Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2425
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: 61092
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:2092 original size:2 final size:2
Alignment explanation
Indices: 2087--2140 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
2077 GTTAAGAAAT
* * * *
2087 TA TA TA TA TA TA TA TA TA TA TA TT TG T- TA -A GA T- TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2126 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
2141 TTGTTAAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2109 original size:35 final size:33
Alignment explanation
Indices: 2065--2153 Score: 146
Period size: 31 Copynumber: 2.7 Consensus size: 33
2055 GTATAAACAA
2065 ATATATATATTTGTTAAGAAATTATATATATATAT
1 ATATATATATTTGTTAAGAAATTA-A-ATATATAT
2100 ATATATATATTTGTTAAG--ATTAAATATATAT
1 ATATATATATTTGTTAAGAAATTAAATATATAT
2131 ATATATATATTTGTTAAGAAATT
1 ATATATATATTTGTTAAGAAATT
2154 TTTCTCTAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
31 26 0.50
32 1 0.02
33 7 0.13
35 18 0.35
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (33 bp):
ATATATATATTTGTTAAGAAATTAAATATATAT
Found at i:4337 original size:2 final size:2
Alignment explanation
Indices: 4330--4379 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
4320 AGAATATAGG
4330 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4372 GA GA GA GA
1 GA GA GA GA
4380 AGAAGAAGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5537 original size:15 final size:15
Alignment explanation
Indices: 5517--5546 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5507 TTATAATATC
5517 TTATTATATGATTTA
1 TTATTATATGATTTA
5532 TTATTATATGATTTA
1 TTATTATATGATTTA
5547 AGCTTGTTCA
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:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TTATTATATGATTTA
Found at i:5682 original size:2 final size:2
Alignment explanation
Indices: 5643--5669 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5633 AGAGTTTCAA
5643 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
5670 AATACCCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6545 original size:29 final size:29
Alignment explanation
Indices: 6511--6570 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
6501 TTTCAAACTT
*
6511 GTGATGGAAACATACCTATTCAAAGGCTC
1 GTGATGGAAACATAACTATTCAAAGGCTC
*
6540 GTGATGGAAACATAACTATTTAAAGGCTC
1 GTGATGGAAACATAACTATTCAAAGGCTC
6569 GT
1 GT
6571 AACTTTGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (29 bp):
GTGATGGAAACATAACTATTCAAAGGCTC
Found at i:14248 original size:4 final size:4
Alignment explanation
Indices: 14239--14278 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
14229 TTTTGAGGTG
* *
14239 TTTA TTTA TTTA TTTA TTCA TTTAA TTAA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA TTT
14279 TGTTTTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 28 0.90
5 3 0.10
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:24520 original size:1 final size:1
Alignment explanation
Indices: 24516--24563 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
24506 TCTTTTTTTT
* * * * *
24516 AAAAAAAACAAAAAACAAAAAAATAAAAAAAAAAGAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24564 GAGAAAAGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.90, C:0.04, G:0.04, T:0.02
Consensus pattern (1 bp):
A
Found at i:24564 original size:7 final size:7
Alignment explanation
Indices: 24518--24575 Score: 66
Period size: 7 Copynumber: 8.6 Consensus size: 7
24508 TTTTTTTTAA
*
24518 AAAAAAC
1 AAAAAAG
*
24525 AAAAAAC
1 AAAAAAG
24532 AAAAAA-
1 AAAAAAG
*
24538 ATAAAA-
1 AAAAAAG
24544 AAAAAAG
1 AAAAAAG
24551 AAAAAAG
1 AAAAAAG
24558 AAAAAAG
1 AAAAAAG
*
24565 AGAAAAG
1 AAAAAAG
24572 AAAA
1 AAAA
24576 GAACCTACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
6 10 0.22
7 36 0.78
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:24575 original size:26 final size:25
Alignment explanation
Indices: 24519--24578 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
24509 TTTTTTTAAA
*
24519 AAAAACAAAAAACAAAAAAATAAAAA
1 AAAAAGAAAAAACAAAAAAAT-AAAA
* *
24545 AAAAAGAAAAAAGAAAAAAGAGAAAA
1 AAAAAGAAAAAACAAAAAA-ATAAAA
*
24571 GAAAAGAA
1 AAAAAGAA
24579 CCTACTTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.02
Consensus pattern (25 bp):
AAAAAGAAAAAACAAAAAAATAAAA
Found at i:25623 original size:61 final size:61
Alignment explanation
Indices: 25544--25999 Score: 488
Period size: 61 Copynumber: 7.5 Consensus size: 61
25534 AAACCTTTTA
* * * * *
25544 ACCTTTTAGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAACCTATATAAGTTGGTGGT
1 ACCTTTTAGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * *
25605 ACCTTTTAGTCTTTAAAGAGCAGGACACTTCTTTT-CTATTAAAGCCCACACAAGTTGGTGAC
1 ACCTTTTAGTCCTCAAAGAGCAGGACA--TCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * * ** *
25667 ACCTTCTAGTCCTCAAAGAGTAGGACATCTTTTCATTTTAAAGCCCTCACAAGTTAATGCC
1 ACCTTTTAGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * * * **
25728 ACCTTTCAGAT-CTCAAAGAGTAAGATATCTTTTCCTTTTAAAGCCCACACTAGTTGGTAAC
1 ACCTTTTAG-TCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* ** * *
25789 ACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAACCCACACTAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* ** * *
25850 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGCGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * *
25911 ACCTTTTAGTCCTCAAAGAGTAGGAC-GCGCTTT-CTTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACATC-TTTTCCTTTT-AAAGCCCACACAAGTTGGTGGC
* * *
25972 ATCTTCTAGTCCTCAAAGAGCATGACAT
1 ACCTTTTAGTCCTCAAAGAGCAGGACAT
26000 ACTCTATTTC
Statistics
Matches: 332, Mismatches: 55, Indels: 15
0.83 0.14 0.04
Matches are distributed among these distances:
60 12 0.04
61 270 0.81
62 44 0.13
63 6 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (61 bp):
ACCTTTTAGTCCTCAAAGAGCAGGACATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:26075 original size:42 final size:42
Alignment explanation
Indices: 25980--26163 Score: 196
Period size: 41 Copynumber: 4.4 Consensus size: 42
25970 GCATCTTCTA
* * *
25980 GTCCTCAAAGAGCATGACATACTCTATTTCC-TTTTTCCTTT
1 GTCCTCAAAGAGCAAGACACACTTTATTTCCTTTTTTCCTTT
**
26021 GTTTTCAAAGAGCAAGACACACTTTATTT-C-TTTTTCTCTGTT
1 GTCCTCAAAGAGCAAGACACACTTTATTTCCTTTTTTC-CT-TT
* *
26063 GTCCTCAAAGAGCAAGACACACTTAATTTCCTTCTTTTCCTTG
1 GTCCTCAAAGAGCAAGACACACTTTATTTCCTT-TTTTCCTTT
* * * *
26106 GTCCTTAAAGAGCATGACGCATTTTATTT-CTTTTTTCCTTT
1 GTCCTCAAAGAGCAAGACACACTTTATTTCCTTTTTTCCTTT
**
26147 GTCCTTGAAGAGCAAGA
1 GTCCTCAAAGAGCAAGA
26164 TGTATTCTTT
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
40 7 0.06
41 49 0.40
42 31 0.26
43 26 0.21
44 3 0.02
45 5 0.04
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (42 bp):
GTCCTCAAAGAGCAAGACACACTTTATTTCCTTTTTTCCTTT
Found at i:29374 original size:79 final size:79
Alignment explanation
Indices: 29202--29391 Score: 211
Period size: 79 Copynumber: 2.4 Consensus size: 79
29192 TACTTCCGAA
* * *
29202 GGGATACTCTAACCCCAGTTTTATTTCCAAATCACCGATTTTCCAAAATCGAGGATACTCTAACC
1 GGGATACTCTAACCCCAGTTTTATTTCCAAAACACCAATTTTCCAAAATCGAGGATACTCCAACC
29267 CCATTATTTTCGAG
66 CCATTATTTTCGAG
** * * ** ** * * *
29281 GAAATA-TCCCAACCCTAGTTTTATTTTTAAAACATTAATTTTTCACAATCGGGGATACTCCAAC
1 GGGATACT-CTAACCCCAGTTTTATTTCCAAAACACCAATTTTCCAAAATCGAGGATACTCCAAC
* *
29345 CCCGTTATTTTTGAG
65 CCCATTATTTTCGAG
*
29360 GGGATACTCTAACCCCAGTTTTATCTCCAAAA
1 GGGATACTCTAACCCCAGTTTTATTTCCAAAA
29392 TTTTAAATTT
Statistics
Matches: 86, Mismatches: 23, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
78 1 0.01
79 84 0.98
80 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (79 bp):
GGGATACTCTAACCCCAGTTTTATTTCCAAAACACCAATTTTCCAAAATCGAGGATACTCCAACC
CCATTATTTTCGAG
Found at i:30364 original size:15 final size:14
Alignment explanation
Indices: 30344--30398 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
30334 TTTTCAAAAT
30344 AAAAATAATAATATA
1 AAAAATAA-AATATA
*
30359 AAAAATAAAAAATA
1 AAAAATAAAATATA
* *
30373 AATAATAAATTAATA
1 AAAAATAAAAT-ATA
30388 AAAAATCAAAA
1 AAAAAT-AAAA
30399 AATTTTATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
14 13 0.41
15 16 0.50
16 3 0.09
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATAAAATATA
Found at i:30369 original size:8 final size:7
Alignment explanation
Indices: 30339--30401 Score: 65
Period size: 7 Copynumber: 8.7 Consensus size: 7
30329 TTAGGTTTTC
30339 AAAAT-A
1 AAAATAA
30345 AAAATAA
1 AAAATAA
*
30352 TAATATAA
1 -AAAATAA
30360 AAAATAA
1 AAAATAA
30367 AAAATAA
1 AAAATAA
*
30374 ATAATAA
1 AAAATAA
*
30381 ATTAATAA
1 A-AAATAA
30389 AAAATCAA
1 AAAAT-AA
30397 AAAAT
1 AAAAT
30402 TTTATCAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
6 5 0.10
7 24 0.49
8 20 0.41
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (7 bp):
AAAATAA
Found at i:30369 original size:22 final size:22
Alignment explanation
Indices: 30339--30393 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
30329 TTAGGTTTTC
30339 AAAAT-AAAAAT-AATAATATAA
1 AAAATAAAAAATAAATAATA-AA
30360 AAAATAAAAAATAAATAATAAA
1 AAAATAAAAAATAAATAATAAA
**
30382 TTAATAAAAAAT
1 AAAATAAAAAAT
30394 CAAAAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 5 0.17
22 18 0.60
23 7 0.23
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAATAAAAAATAAATAATAAA
Found at i:30379 original size:29 final size:29
Alignment explanation
Indices: 30339--30401 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
30329 TTAGGTTTTC
30339 AAAATAAAAATAATAAT-ATAAAAAAT-AA
1 AAAATAAAAATAA-AATAATAAAAAATCAA
*
30367 AAAATAAATAATAAATTAATAAAAAATCAA
1 AAAATAAA-AATAAAATAATAAAAAATCAA
30397 AAAAT
1 AAAAT
30402 TTTATCAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 10 0.32
29 14 0.45
30 7 0.23
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (29 bp):
AAAATAAAAATAAAATAATAAAAAATCAA
Found at i:30777 original size:28 final size:28
Alignment explanation
Indices: 30744--30817 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
30734 TAAAGTAGCC
*
30744 ACATGGACACGTGAAAAAACAAGCAGCT
1 ACATGGACACATGAAAAAACAAGCAGCT
*
30772 ACATGGACACATGAAGAAACAAGCAGCT
1 ACATGGACACATGAAAAAACAAGCAGCT
* * *
30800 GCATCGAAACA-GAAAAAA
1 ACATGGACACATGAAAAAA
30818 ATTAAAACAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 6 0.15
28 34 0.85
ACGTcount: A:0.50, C:0.20, G:0.20, T:0.09
Consensus pattern (28 bp):
ACATGGACACATGAAAAAACAAGCAGCT
Found at i:38850 original size:15 final size:15
Alignment explanation
Indices: 38830--38872 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
38820 TACTTGCCCC
38830 ACAATCATATTCCTA
1 ACAATCATATTCCTA
38845 ACAATCATATTCCTA
1 ACAATCATATTCCTA
* *
38860 AGAATCACATTCC
1 ACAATCATATTCC
38873 ATTGGAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.40, C:0.28, G:0.02, T:0.30
Consensus pattern (15 bp):
ACAATCATATTCCTA
Found at i:45519 original size:20 final size:20
Alignment explanation
Indices: 45494--45547 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
45484 GTTTGAAGCA
* *
45494 ATGTATCGATACAATTTATC
1 ATGTATCGATACAATGTACC
* *
45514 ATGTATTGATACAATGTGCC
1 ATGTATCGATACAATGTACC
45534 ATGTATCGATACAA
1 ATGTATCGATACAA
45548 ACAGTGGTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:52701 original size:13 final size:13
Alignment explanation
Indices: 52683--52707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52673 AAATTTATTA
52683 TGTATCGATACAT
1 TGTATCGATACAT
52696 TGTATCGATACA
1 TGTATCGATACA
52708 ATATGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:52801 original size:19 final size:20
Alignment explanation
Indices: 52757--52812 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
52747 CTGCCAGTTT
* *
52757 CATGTATCGATACAATTATG
1 CATGTATCGATACAATGATA
*
52777 CATGTATCAATACAATGA-A
1 CATGTATCGATACAATGATA
52796 CATGTATCGATACAATG
1 CATGTATCGATACAATG
52813 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:52815 original size:13 final size:13
Alignment explanation
Indices: 52797--52823 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52787 TACAATGAAC
52797 ATGTATCGATACA
1 ATGTATCGATACA
52810 ATGTATCGATACA
1 ATGTATCGATACA
52823 A
1 A
52824 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:56375 original size:52 final size:51
Alignment explanation
Indices: 56297--56445 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 51
56287 CGAAATATGA
56297 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
56349 AAATTTGCCTGCATGTATCGATACATTTTG-TAATGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACA--TTGATAGTGTATCGATACATCTGGGC
* **
56401 AAATTTTCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
56446 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
50 1 0.01
51 1 0.01
52 82 0.94
54 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:56452 original size:13 final size:13
Alignment explanation
Indices: 56434--56458 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56424 CAAAGATCAG
56434 TGTATCGATACAA
1 TGTATCGATACAA
56447 TGTATCGATACA
1 TGTATCGATACA
56459 TTTAAGTGAT
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:56536 original size:33 final size:33
Alignment explanation
Indices: 56499--56565 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
56489 AGTAGCTTAA
56499 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
56532 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
56565 A
1 A
56566 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:56539 original size:13 final size:13
Alignment explanation
Indices: 56521--56545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56511 CAAAAAAATA
56521 TGTATCGATACAT
1 TGTATCGATACAT
56534 TGTATCGATACA
1 TGTATCGATACA
56546 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.