Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01002901.1 Kokia drynarioides strain JFW-HI SEQ_115317, 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: 113816
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 10 characters in sequence are not A, C, G, or T
Found at i:1529 original size:99 final size:99
Alignment explanation
Indices: 1419--1609 Score: 337
Period size: 99 Copynumber: 1.9 Consensus size: 99
1409 TTTAAAAAAA
*
1419 ATCTTATTATGTATAAATTATAATTATTAGTTAAATTTATAGTTTCCAAATATAATGTGAGCGAA
1 ATCTTATTATGTATAAATTATAATTATTAGTTAAATTTATAGTTTCCAAATATAATGTGAGCAAA
*
1484 AGAAAACTATTATAAATACTGTTAACTACTATGT
66 AGAAAACTATTATAAATACCGTTAACTACTATGT
* *
1518 ATCTTATTATGTATAAATTATAATTATTAGTTAAATTTATAGTTTTCAAATATAATGTGAGTAAA
1 ATCTTATTATGTATAAATTATAATTATTAGTTAAATTTATAGTTTCCAAATATAATGTGAGCAAA
*
1583 AGAAAACTATTATGAATACCGTTAACT
66 AGAAAACTATTATAAATACCGTTAACT
1610 GCTGTGTCAA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 87 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (99 bp):
ATCTTATTATGTATAAATTATAATTATTAGTTAAATTTATAGTTTCCAAATATAATGTGAGCAAA
AGAAAACTATTATAAATACCGTTAACTACTATGT
Found at i:2476 original size:9 final size:10
Alignment explanation
Indices: 2443--2480 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
2433 AATCGATCGG
* *
2443 TTAATTAATT
1 TTAATTGATA
2453 TTAATTGATA
1 TTAATTGATA
2463 TTAATTGA-A
1 TTAATTGATA
2472 TTAATTGAT
1 TTAATTGAT
2481 TTTTTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (10 bp):
TTAATTGATA
Found at i:7054 original size:29 final size:30
Alignment explanation
Indices: 7021--7083 Score: 103
Period size: 29 Copynumber: 2.1 Consensus size: 30
7011 AAAAAAACTC
7021 TTTTCAATTTTGACTTTTC-TC-CCCTCATA
1 TTTTCAATTTTGACTTTTCTTCTCCC-CATA
7050 TTTTCAATTTTGACTTTTCTTCTCCCCATA
1 TTTTCAATTTTGACTTTTCTTCTCCCCATA
7080 TTTT
1 TTTT
7084 TTTGTCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 19 0.59
30 10 0.31
31 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.03, T:0.56
Consensus pattern (30 bp):
TTTTCAATTTTGACTTTTCTTCTCCCCATA
Found at i:7955 original size:3 final size:3
Alignment explanation
Indices: 7947--7971 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7937 AGCTGTACAT
7947 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
7972 TGATGATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7976 original size:3 final size:3
Alignment explanation
Indices: 7970--7998 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7960 AGAAGAAGAA
7970 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
7999 AACCAATGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:10809 original size:16 final size:18
Alignment explanation
Indices: 10771--10811 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
10761 GATCCCAATG
*
10771 TTATATTTATTAAGTTTTA
1 TTAT-TTTATTAAGTTATA
10790 TTATTTTATT-AGTTAT-
1 TTATTTTATTAAGTTATA
10806 TTATTT
1 TTATTT
10812 CAAATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 5 0.24
18 6 0.29
19 4 0.19
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TTATTTTATTAAGTTATA
Found at i:11448 original size:20 final size:20
Alignment explanation
Indices: 11423--11476 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
11413 GAAAAATACC
11423 CAAGGTATCGATACCATGCT
1 CAAGGTATCGATACCATGCT
11443 CAAGGTATCGATACCATGCT
1 CAAGGTATCGATACCATGCT
11463 CAAGGTATCGATAC
1 CAAGGTATCGATAC
11477 TTTCCCAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (20 bp):
CAAGGTATCGATACCATGCT
Found at i:12023 original size:15 final size:15
Alignment explanation
Indices: 11996--12084 Score: 56
Period size: 15 Copynumber: 5.9 Consensus size: 15
11986 CGAGCACTGG
11996 TGTTGC-AAGCACTCA
1 TGTTGCGAA-CACTCA
*
12011 TGTTGCGAACACTGGA
1 TGTTGCGAACACT-CA
* * *
12027 -GCTACAAACACTCA
1 TGTTGCGAACACTCA
*
12041 TGTTGCGAACACACA
1 TGTTGCGAACACTCA
** * *
12056 CATTACGAACACTGA
1 TGTTGCGAACACTCA
*
12071 TGTTGTGAACACTC
1 TGTTGCGAACACTC
12085 GCGTTGCGAG
Statistics
Matches: 52, Mismatches: 19, Indels: 6
0.68 0.25 0.08
Matches are distributed among these distances:
14 1 0.02
15 48 0.92
16 3 0.06
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (15 bp):
TGTTGCGAACACTCA
Found at i:16130 original size:15 final size:15
Alignment explanation
Indices: 16112--16179 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
16102 CAAACACTGG
*
16112 TGTTGCGAGCACTCA
1 TGTTGCGAACACTCA
*
16127 TGTTGCGAACACACA
1 TGTTGCGAACACTCA
* * * *
16142 TATTGTGAACAATGA
1 TGTTGCGAACACTCA
*
16157 TGTTGTGAACACTCA
1 TGTTGCGAACACTCA
*
16172 CGTTGCGA
1 TGTTGCGA
16180 GCATGAACGA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (15 bp):
TGTTGCGAACACTCA
Found at i:19891 original size:5 final size:6
Alignment explanation
Indices: 19866--19896 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
19856 TTCTATTTCC
19866 TTATTT ATTATTT TTATTT TTATTT TTATTT
1 TTATTT -TTATTT TTATTT TTATTT TTATTT
19897 CACTTTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:24568 original size:40 final size:40
Alignment explanation
Indices: 24432--24915 Score: 652
Period size: 40 Copynumber: 12.1 Consensus size: 40
24422 AGATCAGATG
* * * *
24432 CTTCAATCTACCCTATGATTGGGGGTAAAAGATTGGTGTGT
1 CTTCAATCTGCCCCATGA-TCGGGGTAAGAGATTGGTGTGT
* *** * *
24473 CTTCAATCTGCCTGC-TGATTAAGGTAAAAGATTGG-ATG-
1 CTTCAATCTGCC-CCATGATCGGGGTAAGAGATTGGTGTGT
* *
24511 CTTCAATTTGCCCCATGATCGGGGTAAGAGATTGGTATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
* * * *
24551 CTTCAATATGCCTCATGATCGAGGTAAGGGATTGGTGTGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
***
24591 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGACATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
*
24631 CATT-AATCTGCCCCATGATCGGGGTAAGAGATTGGCGTGT
1 C-TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
**
24671 CTTCAATCTATCCCATGATCGGGGTAAGAGATTGGTGTGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
* *
24711 CTTGAATCTGCCCCATGATCGGGATAAGAGATTGGTGTGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
**
24751 CTTCAATCTGCCCCATGATCAAGGTAAGAGATTGGTGTGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
* *
24791 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGTGTGA
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
*
24831 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGTGTGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
24871 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
24911 CTTCA
1 CTTCA
24916 CTACAATGTC
Statistics
Matches: 391, Mismatches: 46, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
37 1 0.00
38 27 0.07
39 7 0.02
40 340 0.87
41 16 0.04
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (40 bp):
CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
Found at i:29339 original size:20 final size:20
Alignment explanation
Indices: 29302--29349 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
29292 CTTCAGCGAG
** * *
29302 ACTTCTACCGGTAGAACTCC
1 ACTTCTACCAATACAACTAC
29322 ACTTCTACCAATACAACTAC
1 ACTTCTACCAATACAACTAC
*
29342 AGTTCTAC
1 ACTTCTAC
29350 AGATACCTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.27
Consensus pattern (20 bp):
ACTTCTACCAATACAACTAC
Found at i:35021 original size:32 final size:32
Alignment explanation
Indices: 34985--35050 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
34975 AAGATAGTCT
34985 TATATCACTACCAACCTCATAATCTAACCACC
1 TATATCACTACCAACCTCATAATCTAACCACC
35017 TATATCACTACCAACCTCATAATCTAACCACC
1 TATATCACTACCAACCTCATAATCTAACCACC
35049 TA
1 TA
35051 ACATAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (32 bp):
TATATCACTACCAACCTCATAATCTAACCACC
Found at i:35033 original size:16 final size:16
Alignment explanation
Indices: 34985--35033 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
34975 AAGATAGTCT
34985 TATATCACTACCAACC
1 TATATCACTACCAACC
35001 TCATA--ATCTAACC-ACC
1 T-ATATCA-CT-ACCAACC
35017 TATATCACTACCAACC
1 TATATCACTACCAACC
35033 T
1 T
35034 CATAATCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
15 7 0.26
16 13 0.48
17 7 0.26
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TATATCACTACCAACC
Found at i:35049 original size:16 final size:16
Alignment explanation
Indices: 34998--35049 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
34988 ATCACTACCA
34998 ACCTCATAATCTAACC
1 ACCTCATAATCTAACC
35014 ACCT-AT-ATC-ACTACC
1 ACCTCATAATCTA--ACC
35029 AACCTCATAATCTAACC
1 -ACCTCATAATCTAACC
35046 ACCT
1 ACCT
35050 AACATAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
13 1 0.03
14 3 0.10
15 5 0.17
16 12 0.40
17 5 0.17
18 3 0.10
19 1 0.03
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
ACCTCATAATCTAACC
Found at i:37927 original size:21 final size:21
Alignment explanation
Indices: 37903--37959 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
37893 GTGCAGACTT
37903 TTACCGATACAAGTGACAGTC
1 TTACCGATACAAGTGACAGTC
** *
37924 TTACC-AGTACAAGTGACTTTT
1 TTACCGA-TACAAGTGACAGTC
37945 TCTACCGATACAAGT
1 T-TACCGATACAAGT
37960 CTTACTCCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.03
21 17 0.57
22 11 0.37
23 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (21 bp):
TTACCGATACAAGTGACAGTC
Found at i:38740 original size:52 final size:52
Alignment explanation
Indices: 38641--38877 Score: 332
Period size: 52 Copynumber: 4.6 Consensus size: 52
38631 GCGTATTTGT
* * * * * *
38641 TACTCATGATGACACAGAGTAATCGGACCT-TTAATCCGTAAAGGATTCATA
1 TACTCACGATGACACATAATCATCGAACCTCATAATCCGTAAAGGATTCATA
* *
38692 TACTCACGATGACACATAATCATCAAACCTCATAATCCGTAAAAGATTCATA
1 TACTCACGATGACACATAATCATCGAACCTCATAATCCGTAAAGGATTCATA
*
38744 TACTCATGATGACACATAATCATCGAACCTCATAATCCGTAAAGGATTCATA
1 TACTCACGATGACACATAATCATCGAACCTCATAATCCGTAAAGGATTCATA
* * **
38796 TAATCACGATGACACATAGTCATCGAACCTCATAATATGTAAAGGATTCATA
1 TACTCACGATGACACATAATCATCGAACCTCATAATCCGTAAAGGATTCATA
* *
38848 TACTCACAATGACACATAATCATCGGACCT
1 TACTCACGATGACACATAATCATCGAACCT
38878 ATTTTATTTA
Statistics
Matches: 165, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
51 24 0.15
52 141 0.85
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (52 bp):
TACTCACGATGACACATAATCATCGAACCTCATAATCCGTAAAGGATTCATA
Found at i:43214 original size:24 final size:24
Alignment explanation
Indices: 43186--43246 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
43176 AGAAATAATC
* *
43186 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTATTTAGTTG
* *
43210 TTTCAATTAAACTTTATTTAGTTG
1 TTTCAGTTAAACTCTATTTAGTTG
* *
43234 TTTGAGTCAAACT
1 TTTCAGTTAAACT
43247 TTAGTTGTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTAGTTG
Found at i:43247 original size:24 final size:24
Alignment explanation
Indices: 43218--43271 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 24
43208 TGTTTCAATT
43218 AAACTTTATTTAGTTGTTTGAGTC
1 AAACTTTATTTAGTTGTTTGAGTC
43242 AAAC----TTTAGTTGTTTGAGTC
1 AAACTTTATTTAGTTGTTTGAGTC
43262 AAACTCTTAT
1 AAACT-TTAT
43272 CAGTCTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
20 20 0.80
24 4 0.16
25 1 0.04
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (24 bp):
AAACTTTATTTAGTTGTTTGAGTC
Found at i:43251 original size:20 final size:20
Alignment explanation
Indices: 43226--43266 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
43216 TTAAACTTTA
43226 TTTAGTTGTTTGAGTCAAAC
1 TTTAGTTGTTTGAGTCAAAC
43246 TTTAGTTGTTTGAGTCAAAC
1 TTTAGTTGTTTGAGTCAAAC
43266 T
1 T
43267 CTTATCAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (20 bp):
TTTAGTTGTTTGAGTCAAAC
Found at i:45242 original size:24 final size:24
Alignment explanation
Indices: 45191--45245 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
45181 TCTTTTAGTT
* *
45191 AAACTCTGTTTATTTGTTTCAATT
1 AAACTCTGTTTAGTTGTTTCAATC
* *
45215 AAACTCTGTTTAGTTGTTTGAGTC
1 AAACTCTGTTTAGTTGTTTCAATC
45239 AAACTCT
1 AAACTCT
45246 TATTAGTCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.47
Consensus pattern (24 bp):
AAACTCTGTTTAGTTGTTTCAATC
Found at i:47374 original size:122 final size:123
Alignment explanation
Indices: 47146--47623 Score: 701
Period size: 123 Copynumber: 3.9 Consensus size: 123
47136 ATTCTGCTAT
* *
47146 ATTTCCTTTTATTTAATATCTCATATTAAAACGGAAATATTCCTTTAGAGAAAATATATGGAA-G
1 ATTTTCTTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTAGA-AAAATATATGGAAGG
* *
47210 TTTATTAAAACATTATATCATTTCCAAAAAGATATTAACTTTCATATTTTTAATATTCA
65 TTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTCA
* *
47269 ATTTTCGTTTATTTAATATTTCATATTAAAATGGAAATATTCCTTTA-AAAAATATATGGAAGGT
1 ATTTTCTTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTAGAAAAATATATGGAAGGT
* *
47333 TTATTAAAACATTATATCATTTCCAAAAGGATAGTAACTTTCATGTTTTTAATATTTA
66 TTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTCA
** * * * *
47391 GCTTCCTTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTGGAGAAATATATGAAAGGT
1 ATTTTCTTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTAGAAAAATATATGGAAGGT
*
47456 TTATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTCA
66 TTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTCA
* * * * * * *
47514 ATTTTCTTTTATTTAATACCTCATATTAAAATGGAATTTTTCCTCTAGAGAAATATATTGAAAG-
1 ATTTTCTTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTAGAAAAATATATGGAAGGT
* * *
47578 TTATTAAAACATTATATCCTTTCAAAAAGGATATTAACTTCCATGT
66 TTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTTCATGT
47624 CACTACAACA
Statistics
Matches: 321, Mismatches: 32, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
121 13 0.04
122 142 0.44
123 166 0.52
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (123 bp):
ATTTTCTTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTAGAAAAATATATGGAAGGT
TTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTCA
Found at i:47584 original size:245 final size:245
Alignment explanation
Indices: 47148--47623 Score: 749
Period size: 245 Copynumber: 1.9 Consensus size: 245
47138 TCTGCTATAT
*
47148 TTCCTTTTATTTAATATCTCATATTAAAACGGAAATATTCCTTTAGAGAAAATATATGGAAGTTT
1 TTCCTTTTATTTAATATCTCATATTAAAACGGAAATATTCCTTTAGAGAAAATATATGAAAGTTT
47213 ATTAAAACATTATATCATTTCCAAAAAGATATTAACTTTCATATTTTTAATATTCAATTTTCGTT
66 ATTAAAACATTATATCATTTCCAAAAAGATATTAACTTTCATATTTTTAATATTCAATTTTCGTT
** * *
47278 TATTTAATATTTCATATTAAAATGGAAATATTCCTTTAAAAAATATATGGAAGGTTTATTAAAAC
131 TATTTAATACCTCATATTAAAATGGAAATATTCCTCTAAAAAATATATGGAAAGTTTATTAAAAC
* *
47343 ATTATATCATTTCCAAAAGGATAGTAACTTTCATGTTTTTAATATTTAGC
196 ATTATATCATTTCAAAAAGGATAGTAACTTCCATGTTTTTAATATTTAGC
* *
47393 TTCCTTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTGGAG-AAATATATGAAAGGTT
1 TTCCTTTTATTTAATATCTCATATTAAAACGGAAATATTCCTTTAGAGAAAATATATGAAA-GTT
* * * *
47457 TATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTCAATTTTCTT
65 TATTAAAACATTATATCATTTCCAAAAAGATATTAACTTTCATATTTTTAATATTCAATTTTCGT
* * * *
47522 TTATTTAATACCTCATATTAAAATGGAATTTTTCCTCTAGAGAAATATATTGAAAG-TTATTAAA
130 TTATTTAATACCTCATATTAAAATGGAAATATTCCTCTA-AAAAATATATGGAAAGTTTATTAAA
* *
47586 ACATTATATCCTTTCAAAAAGGATATTAACTTCCATGT
194 ACATTATATCATTTCAAAAAGGATAGTAACTTCCATGT
47624 CACTACAACA
Statistics
Matches: 210, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
244 11 0.05
245 186 0.89
246 13 0.06
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (245 bp):
TTCCTTTTATTTAATATCTCATATTAAAACGGAAATATTCCTTTAGAGAAAATATATGAAAGTTT
ATTAAAACATTATATCATTTCCAAAAAGATATTAACTTTCATATTTTTAATATTCAATTTTCGTT
TATTTAATACCTCATATTAAAATGGAAATATTCCTCTAAAAAATATATGGAAAGTTTATTAAAAC
ATTATATCATTTCAAAAAGGATAGTAACTTCCATGTTTTTAATATTTAGC
Found at i:47922 original size:141 final size:139
Alignment explanation
Indices: 47654--48067 Score: 550
Period size: 141 Copynumber: 3.0 Consensus size: 139
47644 AAGACAACAT
* * * *
47654 TTTTGGGGCGACACTTTTCTAAGTGTTGCGATAGACTTGCCAACATACACTTTGGCCAACT-TTT
1 TTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTT
* * * * *
47718 TGTATAAGGGTT-AGGATATGCATGCATAATACAACACTTACATAAGAGTTGGCTTTGTCCAACA
66 TGTATAAGGGTTGA-GATATGCATGCCTAAGACAACGCTTAAATAAGAG-TAGCTTTGTCCAACA
47782 CTATGCTGACAC
129 CTATGC-GACAC
* *
47794 TTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCGACATACGCTTTTGCCAACTCTTT
1 TTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTT
* *
47859 TGTATAAGGGTTGAGATATGCATGCCTAAGGCAATGCTTAAATAAGAGTCAGCTTTGTCCAACAC
66 TGTATAAGGGTTGAGATATGCATGCCTAAGACAACGCTTAAATAAGAGT-AGCTTTGTCCAACAC
47924 TATGGCGACAC
130 TAT-GCGACAC
* * * *
47935 TTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGTCTTGCCGGCATATGCTTTGGCCAACTC-TT
1 TTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTT
* * *
47999 TGTATAA-GGTTG-GAATACGCATGCCTAAGACAACGCTTAAATAAGAGTTGACTTTTTCCAACA
66 TGTATAAGGGTTGAG-ATATGCATGCCTAAGACAACGCTTAAATAAGAGTAG-CTTTGTCCAACA
48062 CTATGC
129 CTATGC
48068 CAACCTTTTT
Statistics
Matches: 244, Mismatches: 24, Indels: 14
0.87 0.09 0.05
Matches are distributed among these distances:
138 4 0.02
139 51 0.21
140 65 0.27
141 121 0.50
142 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (139 bp):
TTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTT
TGTATAAGGGTTGAGATATGCATGCCTAAGACAACGCTTAAATAAGAGTAGCTTTGTCCAACACT
ATGCGACAC
Found at i:48119 original size:36 final size:36
Alignment explanation
Indices: 48062--48546 Score: 478
Period size: 36 Copynumber: 13.3 Consensus size: 36
48052 TTTTCCAACA
* *
48062 CTATGCCAACCTTTTTAAGGTTGCCTTACACAAGGT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
* * * *
48098 CTATCCTAATCTTTTTAAGGTTGCCTTAGAAAAAGT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
* * *
48134 CTATCCCAATCTTTTTAAAAGGTTGCCTTAGGCAAAGT
1 CTATCCCAACCTTTTT--AAGGTTGCCTTAGACAAGGT
*
48172 CTATCCCAACCTTTTTAAGGTTGCTTTAGACAAGGT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
* * * *
48208 CTATTCCAACATTTTTTAAAGGTTGCCTCAAACAAGGT
1 CTATCCCAAC-CTTTTT-AAGGTTGCCTTAGACAAGGT
*
48246 CTATCCCAACCTTTTTAAGGTTGCCTTAGACATGGT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
* * * * **
48282 TTACCCCAACCTTTTTAAAGTTGTCTTAGAC-TTGT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
* **
48317 CTATCCCAACCTTTTTTAAAGGTTTCCTTAGACAAGAC
1 CTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAAGGT
* * *
48355 CTA-CTCCAACCTTTTTGAGGTTACCTTAGACAATGT
1 CTATC-CCAACCTTTTTAAGGTTGCCTTAGACAAGGT
*
48391 CTATCCCAACCTTTTTAAGGTTGCCTTAAAC-AGGT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
* * *
48426 CTATCCCAACCTTTTTTAAAGGCTACCTTAGA-TAGGT
1 CTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAAGGT
* *
48463 CTATCCTAACCTTTTTTAAAGGTTGTCTTAGACAAGG-
1 CTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAAGGT
* * ** *
48500 CATACCCCAACCTTTTTAAAGTTATCTTAGACGA-GT
1 C-TATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
48536 CTATCCCAACC
1 CTATCCCAACC
48547 CTTCAATAAA
Statistics
Matches: 374, Mismatches: 60, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
35 36 0.10
36 181 0.48
37 78 0.21
38 79 0.21
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (36 bp):
CTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
Found at i:48201 original size:74 final size:73
Alignment explanation
Indices: 48062--48546 Score: 468
Period size: 74 Copynumber: 6.7 Consensus size: 73
48052 TTTTCCAACA
* * * *
48062 CTATGCCAACCTTTTT-AAGGTTGCCTTACACAAGGTCTATCCTAATCTTTTTAAGGTTGCCTTA
1 CTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTA
*
48126 GAAAAAGT
66 GAAAAGGT
* * * *
48134 CTATCCCAATCTTTTTAAAAGGTTGCCTTAGGCAAAGTCTATCCCAACCTTTTTAAGGTTGCTTT
1 CTATCCCAACCTTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
*
48199 AGACAAGGT
65 AGAAAAGGT
* * * *
48208 CTATTCCAACATTTTTTAAAGGTTGCCTCAAACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
1 CTATCCCAAC-CTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
* *
48273 AGACATGGT
65 AGAAAAGGT
* * * ** *
48282 TTACCCCAACCTTTTTAAA-GTTGTCTTAGAC-TTGTCTATCCCAACCTTTTTTAAAGGTTTCCT
1 CTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACC-TTTTT-AAGGTTGCCT
* **
48345 TAGACAAGAC
64 TAGAAAAGGT
* * *
48355 CTA-CTCCAACCTTTTT-GAGGTTACCTTAGACAATGTCTATCCCAACCTTTTTAAGGTTGCCTT
1 CTATC-CCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
*
48418 A-AACAGGT
65 AGAAAAGGT
* * * * *
48426 CTATCCCAACCTTTTTTAAAGGCTACCTTAGA-TAGGTCTATCCTAACCTTTTTTAAAGGTTGTC
1 CTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACC-TTTTT-AAGGTTGCC
*
48490 TTAGACAAGG-
63 TTAGAAAAGGT
* ** *
48500 CATACCCCAACCTTTTTAAA-GTTATCTTAGACGA-GTCTATCCCAACC
1 C-TATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACC
48547 CTTCAATAAA
Statistics
Matches: 342, Mismatches: 55, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
71 25 0.07
72 60 0.18
73 90 0.26
74 149 0.44
75 18 0.05
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (73 bp):
CTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTA
GAAAAGGT
Found at i:48207 original size:110 final size:108
Alignment explanation
Indices: 48062--48546 Score: 487
Period size: 110 Copynumber: 4.4 Consensus size: 108
48052 TTTTCCAACA
* * * *
48062 CTATGCCAACCTTTTTAAGGTTGCCTTACACAAGGTCTATCCTAATC-TTTTT-AAGGTTGCCTT
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGAC-AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* *
48125 AGAAAAAGTCTATCCCAATCTTTTTAAAAGGTTGCCTTAGGCAAAGT
65 AG-AAAAGTCTATCCCAACCTTTTT--AAGGTTGCCTTAGACAAAGT
* * * *
48172 CTATCCCAACCTTTTTAAGGTTGCTTTAGACAAGGTCTATTCCAACATTTTTTAAAGGTTGCCTC
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGAC-AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
**
48237 A-AACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACATGGT
65 AGAA-AA-GTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAAGT
* * * * ** *
48282 TTACCCCAACCTTTTTAAAGTTGTCTTAGACTTGTCTATCCCAACCTTTTTTAAAGGTTTCCTTA
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTA
* * * * *
48347 GACAAGACCTA-CTCCAACCTTTTTGAGGTTACCTTAGACAATGT
66 GAAAAG-TCTATC-CCAACCTTTTTAAGGTTGCCTTAGACAAAGT
* * *
48391 CTATCCCAACCTTTTTAAGGTTGCCTTAAACAGGTCTATCCCAACCTTTTTTAAAGGCTACCTTA
1 CTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTA
* * * * *
48456 GATAGGTCTATCCTAACCTTTTTTAAAGGTTGTCTTAGAC-AAGG
66 GAAAAGTCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAAAGT
* * **
48500 CATACCCCAACCTTTTTAAAGTTATCTTAGAC-GAGTCTATCCCAACC
1 C-TATCCCAACCTTTTTAAGGTTGCCTTAGACAG-GTCTATCCCAACC
48547 CTTCAATAAA
Statistics
Matches: 311, Mismatches: 52, Indels: 24
0.80 0.13 0.06
Matches are distributed among these distances:
108 10 0.03
109 130 0.42
110 136 0.44
111 7 0.02
112 28 0.09
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (108 bp):
CTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTA
GAAAAGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAAGT
Found at i:50838 original size:21 final size:18
Alignment explanation
Indices: 50805--50847 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 18
50795 TTTATTTTTG
*
50805 TTTATTTACTTAGATTAATT
1 TTTATTTAATTAGA-T-ATT
50825 TTTAGTTTAATTAGATATT
1 TTTA-TTTAATTAGATATT
50844 TTTA
1 TTTA
50848 AGATATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTATTTAATTAGATATT
Found at i:52346 original size:38 final size:37
Alignment explanation
Indices: 52278--52353 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 37
52268 TCTAGGGTTG
* * *
52278 AACTTTGATTAATATGTAAAGATCATACATCTAGAAT
1 AACTTTGATTAATATGTAAAGATAAAACATCTAAAAT
52315 AACTTTGATTAAATATGTAAA-AGTAAAACATCTAAAAT
1 AACTTTGATT-AATATGTAAAGA-TAAAACATCTAAAAT
52353 A
1 A
52354 TAAATTATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 11 0.32
38 23 0.68
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (37 bp):
AACTTTGATTAATATGTAAAGATAAAACATCTAAAAT
Found at i:53986 original size:28 final size:29
Alignment explanation
Indices: 53949--54004 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
53939 AGATTTTTTA
53949 TTAAAATAATATAAAAATTA-ATTAATTT
1 TTAAAATAATATAAAAATTAGATTAATTT
*
53977 TTAAAATAATATAAAATTTAGATTAATT
1 TTAAAATAATATAAAAATTAGATTAATT
54005 ACATGTTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (29 bp):
TTAAAATAATATAAAAATTAGATTAATTT
Found at i:54144 original size:18 final size:18
Alignment explanation
Indices: 54115--54163 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
54105 TTTTTTTTTT
54115 TAACTGCTCACTCATAACA
1 TAACT-CTCACTCATAACA
54134 TAACTCTCACTCATAACA
1 TAACTCTCACTCATAACA
54152 TAACTCTCACTC
1 TAACTCTCACTC
54164 TTTTCTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.29
Consensus pattern (18 bp):
TAACTCTCACTCATAACA
Found at i:61100 original size:24 final size:25
Alignment explanation
Indices: 61047--61136 Score: 103
Period size: 24 Copynumber: 3.7 Consensus size: 25
61037 TAGCCCAAAT
* *
61047 GAGCCTAGACAGAATTAGCTCTTAC
1 GAGCCTAGATAGAGTTAGCTCTTAC
* * *
61072 AAGCCTAGATAG-GTTAGCTCCTAT
1 GAGCCTAGATAGAGTTAGCTCTTAC
*
61096 GAGCCCAGATAG-GTTAGCTCTTAC
1 GAGCCTAGATAGAGTTAGCTCTTAC
*
61120 GAGCCAAGATAGAGTTA
1 GAGCCTAGATAGAGTTA
61137 ACCAGTATAC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 40 0.74
25 14 0.26
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (25 bp):
GAGCCTAGATAGAGTTAGCTCTTAC
Found at i:67843 original size:21 final size:22
Alignment explanation
Indices: 67791--67848 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
67781 AAATATATAT
67791 TTTATATTTTATTAATTAATTAAA
1 TTTATATTTTA-T-ATTAATTAAA
*
67815 -TT-TATTTTATATTTA-TAAA
1 TTTATATTTTATATTAATTAAA
67834 TTTATATTTTATATT
1 TTTATATTTTATATT
67849 GTTTTTGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.13
20 6 0.19
21 12 0.39
22 7 0.23
23 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTATATTTTATATTAATTAAA
Found at i:68112 original size:17 final size:17
Alignment explanation
Indices: 68087--68157 Score: 88
Period size: 17 Copynumber: 4.2 Consensus size: 17
68077 AATAAGTTTG
68087 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* * * *
68104 AATTCATTTTGAGTTTG
1 AATTTATTTTAAATTTA
*
68121 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTTA
*
68138 AATTTATTTTAAATTAA
1 AATTTATTTTAAATTTA
68155 AAT
1 AAT
68158 AAATTTAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:68119 original size:34 final size:34
Alignment explanation
Indices: 68081--68147 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
68071 TTTTTAAATA
*
68081 AGTTTGAATTTATTTTAAATTTAAATTCATTTTG
1 AGTTTGAATTTACTTTAAATTTAAATTCATTTTG
*
68115 AGTTTGAATTTACTTTAAATTTAAATTTATTTT
1 AGTTTGAATTTACTTTAAATTTAAATTCATTTT
68148 AAATTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (34 bp):
AGTTTGAATTTACTTTAAATTTAAATTCATTTTG
Found at i:68769 original size:3 final size:3
Alignment explanation
Indices: 68761--68798 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
68751 GATTAATAGG
68761 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
68799 GTAAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:70002 original size:29 final size:29
Alignment explanation
Indices: 69951--70167 Score: 94
Period size: 29 Copynumber: 7.4 Consensus size: 29
69941 AAGGTCCCTT
* * *
69951 AACTCTCCAAAAATCATATTTTGACCCTCG
1 AACTTTCCAAAAATTACA-TTTGACCCTCG
* *
69981 AACTTTTCAAAAATTACATTTG-CCCCCTG
1 AACTTTCCAAAAATTACATTTGACCCTC-G
**
70010 AAC-TTCACAACGATTACATTTTTGA-CCTCG
1 AACTTTC-CAAAAATTACA--TTTGACCCTCG
* * *
70040 AAC--TCCTTGAAAATTACCATTTTACCCCCG
1 AACTTTCC--AAAAATTA-CATTTGACCCTCG
* *
70070 -AGTTTCCAAAAATTACCATTTTACCCTC-
1 AACTTTCCAAAAATTA-CATTTGACCCTCG
* * *
70098 AAATTTCCAAAAATTCCATTTTGA-CC-CA
1 AACTTTCCAAAAATTACA-TTTGACCCTCG
** * *
70126 AACTCCCCGAAAATTACCATTTTACCCTCG
1 AACTTTCCAAAAATTA-CATTTGACCCTCG
70156 AAC-TTCCAAAAA
1 AACTTTCCAAAAA
70168 ATACTCGAAT
Statistics
Matches: 140, Mismatches: 30, Indels: 35
0.68 0.15 0.17
Matches are distributed among these distances:
27 1 0.01
28 26 0.19
29 70 0.50
30 31 0.22
31 12 0.09
ACGTcount: A:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (29 bp):
AACTTTCCAAAAATTACATTTGACCCTCG
Found at i:70255 original size:29 final size:29
Alignment explanation
Indices: 70171--70438 Score: 86
Period size: 29 Copynumber: 9.1 Consensus size: 29
70161 CCAAAAAATA
* *
70171 CTCGAATGTTCAAAAATTCCATTTTTGACC
1 CTCGAATGTCCAAAAATTACATTTTT-ACC
** * * *
70201 CTAAAATTTTCAAAAAATACCA-TTTTACC
1 CTCGAATGTCCAAAAATTA-CATTTTTACC
*
70230 CTCGAATGTCCAAAAATTACATTTTTTA-T
1 CTCGAATGTCCAAAAATTACA-TTTTTACC
* * *
70259 CTTGAATTTTCCAATAATTACCA-TTTTACC
1 CTCGAA-TGTCCAAAAATTA-CATTTTTACC
* *
70289 CCCGAACT-TCCAAAAA-TATCATTTTTGA-T
1 CTCGAA-TGTCCAAAAATTA-CATTTTT-ACC
* * * **
70318 CTTGAATTTTCTAAAAATTACCGTTTT-CC
1 CTCGAA-TGTCCAAAAATTACATTTTTACC
* **
70347 TCCCGAAGTGTCC-AAAATTACCGTTTTACC
1 -CTCGAA-TGTCCAAAAATTACATTTTTACC
** * * * * *
70377 C-CTGAACATTCGAAAATTTCATTTTCATC
1 CTC-GAATGTCCAAAAATTACATTTTTACC
* *
70406 CTCGAATATCAAAAAATTACCATTTTTACC
1 CTCGAATGTCCAAAAATTA-CATTTTTACC
70436 CTC
1 CTC
70439 AAACCTCAGA
Statistics
Matches: 173, Mismatches: 48, Indels: 34
0.68 0.19 0.13
Matches are distributed among these distances:
28 9 0.05
29 85 0.49
30 73 0.42
31 6 0.03
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (29 bp):
CTCGAATGTCCAAAAATTACATTTTTACC
Found at i:70272 original size:30 final size:31
Alignment explanation
Indices: 70238--70344 Score: 89
Period size: 30 Copynumber: 3.6 Consensus size: 31
70228 CCCTCGAATG
70238 TCCAAAAATTA-CATTTTTTATCTTGAATTT
1 TCCAAAAATTACCATTTTTTATCTTGAATTT
* * ** *
70268 TCCAATAATTACCA--TTTTACCCCCGAA-CT
1 TCCAAAAATTACCATTTTTTA-TCTTGAATTT
* *
70297 TCCAAAAA-TATCATTTTTGATCTTGAATTT
1 TCCAAAAATTACCATTTTTTATCTTGAATTT
* *
70327 TCTAAAAATTACCGTTTT
1 TCCAAAAATTACCATTTT
70345 CCTCCCGAAG
Statistics
Matches: 56, Mismatches: 15, Indels: 11
0.68 0.18 0.13
Matches are distributed among these distances:
28 4 0.07
29 17 0.30
30 26 0.46
31 9 0.16
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.43
Consensus pattern (31 bp):
TCCAAAAATTACCATTTTTTATCTTGAATTT
Found at i:70364 original size:59 final size:59
Alignment explanation
Indices: 70173--70364 Score: 189
Period size: 59 Copynumber: 3.2 Consensus size: 59
70163 AAAAAATACT
* * * ** * *
70173 CGAATGTTCAAAA-ATTCCATTTTTGACCCTAAAATTTTCAAAAAATACCATTTTACCCT
1 CGAATGTCCAAAATATTACATTTTTGA-TCTTGAATTTTCAAAAATTACCATTTTACCCC
* *
70232 CGAATGTCCAAAA-ATTACATTTTTTATCTTGAATTTTCCAATAATTACCATTTTACCCC
1 CGAATGTCCAAAATATTACATTTTTGATCTTGAATTTT-CAAAAATTACCATTTTACCCC
*
70291 CGAACT-TCCAAAA-A-TATCATTTTTGATCTTGAATTTTCTAAAAATTACCGTTTT-CCTCC
1 CGAA-TGTCCAAAATATTA-CATTTTTGATCTTGAATTTTC-AAAAATTACCATTTTACC-CC
70350 CGAAGTGTCCAAAAT
1 CGAA-TGTCCAAAAT
70365 TACCGTTTTA
Statistics
Matches: 113, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
58 13 0.12
59 92 0.81
60 8 0.07
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.38
Consensus pattern (59 bp):
CGAATGTCCAAAATATTACATTTTTGATCTTGAATTTTCAAAAATTACCATTTTACCCC
Found at i:70804 original size:15 final size:14
Alignment explanation
Indices: 70780--70811 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
70770 AAAAAATGCC
70780 TTCTAATTTCGAGA
1 TTCTAATTTCGAGA
70794 TTCTGAATTTCGAGA
1 TTCT-AATTTCGAGA
70809 TTC
1 TTC
70812 CGAGAATGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (14 bp):
TTCTAATTTCGAGA
Found at i:83017 original size:209 final size:207
Alignment explanation
Indices: 82650--83365 Score: 943
Period size: 209 Copynumber: 3.4 Consensus size: 207
82640 AAATGGTTAG
* * ** ** * * * *
82650 CTTCTTGATGAGATACAGAGAAGCAGATTGAAACAAGTTAGGCGGTCATCTTCCTGATGAGAAAC
1 CTTCCTGATGAGACACAGAGAAGTGGATCAAAATAAGTGATGCGGTCATCTTCCTGATGAGATAC
* * * * *
82715 AGAGAAGTATACCAACTCAATGGAA-CAAAGCTCAATACGTGTA--AATCTTCGAACCCTAGCTT
66 TGAGAAGAAGACCAAATCAAT-GAAGC-AAGCTCAA-A-GTG-AGGAATCTTCGAACCCCAGCTT
* *
82777 CCTGATAAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCTTGATGAGATACTGAG
126 CCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAG
* *
82842 AAGTGGACTAGATTTGT
191 AAGTGGACCAGATTCGT
* *
82859 CTTCCTGATGAGACACAAAGAAGTGGATCAAAATAAGTGATACGGTCATCTTCCTGATGAGATAC
1 CTTCCTGATGAGACACAGAGAAGTGGATCAAAATAAGTGATGCGGTCATCTTCCTGATGAGATAC
* * *
82924 TGAGAAGAAGACCAAATCAATGAAGTCAAGCTCAAAGTGAGCGAACCTTTGAACCCCAGCTTCTT
66 TGAGAAGAAGACCAAATCAATGAAG-CAAGCTCAAAGTGAG-GAATCTTCGAACCCCAGCTTCCT
*
82989 GATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAC
129 GATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAG
*
83054 TGGACCAAATTCGT
194 TGGACCAGATTCGT
* * * *
83068 CTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGATGCGGTCATCTTCTTGATGAGATAC
1 CTTCCTGATGAGACACAGAGAAGTGGATCAAAATAAGTGATGCGGTCATCTTCCTGATGAGATAC
*
83133 TGAGAAGAAGACCAAATCAATGAAGCCAGGCTCAAAGTGAGTGAATCTTCGAACCCCAGCTTCCT
66 TGAGAAGAAGACCAAATCAATGAAG-CAAGCTCAAAGTGAG-GAATCTTCGAACCCCAGCTTCCT
** * *
83198 GATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAG
129 GATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAG
* *
83263 TGAACCAGATCCGT
194 TGGACCAGATTCGT
* * * *
83277 CTTTCTGATAAGACACAGAGAAGTGGATCAAAAATAAGTGATGCGGTCATCTTCCTAATGAAATA
1 CTTCCTGATGAGACACAGAGAAGTGGATC-AAAATAAGTGATGCGGTCATCTTCCTGATGAGATA
*
83342 CTGAGAAGTAGACCAAATCAATGA
65 CTGAGAAGAAGACCAAATCAATGA
83366 CACCAAACTA
Statistics
Matches: 446, Mismatches: 55, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
206 1 0.00
207 3 0.01
208 4 0.01
209 383 0.86
210 55 0.12
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (207 bp):
CTTCCTGATGAGACACAGAGAAGTGGATCAAAATAAGTGATGCGGTCATCTTCCTGATGAGATAC
TGAGAAGAAGACCAAATCAATGAAGCAAGCTCAAAGTGAGGAATCTTCGAACCCCAGCTTCCTGA
TGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTG
GACCAGATTCGT
Found at i:83710 original size:17 final size:17
Alignment explanation
Indices: 83685--83755 Score: 97
Period size: 17 Copynumber: 4.2 Consensus size: 17
83675 AATAAGTTTG
83685 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* * *
83702 AATTCATTTTGAGTTTA
1 AATTTATTTTAAATTTA
*
83719 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTTA
*
83736 AATTTATTTTAAATTAA
1 AATTTATTTTAAATTTA
83753 AAT
1 AAT
83756 ATTTAAAAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:83717 original size:34 final size:34
Alignment explanation
Indices: 83679--83745 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
83669 TTTTTAAATA
* *
83679 AGTTTGAATTTATTTTAAATTTAAATTCATTTTG
1 AGTTTAAATTTACTTTAAATTTAAATTCATTTTG
*
83713 AGTTTAAATTTACTTTAAATTTAAATTTATTTT
1 AGTTTAAATTTACTTTAAATTTAAATTCATTTT
83746 AAATTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (34 bp):
AGTTTAAATTTACTTTAAATTTAAATTCATTTTG
Found at i:85642 original size:30 final size:29
Alignment explanation
Indices: 85599--85906 Score: 105
Period size: 29 Copynumber: 10.5 Consensus size: 29
85589 TTAACTCTCT
* *
85599 AAAAATCATATTTTGACCCCCAAACTTTTC
1 AAAAATTACATTTT-ACCCCCAAACTTTTC
*
85629 AAAAATTACATTTTGACCCTCAAAC--TTC
1 AAAAATTACATTTT-ACCCCCAAACTTTTC
** * **
85657 ATAATAATTACATTTTTGA-CTTCGAACTCCTC
1 A-AA-AATTACA-TTTT-ACCCCCAAACTTTTC
* * * * *
85689 AAAAATTACCATTTTAACCTC-GAGTTTCC
1 AAAAATTA-CATTTTACCCCCAAACTTTTC
* * *
85718 AAATATTACCATTTTACCCTCAAA-TTTCC
1 AAAAATTA-CATTTTACCCCCAAACTTTTC
* * **
85747 AAAAATTCCATTTTTTA-CCCCTAACTCCTC
1 AAAAATTACA--TTTTACCCCCAAACTTTTC
* * * *
85777 GAAAATTACCATTTTACCCTCGAACTTCT-
1 AAAAATTA-CATTTTACCCCCAAACTTTTC
* * *
85806 AAAAAATATCATTTTACCCCCGAA-TGTTTG
1 AAAAATTA-CATTTTACCCCCAAACT-TTTC
* ** * *
85836 AAAATTCTATTTTTTA-CCCCAAAATTTTA
1 AAAAAT-TACATTTTACCCCCAAACTTTTC
* * *
85865 AAAAATTACATTTTACCCCTAAA-TGTCC
1 AAAAATTACATTTTACCCCCAAACTTTTC
85893 AAAAATTACATTTT
1 AAAAATTACATTTT
85907 TGATCTCGAA
Statistics
Matches: 215, Mismatches: 45, Indels: 38
0.72 0.15 0.13
Matches are distributed among these distances:
28 30 0.14
29 88 0.41
30 80 0.37
31 14 0.07
32 3 0.01
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (29 bp):
AAAAATTACATTTTACCCCCAAACTTTTC
Found at i:85725 original size:29 final size:29
Alignment explanation
Indices: 85688--85965 Score: 111
Period size: 29 Copynumber: 9.6 Consensus size: 29
85678 TCGAACTCCT
* *
85688 CAAAAATTACCATTTTAACCTCGAGTTTC
1 CAAAAATTACCATTTTAACCTCAAATTTC
* *
85717 CAAATATTACCATTTTACCCTCAAATTTC
1 CAAAAATTACCATTTTAACCTCAAATTTC
* * * * *
85746 CAAAAATT-CCATTTTTTACCCCTAACTCC
1 CAAAAATTACCA-TTTTAACCTCAAATTTC
* * * *
85775 TCGAAAATTACCATTTTACCCTCGAACTTC
1 -CAAAAATTACCATTTTAACCTCAAATTTC
* * * * * *
85805 TAAAAAATATCATTTTACCCCCGAATGTT-
1 CAAAAATTACCATTTTAACCTCAAAT-TTC
** * * * *
85834 TGAAAATT-CTATTTTTTACCCCAAAATTTT
1 CAAAAATTACCA-TTTTAACCTC-AAATTTC
* * *
85864 AAAAAATTA-CATTTT-ACCCCTAAATGTC
1 CAAAAATTACCATTTTAACCTC-AAATTTC
* * *
85892 CAAAAATTA-CATTTTTGATCTCGAATTTTC
1 CAAAAATTACCA-TTTTAACCTC-AAATTTC
* * * *
85922 CAAATATTACCATTTTACCCTCGAACTTC
1 CAAAAATTACCATTTTAACCTCAAATTTC
*
85951 CAAAAA-TATCATTTT
1 CAAAAATTACCATTTT
85966 TCATCCCGAG
Statistics
Matches: 187, Mismatches: 51, Indels: 23
0.72 0.20 0.09
Matches are distributed among these distances:
28 32 0.17
29 96 0.51
30 54 0.29
31 5 0.03
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (29 bp):
CAAAAATTACCATTTTAACCTCAAATTTC
Found at i:85819 original size:88 final size:86
Alignment explanation
Indices: 85628--85906 Score: 238
Period size: 88 Copynumber: 3.2 Consensus size: 86
85618 CCAAACTTTT
* * * **
85628 CAAAAATTACATTTTGACCCTCAAACTTCATAATAATTACATTTTTGACTTCGAACTCCTCAAAA
1 CAAAAATTACATTTT-ACCCTCAAATTTCA-AA-AATTCCATTTTTTACCCCGAACTCCTCAAAA
**
85693 ATTACCATTTTAACCTCGAGTTTC
63 ATTACCATTTTAACCTCGAACTTC
* * *
85717 CAAATATTACCATTTTACCCTCAAATTTCCAAAAATTCCATTTTTTACCCCTAACTCCTCGAAAA
1 CAAAAATTA-CATTTTACCCTCAAATTT-CAAAAATTCCATTTTTTACCCCGAACTCCTCAAAAA
*
85782 TTACCATTTTACCCTCGAACTTC
64 TTACCATTTTAACCTCGAACTTC
* * * * ** * * * ** *
85805 TAAAAAATATCATTTTACCCCCGAATGTTTGAAAATTCTATTTTTTACCCCAAAATTTTAAAAAA
1 CAAAAATTA-CATTTTACCCTCAAAT-TTCAAAAATTCCATTTTTTACCCCGAACTCCTCAAAAA
* * *
85870 TTA-CATTTT-ACCCCTAAATGTC
64 TTACCATTTTAACCTCGAACT-TC
85892 CAAAAATTACATTTT
1 CAAAAATTACATTTT
85907 TGATCTCGAA
Statistics
Matches: 154, Mismatches: 32, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
86 12 0.08
87 15 0.10
88 96 0.62
89 23 0.15
90 8 0.05
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (86 bp):
CAAAAATTACATTTTACCCTCAAATTTCAAAAATTCCATTTTTTACCCCGAACTCCTCAAAAATT
ACCATTTTAACCTCGAACTTC
Found at i:85879 original size:28 final size:28
Alignment explanation
Indices: 85778--85906 Score: 89
Period size: 28 Copynumber: 4.5 Consensus size: 28
85768 TAACTCCTCG
* * *
85778 AAAATTACCATTTTACCCTCGAACTTCTAA
1 AAAATTA-CATTTTACCC-CAAAATTTTAA
** *
85808 AAAA-TATCATTTTACCCCCGAATGTTTGA
1 AAAATTA-CATTTTACCCCAAAAT-TTTAA
* **
85837 AAATTCTATTTTTTACCCCAAAATTTTAA
1 AAAAT-TACATTTTACCCCAAAATTTTAA
* * **
85866 AAAATTACATTTTACCCCTAAATGTCCA
1 AAAATTACATTTTACCCCAAAATTTTAA
85894 AAAATTACATTTT
1 AAAATTACATTTT
85907 TGATCTCGAA
Statistics
Matches: 77, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
28 33 0.43
29 26 0.34
30 16 0.21
31 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (28 bp):
AAAATTACATTTTACCCCAAAATTTTAA
Found at i:89923 original size:33 final size:33
Alignment explanation
Indices: 89883--89950 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
89873 TCTGGACGAG
89883 TAAGAACAACATACTGTAATGCACCTACAAGAC
1 TAAGAACAACATACTGTAATGCACCTACAAGAC
89916 TAAGAACAACATACTGTAATGCACCTACAAGAC
1 TAAGAACAACATACTGTAATGCACCTACAAGAC
89949 TA
1 TA
89951 CGATACTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.46, C:0.24, G:0.12, T:0.19
Consensus pattern (33 bp):
TAAGAACAACATACTGTAATGCACCTACAAGAC
Found at i:95146 original size:16 final size:16
Alignment explanation
Indices: 95125--95156 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
95115 ATGAATGATC
95125 TTTCCATGAAATAGGA
1 TTTCCATGAAATAGGA
*
95141 TTTCCATGAAGTAGGA
1 TTTCCATGAAATAGGA
95157 GATAGTGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (16 bp):
TTTCCATGAAATAGGA
Found at i:95384 original size:27 final size:27
Alignment explanation
Indices: 95354--95405 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
95344 TACAGAAGAA
95354 AGCATTGCTATTCTCTTAGCACTTTCT
1 AGCATTGCTATTCTCTTAGCACTTTCT
*
95381 AGCATTGCTATTTTCTTAGCACTTT
1 AGCATTGCTATTCTCTTAGCACTTT
95406 TTATATTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.46
Consensus pattern (27 bp):
AGCATTGCTATTCTCTTAGCACTTTCT
Found at i:100179 original size:7 final size:6
Alignment explanation
Indices: 100148--100178 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
100138 TGGTTTTCTA
100148 GAAATG GAAATG GAAATG GAAATG AGAAATG
1 GAAATG GAAATG GAAATG GAAATG -GAAATG
100179 AATTCTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
GAAATG
Found at i:104211 original size:6 final size:6
Alignment explanation
Indices: 104200--104264 Score: 67
Period size: 6 Copynumber: 10.8 Consensus size: 6
104190 TTAGTCCATT
* * * * *
104200 ATTATA ATTATA ATTATA ATAATA ATAATA ATTATT ATTATT ATTATT
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA
* *
104248 ATTATT ATTATT ATTAT
1 ATTATA ATTATA ATTAT
104265 TGTTATTGTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
ATTATA
Found at i:104265 original size:6 final size:6
Alignment explanation
Indices: 104231--104424 Score: 286
Period size: 6 Copynumber: 32.8 Consensus size: 6
104221 ATAATAATAA
* * * * *
104231 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTG TTATTG TTATTG
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
104279 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
104327 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
* * * *
104375 TTATTG TTATTG ---TTG TTGTTG TTATTG TTATTA TTATTA TTATTA
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
104420 TTATT
1 TTATT
104425 CTCTCCAAAT
Statistics
Matches: 182, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
3 3 0.02
6 179 0.98
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (6 bp):
TTATTG
Found at i:105902 original size:17 final size:18
Alignment explanation
Indices: 105864--105903 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
105854 ACAGAATTAA
*
105864 AATTTGATTGAGAAAATT
1 AATTTAATTGAGAAAATT
105882 -ATTTAATT-AGAAAATT
1 AATTTAATTGAGAAAATT
105898 AATTTA
1 AATTTA
105904 TATAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (18 bp):
AATTTAATTGAGAAAATT
Found at i:112311 original size:88 final size:88
Alignment explanation
Indices: 112219--112392 Score: 206
Period size: 88 Copynumber: 2.0 Consensus size: 88
112209 TGCAATGAAT
* * *
112219 ATCCATAACCCAAA-TTCTAAATTAAAATATAATTAAATATATTAAAAACTAAAAAATAAATATC
1 ATCCATAACCAAAATTTC-AAACTAAAATATAATAAAATATATTAAAAACTAAAAAATAAATATC
112283 AGGGCTAAAAATAAAATAAATCTG
65 AGGGCTAAAAATAAAATAAATCTG
* * * * * ** ** * *
112307 ATCCATAACCAAAATTTCGAACTAATATTTAATAAAATCTGTTAAACCCTAAAATCTAAATCTTA
1 ATCCATAACCAAAATTTCAAACTAAAATATAATAAAATATATTAAAAACTAAAAAATAAATATCA
112372 GGGCTAAAAATAAAATAAATC
66 GGGCTAAAAATAAAATAAATC
112393 CAATTCAAGA
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
88 68 0.96
89 3 0.04
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (88 bp):
ATCCATAACCAAAATTTCAAACTAAAATATAATAAAATATATTAAAAACTAAAAAATAAATATCA
GGGCTAAAAATAAAATAAATCTG
Found at i:112692 original size:16 final size:15
Alignment explanation
Indices: 112665--112697 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
112655 ATGAATTTAA
112665 AATTAAATTAATTCT
1 AATTAAATTAATTCT
112680 AATTAAATATAATTCT
1 AATTAAAT-TAATTCT
112696 AA
1 AA
112698 ATGTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTAAATTAATTCT
Done.