Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004854.1 Hibiscus syriacus cultivar Beakdansim tig00010944_pilon, 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: 160384
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:9015 original size:21 final size:23
Alignment explanation
Indices: 8991--9045 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
8981 ACTGTATAAC
8991 ATATATTATATTTC-AA-AAACA
1 ATATATTATATTTCAAATAAACA
* * *
9012 ATATAATATGTTTTCAAATAAACT
1 ATATATTAT-ATTTCAAATAAACA
9036 ATATATTATA
1 ATATATTATA
9046 AATATTTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
21 8 0.31
22 4 0.15
23 2 0.08
24 12 0.46
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (23 bp):
ATATATTATATTTCAAATAAACA
Found at i:9109 original size:43 final size:40
Alignment explanation
Indices: 9019--9212 Score: 130
Period size: 40 Copynumber: 5.0 Consensus size: 40
9009 ACAATATAAT
9019 ATGTTTTCAAATAAACTATATAT-TATAAATATTTTCAAAAA
1 ATGTTTT-AAA-AAACTATATATATATAAATATTTTCAAAAA
** *
9060 CCGTTTTAAAAAACTATATATATATATATATATTTTTAAAATA
1 ATGTTTTAAAAAACTATATATATATA-A-ATATTTTCAAAA-A
** *
9103 ATGTTTTCCAAAAC--TATAT-TAT--ATGTTTTCAAAAAA
1 ATGTTTTAAAAAACTATATATATATAAATATTTTC-AAAAA
* *
9139 CCATTTTTTAAAAAACTATATAT-TAT--ATGTTTTCAAAAA
1 --ATGTTTTAAAAAACTATATATATATAAATATTTTCAAAAA
9178 TATGTTTT-AAAAA-T-TATAT-TAT--ATATTTTCAAAAA
1 -ATGTTTTAAAAAACTATATATATATAAATATTTTCAAAAA
9213 CTATTATATT
Statistics
Matches: 129, Mismatches: 15, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
35 20 0.16
36 8 0.06
37 9 0.07
38 17 0.13
39 16 0.12
40 26 0.20
41 11 0.09
42 11 0.09
43 11 0.09
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (40 bp):
ATGTTTTAAAAAACTATATATATATAAATATTTTCAAAAA
Found at i:9126 original size:42 final size:41
Alignment explanation
Indices: 9021--9126 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 41
9011 AATATAATAT
*
9021 GTTTTCAAATAAACTATA-TAT-TATAAATATTTTCAAAAACC
1 GTTTT-AAA-AAACTATATTATATATAAATATTTTCAAAAAAC
* * *
9062 GTTTTAAAAAACTATATATATATATATATATTTTTAAAATAAT
1 GTTTTAAAAAACTATAT-TATATATAAATATTTTCAAAA-AAC
**
9105 GTTTTCCAAAACTATATTATAT
1 GTTTTAAAAAACTATATTATAT
9127 GTTTTCAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
39 8 0.15
40 3 0.05
41 8 0.15
42 20 0.36
43 16 0.29
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (41 bp):
GTTTTAAAAAACTATATTATATATAAATATTTTCAAAAAAC
Found at i:9161 original size:40 final size:36
Alignment explanation
Indices: 9080--9212 Score: 126
Period size: 36 Copynumber: 3.6 Consensus size: 36
9070 AAACTATATA
* * * * *
9080 TATATATATATATTTTTAAAATA-ATGTTTTCCAAAAC
1 TATAT-TATATGTTTTCAAAAAACATGTTTT-AAAAAT
*
9117 TATATTATATGTTTTCAAAAAACCATTTTTTAAAAAACT
1 TATATTATATGTTTTCAAAAAA-CATGTTTT-AAAAA-T
*
9156 ATATATTATATGTTTTC-AAAAATATGTTTTAAAAAT
1 -TATATTATATGTTTTCAAAAAACATGTTTTAAAAAT
*
9192 TATATTATATATTTTCAAAAA
1 TATATTATATGTTTTCAAAAA
9213 CTATTATATT
Statistics
Matches: 81, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
35 15 0.19
36 19 0.23
37 10 0.12
38 16 0.20
39 5 0.06
40 16 0.20
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (36 bp):
TATATTATATGTTTTCAAAAAACATGTTTTAAAAAT
Found at i:9191 original size:13 final size:14
Alignment explanation
Indices: 9163--9191 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9153 ACTATATATT
9163 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
9177 ATATGTTTT-AAAA
1 ATATGTTTTCAAAA
9190 AT
1 AT
9192 TATATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (14 bp):
ATATGTTTTCAAAA
Found at i:9219 original size:20 final size:18
Alignment explanation
Indices: 9194--9240 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
9184 TTAAAAATTA
9194 TATTATATATTTTCAAAAAC
1 TATTATATATTTT--AAAAC
*
9214 TATTATAT-TTTTAAAAT
1 TATTATATATTTTAAAAC
9231 TATTATATAT
1 TATTATATAT
9241 ATTATCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 12 0.48
18 1 0.04
19 4 0.16
20 8 0.32
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTATATATTTTAAAAC
Found at i:9226 original size:40 final size:37
Alignment explanation
Indices: 9112--9243 Score: 112
Period size: 40 Copynumber: 3.5 Consensus size: 37
9102 AATGTTTTCC
* * *
9112 AAAACTATATTATATGTTTTCAAAAAACCAT-TTTTTAA
1 AAAATTATATTATATATTTTC-AAAAA-CATATTTTTTA
* *
9150 AAAACTATATATTATATGTTTTC-AAAA-ATATGTTTTA
1 AAAA-T-TATATTATATATTTTCAAAAACATATTTTTTA
9187 AAAATTATATTATATATTTTCAAAAACTATTATATTTTT-
1 AAAATTATATTATATATTTTCAAAAAC-A-TAT-TTTTTA
9226 AAAATTAT-TATATATATT
1 AAAATTATAT-TATATATT
9244 ATCATATATA
Statistics
Matches: 80, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
35 15 0.19
36 7 0.09
37 9 0.11
38 10 0.12
39 19 0.24
40 20 0.25
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (37 bp):
AAAATTATATTATATATTTTCAAAAACATATTTTTTA
Found at i:9265 original size:12 final size:12
Alignment explanation
Indices: 9229--9258 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9219 TATTTTTAAA
9229 ATTATTATATAT
1 ATTATTATATAT
*
9241 ATTATCATATAT
1 ATTATTATATAT
9253 ATTATT
1 ATTATT
9259 TAATATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:12168 original size:39 final size:39
Alignment explanation
Indices: 12109--12264 Score: 267
Period size: 39 Copynumber: 4.0 Consensus size: 39
12099 ACATATACAC
* * * *
12109 CAGTAAGGGCTTACCCTGTGCACAAAGCAGAGGAGCATG
1 CAGTAAGGTCTTATCTTGTGCACAAAGCAGAGGAGCCTG
*
12148 CGGTAAGGTCTTATCTTGTGCACAAAGCAGAGGAGCCTG
1 CAGTAAGGTCTTATCTTGTGCACAAAGCAGAGGAGCCTG
12187 CAGTAAGGTCTTATCTTGTGCACAAAGCAGAGGAGCCTG
1 CAGTAAGGTCTTATCTTGTGCACAAAGCAGAGGAGCCTG
12226 CAGTAAGGTCTTATCTTGTGCACAAAGCAGAGGAGCCTG
1 CAGTAAGGTCTTATCTTGTGCACAAAGCAGAGGAGCCTG
12265 TGGAAAGCGG
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (39 bp):
CAGTAAGGTCTTATCTTGTGCACAAAGCAGAGGAGCCTG
Found at i:13106 original size:19 final size:19
Alignment explanation
Indices: 13071--13126 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
13061 CATATTGGAC
*
13071 CGGGTCG-GATCGGGCAGG
1 CGGGTCGAGTTCGGGCAGG
* * *
13089 TGGGTCGAGTTTGGGCAGA
1 CGGGTCGAGTTCGGGCAGG
*
13108 CGGGTCGGGTTCGGGCAGG
1 CGGGTCGAGTTCGGGCAGG
13127 ATCTAGAAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.11, C:0.18, G:0.54, T:0.18
Consensus pattern (19 bp):
CGGGTCGAGTTCGGGCAGG
Found at i:17318 original size:27 final size:27
Alignment explanation
Indices: 17278--17332 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
17268 AATACTATTG
* *
17278 TGGACATGTTTATTTGTATGACTCTTA
1 TGGACATATGTATTTGTATGACTCTTA
17305 TGGACATATGTATTTGTATGACTCTTA
1 TGGACATATGTATTTGTATGACTCTTA
17332 T
1 T
17333 TTTGTATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (27 bp):
TGGACATATGTATTTGTATGACTCTTA
Found at i:20930 original size:4 final size:4
Alignment explanation
Indices: 20921--20970 Score: 55
Period size: 4 Copynumber: 11.8 Consensus size: 4
20911 AGGATAAAGA
* *
20921 AAAT AAAT AAAT AAAT AAACA AAAT AAAT AAAT AAAAT GAGAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT -AAAT -AAAT AAAT AAA
20971 AAAAGAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
4 29 0.74
5 10 0.26
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:20944 original size:21 final size:21
Alignment explanation
Indices: 20914--20956 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
20904 TAAAATCAGG
*
20914 ATAAAGAAAATAAATAAATAA
1 ATAAACAAAATAAATAAATAA
20935 ATAAACAAAATAAATAAATAA
1 ATAAACAAAATAAATAAATAA
20956 A
1 A
20957 ATGAGATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (21 bp):
ATAAACAAAATAAATAAATAA
Found at i:20945 original size:13 final size:13
Alignment explanation
Indices: 20929--20958 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20919 GAAAATAAAT
20929 AAATAAATAAACA
1 AAATAAATAAACA
*
20942 AAATAAATAAATA
1 AAATAAATAAACA
20955 AAAT
1 AAAT
20959 GAGATAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAATAAACA
Found at i:21081 original size:27 final size:28
Alignment explanation
Indices: 21051--21105 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
21041 ATATTAGTGT
21051 ATAAACAA-AATATAGAAAGAAAG-AATA
1 ATAAACAATAATA-AGAAAGAAAGCAATA
* *
21078 ATAAATAATAATAAGAAATAAAGCAATA
1 ATAAACAATAATAAGAAAGAAAGCAATA
21106 TATATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.69, C:0.04, G:0.09, T:0.18
Consensus pattern (28 bp):
ATAAACAATAATAAGAAAGAAAGCAATA
Found at i:21222 original size:2 final size:2
Alignment explanation
Indices: 21217--21267 Score: 93
Period size: 2 Copynumber: 25.0 Consensus size: 2
21207 CCAGGAAATA
21217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21259 AT AT GAT AT
1 AT AT -AT AT
21268 CAAATAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 46 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23129 original size:110 final size:110
Alignment explanation
Indices: 22973--23179 Score: 342
Period size: 110 Copynumber: 1.9 Consensus size: 110
22963 AATTGGGAAA
* *
22973 TTGTTTGTTGACAGTCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTATCTCGAGTCCAATA
1 TTGTTTGTTGACAATCAGCCGCCCCTTCGTTATGAAGTTGAGCTTGTGTTATCTCGAGTCCAATA
23038 TCCTTTGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
66 TCCTTTGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
* * * * *
23083 TTGTTTGTTGACAATCAGTCGCCCCTTCGTTATGAATTTGAGCTTGTGTTGTCTTGAGTCTAATA
1 TTGTTTGTTGACAATCAGCCGCCCCTTCGTTATGAAGTTGAGCTTGTGTTATCTCGAGTCCAATA
*
23148 TCCTTTGCTGTGAAGTTGAAATTGGCTCTGAA
66 TCCTTTGCTGTGAAGTTGAAATTGACTCTGAA
23180 ATTGGGAAGC
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 89 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (110 bp):
TTGTTTGTTGACAATCAGCCGCCCCTTCGTTATGAAGTTGAGCTTGTGTTATCTCGAGTCCAATA
TCCTTTGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
Found at i:23594 original size:32 final size:32
Alignment explanation
Indices: 23529--23603 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
23519 GATTCCCTTT
* * * *
23529 GTCGTGAAGTTGAAACTGTGGGTGGCCCCTTC
1 GTCGTGAAGTTGAAACCGTGGATGACCCATTC
*
23561 GTCGTGAAGTTGAAACCGTGGATGACCTATTC
1 GTCGTGAAGTTGAAACCGTGGATGACCCATTC
* *
23593 GTTGTAAAGTT
1 GTCGTGAAGTT
23604 TGGCTTCAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (32 bp):
GTCGTGAAGTTGAAACCGTGGATGACCCATTC
Found at i:24457 original size:10 final size:9
Alignment explanation
Indices: 24442--24477 Score: 63
Period size: 9 Copynumber: 3.9 Consensus size: 9
24432 TTTATTTTGT
24442 TCTTTTTTC
1 TCTTTTTTC
24451 TCTTTTTTC
1 TCTTTTTTC
24460 TCTTTTTTC
1 TCTTTTTTC
24469 TTCTTTTTT
1 -TCTTTTTT
24478 TTGACTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TCTTTTTTC
Found at i:24470 original size:16 final size:17
Alignment explanation
Indices: 24423--24475 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
24413 CTTATTTTTC
24423 TTTTCTCTTTTTAT-TT
1 TTTTCTCTTTTTATCTT
* *
24439 TGTTCT-TTTTTCTCTT
1 TTTTCTCTTTTTATCTT
24455 TTTTCTCTTTTT-TCTT
1 TTTTCTCTTTTTATCTT
24471 CTTTT
1 -TTTT
24476 TTTTGACTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 6 0.19
16 16 0.52
17 9 0.29
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTCTCTTTTTATCTT
Found at i:24477 original size:12 final size:11
Alignment explanation
Indices: 24418--24479 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
24408 CCCACCTTAT
24418 TTTTCTTTTCTC
1 TTTT-TTTTCTC
*
24430 TTTTTATTT-TG
1 TTTTT-TTTCTC
24441 TTCTTTTTTCTC
1 TT-TTTTTTCTC
24453 --TTTTTTCTC
1 TTTTTTTTCTC
24462 TTTTTTCTTCT-
1 TTTTTT-TTCTC
24473 TTTTTTT
1 TTTTTTT
24480 GACTTAAGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
9 9 0.21
10 1 0.02
11 17 0.40
12 15 0.36
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:27611 original size:103 final size:103
Alignment explanation
Indices: 27386--27603 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
27376 GTCGAGGGTC
*
27386 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATACGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
27451 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
*
27489 TATGTGGTCCTTCGGGACATATACGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATACGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
27554 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
27592 TATGTGGTCCTT
1 TATGTGGTCCTT
27604 ATGGACATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATACGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:27653 original size:23 final size:23
Alignment explanation
Indices: 27619--27710 Score: 121
Period size: 23 Copynumber: 4.0 Consensus size: 23
27609 CATTATTATA
*
27619 TGGCACTACGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
* *
27642 CGGCACTCCGGTGTAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
* *
27665 TGGCACTCCGGTGTAATTCTATG
1 TGGCACTCCGGTGCAATTCTACG
* *
27688 TGGCACTTCGGTGCAATTATACG
1 TGGCACTCCGGTGCAATTCTACG
27711 AGCTGTGGTG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.29
Consensus pattern (23 bp):
TGGCACTCCGGTGCAATTCTACG
Found at i:35458 original size:20 final size:20
Alignment explanation
Indices: 35430--35471 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
35420 CGACAGAATT
*
35430 CCAGAAGGGTATCGATACCC
1 CCAGAAGGGAATCGATACCC
*
35450 CCAGTAGGGAATCGATACCC
1 CCAGAAGGGAATCGATACCC
35470 CC
1 CC
35472 TAAAGGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.14
Consensus pattern (20 bp):
CCAGAAGGGAATCGATACCC
Found at i:36950 original size:103 final size:103
Alignment explanation
Indices: 36766--36983 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
36756 GTCGAGGGTC
36766 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
36831 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
36869 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
36934 TTGATCCCTAGTATATGTATATGATTCTTATGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
36972 TATGTGGTCCTT
1 TATGTGGTCCTT
36984 ATGGATATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:37033 original size:23 final size:23
Alignment explanation
Indices: 36999--37085 Score: 138
Period size: 23 Copynumber: 3.8 Consensus size: 23
36989 TATTATTATA
*
36999 TGGCACTACGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
*
37022 CGGCACTCCGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
*
37045 TGGCACTCCGGTGCAATTCTATG
1 TGGCACTCCGGTGCAATTCTACG
*
37068 TGGCACTTCGGTGCAATT
1 TGGCACTCCGGTGCAATT
37086 ATATGAACTG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTCCGGTGCAATTCTACG
Found at i:42835 original size:3 final size:3
Alignment explanation
Indices: 42827--42878 Score: 61
Period size: 3 Copynumber: 17.0 Consensus size: 3
42817 AAATTTAAAT
*
42827 TTA TTA TTA TTA TTA TTA TTA ATA TTA -TA TTA TATA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA
*
42873 ATA TTA
1 TTA TTA
42879 CAAAACCCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 34 0.81
4 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:42876 original size:25 final size:23
Alignment explanation
Indices: 42831--42878 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 23
42821 TTAAATTTAT
42831 TATTATTATTATTATTAATATTA
1 TATTATTATTATTATTAATATTA
42854 TATTATATATTATTTATTAATATTA
1 TATTAT-TATTA-TTATTAATATTA
42879 CAAAACCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 6 0.26
24 5 0.22
25 12 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATTATTATTAATATTA
Found at i:43285 original size:14 final size:14
Alignment explanation
Indices: 43266--43292 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43256 ACCCAAAAGA
43266 AAAAAAAATAGAGC
1 AAAAAAAATAGAGC
43280 AAAAAAAATAGAG
1 AAAAAAAATAGAG
43293 ACCAACAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.04, G:0.15, T:0.07
Consensus pattern (14 bp):
AAAAAAAATAGAGC
Found at i:47270 original size:14 final size:16
Alignment explanation
Indices: 47253--47292 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
47243 CATTACACAG
47253 TTTGCATTT-T-TATT
1 TTTGCATTTATGTATT
47267 TTTGCATTTATGTATT
1 TTTGCATTTATGTATT
*
47283 TTCGCATTTA
1 TTTGCATTTA
47293 CATTACATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 1 0.04
16 13 0.57
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.62
Consensus pattern (16 bp):
TTTGCATTTATGTATT
Found at i:52238 original size:114 final size:114
Alignment explanation
Indices: 52033--52255 Score: 365
Period size: 114 Copynumber: 2.0 Consensus size: 114
52023 TGCCACGTTC
*
52033 TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGG
* * *
52098 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGT
66 TTCGGTAAGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGT
* *
52147 TCATTGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGG
* * *
52212 TTCGGTAAGAATCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 TTCGGTAAGAACCCCAAAACCAATCATTAGAATTGAAAGATGAA
52256 CTGCATGATC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 100 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGG
TTCGGTAAGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGT
Found at i:54590 original size:54 final size:54
Alignment explanation
Indices: 54338--54602 Score: 377
Period size: 54 Copynumber: 4.9 Consensus size: 54
54328 AAAAATCTTG
* * * *
54338 GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAACGCTTTACGAACGTCTGG
1 GCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACGTCTGA
* * * *
54392 GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAACGCTTTATGAACGTCTGA
1 GCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACGTCTGA
* * *
54446 GCAGAAACCACAAGAAAGGATGAATGTATTGTCAAATGTTTTACGAACGTCTGA
1 GCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACGTCTGA
* * *
54500 GCAGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
1 GCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACGTCTGA
* *
54554 GCAGAAGCCACAGGAAAGGATGAATGCGCTGTCAAATGTTTTTACGAAC
1 GCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATG-TTTTACGAAC
54603 CTGCTATTCT
Statistics
Matches: 195, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
54 185 0.95
55 10 0.05
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
GCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACGTCTGA
Found at i:54996 original size:22 final size:22
Alignment explanation
Indices: 54970--55046 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
54960 ATCTACACTC
54970 TTCAAAGATGATAAATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
*
54992 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
* *
55014 TTTAAAGATGATATATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
55036 TTCAAAGATGA
1 TTCAAAGATGA
55047 AAGCTTTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAAATTCTCTT
Found at i:55864 original size:165 final size:167
Alignment explanation
Indices: 55561--55885 Score: 496
Period size: 165 Copynumber: 2.0 Consensus size: 167
55551 AAAATGAGCA
*
55561 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAACAGAACGAGAAAAC
1 TTATCTTGAGATTGAGGCATGTTACCCAATCAACATGTTATTT-AAAAAAACAGAACGAGAAAAC
* ** *
55626 GATTTTTATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
65 AATTTCCATAGTTTCTCATTATATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
* *
55691 TCTTAG-TTTTTTACTTAGTAAACTATTTCCAACATCC
130 CCTTAGTTTTTTTACTTAATAAACTATTTCCAACATCC
** * *
55728 TTATCTTGAGATTGAGGCATGTTACCCAATCAACATGTTATTT-TGAAAA-ATAATGAGAAAACA
1 TTATCTTGAGATTGAGGCATGTTACCCAATCAACATGTTATTTAAAAAAACAGAACGAGAAAACA
55791 ATTTCCATAGTTTCTCATTCAT-TCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
66 ATTTCCATAGTTTCTCATT-ATATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATT
55855 TCCTTAGTTTTTTTACTTAATAAACTATTTC
129 TCCTTAGTTTTTTTACTTAATAAACTATTTC
55886 TCACATCTGT
Statistics
Matches: 144, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
164 36 0.25
165 44 0.31
166 22 0.15
167 42 0.29
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (167 bp):
TTATCTTGAGATTGAGGCATGTTACCCAATCAACATGTTATTTAAAAAAACAGAACGAGAAAACA
ATTTCCATAGTTTCTCATTATATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
CTTAGTTTTTTTACTTAATAAACTATTTCCAACATCC
Found at i:55971 original size:76 final size:76
Alignment explanation
Indices: 55889--56304 Score: 715
Period size: 76 Copynumber: 5.5 Consensus size: 76
55879 CTATTTCTCA
* *
55889 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAACGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
55954 AGCCTTAGGGT
66 AGCCTTAGGGT
55965 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
56030 AGCCTTAGGGT
66 AGCCTTAGGGT
56041 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
56106 AGCCTTAGGGT
66 AGCCTTAGGGT
*
56117 CATCTGTAAGTCTTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
56182 AGCCTTAAGGT
66 AGCCTTAGGGT
* * *
56193 CATCTATAAGTCCTACAGTGCATGATATTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
56258 AAACCTTAGGGT
65 AAGCCTTAGGGT
* * * *
56270 CATCTGTAAGACCTTCAGTGCATAATGTTTTCAAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAA
56305 CATTTTCATC
Statistics
Matches: 323, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
76 283 0.88
77 40 0.12
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:56446 original size:3 final size:3
Alignment explanation
Indices: 56438--56505 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
56428 AAATTTAAAT
* * * *
56438 TTA TTA TTA TTA TTA TTA TTA TTA TAA TAA TAA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
56486 TTTA TTA TTTA TTA ATA TTA
1 -TTA TTA -TTA TTA TTA TTA
56506 CAAAACCCAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
3 51 0.89
4 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:60956 original size:170 final size:170
Alignment explanation
Indices: 60630--60958 Score: 454
Period size: 170 Copynumber: 2.0 Consensus size: 170
60620 AAAATGAATG
* *
60630 AAATCAAAAAAAATAAAGAAACAATACTAGATTAGGTTTGTATTTGATATATTTATAGTATCGAA
1 AAATCAAAAAAAATAAAGAAACAATACTAGATTAGGTTTGTATTTAACATATTTATAGTATCGAA
*
60695 CTTACCATTTTTTAGTGGAAGAATATATTTTATAAAAAAAATTAAAAATTTAATCAATAAAGGAA
66 CTTACCATTTTTTAGTGGAAGAAGATATTTTATAAAAAAAATTAAAAATTTAATCAATAAAGGAA
*
60760 ATGGTAAAGTTAAAAAAATCAAATGAATGAAATCACAAAA
131 ATAGTAAAGTTAAAAAAATCAAATGAATGAAATCACAAAA
* * * *
60800 AAATGAAAAAAAATAATGAAATAGTACTAGATTAGGTTTGTATTTAACATATTTATA-T-T-GAA
1 AAATCAAAAAAAATAAAGAAACAATACTAGATTAGGTTTGTATTTAACATATTTATAGTATCGAA
* * * *
60862 TTTATCA-TTTTTATGTGGAAGAAGATTTTTTAT-AAAAAAA-TAAAAATTTAATCAATAAATGA
66 CTTACCATTTTTTA-GTGGAAGAAGATATTTTATAAAAAAAATTAAAAATTTAATCAATAAAGGA
* * * *
60924 TATAGTAAAGTTGAAAAAAATTACATAAATGAAAT
130 AATAGTAAAGTT-AAAAAAATCAAATGAATGAAAT
60959 AAAATAAATA
Statistics
Matches: 141, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
165 31 0.22
166 32 0.23
167 25 0.18
168 1 0.01
169 1 0.01
170 51 0.36
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (170 bp):
AAATCAAAAAAAATAAAGAAACAATACTAGATTAGGTTTGTATTTAACATATTTATAGTATCGAA
CTTACCATTTTTTAGTGGAAGAAGATATTTTATAAAAAAAATTAAAAATTTAATCAATAAAGGAA
ATAGTAAAGTTAAAAAAATCAAATGAATGAAATCACAAAA
Found at i:60969 original size:18 final size:19
Alignment explanation
Indices: 60935--60976 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
60925 ATAGTAAAGT
*
60935 TGAAA-AAAATTACATAAA
1 TGAAATAAAATTAAATAAA
60953 TGAAATAAAA-TAAATAAA
1 TGAAATAAAATTAAATAAA
60971 T-AAATA
1 TGAAATA
60977 GTACTAGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 13 0.59
19 4 0.18
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (19 bp):
TGAAATAAAATTAAATAAA
Found at i:61573 original size:7 final size:7
Alignment explanation
Indices: 61560--61617 Score: 73
Period size: 7 Copynumber: 8.3 Consensus size: 7
61550 TAACGACTAT
61560 GGAAGGG
1 GGAAGGG
*
61567 AGAAGGG
1 GGAAGGG
61574 GGAAGGG
1 GGAAGGG
61581 GGAAGGG
1 GGAAGGG
61588 GGAAGGG
1 GGAAGGG
* *
61595 AGAAGCG
1 GGAAGGG
61602 GGAGAGGG
1 GGA-AGGG
61610 GG-AGGG
1 GGAAGGG
61616 GG
1 GG
61618 CACACATGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
6 6 0.14
7 33 0.75
8 5 0.11
ACGTcount: A:0.29, C:0.02, G:0.69, T:0.00
Consensus pattern (7 bp):
GGAAGGG
Found at i:61604 original size:28 final size:28
Alignment explanation
Indices: 61560--61617 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
61550 TAACGACTAT
*
61560 GGAAGGGAGAAGGGGGA-AGGGGGAAGGG
1 GGAAGGGAGAAGCGGGAGAGGGGG-AGGG
61588 GGAAGGGAGAAGCGGGAGAGGGGGAGGG
1 GGAAGGGAGAAGCGGGAGAGGGGGAGGG
61616 GG
1 GG
61618 CACACATGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.29, C:0.02, G:0.69, T:0.00
Consensus pattern (28 bp):
GGAAGGGAGAAGCGGGAGAGGGGGAGGG
Found at i:69490 original size:21 final size:22
Alignment explanation
Indices: 69451--69509 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
69441 ATACAATTAA
*
69451 TAAACATAGTAAAATAATAAAA-
1 TAAAAATAGTAAAA-AATAAAAT
*
69473 TAACAATAGTAAAAAATAAAAT
1 TAAAAATAGTAAAAAATAAAAT
69495 TAAAAATAG-AAAAAA
1 TAAAAATAGTAAAAAA
69510 CGAAATAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.39
22 20 0.61
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.20
Consensus pattern (22 bp):
TAAAAATAGTAAAAAATAAAAT
Found at i:71415 original size:40 final size:40
Alignment explanation
Indices: 71362--71504 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
71352 ATAAATCATC
71362 TGTTTCGAGTGAAACTATCTCAAGCGAGACAAAAATTTGT
1 TGTTTCGAGTGAAACTATCTCAAGCGAGACAAAAATTTGT
* * * * *
71402 TGTTTCGATTGAAACTGTCTTAAGAGAGACAAATATTTGT
1 TGTTTCGAGTGAAACTATCTCAAGCGAGACAAAAATTTGT
** *
71442 TGTTTCGAGTGAAACTATCTCAAGCGA-A-ATGTAATATT-C
1 TGTTTCGAGTGAAACTATCTCAAGCGAGACA-AAAAT-TTGT
71481 TGTTTCGAGTGAAACTATCTCAAG
1 TGTTTCGAGTGAAACTATCTCAAG
71505 TGATATGTAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 27 0.31
40 60 0.68
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (40 bp):
TGTTTCGAGTGAAACTATCTCAAGCGAGACAAAAATTTGT
Found at i:71541 original size:118 final size:118
Alignment explanation
Indices: 71335--71548 Score: 272
Period size: 118 Copynumber: 1.8 Consensus size: 118
71325 GTTTTAAGAA
* *
71335 AAACTATCTCAAGTGAGATAAATCATCTGTTTCGAGTGAAACTATCTCAAGCGAGACAAAAATTT
1 AAACTATCTCAAGCGAAATAAATCATCTGTTTCGAGTGAAACTATCTCAAGCGAGACAAAAATTT
* * *
71400 GTTGTTTCGATTGAAACTGTCTTAAGAGAGACAAATATTTGTTGTTTCGAGTG
66 GCTGTTTCGAGTGAAACTATCTTAAGAGAGACAAATATTTGTTGTTTCGAGTG
* * * ***
71453 AAACTATCTCAAGCGAAATGTAAT-ATTCTGTTTCGAGTGAAACTATCTCAAGTGATA-TGTAAT
1 AAACTATCTCAAGCGAAAT-AAATCA-TCTGTTTCGAGTGAAACTATCTCAAGCGAGACAAAAAT
*
71516 CTT-CTGTTTCGAGTGAAACTATCTTAAGTGAGA
64 -TTGCTGTTTCGAGTGAAACTATCTTAAGAGAGA
71549 TGTTGATCCC
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
118 47 0.58
119 34 0.42
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (118 bp):
AAACTATCTCAAGCGAAATAAATCATCTGTTTCGAGTGAAACTATCTCAAGCGAGACAAAAATTT
GCTGTTTCGAGTGAAACTATCTTAAGAGAGACAAATATTTGTTGTTTCGAGTG
Found at i:71545 original size:39 final size:39
Alignment explanation
Indices: 71442--71551 Score: 175
Period size: 39 Copynumber: 2.8 Consensus size: 39
71432 AAATATTTGT
*
71442 TGTTTCGAGTGAAACTATCTCAAGCGAAATGTAATATTC
1 TGTTTCGAGTGAAACTATCTCAAGTGAAATGTAATATTC
* *
71481 TGTTTCGAGTGAAACTATCTCAAGTGATATGTAATCTTC
1 TGTTTCGAGTGAAACTATCTCAAGTGAAATGTAATATTC
* *
71520 TGTTTCGAGTGAAACTATCTTAAGTGAGATGT
1 TGTTTCGAGTGAAACTATCTCAAGTGAAATGT
71552 TGATCCCTCA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 66 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (39 bp):
TGTTTCGAGTGAAACTATCTCAAGTGAAATGTAATATTC
Found at i:71722 original size:40 final size:38
Alignment explanation
Indices: 71671--71852 Score: 143
Period size: 40 Copynumber: 4.6 Consensus size: 38
71661 GATAAATCAT
* *
71671 CTGTTTTGAGTGAAACTATCTCAACCAAGATAAAAATATG
1 CTGTTTCGAGTGAAACTATCTCAA-CAAGACAAAAAT-TG
* * *
71711 ATGTTTCGAGTGAAACTGTCTCAAGAAAGACAAAAATTTG
1 CTGTTTCGAGTGAAACTATCTCAA-CAAGACAAAAA-TTG
* * * *
71751 TTGTTTCGAGTGAAAATATCTCAAGAGAGACAAAAGCTT-
1 CTGTTTCGAGTGAAACTATCTCAACA-AGACAAAA-ATTG
* * *** *
71790 CTGTTTCTAGTGAAACTATCTCAAACGAGA-TGTAATCTT
1 CTGTTTCGAGTGAAACTATCTC-AACAAGACAAAAAT-TG
71829 CTGTTTCGAGTGAAACTATCTCAA
1 CTGTTTCGAGTGAAACTATCTCAA
71853 GCGAGATGTA
Statistics
Matches: 115, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
37 1 0.01
38 4 0.03
39 44 0.38
40 65 0.57
41 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (38 bp):
CTGTTTCGAGTGAAACTATCTCAACAAGACAAAAATTG
Found at i:71810 original size:39 final size:39
Alignment explanation
Indices: 71664--71892 Score: 203
Period size: 39 Copynumber: 5.8 Consensus size: 39
71654 GAATTGAGAT
* * * *
71664 AAATCATCTGTTTTGAGTGAAACTATCTCAACCA-AGATAA
1 AAATCTTCTGTTTCGAGTGAAACTATCTCAA-GAGAGA-CA
* ** * *
71704 AAATATGATGTTTCGAGTGAAACTGTCTCAAGAAAGACAA
1 AAATCTTCTGTTTCGAGTGAAACTATCTCAAGAGAGAC-A
* *
71744 AAAT-TTGTTGTTTCGAGTGAAAATATCTCAAGAGAGACA
1 AAATCTT-CTGTTTCGAGTGAAACTATCTCAAGAGAGACA
* * **
71783 AAAGCTTCTGTTTCTAGTGAAACTATCTCAA-ACGAGATG
1 AAATCTTCTGTTTCGAGTGAAACTATCTCAAGA-GAGACA
* * **
71822 TAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATG
1 AAATCTTCTGTTTCGAGTGAAACTATCTCAAGAGAGACA
* *
71861 TAATCTTCTGTTTCGAGTAAAACTATCTCAAG
1 AAATCTTCTGTTTCGAGTGAAACTATCTCAAG
71893 CGATATAATT
Statistics
Matches: 159, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 96 0.60
40 62 0.39
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (39 bp):
AAATCTTCTGTTTCGAGTGAAACTATCTCAAGAGAGACA
Found at i:71825 original size:310 final size:310
Alignment explanation
Indices: 71257--71861 Score: 904
Period size: 310 Copynumber: 2.0 Consensus size: 310
71247 CCTTTGGTGG
* * **
71257 GGCGTTGCTGATTCGAAGTGCCATGAATTGAGCAAAGAAATATTAATCCCTCAAGTGAGGTTTTG
1 GGCGTTGCTGATTCGAAATGCCATGAATCGAGCAAAGAAATATTAATCCCTCAAGTGAGGCGTTG
* * * *
71322 TTCGTTTTAAGAAAAACTATCTCAAGTGAGATAAATCATCTGTTTCGAGTGAAACTATCTCAAGC
66 TTCATTTTAAGAAAAACAATATCAAGTGAGATAAATCATCTGTTTCGAGTGAAACTATCTCAACC
* * * * * * *
71387 GAGACAAAAATTTGTTGTTTCGATTGAAACTGTCTTAAGAGAGACAAATATTTGTTGTTTCGAGT
131 AAGACAAAAATATGATGTTTCGAGTGAAACTGTCTCAAGAAAGACAAAAATTTGTTGTTTCGAGT
* * *** * ** *
71452 GAAACTATCTCAAGCGAAATGTAATATTCTGTTTCGAGTGAAACTATCTCAAGTGATATGTAATC
196 GAAAATATCTCAAGAGAAACAAAAGATTCTGTTTCGAGTGAAACTATCTCAAACGAGATGTAATC
* *
71517 TTCTGTTTCGAGTGAAACTATCTTAAGTGAGATGTTGATCCCTCAAGTAA
261 TTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGTTGATCCCTCAAGTAA
*
71567 GGCGTTGCTGATTCGAAATGCCATGAATCGAGTAAAGAAATATTAATCCCTCAAGTGAGGCGTTG
1 GGCGTTGCTGATTCGAAATGCCATGAATCGAGCAAAGAAATATTAATCCCTCAAGTGAGGCGTTG
* * *
71632 TTCATTTTAAGAAAAACAATATGAATTGAGATAAATCATCTGTTTTGAGTGAAACTATCTCAACC
66 TTCATTTTAAGAAAAACAATATCAAGTGAGATAAATCATCTGTTTCGAGTGAAACTATCTCAACC
*
71697 AAGATAAAAATATGATGTTTCGAGTGAAACTGTCTCAAGAAAGACAAAAATTTGTTGTTTCGAGT
131 AAGACAAAAATATGATGTTTCGAGTGAAACTGTCTCAAGAAAGACAAAAATTTGTTGTTTCGAGT
* * *
71762 GAAAATATCTCAAGAGAGACAAAAGCTTCTGTTTCTAGTGAAACTATCTCAAACGAGATGTAATC
196 GAAAATATCTCAAGAGAAACAAAAGATTCTGTTTCGAGTGAAACTATCTCAAACGAGATGTAATC
71827 TTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGT
261 TTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGT
71862 AATCTTCTGT
Statistics
Matches: 261, Mismatches: 34, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
310 261 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (310 bp):
GGCGTTGCTGATTCGAAATGCCATGAATCGAGCAAAGAAATATTAATCCCTCAAGTGAGGCGTTG
TTCATTTTAAGAAAAACAATATCAAGTGAGATAAATCATCTGTTTCGAGTGAAACTATCTCAACC
AAGACAAAAATATGATGTTTCGAGTGAAACTGTCTCAAGAAAGACAAAAATTTGTTGTTTCGAGT
GAAAATATCTCAAGAGAAACAAAAGATTCTGTTTCGAGTGAAACTATCTCAAACGAGATGTAATC
TTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGTTGATCCCTCAAGTAA
Found at i:71958 original size:40 final size:40
Alignment explanation
Indices: 71914--72021 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 40
71904 AATCTTGTTT
71914 TAAAAACAATCTCGAGTGAAATGAAATGTCTTCTTTCAAG
1 TAAAAACAATCTCGAGTGAAATGAAATGTCTTCTTTCAAG
** * * * * *
71954 TAAAAACTGTCTCAAGTGAAA-CAAA-GT-TTGTTTTATG
1 TAAAAACAATCTCGAGTGAAATGAAATGTCTTCTTTCAAG
71991 -AAAAACAATCT-GTAGTGAAATGAAATGTCTT
1 TAAAAACAATCTCG-AGTGAAATGAAATGTCTT
72022 GTTTTGAGTA
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
36 16 0.30
37 10 0.19
38 4 0.08
39 5 0.09
40 18 0.34
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (40 bp):
TAAAAACAATCTCGAGTGAAATGAAATGTCTTCTTTCAAG
Found at i:75994 original size:90 final size:89
Alignment explanation
Indices: 75888--76054 Score: 298
Period size: 90 Copynumber: 1.9 Consensus size: 89
75878 TATTTAATTT
* *
75888 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAGGGTAACT
1 CAATTAATTAAATATAGATTTAATTAATCTGAAATAATAAAA-CCATAATATGATTAGGGTAACT
75953 TGGATATAAAAGGATTATTAAGTTC
65 TGGATATAAAAGGATTATTAAGTTC
75978 CAATTAATTAAATATAGATTTAATTAATCTGAAATAATAAAACCATAATATGATTAGGGTAACTT
1 CAATTAATTAAATATAGATTTAATTAATCTGAAATAATAAAACCATAATATGATTAGGGTAACTT
*
76043 GGCTATAAAAGG
66 GGATATAAAAGG
76055 GTGTGTTAGG
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 33 0.45
90 41 0.55
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (89 bp):
CAATTAATTAAATATAGATTTAATTAATCTGAAATAATAAAACCATAATATGATTAGGGTAACTT
GGATATAAAAGGATTATTAAGTTC
Found at i:86096 original size:24 final size:26
Alignment explanation
Indices: 86069--86122 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
86059 TGGGGGACTA
*
86069 ATTAACAACCTA-AT-TTTT-TAAACT
1 ATTAA-AACCTATATATTTTATAAAAT
86093 ATT-AAACCTATATATTTTATAAAAT
1 ATTAAAACCTATATATTTTATAAAAT
86118 ATTAA
1 ATTAA
86123 TTATTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
22 6 0.24
23 3 0.12
24 7 0.28
25 8 0.32
26 1 0.04
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (26 bp):
ATTAAAACCTATATATTTTATAAAAT
Found at i:86331 original size:23 final size:25
Alignment explanation
Indices: 86305--86357 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
86295 CAATACAATT
* *
86305 AATAAAC-ATAAT-TAAAATAGTAA
1 AATAAACAATAATATAAAAAAATAA
86328 AAT-AACAATAATATAAAAAAATAA
1 AATAAACAATAATATAAAAAAATAA
86352 AATAAA
1 AATAAA
86358 AAACAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 3 0.12
23 8 0.32
24 12 0.48
25 2 0.08
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (25 bp):
AATAAACAATAATATAAAAAAATAA
Found at i:86368 original size:15 final size:15
Alignment explanation
Indices: 86318--86368 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
86308 AAACATAATT
*
86318 AAAATAGTAAAATAAC
1 AAAATA-TAAAAAAAC
*
86334 AATAATATAAAAAAAT
1 AA-AATATAAAAAAAC
86350 AAAATA-AAAAACAAC
1 AAAATATAAAAA-AAC
86365 AAAA
1 AAAA
86369 ACAAAATAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 5 0.17
15 10 0.33
16 11 0.37
17 4 0.13
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (15 bp):
AAAATATAAAAAAAC
Found at i:88736 original size:23 final size:21
Alignment explanation
Indices: 88696--88741 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
88686 ATTATTAAGG
*
88696 ATATATTAAATTTAAATATTA
1 ATATATTAAATTTAAATAATA
*
88717 ATATATTTATATTTATAATAATA
1 ATATA-TTAAATTTA-AATAATA
88740 AT
1 AT
88742 TAAAATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 8 0.38
23 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATATTAAATTTAAATAATA
Found at i:88836 original size:15 final size:15
Alignment explanation
Indices: 88798--88837 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
88788 TCAATTGAAA
*
88798 ATTATTATCAAATCT
1 ATTATTATTAAATCT
88813 ATTATTATTAATAT-T
1 ATTATTATTAA-ATCT
88828 ATTATTATTA
1 ATTATTATTA
88838 TTAAAAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATTATTAAATCT
Found at i:88874 original size:18 final size:18
Alignment explanation
Indices: 88798--88877 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
88788 TCAATTGAAA
88798 ATTATTATC-AAA-T-CT
1 ATTATTATCAAAATTACT
* * *
88813 ATTATTATTAATATTATT
1 ATTATTATCAAAATTACT
* *
88831 ATTATTATTAAAAAGTATTCCT
1 ATTATTA-T-CAAA--ATTACT
88853 ATTATTATCAAAATTACT
1 ATTATTATCAAAATTACT
88871 ATTATTA
1 ATTATTA
88878 ATAATATTGT
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
15 8 0.16
16 2 0.04
17 1 0.02
18 20 0.41
19 1 0.02
20 5 0.10
21 1 0.02
22 11 0.22
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.50
Consensus pattern (18 bp):
ATTATTATCAAAATTACT
Found at i:88898 original size:34 final size:37
Alignment explanation
Indices: 88828--88901 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
88818 TATTAATATT
* *
88828 ATTATTATTATTAAAAAGTATTCCTATTATTATCAAA
1 ATTACTATTATTAAAAAGTATTCCTAATATTATCAAA
* *
88865 ATTACTATTATTAATAA-TATT-GTAATATT-TCAAA
1 ATTACTATTATTAAAAAGTATTCCTAATATTATCAAA
88899 ATT
1 ATT
88902 GGATTAGTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 8 0.24
35 6 0.18
36 4 0.12
37 15 0.45
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (37 bp):
ATTACTATTATTAAAAAGTATTCCTAATATTATCAAA
Found at i:93203 original size:92 final size:92
Alignment explanation
Indices: 93017--93206 Score: 267
Period size: 92 Copynumber: 2.1 Consensus size: 92
93007 GGTATGTTTG
* *
93017 AAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAATGAGCGGGTAAGTAAAAAACCTCTAAATT
1 AAATTTTATGTTTCAATAGAGGAAAATTGGAGGAAATGAGCGGGCAAGTAAAAAACCTCTAAATT
*
93082 TTGTGACGAAACATGTGAACCCGTCAC
66 TTGTGACGAAACATGTGAACCCGTAAC
* * *
93109 AAATTTTATGTTTCAATAGAGGGAAATTGGAGGAAATGAGTGGGCAATTAAAAAAAACCTCTAAA
1 AAATTTTATGTTTCAATAGAGGAAAATTGGAGGAAATGAGCGGGCAAGT--AAAAAACCTCTAAA
* * *
93174 TTTTGTGA-GGAACATG-GGACCTGTAAC
64 TTTTGTGACGAAACATGTGAACCCGTAAC
93201 AAATTT
1 AAATTT
93207 GTGATGGAAC
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
92 58 0.67
93 7 0.08
94 22 0.25
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (92 bp):
AAATTTTATGTTTCAATAGAGGAAAATTGGAGGAAATGAGCGGGCAAGTAAAAAACCTCTAAATT
TTGTGACGAAACATGTGAACCCGTAAC
Found at i:93326 original size:123 final size:123
Alignment explanation
Indices: 93100--93329 Score: 356
Period size: 123 Copynumber: 1.9 Consensus size: 123
93090 AAACATGTGA
*
93100 ACCCGTCACAAATTTTATGTTTCAATAGAGGGAAATTGGAGGAAATGAGTGGGCAATTAAAAAAA
1 ACCCGTCACAAATTTTATGTTTCAATAGAGGGAAATTGGAGGAAATAAGTGGGCAATTAAAAAAA
*
93165 ACCTCTAAATTTTGTGAGGAACATGGGACCTGTAACAAATTTGTGATGGAACAAGTAG
66 ACCTCTAAATTTTGTGAGGAACATGGAACCTGTAACAAATTTGTGATGGAACAAGTAG
* * *
93223 ACCCGTCACAAATTTTATGTTTCAATGGATGGAAATTGGAGGAAATAAGTGGGTAATT-AAAAAA
1 ACCCGTCACAAATTTTATGTTTCAATAGAGGGAAATTGGAGGAAATAAGTGGGCAATTAAAAAAA
* * *
93287 A-CTCTAAATTTTGTGACGGGACATGTGAATCTGTCACAAATTT
66 ACCTCTAAATTTTGTGA-GGAACATG-GAACCTGTAACAAATTT
93330 TATGTTTCAA
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
121 15 0.15
122 14 0.14
123 68 0.70
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (123 bp):
ACCCGTCACAAATTTTATGTTTCAATAGAGGGAAATTGGAGGAAATAAGTGGGCAATTAAAAAAA
ACCTCTAAATTTTGTGAGGAACATGGAACCTGTAACAAATTTGTGATGGAACAAGTAG
Found at i:93421 original size:92 final size:92
Alignment explanation
Indices: 93204--93421 Score: 303
Period size: 92 Copynumber: 2.4 Consensus size: 92
93194 CTGTAACAAA
* *
93204 TTTGTGATGGAACAAGTAGACCCGTCACAAATTTTATGTTTCAATGGATGGAAATTGGAGGAAAT
1 TTTGTGATGGAACATGTGGACCCGTCACAAATTTTATGTTTCAATGGATGGAAATTGGAGGAAAT
* *
93269 AAGTGGGTAATTAAAAAAACTCTAAAT
66 AAGCGGGTAATTAAAAAAACTCAAAAT
* * * * * *
93296 TTTGTGACGGGACATGTGAATCTGTCACAAATTTTATGTTTCAATGGA-GGAAAATTGGAGGTAA
1 TTTGTGATGGAACATGTGGACCCGTCACAAATTTTATGTTTCAATGGATGG-AAATTGGAGGAAA
*
93360 TGAGCGGGTAATTAAAAAAACTCAAAAT
65 TAAGCGGGTAATTAAAAAAACTCAAAAT
* *
93388 TTTGTGATGGAACATGTGGACCCATCACCAATTT
1 TTTGTGATGGAACATGTGGACCCGTCACAAATTT
93422 GTGAGGGTCC
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
91 2 0.02
92 105 0.98
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.30
Consensus pattern (92 bp):
TTTGTGATGGAACATGTGGACCCGTCACAAATTTTATGTTTCAATGGATGGAAATTGGAGGAAAT
AAGCGGGTAATTAAAAAAACTCAAAAT
Found at i:93423 original size:215 final size:215
Alignment explanation
Indices: 93017--93425 Score: 608
Period size: 215 Copynumber: 1.9 Consensus size: 215
93007 GGTATGTTTG
* *
93017 AAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAATGAGCGGGTAAGTAAAAAACCTCTAAATT
1 AAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAATAAGCGGGTAAGTAAAAAAACTCTAAATT
*
93082 TTGTGACGAAACATGTGAACCCGTCACAAATTTTATGTTTCAATAGAGGGAAATTGGAGGAAATG
66 TTGTGACGAAACATGTGAACCCGTCACAAATTTTATGTTTCAATAGAGGAAAATTGGAGGAAATG
* * **
93147 AGTGGGCAATTAAAAAAAACCTCTAAATTTTGTGAGGAACATGGGACCTGTAACAAATTTGTGAT
131 AGCGGGCAATTAAAAAAAACCTCAAAATTTTGTGAGGAACATGGGACCCATAACAAATTTGTGAT
93212 GGAACAAGTAGACCCGTCAC
196 GGAACAAGTAGACCCGTCAC
* *
93232 AAATTTTATGTTTCAATGGATGG-AAATTGGAGGAAATAAGTGGGTAATTAAAAAAACTCTAAAT
1 AAATTTTATGTTTCAATGGA-GGAAAATTGGAGGAAATAAGCGGGTAAGTAAAAAAACTCTAAAT
** * * * *
93296 TTTGTGACGGGACATGTGAATCTGTCACAAATTTTATGTTTCAATGGAGGAAAATTGGAGGTAAT
65 TTTGTGACGAAACATGTGAACCCGTCACAAATTTTATGTTTCAATAGAGGAAAATTGGAGGAAAT
* * *
93361 GAGCGGGTAATT-AAAAAAA-CTCAAAATTTTGTGATGGAACATGTGGACCCATCACCAATTTGT
130 GAGCGGGCAATTAAAAAAAACCTCAAAATTTTGTGA-GGAACATG-GGACCCATAACAAATTTGT
93424 GA
193 GA
93426 GGGTCCACAT
Statistics
Matches: 173, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
213 14 0.08
214 15 0.09
215 142 0.82
216 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (215 bp):
AAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAATAAGCGGGTAAGTAAAAAAACTCTAAATT
TTGTGACGAAACATGTGAACCCGTCACAAATTTTATGTTTCAATAGAGGAAAATTGGAGGAAATG
AGCGGGCAATTAAAAAAAACCTCAAAATTTTGTGAGGAACATGGGACCCATAACAAATTTGTGAT
GGAACAAGTAGACCCGTCAC
Found at i:98194 original size:46 final size:46
Alignment explanation
Indices: 98142--98288 Score: 186
Period size: 46 Copynumber: 3.0 Consensus size: 46
98132 CTCCAAACCA
98142 TAATATAATCCAAAACCTACAAGTACTCTTGGAAGGAAGATCCCGT
1 TAATATAATCCAAAACCTACAAGTACTCTTGGAAGGAAGATCCCGT
98188 TAATATAATCCAAAACCTACAAGTACTCTTGGAAGGAAGATCCCGT
1 TAATATAATCCAAAACCTACAAGTACTCTTGGAAGGAAGATCCCGT
* * * *
98234 TGGACATAGTAGTTAATCCCAAACTTACAAGTACTCTTAGAAGGAAGATTCCGT
1 T----A-A-TA--TAATCCAAAACCTACAAGTACTCTTGGAAGGAAGATCCCGT
98288 T
1 T
98289 GGATATAGTG
Statistics
Matches: 89, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
46 47 0.53
50 1 0.01
51 1 0.01
52 2 0.02
54 38 0.43
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (46 bp):
TAATATAATCCAAAACCTACAAGTACTCTTGGAAGGAAGATCCCGT
Found at i:98263 original size:54 final size:54
Alignment explanation
Indices: 98193--98297 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
98183 CCCGTTAATA
*
98193 TAATCCAAAACCTACAAGTACTCTTGGAAGGAAGATCCCGTTGGACATAGTAGT
1 TAATCCAAAACCTACAAGTACTCTTAGAAGGAAGATCCCGTTGGACATAGTAGT
* * * *
98247 TAATCCCAAACTTACAAGTACTCTTAGAAGGAAGATTCCGTTGGATATAGT
1 TAATCCAAAACCTACAAGTACTCTTAGAAGGAAGATCCCGTTGGACATAGT
98298 GGATGTTAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (54 bp):
TAATCCAAAACCTACAAGTACTCTTAGAAGGAAGATCCCGTTGGACATAGTAGT
Found at i:98828 original size:2 final size:2
Alignment explanation
Indices: 98816--98871 Score: 53
Period size: 2 Copynumber: 28.5 Consensus size: 2
98806 CCTGCACATC
* * **
98816 AT AT A- AT AT AT AT AA AT AC AT GC AT AT AGT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
98857 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
98872 AAGTACTAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
1 2 0.05
2 39 0.91
3 2 0.05
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (2 bp):
AT
Found at i:98834 original size:28 final size:28
Alignment explanation
Indices: 98795--98857 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
98785 ATTTTAGTCA
* *
98795 ATATATATATACCTGCACATCA-TATAAT
1 ATATATAAATACATGCACAT-AGTATAAT
*
98823 ATATATAAATACATGCATATAGTATAAT
1 ATATATAAATACATGCACATAGTATAAT
98851 ATATATA
1 ATATATA
98858 TATATATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.37
Consensus pattern (28 bp):
ATATATAAATACATGCACATAGTATAAT
Found at i:98870 original size:28 final size:28
Alignment explanation
Indices: 98817--98871 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
98807 CTGCACATCA
*
98817 TATAATATATATAAATACATGCATATAG
1 TATAATATATATAAATACATACATATAG
* * *
98845 TATAATATATATATATATATATATATA
1 TATAATATATATAAATACATACATATA
98872 AAGTACTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (28 bp):
TATAATATATATAAATACATACATATAG
Found at i:99832 original size:137 final size:134
Alignment explanation
Indices: 99691--99965 Score: 379
Period size: 140 Copynumber: 2.0 Consensus size: 134
99681 TGAATGAAAT
* *
99691 AAAAAATGAAATAATACTAGATTAGGTTTGTATATAATATATTTCTATTAATGAATTTACCATTT
1 AAAAAATGAAATAATACTAGATTA-CTTTGTATATAATATATTTATATTAATGAATTTACCATTT
99756 TTGAGTGGAAGAAGATATTTTATAAAAAAAATTAAAAATCTAATCAAGAAAGATACGGTAAAGTT
65 TT-AGTGGAAGAAGATATTTTAT-AAAAAAA-TAAAAATCTAATCAAGAAAGATACGGTAAAGTT
99821 GAAAAAAAA
127 G-AAAAAAA
* * * * *
99830 AAATCAAATGAAATAGTACTTGATTACTTTGTATTTAATATATTTATATTACTGAATTTATCATT
1 AAA--AAATGAAATAATACTAGATTACTTTGTATATAATATATTTATATTAATGAATTTACCATT
* * * * *
99895 TTTAGTGGAAGAAGATATTTTATAAAAACATAAAAATTTAATCAATAATGATATGGTAAAGTTGA
64 TTTAGTGGAAGAAGATATTTTATAAAAAAATAAAAATCTAATCAAGAAAGATACGGTAAAGTTGA
99960 AAAAAA
129 AAAAAA
99966 TCAAATGAAT
Statistics
Matches: 122, Mismatches: 12, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
136 7 0.06
137 30 0.25
138 6 0.05
139 23 0.19
140 37 0.30
141 19 0.16
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (134 bp):
AAAAAATGAAATAATACTAGATTACTTTGTATATAATATATTTATATTAATGAATTTACCATTTT
TAGTGGAAGAAGATATTTTATAAAAAAATAAAAATCTAATCAAGAAAGATACGGTAAAGTTGAAA
AAAA
Found at i:99886 original size:140 final size:138
Alignment explanation
Indices: 99694--99965 Score: 402
Period size: 137 Copynumber: 2.0 Consensus size: 138
99684 ATGAAATAAA
* *
99694 AAATGAAATAATACTAGATTAGGTTTGTATATAATATATTTCTATTAATGAATTTACCATTTTTG
1 AAATGAAATAATACTAGATTAGCTTTGTATATAATATATTTATATTAATGAATTTACCATTTTT-
99759 AGTGGAAGAAGATATTTTATAAAAAAAATTAAAAATCTAATCAAGAAAGATACGGTAAAGTTGAA
65 AGTGGAAGAAGATATTTTAT-AAAAAAA-TAAAAATCTAATCAAGAAAGATACGGTAAAGTTGAA
99824 AAAAAAAAATC
128 AAAAAAAAATC
* * * * *
99835 AAATGAAATAGTACTTGATTA-CTTTGTATTTAATATATTTATATTACTGAATTTATCATTTTTA
1 AAATGAAATAATACTAGATTAGCTTTGTATATAATATATTTATATTAATGAATTTACCATTTTTA
* * * * *
99899 GTGGAAGAAGATATTTTATAAAAACATAAAAATTTAATCAATAATGATATGGTAAAGTTGAAAAA
66 GTGGAAGAAGATATTTTATAAAAAAATAAAAATCTAATCAAGAAAGATACGGTAAAGTTGAAAAA
99964 AA
131 AA
99966 TCAAATGAAT
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
137 37 0.31
138 6 0.05
139 20 0.17
140 37 0.31
141 19 0.16
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (138 bp):
AAATGAAATAATACTAGATTAGCTTTGTATATAATATATTTATATTAATGAATTTACCATTTTTA
GTGGAAGAAGATATTTTATAAAAAAATAAAAATCTAATCAAGAAAGATACGGTAAAGTTGAAAAA
AAAAAATC
Found at i:101089 original size:51 final size:51
Alignment explanation
Indices: 101033--101147 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
101023 AGAAGTAGAC
* * *
101033 TTATTATTTTATTAGGAACTAAGATCA-AGTTAAAACATTAT-TCTTAGTTTT
1 TTATTATTTTATTAGGAACTAAGAT-AGAATCAAAACATTATCT-TTAGTTTA
* * *
101084 TTATTATTTTATTAGGAATTATGATAGAATCAAAATATTATCTTTAGTTTA
1 TTATTATTTTATTAGGAACTAAGATAGAATCAAAACATTATCTTTAGTTTA
101135 TTATTATTTTATT
1 TTATTATTTTATT
101148 CATTAGTCAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
50 1 0.02
51 54 0.96
52 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (51 bp):
TTATTATTTTATTAGGAACTAAGATAGAATCAAAACATTATCTTTAGTTTA
Found at i:103097 original size:23 final size:25
Alignment explanation
Indices: 103052--103097 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
103042 AGTGAAATTT
* *
103052 TTTAATATATAATATATATATTAAC
1 TTTAATATATAATAAATAAATTAAC
103077 TTTAAT-T-TAATAAATAAATTA
1 TTTAATATATAATAAATAAATTA
103098 TATTAATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 1 0.05
25 6 0.32
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTAATATATAATAAATAAATTAAC
Found at i:103667 original size:92 final size:91
Alignment explanation
Indices: 103515--103703 Score: 270
Period size: 92 Copynumber: 2.1 Consensus size: 91
103505 GGCATGTTTG
* *
103515 AAATTTTATGTTTCAATGGAAGGAAATTGGAGGGAATGAGCGGGTAAGTAAAAAACCTCTAAATT
1 AAATTTTATGTTTCAATGGAAGGAAATTGGAGGAAATGAGCGGGTAAGTAAAAAAACTCTAAATT
* * *
103580 TTGTGACGGAACATTTGAACCCGCCTC
66 TTGT-AAGGAACATGTGAACCCGCCAC
* * * *
103607 AAATTTTATGTTTCAATGGAGGGAAATTTGAGGAAATGAGTGGGTAATTAAAAAAACTCTAAATT
1 AAATTTTATGTTTCAATGGAAGGAAATTGGAGGAAATGAGCGGGTAAGTAAAAAAACTCTAAATT
* *
103672 TTGTAAGGAACATGTGGACCCGTCAC
66 TTGTAAGGAACATGTGAACCCGCCAC
103698 AAATTT
1 AAATTT
103704 ATGACGGAAC
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
91 23 0.27
92 63 0.73
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.29
Consensus pattern (91 bp):
AAATTTTATGTTTCAATGGAAGGAAATTGGAGGAAATGAGCGGGTAAGTAAAAAAACTCTAAATT
TTGTAAGGAACATGTGAACCCGCCAC
Found at i:103738 original size:122 final size:123
Alignment explanation
Indices: 103583--103826 Score: 382
Period size: 122 Copynumber: 2.0 Consensus size: 123
103573 CTAAATTTTG
** * * * *
103583 TGACGGAACATTTGAACCCGCCTCAAATTTTATGTTTCAATGGAGGGAAATTTGAGGAAATGAGT
1 TGACGGAACAAGTAAACCCGCCACAAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAATGAGT
* * *
103648 GGGTAATTAAAAAAACTCTAAATTTTGTAA-GGAACATGTGGACCCGTCACAAATTTA
66 GGGTAATTAAAAAAACTCTAAATTTTGCAACAGAACATGTAGACCCGTCACAAATTTA
* *
103705 TGACGGAACAAGTAAACCCGTCACAAATTTTATGTTTCAATGGATGAAAATTGGAGGAAATGAGT
1 TGACGGAACAAGTAAACCCGCCACAAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAATGAGT
103770 GGGTAATTAAAAAAACTCTAAATTTTGCAACAGAACATGTAGACCCGTCACAAATTT
66 GGGTAATTAAAAAAACTCTAAATTTTGCAACAGAACATGTAGACCCGTCACAAATTT
103827 TATGTTTCAA
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
122 86 0.78
123 24 0.22
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (123 bp):
TGACGGAACAAGTAAACCCGCCACAAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAATGAGT
GGGTAATTAAAAAAACTCTAAATTTTGCAACAGAACATGTAGACCCGTCACAAATTTA
Found at i:103867 original size:92 final size:91
Alignment explanation
Indices: 103710--103887 Score: 286
Period size: 92 Copynumber: 1.9 Consensus size: 91
103700 ATTTATGACG
* *
103710 GAACAAGTAAACCCGTCACAAATTTTATGTTTCAATGGATGAAAATTGGAGGAAATGAGTGGGTA
1 GAACAAGTAAACCCGTCACAAATTTTATGTTTCAATGGAAGAAAATTGGAGGAAATGAGAGGGTA
103775 ATTAAAAAAACTCTAAATTTTGCAACA
66 ATT-AAAAAACTCTAAATTTTGCAACA
* * *
103802 GAACATGTAGACCCGTCACAAATTTTATGTTTCAATGGAA-AGAAATTGGAGGTAATGAGAGGGT
1 GAACAAGTAAACCCGTCACAAATTTTATGTTTCAATGGAAGA-AAATTGGAGGAAATGAGAGGGT
103866 AATTAAAAAACTCTAAATTTTG
65 AATTAAAAAACTCTAAATTTTG
103888 TGATGGAACA
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
91 19 0.24
92 61 0.76
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (91 bp):
GAACAAGTAAACCCGTCACAAATTTTATGTTTCAATGGAAGAAAATTGGAGGAAATGAGAGGGTA
ATTAAAAAACTCTAAATTTTGCAACA
Found at i:103898 original size:214 final size:214
Alignment explanation
Indices: 103515--103917 Score: 594
Period size: 214 Copynumber: 1.9 Consensus size: 214
103505 GGCATGTTTG
* * *
103515 AAATTTTATGTTTCAATGGAAGGAAATTGGAGGGAATGAGCGGGTAAGTAAAAAACCTCTAAATT
1 AAATTTTATGTTTCAATGGAAGAAAATTGGAGGAAATGAGCGGGTAAGTAAAAAAACTCTAAATT
** * * * ** *
103580 TTGTGACGGAACATTTGAACCCGCCTCAAATTTTATGTTTCAATGGAGGGAAATTTGAGGAAATG
66 TTGCAACAGAACATTAGAACCCGCCACAAATTTTATGTTTCAATGGAAAGAAATTGGAGGAAATG
* * *
103645 AGTGGGTAATTAAAAAAACTCTAAATTTTGTAAGGAACATGTGGACCCGTCACAAATTTATGACG
131 AGAGGGTAATTAAAAAAACTCTAAATTTTGTAAGGAACATGTGGACCCATCAAAAATTTATGACG
103710 GAACAAGTAAACCCGTCAC
196 GAACAAGTAAACCCGTCAC
* * *
103729 AAATTTTATGTTTCAATGGATGAAAATTGGAGGAAATGAGTGGGTAATTAAAAAAACTCTAAATT
1 AAATTTTATGTTTCAATGGAAGAAAATTGGAGGAAATGAGCGGGTAAGTAAAAAAACTCTAAATT
* *
103794 TTGCAACAGAACATGTAG-ACCCGTCACAAATTTTATGTTTCAATGGAAAGAAATTGGAGGTAAT
66 TTGCAACAGAACAT-TAGAACCCGCCACAAATTTTATGTTTCAATGGAAAGAAATTGGAGGAAAT
*
103858 GAGAGGGTAATT-AAAAAACTCTAAATTTTGTGATGGAACATGTGGACCCATCAAAAATTT
130 GAGAGGGTAATTAAAAAAACTCTAAATTTTGT-AAGGAACATGTGGACCCATCAAAAATTT
103918 GTGAGGGTCC
Statistics
Matches: 167, Mismatches: 20, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
213 19 0.11
214 146 0.87
215 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.28
Consensus pattern (214 bp):
AAATTTTATGTTTCAATGGAAGAAAATTGGAGGAAATGAGCGGGTAAGTAAAAAAACTCTAAATT
TTGCAACAGAACATTAGAACCCGCCACAAATTTTATGTTTCAATGGAAAGAAATTGGAGGAAATG
AGAGGGTAATTAAAAAAACTCTAAATTTTGTAAGGAACATGTGGACCCATCAAAAATTTATGACG
GAACAAGTAAACCCGTCAC
Found at i:104622 original size:17 final size:17
Alignment explanation
Indices: 104600--104643 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
104590 ATGTAAAAAT
104600 AAATATTTAAATTTAAA
1 AAATATTTAAATTTAAA
** **
104617 AAATATAAAAATTTATT
1 AAATATTTAAATTTAAA
104634 AAATATTTAA
1 AAATATTTAA
104644 TCAAGTAGGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Found at i:106289 original size:32 final size:32
Alignment explanation
Indices: 106243--106304 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
106233 TAATTGGTAT
*
106243 AACCCGACCTGTTTTCAACCTAACTTGTAATG
1 AACCCGACCTGTTTTCAACCTAACCTGTAATG
* *
106275 AACCTGACCTGTTTTTAACCTAACCTGTAA
1 AACCCGACCTGTTTTCAACCTAACCTGTAA
106305 ATGATCCGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.32
Consensus pattern (32 bp):
AACCCGACCTGTTTTCAACCTAACCTGTAATG
Found at i:106294 original size:16 final size:16
Alignment explanation
Indices: 106249--106302 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
106239 GTATAACCCG
*
106249 ACCTGTTTTCAACCTA
1 ACCTGTTTTTAACCTA
* ** * *
106265 ACTTGTAATGAACCTG
1 ACCTGTTTTTAACCTA
106281 ACCTGTTTTTAACCTA
1 ACCTGTTTTTAACCTA
106297 ACCTGT
1 ACCTGT
106303 AAATGATCCG
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (16 bp):
ACCTGTTTTTAACCTA
Found at i:106963 original size:2 final size:2
Alignment explanation
Indices: 106958--107020 Score: 99
Period size: 2 Copynumber: 30.5 Consensus size: 2
106948 AAGTAATTTA
106958 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
107000 AT AT AT AGT TT AT AT ACT AT A
1 AT AT AT A-T AT AT AT A-T AT A
107021 CATAGTTTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 54 0.95
3 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:107025 original size:18 final size:17
Alignment explanation
Indices: 106961--107031 Score: 74
Period size: 16 Copynumber: 4.2 Consensus size: 17
106951 TAATTTAATA
* *
106961 TATATATATATATA-TA
1 TATATATATACATAGTT
* *
106977 TATATATATATATA-TA
1 TATATATATACATAGTT
*
106993 TATATATATATATAGTT
1 TATATATATACATAGTT
107010 TATATACTATACATAGTT
1 TATATA-TATACATAGTT
107028 TATA
1 TATA
107032 CATACATGTA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 30 0.59
17 7 0.14
18 14 0.27
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TATATATATACATAGTT
Found at i:107300 original size:6 final size:6
Alignment explanation
Indices: 107291--107331 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
107281 TACACTTACA
* *
107291 CATACG CATACG CATACT CATACG CATATG CATACG CATAC
1 CATACG CATACG CATACG CATACG CATACG CATACG CATAC
107332 AAGTGGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.34, C:0.32, G:0.12, T:0.22
Consensus pattern (6 bp):
CATACG
Found at i:107481 original size:17 final size:19
Alignment explanation
Indices: 107433--107483 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
107423 TTTCTATTCC
*
107433 CTCTAAATATGTCAATTTCT
1 CTCTAAAT-TCTCAATTTCT
107453 CTCTAAATTCTCAATTTC-
1 CTCTAAATTCTCAATTTCT
*
107471 C-CTATATTCTCAA
1 CTCTAAATTCTCAA
107484 AATTTCCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 11 0.38
18 1 0.03
19 9 0.31
20 8 0.28
ACGTcount: A:0.29, C:0.25, G:0.02, T:0.43
Consensus pattern (19 bp):
CTCTAAATTCTCAATTTCT
Found at i:107661 original size:15 final size:14
Alignment explanation
Indices: 107641--107743 Score: 88
Period size: 13 Copynumber: 7.1 Consensus size: 14
107631 ATATACTTTT
107641 TATAGTTTATACATA
1 TATAGTTTATA-ATA
*
107656 TATAGTTTA-CATA
1 TATAGTTTATAATA
107669 TATAGTTTAT-ATA
1 TATAGTTTATAATA
107682 TATAGTTCATATAA-A
1 TATAGTT--TATAATA
* *
107697 CATAATTTAT-ATA
1 TATAGTTTATAATA
107710 TATAGCTTATAATAATTA
1 TATAG-TT-T-ATAA-TA
107728 TATAGTTTATAATA
1 TATAGTTTATAATA
107742 TA
1 TA
107744 ATTATAGTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 21
0.74 0.05 0.21
Matches are distributed among these distances:
12 1 0.01
13 29 0.40
14 6 0.08
15 23 0.32
16 4 0.05
17 3 0.04
18 7 0.10
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.47
Consensus pattern (14 bp):
TATAGTTTATAATA
Found at i:107670 original size:26 final size:24
Alignment explanation
Indices: 107616--107688 Score: 60
Period size: 24 Copynumber: 2.9 Consensus size: 24
107606 TAATATGAAT
* *
107616 TATAGTTTATAAAATATATACTTT-T
1 TATAGTTTAT--AATATATAGTTTAA
107641 TATAGTTTATACATATATAGTTTACATA
1 TATAGTTTATA-ATATATAGTTT--A-A
107669 TATAGTTTAT-ATATATAGTT
1 TATAGTTTATAATATATAGTT
107689 CATATAAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
23 1 0.02
24 10 0.24
25 10 0.24
26 10 0.24
28 10 0.24
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (24 bp):
TATAGTTTATAATATATAGTTTAA
Found at i:107749 original size:18 final size:19
Alignment explanation
Indices: 107707--107761 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 19
107697 CATAATTTAT
*
107707 ATATATAGCTTATAATA-A
1 ATATATAGTTTATAATATA
*
107725 TTATATAGTTTATAATATA
1 ATATATAGTTTATAATATA
107744 AT-TATAGTTTAT-ATATA
1 ATATATAGTTTATAATATA
107761 A
1 A
107762 ACTTATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.18
18 25 0.76
19 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
ATATATAGTTTATAATATA
Found at i:107757 original size:15 final size:15
Alignment explanation
Indices: 107640--107758 Score: 63
Period size: 13 Copynumber: 7.9 Consensus size: 15
107630 TATATACTTT
*
107640 TTATAGTTTATA-CA
1 TTATAGTTTATATAA
*
107654 TATATAGTTTACAT-A
1 T-TATAGTTTATATAA
107669 -TATAGTTTATAT-A
1 TTATAGTTTATATAA
*
107682 -TATAGTTCATATAA
1 TTATAGTTTATATAA
** *
107696 ACATAATTTATAT-A
1 TTATAGTTTATATAA
*
107710 -TATAGCTTATAATAA
1 TTATAGTTTAT-ATAA
107725 TTATATAGTTTATAATATAA
1 -T-TATAG-TT-T-ATATAA
107745 TTATAGTTTATATA
1 TTATAGTTTATATA
107759 TAAACTTATA
Statistics
Matches: 83, Mismatches: 10, Indels: 23
0.72 0.09 0.20
Matches are distributed among these distances:
13 30 0.36
14 5 0.06
15 26 0.31
16 1 0.01
17 2 0.02
18 10 0.12
19 2 0.02
20 5 0.06
21 2 0.02
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (15 bp):
TTATAGTTTATATAA
Found at i:108210 original size:207 final size:208
Alignment explanation
Indices: 107850--108365 Score: 605
Period size: 207 Copynumber: 2.4 Consensus size: 208
107840 TATTTTGCAT
* * * ** * * *
107850 TTATTTCGATTTCATCCTTTTGTGTTTTTTAATTTATTTCCATTTTAAGTCTT-TCACTTTTATA
1 TTATTTCGATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTTAGT-TTGT-AATTTCATA
* * * ** * * ** **
107914 TGTATTCAATTTAGTCTTAAATTTATATTTGCATCTTTATTTGACCTATTTTTATTTGTTATTTA
64 TTTGTTCAATTTAGTCTCAAATTTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTA
*
107979 TATTTTTATAACTGGCCATAACTTTTTAAATGGGTATAATTTAAT-CTTTTTCATATTAATTTCA
129 TATTTTTATAACTGGCCATAACTTTTTAAATGGATATAATTTAATACTTTTT-ATATTAATTTCA
108043 ACCTCACAATTTAAAA
193 ACCTCACAATTTAAAA
108059 TTATTTCGATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTTA-TTTGTAATTTCATATT
1 TTATTTCGATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTTAGTTTGTAATTTCATATT
108123 TGTTCAATTTAGTCCTCCAAA-TTATATTTGCATCTGAAATTGACCCATACTTATTACTTA-TTA
66 TGTTCAATTTAGT-CT-CAAATTTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTA
* * *
108186 TATTTTT-TAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTTTTTGTATTAATTTCA
129 TATTTTTATAACTGG-CCATAACTTTTTAAATGGATATAATTTAATACTTTTTATATTAATTTCA
108250 ACCTCACAATTTAAAA
193 ACCTCACAATTTAAAA
* *
108266 TTATTTCAATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAA-TTTTATTTTGTAATT
1 TTATTTCGATTTGAT-CC-C-T---T-TGTGTTGTTTAATTTATTTAAATTTTTAGTTTGTAATT
* * *
108330 TCATATTTGTTCAATTTAATTCTTAAATTTGTATTT
59 TCATATTTGTTCAATTT-AGTCTCAAATTTATATTT
108366 TTCATAAAAT
Statistics
Matches: 265, Mismatches: 27, Indels: 25
0.84 0.09 0.08
Matches are distributed among these distances:
206 6 0.02
207 101 0.38
208 43 0.16
209 46 0.17
210 1 0.00
213 9 0.03
214 57 0.22
215 2 0.01
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.53
Consensus pattern (208 bp):
TTATTTCGATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTTAGTTTGTAATTTCATATT
TGTTCAATTTAGTCTCAAATTTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATA
TTTTTATAACTGGCCATAACTTTTTAAATGGATATAATTTAATACTTTTTATATTAATTTCAACC
TCACAATTTAAAA
Found at i:119621 original size:26 final size:25
Alignment explanation
Indices: 119592--119648 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
119582 TATATACCAC
119592 AAAAACTGAAAA-AATATAAGAAAAAT
1 AAAAACT-AAAATAATATAA-AAAAAT
**
119618 AAAAGGTAAAATAATATAAAAAAAT
1 AAAAACTAAAATAATATAAAAAAAT
*
119643 ATAAAC
1 AAAAAC
119649 AAGTAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.18
Consensus pattern (25 bp):
AAAAACTAAAATAATATAAAAAAAT
Found at i:122455 original size:14 final size:14
Alignment explanation
Indices: 122431--122471 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
122421 CAAGCACTCA
122431 AAAAG-AAGAAAA-
1 AAAAGAAAGAAAAG
122443 AAAAGAAAAGAAAAG
1 AAAAG-AAAGAAAAG
122458 AAAAGAAAGAAAAG
1 AAAAGAAAGAAAAG
122472 TTGAAAGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.19
14 16 0.62
15 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAGAAAGAAAAG
Found at i:122468 original size:4 final size:5
Alignment explanation
Indices: 122436--122471 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
122426 ACTCAAAAAG
122436 AAGAA AA-AA AAGAA AAGAA AAGAA AAG-A AAGAA AAG
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAG
122472 TTGAAAGCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 8 0.28
5 21 0.72
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:122471 original size:9 final size:9
Alignment explanation
Indices: 122431--122471 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
122421 CAAGCACTCA
122431 AAAAG-AAG
1 AAAAGAAAG
*
122439 AAAAAAAAG
1 AAAAGAAAG
122448 AAAAGAAAAG
1 AAAAG-AAAG
122458 AAAAGAAAG
1 AAAAGAAAG
122467 AAAAG
1 AAAAG
122472 TTGAAAGCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 4 0.14
9 16 0.55
10 9 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:125218 original size:11 final size:13
Alignment explanation
Indices: 125186--125219 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
125176 TGGCCAAAAA
125186 TGAAAAGGTATGT
1 TGAAAAGGTATGT
125199 TGAAAAGGTATG-
1 TGAAAAGGTATGT
125211 TG-AAAGGTA
1 TGAAAAGGTA
125220 CTTAGTGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 2 0.10
13 12 0.57
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.26
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:130269 original size:28 final size:30
Alignment explanation
Indices: 130222--130298 Score: 113
Period size: 28 Copynumber: 2.6 Consensus size: 30
130212 ATTTATATCC
* *
130222 TATAATATATATATATATACCTGCACATCA
1 TATAATATATATATATATACATGCACATAA
*
130252 TATAATATATATA-A-ATACATGCATATAA
1 TATAATATATATATATATACATGCACATAA
130280 TATAATATATATATATATA
1 TATAATATATATATATATA
130299 TATATGCATA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 24 0.57
29 2 0.05
30 16 0.38
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (30 bp):
TATAATATATATATATATACATGCACATAA
Found at i:130311 original size:2 final size:2
Alignment explanation
Indices: 130182--130303 Score: 51
Period size: 2 Copynumber: 63.0 Consensus size: 2
130172 ATTTTAGTCA
* * * *
130182 AT AT AT AT AT AT AT AT AT TT A- AT AT -T A- ACC AT TT AT AT CCT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT -AT
* * ** *
130223 AT A- AT AT AT AT AT AT AT AC CT GC AC AT CAT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
* * **
130264 AA AT AC AT GC AT AT A- AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130304 GCATATATTT
Statistics
Matches: 88, Mismatches: 22, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
1 7 0.08
2 77 0.88
3 4 0.05
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:130703 original size:28 final size:29
Alignment explanation
Indices: 130645--130720 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
130635 AATTTCTCGG
130645 CTATTAAAAGTTACAAAATAGTTCATCGA
1 CTATTAAAAGTTACAAAATAGTTCATCGA
* * *
130674 CTATTAAAAGTTATAAATTAG-TCATTGA
1 CTATTAAAAGTTACAAAATAGTTCATCGA
* *
130702 CTATTCATATGTTACAAAA
1 CTATT-AAAAGTTACAAAA
130721 ACTCGTCCCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 11 0.28
29 28 0.72
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (29 bp):
CTATTAAAAGTTACAAAATAGTTCATCGA
Found at i:131082 original size:59 final size:60
Alignment explanation
Indices: 131011--131144 Score: 168
Period size: 59 Copynumber: 2.2 Consensus size: 60
131001 AGCCGAGTGG
* *
131011 CTATTTTGTAACTTTTAATAGCCGAGAGACTCAACAAAATAACA-CCTTATAA-TATG-GGA
1 CTATTTTGTAACTTTTAATAACCGAGAGACTCAACAAAACAACATCC-TATAATTA-GAGGA
** *
131070 CTATTTTGTAACTTTTAATAATTGGGAGACTCAACAAAACAACATCCTATAATTAGAGGA
1 CTATTTTGTAACTTTTAATAACCGAGAGACTCAACAAAACAACATCCTATAATTAGAGGA
131130 CTATTTGTGT-ACTTT
1 CTATTT-TGTAACTTT
131145 ACCCAGTCAT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
59 45 0.68
60 18 0.27
61 3 0.05
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (60 bp):
CTATTTTGTAACTTTTAATAACCGAGAGACTCAACAAAACAACATCCTATAATTAGAGGA
Found at i:132615 original size:51 final size:51
Alignment explanation
Indices: 132557--132671 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 51
132547 AGAATTAGAC
* * *
132557 TTATTATTTTATTAGGAACT-GAGATCA-AGTTAAAACATTAT-TCTCAGTTTA
1 TTATTATTTTATTAGAAACTAG-GAT-AGAATCAAAACATTATCT-TCAGTTTA
* *
132608 TTATTATTTTATTAGAAACTAGGATAGAATCGAAACATTATCTTTAGTTTA
1 TTATTATTTTATTAGAAACTAGGATAGAATCAAAACATTATCTTCAGTTTA
132659 TTATTATTTTATT
1 TTATTATTTTATT
132672 CGTTAACATG
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
50 1 0.02
51 53 0.95
52 2 0.04
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (51 bp):
TTATTATTTTATTAGAAACTAGGATAGAATCAAAACATTATCTTCAGTTTA
Found at i:132961 original size:42 final size:42
Alignment explanation
Indices: 132902--132991 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
132892 ATTAGAACCG
132902 ATTATCGAATTTGTATAGAGTTCGTAGAACAATTATCCATCA
1 ATTATCGAATTTGTATAGAGTTCGTAGAACAATTATCCATCA
*
132944 ATTATCGAATTTGTATAGAGTTCGTAGAACAATTATCCATCG
1 ATTATCGAATTTGTATAGAGTTCGTAGAACAATTATCCATCA
132986 ATTATC
1 ATTATC
132992 ATCATCTCCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (42 bp):
ATTATCGAATTTGTATAGAGTTCGTAGAACAATTATCCATCA
Found at i:133698 original size:20 final size:20
Alignment explanation
Indices: 133667--133724 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
133657 CTCTGTATAG
* *
133667 TAGTATCGATACCATAAGTA
1 TAGTATCAATACCATAAGCA
* *
133687 TAGTGTCAATACCATAGGCA
1 TAGTATCAATACCATAAGCA
*
133707 TAGTATCGATACCATAAG
1 TAGTATCAATACCATAAG
133725 GCCCCAAAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (20 bp):
TAGTATCAATACCATAAGCA
Found at i:137339 original size:2 final size:2
Alignment explanation
Indices: 137332--137368 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
137322 TCAATCTACA
137332 AT AT AT AT AT 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 AT AT AT AT AT A
137369 ATTTACAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:137487 original size:13 final size:13
Alignment explanation
Indices: 137464--137531 Score: 100
Period size: 13 Copynumber: 5.2 Consensus size: 13
137454 AATGACGTGC
*
137464 AATGAGCGTCATA
1 AATGCGCGTCATA
*
137477 AATGCGTGTCATA
1 AATGCGCGTCATA
137490 AATGCGCGTCATA
1 AATGCGCGTCATA
* *
137503 AATACGTGTCATA
1 AATGCGCGTCATA
137516 AATGCGCGTCATA
1 AATGCGCGTCATA
137529 AAT
1 AAT
137532 TTATGACGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:137493 original size:26 final size:26
Alignment explanation
Indices: 137464--137531 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
137454 AATGACGTGC
* *
137464 AATGAGCGTCATAAATGCGTGTCATA
1 AATGCGCGTCATAAATACGTGTCATA
137490 AATGCGCGTCATAAATACGTGTCATA
1 AATGCGCGTCATAAATACGTGTCATA
137516 AATGCGCGTCATAAAT
1 AATGCGCGTCATAAAT
137532 TTATGACGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (26 bp):
AATGCGCGTCATAAATACGTGTCATA
Found at i:138884 original size:15 final size:15
Alignment explanation
Indices: 138861--138898 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
138851 GATGATGATG
* *
138861 AAGAA-AAGAATGAC
1 AAGAAGAAGAAAGAA
138875 AAGAAGAAGAAAGAA
1 AAGAAGAAGAAAGAA
138890 AAGAAGAAG
1 AAGAAGAAG
138899 GAGGTAGGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.68, C:0.03, G:0.26, T:0.03
Consensus pattern (15 bp):
AAGAAGAAGAAAGAA
Found at i:146631 original size:23 final size:24
Alignment explanation
Indices: 146604--146649 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
146594 TACATGTAGG
*
146604 TTTAAAAAACT-ATATTTAAACAC
1 TTTAAAAAACTCATATATAAACAC
146627 TTTAAAAAACTCATATATAAACA
1 TTTAAAAAACTCATATATAAACA
146650 ATGTGAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (24 bp):
TTTAAAAAACTCATATATAAACAC
Found at i:155986 original size:20 final size:20
Alignment explanation
Indices: 155931--155994 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
155921 GATGTTTTTG
* * *
155931 AGTATCGGTATTGTTAACAC
1 AGTATCGGTATTATTCATAC
* *
155951 AGTATCGATACTATTCATAC
1 AGTATCGGTATTATTCATAC
155971 AGTATCGGTATTATTCATAC
1 AGTATCGGTATTATTCATAC
155991 AGTA
1 AGTA
155995 CAATACTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (20 bp):
AGTATCGGTATTATTCATAC
Found at i:155993 original size:40 final size:39
Alignment explanation
Indices: 155931--156008 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
155921 GATGTTTTTG
* *
155931 AGTATCGGTATTGTTAACACAGTATCGATACTATTCATAC
1 AGTATCGGTATTATTAACACAGTA-CAATACTATTCATAC
* *
155971 AGTATCGGTATTATTCATACAGTACAATACTATTCATA
1 AGTATCGGTATTATTAACACAGTACAATACTATTCATA
156009 AAAATATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 13 0.38
40 21 0.62
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.36
Consensus pattern (39 bp):
AGTATCGGTATTATTAACACAGTACAATACTATTCATAC
Found at i:158461 original size:11 final size:11
Alignment explanation
Indices: 158445--158469 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
158435 TAAAATGCAG
158445 AAAAATAAAAT
1 AAAAATAAAAT
158456 AAAAATAAAAT
1 AAAAATAAAAT
158467 AAA
1 AAA
158470 CAAACAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:159216 original size:16 final size:16
Alignment explanation
Indices: 159195--159227 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
159185 TTAATAATAA
159195 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
159211 ACGAACATGAACGAAC
1 ACGAACATAAACGAAC
159227 A
1 A
159228 AAAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.24, G:0.15, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:159273 original size:70 final size:66
Alignment explanation
Indices: 159169--159295 Score: 191
Period size: 70 Copynumber: 1.9 Consensus size: 66
159159 AACGGAGGTA
* *
159169 TGTTCATGTTCGTCATTTAATAATAAACGAACATAAACGAACACGAACATGAACGAACAAAAAAA
1 TGTTCATGTTCGTCATTTAATAATAAACGAACATAAACAAACAC-AA-ACGAACGAACAAAAAAA
159234 TTT
64 TTT
*
159237 TGTTCATGTTCGTTCATTTAAATGATAAACGAACATAAACAAACACAAACGAACGAACA
1 TGTTCATGTTCG-TCATTT-AATAATAAACGAACATAAACAAACACAAACGAACGAACA
159296 TAAACGAACA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
68 22 0.41
69 8 0.15
70 24 0.44
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.24
Consensus pattern (66 bp):
TGTTCATGTTCGTCATTTAATAATAAACGAACATAAACAAACACAAACGAACGAACAAAAAAATT
T
Found at i:159276 original size:10 final size:10
Alignment explanation
Indices: 159261--159342 Score: 58
Period size: 10 Copynumber: 7.6 Consensus size: 10
159251 CATTTAAATG
159261 ATAAACGAAC
1 ATAAACGAAC
*
159271 ATAAACAAAC
1 ATAAACGAAC
*
159281 ACAAACGAACGAAC
1 A-TAA---ACGAAC
159295 ATAAACGAAC
1 ATAAACGAAC
*
159305 ATAATAAATGAAC
1 ---ATAAACGAAC
159318 ATAAACGAAC
1 ATAAACGAAC
159328 ATAAAC-AAC
1 ATAAACGAAC
*
159337 ACAAAC
1 ATAAAC
159343 ACAAAAAACA
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
9 8 0.14
10 31 0.53
11 2 0.03
13 11 0.19
14 6 0.10
ACGTcount: A:0.62, C:0.21, G:0.07, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:159617 original size:14 final size:14
Alignment explanation
Indices: 159598--159625 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
159588 CCTCTGTTCG
159598 AACATAAATGAACA
1 AACATAAATGAACA
159612 AACATAAATGAACA
1 AACATAAATGAACA
159626 TATAATCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.07, T:0.14
Consensus pattern (14 bp):
AACATAAATGAACA
Done.