Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014979.1 Kokia drynarioides strain JFW-HI SEQ_130023, whole genome shotgun sequence
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: 33930
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Found at i:6030 original size:23 final size:23
Alignment explanation
Indices: 5980--6037 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
5970 TTCATGGGTC
* *
5980 CATTTAAACATAAATTACATTAA
1 CATTTAAGCATAAATCACATTAA
* *
6003 TATTTAAGCATAAATCACATTAG
1 CATTTAAGCATAAATCACATTAA
6026 CATTTAAGCATA
1 CATTTAAGCATA
6038 TAACGCATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (23 bp):
CATTTAAGCATAAATCACATTAA
Found at i:7869 original size:23 final size:23
Alignment explanation
Indices: 7843--7924 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 23
7833 CAACATCATT
7843 TACAACATTATAATCCTACCTAA
1 TACAACATTATAATCCTACCTAA
* * * *
7866 TACAACAATCATTTGAATCCAACATCATT
1 TACAAC-AT--TAT-AATCCTACCT-A-A
7895 TACAACATTATAATCCTACCTAA
1 TACAACATTATAATCCTACCTAA
7918 TACAACA
1 TACAACA
7925 ATCATTTGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
23 13 0.29
24 3 0.07
25 8 0.18
26 4 0.09
27 8 0.18
28 3 0.07
29 6 0.13
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.29
Consensus pattern (23 bp):
TACAACATTATAATCCTACCTAA
Found at i:7884 original size:27 final size:27
Alignment explanation
Indices: 7854--7934 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
7844 ACAACATTAT
7854 AATCCTACCTAATACAACAATCATTTG
1 AATCCTACCTAATACAACAATCATTTG
* * * **
7881 AATCCAACATCAT-TTACAA-CATTAT-
1 AATCCTACCTAATACAACAATCATT-TG
7906 AATCCTACCTAATACAACAATCATTTG
1 AATCCTACCTAATACAACAATCATTTG
7933 AA
1 AA
7935 CCAAACATTC
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
25 14 0.35
26 10 0.25
27 16 0.40
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.30
Consensus pattern (27 bp):
AATCCTACCTAATACAACAATCATTTG
Found at i:7942 original size:52 final size:52
Alignment explanation
Indices: 7831--7938 Score: 209
Period size: 52 Copynumber: 2.1 Consensus size: 52
7821 TATGCACCAT
7831 TCCAACATCATTTACAACATTATAATCCTACCTAATACAACAATCATTTGAA
1 TCCAACATCATTTACAACATTATAATCCTACCTAATACAACAATCATTTGAA
7883 TCCAACATCATTTACAACATTATAATCCTACCTAATACAACAATCATTTGAA
1 TCCAACATCATTTACAACATTATAATCCTACCTAATACAACAATCATTTGAA
7935 -CCAA
1 TCCAA
7939 ACATTCTTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 4 0.07
52 52 0.93
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.30
Consensus pattern (52 bp):
TCCAACATCATTTACAACATTATAATCCTACCTAATACAACAATCATTTGAA
Found at i:9407 original size:16 final size:16
Alignment explanation
Indices: 9386--9442 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
9376 ATTCTACCCC
9386 TTTACACTTGATCACT
1 TTTACACTTGATCACT
* * *
9402 TTTACATTTGTTCTACCCC
1 TTTACACTTGATC-A--CT
9421 TTTACACTTGATCACT
1 TTTACACTTGATCACT
9437 TTTACA
1 TTTACA
9443 TTTGTCAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
16 18 0.56
17 1 0.03
18 1 0.03
19 12 0.38
ACGTcount: A:0.23, C:0.26, G:0.05, T:0.46
Consensus pattern (16 bp):
TTTACACTTGATCACT
Found at i:9423 original size:35 final size:35
Alignment explanation
Indices: 9377--9447 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
9367 AGTGGACTTA
9377 TTCTACCCCTTTACACTTGATCACTTTTACATTTG
1 TTCTACCCCTTTACACTTGATCACTTTTACATTTG
9412 TTCTACCCCTTTACACTTGATCACTTTTACATTTG
1 TTCTACCCCTTTACACTTGATCACTTTTACATTTG
9447 T
1 T
9448 CAAAACGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.20, C:0.28, G:0.06, T:0.46
Consensus pattern (35 bp):
TTCTACCCCTTTACACTTGATCACTTTTACATTTG
Found at i:11315 original size:15 final size:14
Alignment explanation
Indices: 11295--11324 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
11285 TTTTGTTCTT
11295 TTTTTTATATTATTA
1 TTTTTTATATT-TTA
11310 TTTTTTATATTTTA
1 TTTTTTATATTTTA
11324 T
1 T
11325 GAGTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTATATTTTA
Found at i:12384 original size:39 final size:39
Alignment explanation
Indices: 12338--13010 Score: 544
Period size: 39 Copynumber: 17.1 Consensus size: 39
12328 GATTGGGTTG
* * * * * **
12338 TGGTTTCAATTTGTCCCATGATCAGAGTAAGAGATTAAA
1 TGGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
* *
12377 TGGTTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGA
1 TGGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
**
12416 TGGTTGCGCTCTGCCCCATGATCGGGGTAAGAGATTGGA
1 TGGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
* *
12455 TGGTTGCGATCTGCCCCATGATCGGGGTAAGAGATCGGA
1 TGGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
**
12494 TGGTTTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGA
1 TGG-TTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
* * *
12534 TGGTTGCTATCTGCCCCATGATCAGGGTAAGAGATCGGA
1 TGGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
** ** * *
12573 TGGGTTTTAATCTATCACATGATCGAGGTAAGAGATTGGA
1 T-GGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
* * * *
12613 TGACTGTG-AAT-TGCCCCATGATCAAGAG-AAGAGATCGGA
1 TG-GT-TGCAATCTGCCCCATGATC-GGGGTAAGAGATTGGA
* ** *
12652 TGATTTTTAATATGCCCCATGATCGGGGTAAGAGATTGGA
1 TG-GTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
* * * * * *
12692 TGGCTGCGATCTGTCTCATG-TCAGGGTAAGAGATCGGA
1 TGGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
*
12730 TGGTTTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
1 TGG-TTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
** * * * ***
12770 TGACTGCGATCTACCTCATGATCGGGGTAAGAGATCAAA
1 TGGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
** * *
12809 TGGTTTTTAGTCTGCCCTATGATCGGGGTAAGAGATTGGA
1 TGG-TTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
** ** * * *
12849 TTATTGTGATCTGCCCCATGATCAGGGTAAGATATCGGA
1 TGGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
* ** * **
12888 TGATTTTTAATTTGCCCCATGATCAAGGTAAGAGATTGGA
1 TG-GTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
* * * * * * * *
12928 TGGCTGCGATTTGTCTCATGATTGGGGTAACAGATCGGA
1 TGGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
** * *
12967 TGGTTTTTAATCTGCCCCATGATCAGGGTGAGAGATTGGA
1 TGG-TTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
13007 TGGT
1 TGGT
13011 GATGTAACTT
Statistics
Matches: 497, Mismatches: 124, Indels: 26
0.77 0.19 0.04
Matches are distributed among these distances:
38 20 0.04
39 279 0.56
40 197 0.40
41 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.30
Consensus pattern (39 bp):
TGGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGA
Found at i:12537 original size:79 final size:79
Alignment explanation
Indices: 12352--13010 Score: 768
Period size: 79 Copynumber: 8.4 Consensus size: 79
12342 TTCAATTTGT
* * ** * * * * *
12352 CCCATGATCAGAGTAAGAGATTAAATGGTTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGAT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGAT
****
12417 GG-TTGCGCTCTGC
66 GGTTTTTAATCTGC
*
12430 CCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGGGGTAAGAGATCGGAT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGAT
12495 GGTTTTTAATCTGC
66 GGTTTTTAATCTGC
*
12509 CCCATGATCGGGGTAAGAGATTGGATGGTTGCTATCTGCCCCATGATCAGGGTAAGAGATCGGAT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGAT
* **
12574 GGGTTTTAATCTAT
66 GGTTTTTAATCTGC
* * ** * *
12588 CACATGATCGAGGTAAGAGATTGGATGACTGTGAAT-TGCCCCATGATCAAGAG-AAGAGATCGG
1 CCCATGATCGGGGTAAGAGATTGGATGGTTGCG-ATCTGCCCCATGATC-AGGGTAAGAGATCGG
* *
12651 ATGATTTTTAATATGC
64 ATGGTTTTTAATCTGC
* * *
12667 CCCATGATCGGGGTAAGAGATTGGATGGCTGCGATCTGTCTCATG-TCAGGGTAAGAGATCGGAT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGAT
*
12731 GGTTTTCAATCTGC
66 GGTTTTTAATCTGC
** * * * **
12745 CCCATGATCGGGGTAAGAGATTGGATGACTGCGATCTACCTCATGATCGGGGTAAGAGATCAAAT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGAT
*
12810 GGTTTTTAGTCTGC
66 GGTTTTTAATCTGC
* ** * *
12824 CCTATGATCGGGGTAAGAGATTGGATTATTGTGATCTGCCCCATGATCAGGGTAAGATATCGGAT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGAT
* *
12889 GATTTTTAATTTGC
66 GGTTTTTAATCTGC
** * * * * ** *
12903 CCCATGATCAAGGTAAGAGATTGGATGGCTGCGATTTGTCTCATGATTGGGGTAACAGATCGGAT
1 CCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGAT
12968 GGTTTTTAATCTGC
66 GGTTTTTAATCTGC
* *
12982 CCCATGATCAGGGTGAGAGATTGGATGGT
1 CCCATGATCGGGGTAAGAGATTGGATGGT
13011 GATGTAACTT
Statistics
Matches: 496, Mismatches: 79, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
77 3 0.01
78 128 0.26
79 360 0.73
80 5 0.01
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (79 bp):
CCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGAT
GGTTTTTAATCTGC
Found at i:12924 original size:315 final size:315
Alignment explanation
Indices: 12352--13009 Score: 881
Period size: 315 Copynumber: 2.1 Consensus size: 315
12342 TTCAATTTGT
* ** * * * *
12352 CCCATGATCAGAGTAAGAGATTAAATGGTTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGAT
1 CCCATGATCAGGGTAAGAGATTGGATGGCTGCAATCTGCCTCATGATCAGGGTAAGAGATCGGAT
** ** *
12417 GGTTGCGCTCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGGGG
66 GGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTGCGATCTACCCCATGATCGGGG
** *
12482 TAAGAGATCGGATGGTTTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGCTATCTG
131 TAAGAGATCAAATGGTTTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATTGCTATCTG
* * *
12547 CCCCATGATCAGGGTAAGAGATCGGATGGGTTTTAATCTATCACATGATCGAGGTAAGAGATTGG
196 CCCCATGATCAGGGTAAGAGATCGGATGAGTTTTAATCTACCACATGATCAAGGTAAGAGATTGG
* *
12612 ATGACTGTGAATTGCCCCATGATCAAGAG-AAGAGATCGGATGATTTTTAATATGC
261 ATGACTGCGAATTGCCCCATGAT-AAGAGTAACAGATCGGATGATTTTTAATATGC
* * *
12667 CCCATGATCGGGGTAAGAGATTGGATGGCTGCGATCTGTCTCATG-TCAGGGTAAGAGATCGGAT
1 CCCATGATCAGGGTAAGAGATTGGATGGCTGCAATCTGCCTCATGATCAGGGTAAGAGATCGGAT
* *
12731 GGTTTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTGCGATCTACCTCATGATCGGG
66 GG-TTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTGCGATCTACCCCATGATCGGG
* * *
12796 GTAAGAGATCAAATGGTTTTTAGTCTGCCCTATGATCGGGGTAAGAGATTGGATTATTG-TGATC
130 GTAAGAGATCAAATGGTTTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATTGCT-ATC
* * * * *
12860 TGCCCCATGATCAGGGTAAGATATCGGATGATTTTTAATTTGCCCCATGATCAAGGTAAGAGATT
194 TGCCCCATGATCAGGGTAAGAGATCGGATGAGTTTTAATCTACCACATGATCAAGGTAAGAGATT
* * * * ** * * *
12925 GGATGGCTGCGATTTGTCTCATGATTGGGGTAACAGATCGGATGGTTTTTAATCTGC
259 GGATGACTGCGAATTGCCCCATGATAAGAGTAACAGATCGGATGATTTTTAATATGC
*
12982 CCCATGATCAGGGTGAGAGATTGGATGG
1 CCCATGATCAGGGTAAGAGATTGGATGG
13010 TGATGTAACT
Statistics
Matches: 296, Mismatches: 44, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
314 22 0.07
315 274 0.93
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (315 bp):
CCCATGATCAGGGTAAGAGATTGGATGGCTGCAATCTGCCTCATGATCAGGGTAAGAGATCGGAT
GGTTGCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTGCGATCTACCCCATGATCGGGG
TAAGAGATCAAATGGTTTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATTGCTATCTG
CCCCATGATCAGGGTAAGAGATCGGATGAGTTTTAATCTACCACATGATCAAGGTAAGAGATTGG
ATGACTGCGAATTGCCCCATGATAAGAGTAACAGATCGGATGATTTTTAATATGC
Found at i:13114 original size:62 final size:62
Alignment explanation
Indices: 13015--13144 Score: 206
Period size: 62 Copynumber: 2.1 Consensus size: 62
13005 GATGGTGATG
* * *
13015 TAACTTCACTCCATTCCACTGCAATTTCAGGGAGATTGAGATTCGCTACTGTAGTTTTAATC
1 TAACTTCACTCCATTCCACTGCAACTTCAAGGAGATTGAGATCCGCTACTGTAGTTTTAATC
* *
13077 TAACTTCACTCCATTTCACTGCAACTTCAAGGTGATTGAGATCCGCTACTGTAGTTTTAATC
1 TAACTTCACTCCATTCCACTGCAACTTCAAGGAGATTGAGATCCGCTACTGTAGTTTTAATC
*
13139 CAACTT
1 TAACTT
13145 AACTGCAACT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (62 bp):
TAACTTCACTCCATTCCACTGCAACTTCAAGGAGATTGAGATCCGCTACTGTAGTTTTAATC
Found at i:23642 original size:8 final size:8
Alignment explanation
Indices: 23600--23656 Score: 60
Period size: 9 Copynumber: 6.6 Consensus size: 8
23590 AAAGAATTGC
23600 AAAAAATAT
1 AAAAAAT-T
*
23609 AAAATATT
1 AAAAAATT
23617 ACAAAAATT
1 A-AAAAATT
*
23626 ATTAAAATT
1 A-AAAAATT
23635 AAAAAATT
1 AAAAAATT
23643 AAAAAATAT
1 AAAAAAT-T
23652 AAAAA
1 AAAAA
23657 TTTACTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
8 15 0.37
9 26 0.63
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAAATT
Found at i:23694 original size:24 final size:25
Alignment explanation
Indices: 23662--23713 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
23652 AAAAATTTAC
*
23662 TAAAAA-TTTTCATTATTTAAATAA
1 TAAAAATTTTTCATAATTTAAATAA
* *
23686 TAAATATTTTTTATAATTTAAATAA
1 TAAAAATTTTTCATAATTTAAATAA
23711 TAA
1 TAA
23714 GTAACATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TAAAAATTTTTCATAATTTAAATAA
Found at i:26427 original size:23 final size:23
Alignment explanation
Indices: 26400--26444 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
26390 GGGCCAACTT
*
26400 GGTTTGGGTTTAGATCTGTTTAG
1 GGTTTAGGTTTAGATCTGTTTAG
*
26423 GGTTTAGGTTTGGATCTGTTTA
1 GGTTTAGGTTTAGATCTGTTTA
26445 TATTTTGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.04, G:0.33, T:0.49
Consensus pattern (23 bp):
GGTTTAGGTTTAGATCTGTTTAG
Found at i:26455 original size:23 final size:23
Alignment explanation
Indices: 26401--26456 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
26391 GGCCAACTTG
*
26401 GTTTGGGTTTAGATCTGTTTAGG
1 GTTTGGGTTTAGATCTGTTTAGA
* * *
26424 GTTTAGGTTTGGATCTGTTTATA
1 GTTTGGGTTTAGATCTGTTTAGA
*
26447 TTTTGGGTTT
1 GTTTGGGTTT
26457 TTGTAATTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.12, C:0.04, G:0.30, T:0.54
Consensus pattern (23 bp):
GTTTGGGTTTAGATCTGTTTAGA
Found at i:27228 original size:23 final size:23
Alignment explanation
Indices: 27202--27251 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
27192 CGGTAAAAGA
*
27202 TTGAAATCTTCAATCTACCTCTC
1 TTGAAATCTTCAATCTACCCCTC
27225 TTGAAATCTTCAATCTACCCCTC
1 TTGAAATCTTCAATCTACCCCTC
27248 TTGA
1 TTGA
27252 TTAAGGGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.06, T:0.38
Consensus pattern (23 bp):
TTGAAATCTTCAATCTACCCCTC
Found at i:27266 original size:64 final size:64
Alignment explanation
Indices: 27165--27284 Score: 213
Period size: 64 Copynumber: 1.9 Consensus size: 64
27155 AAAAGACTGG
*
27165 AATCTTCAATCTACCCTTCTTGATTAACGGTAAAAGATTGAAATCTTCAATCTACCTCTCTTGA
1 AATCTTCAATCTACCCCTCTTGATTAACGGTAAAAGATTGAAATCTTCAATCTACCTCTCTTGA
* *
27229 AATCTTCAATCTACCCCTCTTGATTAAGGGTAAAAGATTGGAATCTTCAATCTACC
1 AATCTTCAATCTACCCCTCTTGATTAACGGTAAAAGATTGAAATCTTCAATCTACC
27285 CCTTTTGATT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (64 bp):
AATCTTCAATCTACCCCTCTTGATTAACGGTAAAAGATTGAAATCTTCAATCTACCTCTCTTGA
Found at i:27424 original size:44 final size:45
Alignment explanation
Indices: 27232--27443 Score: 258
Period size: 46 Copynumber: 4.8 Consensus size: 45
27222 CTCTTGAAAT
* *
27232 CTTCAATCTACCCCTCTTGA-TTAAGGGTAAAAGATTGGA-AT--
1 CTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAGATGG
* * *
27273 CTTCAATCTACCCCTTTTGA-TTAGGAGTAAAAGATTGGATGATGG
1 CTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGA-GATGG
* *
27318 CTGT-AATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGATGGTGG
1 CT-TCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGA-GATGG
* * *
27364 CTTTAATTTGCCCCTCTTGACTTAGGGGTAATAGATTGGA-ATGG
1 CTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAGATGG
27408 CTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGAT
1 CTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGAT
27444 CGGTGTGTCT
Statistics
Matches: 149, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
41 36 0.24
43 2 0.01
44 36 0.24
45 17 0.11
46 58 0.39
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (45 bp):
CTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAGATGG
Found at i:27424 original size:90 final size:86
Alignment explanation
Indices: 27232--27443 Score: 259
Period size: 90 Copynumber: 2.4 Consensus size: 86
27222 CTCTTGAAAT
* *
27232 CTTCAATCTACCCCTCTTGA-TTAAGGGTAAAAGATTGGAATCTTCAATCTACCCCTTTTGATTA
1 CTTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGAATCTTCAATCTACCCCTCTTGATTA
27296 GGAGTAAAAGATTGGATGATGG
66 GGAGTAAAAGATTGGA-GATGG
* * * *
27318 CTGT-AATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGATGGTGGCTTTAATTTGCCCCTCTT
1 CT-TCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGA--AT--CTTCAATCTACCCCTCTT
* *
27382 GACTTAGGGGTAATAGATTGGA-ATGG
61 GA-TTAGGAGTAAAAGATTGGAGATGG
*
27408 CTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGAT
1 CTTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGAT
27444 CGGTGTGTCT
Statistics
Matches: 109, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
86 17 0.16
87 20 0.18
89 2 0.02
90 37 0.34
91 16 0.15
92 17 0.16
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (86 bp):
CTTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGAATCTTCAATCTACCCCTCTTGATTA
GGAGTAAAAGATTGGAGATGG
Done.