGCCACGGAGTTGTGGACCTT
1 AAAAGGATGCCACGAAGTTGTGGA-CTT
* * *
17066 GAAAAGAAAGCCACTGAA-TCGTGGACTT
1 -AAAAGGATGCCAC-GAAGTTGTGGACTT
*
17094 TAAAG
1 AAAAG
17099 AGGTCACAGT
Statistics
Matches: 271, Mismatches: 56, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.01
27 139 0.51
28 112 0.41
29 16 0.06
30 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (27 bp):
AAAAGGATGCCACGAAGTTGTGGACTT
Found at i:16928 original size:55 final size:55
Alignment explanation
Indices: 16710--17098 Score: 334
Period size: 55 Copynumber: 7.1 Consensus size: 55
16700 TGGGCTTTGG
* * * * * ** * * **
16710 AAGGGTGCCACTGACTTATGGGCTTAAAAAGGGTGCCATGAAATTGTGGACTTTGG
1 AAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGAAGTTGTGGAC-TTAA
** ** * * *
16766 AAGGGTGCCACTAACATGTGGGCTTAAAAAGGATGCCACGAAGTTGTGGACTTAA
1 AAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGAAGTTGTGGACTTAA
* * * *
16821 AAGGATGCCACGAAGTTGTGGAC-TTAAAAGAGTGCCACAAAGTTGTGGACTTAA
1 AAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGAAGTTGTGGACTTAA
* * * * *
16875 AAGGGTGCCACGGAGTTATGGACTTTAAAAGAACGCAACGGAGTTGTGAACTTAA
1 AAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGAAGTTGTGGACTTAA
* * * * * *
16930 AAGGGTGCAATGGAGTGGTGGACTTT-AAAGGATGCCGCGGAGTTGTGGACTTTAA
1 AAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGAAGTTGTGGAC-TTAA
* * * *
16985 AAGGGTGCCACGGAGTTATGGACTTTAAAAGGATGCCATGAAGTTGTAGACTTAA
1 AAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGAAGTTGTGGACTTAA
* * * * * *
17040 AAAGATGCCACGGAGTTGTGGACCTTGAAAAGAAAGCCACTGAA-TCGTGGACTTTA
1 AAGGGTGCCACGGAGTTGTGGA-CTTTAAAAGAATGCCAC-GAAGTTGTGGACTTAA
17096 AAG
1 AAG
17099 AGGTCACAGT
Statistics
Matches: 274, Mismatches: 54, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
54 66 0.24
55 116 0.42
56 89 0.32
57 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.23
Consensus pattern (55 bp):
AAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGAAGTTGTGGACTTAA
Found at i:18270 original size:20 final size:19
Alignment explanation
Indices: 18215--18270 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
18205 AAAACCCTTA
*
18215 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
18235 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
18255 AATGTATCGATACATG
1 AAAGTATCGATACATG
18271 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:18358 original size:13 final size:13
Alignment explanation
Indices: 18340--18365 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18330 TACACAAAGT
18340 ATGTATCGATACA
1 ATGTATCGATACA
18353 ATGTATCGATACA
1 ATGTATCGATACA
18366 CAAAAAAATT
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):
ATGTATCGATACA
Found at i:18384 original size:34 final size:32
Alignment explanation
Indices: 18322--18386 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
18312 TAGCCAAACT
**
18322 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
18354 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
18387 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:18887 original size:34 final size:35
Alignment explanation
Indices: 18824--18890 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
18814 CTAAGTGATT
18824 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
18860 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
18891 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:23428 original size:13 final size:13
Alignment explanation
Indices: 23410--23435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23400 TACACAAAGT
23410 ATGTATCGATACA
1 ATGTATCGATACA
23423 ATGTATCGATACA
1 ATGTATCGATACA
23436 CAAAAAATTG
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):
ATGTATCGATACA
Found at i:23433 original size:32 final size:33
Alignment explanation
Indices: 23392--23455 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
23382 TAGCCAAACT
**
23392 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
23424 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
23456 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:23956 original size:34 final size:35
Alignment explanation
Indices: 23893--23959 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
23883 CTAAGTGATT
23893 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
23929 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
23960 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:24665 original size:35 final size:36
Alignment explanation
Indices: 24607--24675 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 36
24597 TTTTTTTGGA
* *
24607 TTTTTTGTTGTTCTTTCTTTATTT-TGCTTTTGCAC
1 TTTTTTGTTGTTCTTTCTATATTTGTACTTTTGCAC
*
24642 TTTTTTGTTTTTCTTT-TCATATTTGTACTTTTGC
1 TTTTTTGTTGTTCTTTCT-ATATTTGTACTTTTGC
24676 TTTTGATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 1 0.03
35 20 0.69
36 8 0.28
ACGTcount: A:0.07, C:0.13, G:0.10, T:0.70
Consensus pattern (36 bp):
TTTTTTGTTGTTCTTTCTATATTTGTACTTTTGCAC
Done.