Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2546
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: 25968
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Found at i:2011 original size:27 final size:27
Alignment explanation
Indices: 1981--2339 Score: 355
Period size: 27 Copynumber: 13.3 Consensus size: 27
1971 TTAGTTTACC
1981 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
2008 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
2035 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
2062 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
2089 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
2116 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
2143 AAATTACCAAAATACGACTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
2170 AAATT-CCAAAATACTCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
2196 AAATTATCAGAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * *
2223 AAATTACCAAAATAAACCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
2250 AAATTACTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
2277 AAATTATGGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * * *
2304 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
2331 GAATTACCA
1 AAATTACCA
2340 TTTTACCCTC
Statistics
Matches: 273, Mismatches: 56, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
26 27 0.10
27 243 0.89
28 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:2291 original size:134 final size:135
Alignment explanation
Indices: 1981--2282 Score: 358
Period size: 134 Copynumber: 2.2 Consensus size: 135
1971 TTAGTTTACC
* * * * * * *
1981 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATAC-CCTTGGTTTATAAAATCACCAA
1 AAATTACTAAAATACCCTTCGCTTATAAAATTACCAAAATACGAC-TGGTTTATAAAATCACCAA
* ** *
2045 AATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGG
65 AATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATAAACCTGA
2110 TTTGTA
130 TTTGTA
* * * *
2116 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACGACTGGTTTGTAAAAT-TCCAAA
1 AAATTACTAAAATACCCTTCGCTTATAAAATTACCAAAATACGACTGGTTTATAAAATCACCAAA
* * * * **
2180 ATACTCCTGGTTTGTAAAATTATCAGAATACCCTTAGTTTGTAAAATTACCAAAATAAACCTGAT
66 ATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATAAACCTGAT
*
2245 TTGTG
131 TTGTA
*
2250 AAATTACTAAAATACCC-TCGACTTGTAAAATTA
1 AAATTACTAAAATACCCTTCG-CTTATAAAATTA
2283 TGGAAATACC
Statistics
Matches: 143, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
133 2 0.01
134 91 0.64
135 49 0.34
136 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (135 bp):
AAATTACTAAAATACCCTTCGCTTATAAAATTACCAAAATACGACTGGTTTATAAAATCACCAAA
ATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATAAACCTGAT
TTGTA
Found at i:2303 original size:134 final size:135
Alignment explanation
Indices: 2033--2376 Score: 347
Period size: 134 Copynumber: 2.6 Consensus size: 135
2023 CCTTGGTTTA
* *
2033 TAAAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCA
1 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCA
** * * *
2098 AAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACGACTG
66 AAATAAACCTGATTTGTAAAATTACTAAAATACCCTTCGCTTATAAAATTACCAAAATACGACTG
**
2163 GTTTG
131 ACTTG
* * * * **
2168 TAAAATT-CCAAAATACTCCTGGTTTGTAAAATTATCAGAATACCCTTAGTTTGTAAAATTACCA
1 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCA
* * *** *
2232 AAATAAACCTGATTTGTGAAATTACTAAAATACCC-TCGACTTGTAAAATTATGGAAATAC-CCT
66 AAATAAACCTGATTTGTAAAATTACTAAAATACCCTTCG-CTTATAAAATTACCAAAATACGACT
2295 CGACTTG
130 -GACTTG
* * * * *** *
2302 TAAAATTACCAAAGTA-CCCTTGATTTATAGAATTACCATTTTACCC-TCGATTTACAAAATTAC
1 TAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCTTAG-TTTACAAAATTAC
*
2365 CAAAATACACCT
64 CAAAATAAACCT
2377 ATAGGGTAGA
Statistics
Matches: 170, Mismatches: 34, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
133 4 0.02
134 114 0.67
135 52 0.31
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (135 bp):
TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCA
AAATAAACCTGATTTGTAAAATTACTAAAATACCCTTCGCTTATAAAATTACCAAAATACGACTG
ACTTG
Found at i:2389 original size:27 final size:27
Alignment explanation
Indices: 2359--2535 Score: 246
Period size: 27 Copynumber: 6.6 Consensus size: 27
2349 CGATTTACAA
* * *
2359 AATTACCAAAATACACCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
2386 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
2413 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
2440 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
2467 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
2494 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
2521 AATTACCGAGATACC
1 AATTACCGAAATACC
2536 TTTTGGGGTA
Statistics
Matches: 133, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:3032 original size:22 final size:22
Alignment explanation
Indices: 2980--3044 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
2970 TTAAAGCCTT
* *
2980 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTGTGTGCCAAC
*
3002 CT-ACATATGGCTGTGTGCCAAC
1 CTGA-TTATGGCTGTGTGCCAAC
3024 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTGTGTGCCAA
3045 ACGTATTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTGTGTGCCAAC
Found at i:3241 original size:26 final size:27
Alignment explanation
Indices: 3202--3276 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
3192 TATTCTGTTA
*
3202 AGTGGCT-TTGCCACATTATCTGT-TCT
1 AGTGGCTCTT-CCACAATATCTGTATCT
*
3228 GGTGGCTCTTCCACAATATCTGTATCT
1 AGTGGCTCTTCCACAATATCTGTATCT
*
3255 AGTGACTCTGT-CACAATATCTG
1 AGTGGCTCT-TCCACAATATCTG
3277 ATAACTGAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 18 0.43
27 23 0.55
28 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (27 bp):
AGTGGCTCTTCCACAATATCTGTATCT
Found at i:3450 original size:6 final size:6
Alignment explanation
Indices: 3439--3572 Score: 105
Period size: 6 Copynumber: 21.8 Consensus size: 6
3429 ATTCTGTTAC
* * * *
3439 CTGATA CTGATA CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * *
3488 TTGATT CTG-TT ACCTGATA CTGATT CTGATT CTGATT CTAATT CTG-TCAC
1 CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT CTGATT CTGAT--T
3538 CTGATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
3573 AATGTTTCTT
Statistics
Matches: 104, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
5 6 0.06
6 85 0.82
7 10 0.10
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:3467 original size:31 final size:31
Alignment explanation
Indices: 3416--3526 Score: 186
Period size: 31 Copynumber: 3.5 Consensus size: 31
3406 TTGCATTCAC
*
3416 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
3448 ATACTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3479 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
3510 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
3527 AATTCTGTCA
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 69 0.92
32 6 0.08
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:3480 original size:37 final size:37
Alignment explanation
Indices: 3439--3561 Score: 141
Period size: 37 Copynumber: 3.5 Consensus size: 37
3429 ATTCTGTTAC
*
3439 CTGATACTGATACTGATTTTGATTCTGTTA-C-----
1 CTGATACTGATTCTGATTTTGATTCTGTTACCTGATA
3470 CTGATACTGATTCTGATTTTGATTCTGTTACCTGATA
1 CTGATACTGATTCTGATTTTGATTCTGTTACCTGATA
* * * * *
3507 CTGATTCTGATTCTGATTCTAATTCTGTCACCTGATT
1 CTGATACTGATTCTGATTTTGATTCTGTTACCTGATA
*
3544 CTGATTCTGATTCTGATT
1 CTGATACTGATTCTGATT
3562 CTAGTTCTGA
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
31 29 0.36
32 1 0.01
37 50 0.62
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.46
Consensus pattern (37 bp):
CTGATACTGATTCTGATTTTGATTCTGTTACCTGATA
Found at i:3542 original size:31 final size:31
Alignment explanation
Indices: 3429--3563 Score: 153
Period size: 31 Copynumber: 4.2 Consensus size: 31
3419 CTGATTTTTT
* * *
3429 ATTCTGTTACCTGATACTGATACTGATTTTG
1 ATTCTGTCACCTGATACTGATTCTGATTCTG
* *
3460 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTCACCTGATACTGATTCTGATTCTG
*
3491 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTCACCTGATACTGATTCTGATTCTG
*
3522 ATTCTAATTCTGTCACCTGATTCTGATTCTGATTCTG
1 ------ATTCTGTCACCTGATACTGATTCTGATTCTG
3559 ATTCT
1 ATTCT
3564 AGTTCTGATA
Statistics
Matches: 94, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
31 65 0.69
37 29 0.31
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGTCACCTGATACTGATTCTGATTCTG
Found at i:3562 original size:37 final size:37
Alignment explanation
Indices: 3470--3570 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
3460 ATTCTGTTAC
* * * *
3470 CTGATACTGATTCTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTGATA
*
3507 CTGATTCTGATTCTGATTCTAATTCTGTCACCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTGATA
*
3544 CTGATTCTGATTCTGATTCTAGTTCTG
1 CTGATTCTGATTCTGATTCTAATTCTG
3571 ATAATGTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTGTCACCTGATA
Found at i:6545 original size:119 final size:120
Alignment explanation
Indices: 6371--6610 Score: 428
Period size: 119 Copynumber: 2.0 Consensus size: 120
6361 ACAAATGCGG
**
6371 CCCTAATGTCTAGGCCGGGTTTGGGGTGTTACAAATCATATACCTTGAGTGTACTACTTGAGCCT
1 CCCTAATGTCTAGGCCAAGTTTGGGGTGTTACAAATCATATACCTTGAGTGTACTACTTGAGCCT
6436 TCATCAGGATTTCAAAGATTCAATGGATATATAACTCTTGACTTGGCATAAAAAT
66 TCATCAGGATTTCAAAGATTCAATGGATATATAACTCTTGACTTGGCATAAAAAT
* *
6491 CCCTAATGTCTAGGCCAAG-TTGGGGTGTTACAAATCATATATCTTGAGTGTACTACTTGGGCCT
1 CCCTAATGTCTAGGCCAAGTTTGGGGTGTTACAAATCATATACCTTGAGTGTACTACTTGAGCCT
*
6555 TCATCAGGATTTCAAAGATTCAATGGATATATAACTCTTGACTTGGCATGAAAAT
66 TCATCAGGATTTCAAAGATTCAATGGATATATAACTCTTGACTTGGCATAAAAAT
6610 C
1 C
6611 TTGAGATAAA
Statistics
Matches: 115, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
119 98 0.85
120 17 0.15
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (120 bp):
CCCTAATGTCTAGGCCAAGTTTGGGGTGTTACAAATCATATACCTTGAGTGTACTACTTGAGCCT
TCATCAGGATTTCAAAGATTCAATGGATATATAACTCTTGACTTGGCATAAAAAT
Found at i:12443 original size:40 final size:40
Alignment explanation
Indices: 12388--12482 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
12378 TGATAACTGG
* *
12388 GCTAAGTCCCGAAGGCGTTTGCGCTAGTGACTAGT-TCCGA
1 GCTAAGTCCCGAAGGCATTTGCGCGAGTGACTA-TATCCGA
* * *
12428 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGCGCGAGTGACTATATCCGA
12468 GCTAAGTCCCGAAGG
1 GCTAAGTCCCGAAGG
12483 TATTCATGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
39 1 0.02
40 48 0.98
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGCGCGAGTGACTATATCCGA
Found at i:17129 original size:6 final size:6
Alignment explanation
Indices: 17120--17155 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
17110 TGATGATGAA
17120 AAAAAG AAAAAG --AAAG AAAAAG AAAAA- AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
17156 GGCTCTCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 4 0.15
5 5 0.19
6 18 0.67
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:17137 original size:10 final size:10
Alignment explanation
Indices: 17118--17156 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
17108 AATGATGATG
17118 AAAA-AAAGA
1 AAAAGAAAGA
17127 AAAAGAAAGA
1 AAAAGAAAGA
*
17137 AAAAGAAAAAA
1 AAAAG-AAAGA
17148 AAAAGAAAG
1 AAAAGAAAG
17157 GCTCTCATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 4 0.15
10 13 0.50
11 9 0.35
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:18465 original size:40 final size:40
Alignment explanation
Indices: 18410--18640 Score: 376
Period size: 40 Copynumber: 5.8 Consensus size: 40
18400 TGGATGATAA
* * *
18410 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
18450 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
18490 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
18530 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
18570 CCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
18609 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
18641 GAGCTTCGAG
Statistics
Matches: 182, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 38 0.21
40 144 0.79
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21320 original size:93 final size:94
Alignment explanation
Indices: 21160--21430 Score: 456
Period size: 93 Copynumber: 2.9 Consensus size: 94
21150 AATGTGACCG
*
21160 TATATGCTATTTGAATTAAGTAAATTTCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* * *
21225 GAATTAAATTTCACTTTGTGTGTAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTA
* *
21254 TATATGCTTTTTGAATTAAGTAAA-TGCCTTATTATAATGAGTTAACATTGGCACTATGTGTACG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
21318 GAATTAAATGTCACTTTGTGTGCAGATTA
66 GAATTAAATGTCACTTTGTGTGCAGATTA
21347 T-TATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* *
21411 GAATTAAATGGCACTATGTG
66 GAATTAAATGTCACTTTGTG
21431 CAAATTTGAA
Statistics
Matches: 166, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
92 21 0.13
93 122 0.73
94 23 0.14
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
GAATTAAATGTCACTTTGTGTGCAGATTA
Found at i:21518 original size:24 final size:24
Alignment explanation
Indices: 21467--21524 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
21457 AAAATTTCAG
* * *
21467 GCACTATGTGTGCGGTTTAGTATG
1 GCACTATGTGTGCGGCTTAATATA
21491 GCACTATGTGTGCGAGCTTAAT-TA
1 GCACTATGTGTGCG-GCTTAATATA
21515 GCACTATGTG
1 GCACTATGTG
21525 GTGTGAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGGCTTAATATA
Done.