Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold444
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: 554371
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
File 1 of 5
Found at i:2187 original size:42 final size:41
Alignment explanation
Indices: 2104--2193 Score: 101
Period size: 42 Copynumber: 2.2 Consensus size: 41
2094 TTGATATAGA
* * * * *
2104 TATATATTTGATATTAATATATTTAATTTTTTAAATTTTTT
1 TATATATTTGAAATCAATATATTTAATTATTCAAATATTTT
2145 TATATATTTAGAAATCAATATATATTAA-TATTCAAATATTTT
1 TATATATTT-GAAATCAATATAT-TTAATTATTCAAATATTTT
*
2187 TAAATAT
1 TATATAT
2194 AAATATTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 9 0.22
42 28 0.68
43 4 0.10
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (41 bp):
TATATATTTGAAATCAATATATTTAATTATTCAAATATTTT
Found at i:2401 original size:12 final size:12
Alignment explanation
Indices: 2380--2424 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
2370 GATGGAAAGG
*
2380 TTATTTTATTAT
1 TTATTATATTAT
2392 TTATTATATTAT
1 TTATTATATTAT
2404 TTA--AGTATTAT
1 TTATTA-TATTAT
2415 TT-TTATATTA
1 TTATTATATTA
2425 ATATTTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
10 1 0.03
11 13 0.45
12 15 0.52
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTATTATATTAT
Found at i:2429 original size:25 final size:24
Alignment explanation
Indices: 2386--2467 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 24
2376 AAGGTTATTT
2386 TATTATTTATTATA-T--TATTTAA
1 TATTATTT-TTATATTAATATTTAA
2408 GTATTATTTTTATATTAATATTT-A
1 -TATTATTTTTATATTAATATTTAA
2432 TA-TATTTTT-TAATTAA-ATTTAAAA
1 TATTATTTTTAT-ATTAATATTT--AA
*
2456 AATTATTTTTAT
1 TATTATTTTTAT
2468 TTTTAAACAT
Statistics
Matches: 49, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
21 5 0.10
22 17 0.35
23 11 0.22
24 3 0.06
25 12 0.24
26 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (24 bp):
TATTATTTTTATATTAATATTTAA
Found at i:2977 original size:2 final size:2
Alignment explanation
Indices: 2970--3002 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2960 ATCATAGGGA
2970 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 A
3003 GATAAGCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6375 original size:78 final size:78
Alignment explanation
Indices: 6289--6444 Score: 312
Period size: 78 Copynumber: 2.0 Consensus size: 78
6279 AAATTAAGCT
6289 TCATCATCATCATCGTCATCGTCGTCATCATCTTGAACATCATCATCAAGCTGTCCACGAGCTAC
1 TCATCATCATCATCGTCATCGTCGTCATCATCTTGAACATCATCATCAAGCTGTCCACGAGCTAC
6354 TAGTGATACCTCC
66 TAGTGATACCTCC
6367 TCATCATCATCATCGTCATCGTCGTCATCATCTTGAACATCATCATCAAGCTGTCCACGAGCTAC
1 TCATCATCATCATCGTCATCGTCGTCATCATCTTGAACATCATCATCAAGCTGTCCACGAGCTAC
6432 TAGTGATACCTCC
66 TAGTGATACCTCC
6445 GATGGTGGGT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (78 bp):
TCATCATCATCATCGTCATCGTCGTCATCATCTTGAACATCATCATCAAGCTGTCCACGAGCTAC
TAGTGATACCTCC
Found at i:14193 original size:16 final size:17
Alignment explanation
Indices: 14161--14198 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14151 CATAAGTATA
*
14161 AATTTAATATATTATAT
1 AATTTAATATATAATAT
*
14178 TATTTAATATA-AATAT
1 AATTTAATATATAATAT
14194 AATTT
1 AATTT
14199 TAATTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTAATATATAATAT
Found at i:14196 original size:28 final size:25
Alignment explanation
Indices: 14157--14207 Score: 66
Period size: 28 Copynumber: 1.9 Consensus size: 25
14147 TTGACATAAG
*
14157 TATAAATTTAATATATTATATTATTTAA
1 TATAAATATAAT-T-TTA-ATTATTTAA
14185 TATAAATATAATTTTAATTATTT
1 TATAAATATAATTTTAATTATTT
14208 TTAATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 3 0.14
27 1 0.05
28 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TATAAATATAATTTTAATTATTTAA
Found at i:14200 original size:17 final size:17
Alignment explanation
Indices: 14152--14202 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
14142 ATTTTTTGAC
* *
14152 ATAAGTATAAATTTAAT
1 ATAAATATAATTTTAAT
* *
14169 AT-ATTATATTATTTAAT
1 ATAAATATAAT-TTTAAT
14186 ATAAATATAATTTTAAT
1 ATAAATATAATTTTAAT
14203 TATTTTTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 5 0.19
17 16 0.59
18 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
ATAAATATAATTTTAAT
Found at i:14201 original size:34 final size:34
Alignment explanation
Indices: 14123--14218 Score: 104
Period size: 34 Copynumber: 2.8 Consensus size: 34
14113 TTTTAATTTA
* * *
14123 ATAATTTTGAATTATTATTATTTTTTGACATAAGT
1 ATAATTTT-AATTATTATTATTATTTAACATAAAT
* *
14158 ATAAATTTAATATATTA-TATTATTTAATATAAAT
1 ATAATTTTAAT-TATTATTATTATTTAACATAAAT
*
14192 ATAATTTTAATTATTTTTAATTATTTA
1 ATAATTTTAATTATTATT-ATTATTTA
14219 TTATATATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
33 4 0.08
34 27 0.53
35 20 0.39
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (34 bp):
ATAATTTTAATTATTATTATTATTTAACATAAAT
Found at i:15028 original size:19 final size:19
Alignment explanation
Indices: 15004--15043 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
14994 CACTTGACTG
15004 CTTTTACATTTATACTATT
1 CTTTTACATTTATACTATT
* *
15023 CTTTTATATTTATATTATT
1 CTTTTACATTTATACTATT
15042 CT
1 CT
15044 AATTCTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (19 bp):
CTTTTACATTTATACTATT
Found at i:15216 original size:2 final size:2
Alignment explanation
Indices: 15143--15197 Score: 64
Period size: 2 Copynumber: 29.5 Consensus size: 2
15133 AGAGTGTGTC
*
15143 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA -A TA -A TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
15182 TA TA -A TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA T
15198 GAATCTAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
1 4 0.09
2 41 0.91
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:17231 original size:15 final size:16
Alignment explanation
Indices: 17201--17234 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
17191 GTATATTAAT
*
17201 ATATATTTCGTTTTTA
1 ATATATTTCATTTTTA
17217 ATATA-TTCATTTTTA
1 ATATATTTCATTTTTA
17232 ATA
1 ATA
17235 AATTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (16 bp):
ATATATTTCATTTTTA
Found at i:17979 original size:74 final size:71
Alignment explanation
Indices: 17884--18082 Score: 185
Period size: 73 Copynumber: 2.8 Consensus size: 71
17874 TTTAAATTAT
* *
17884 TTTATTATAAAAAATAAAT-AAATTTAATAACTTTAAATATAATATAATTACATTATACGAAAAA
1 TTTATTAT-AAAAATAAATAAAATATAATAACTTTAAATATAATATAATT--A-TATAAGAAAAA
17948 ATAATTAAAA
62 ATAATTAAAA
* * * * *
17958 TTTATTATAAAAGTGACATAAAAATATGATAACTTTAAATATAATATGATTATATAATAAAAAAT
1 TTTATTATAAAAAT-AAAT-AAAATATAATAACTTTAAATATAATATAATTATATAAGAAAAAAT
18023 AATTAAAA
64 AATTAAAA
* * * *
18031 TATAATATAAAAATAATGTTAAAA-ATAAT-A---TAAATATAATATAAATATATAA
1 TTTATTATAAAAATAA--ATAAAATATAATAACTTTAAATATAATATAATTATATAA
18083 AAATATTAAA
Statistics
Matches: 105, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
68 20 0.19
71 1 0.01
72 5 0.05
73 39 0.37
74 13 0.12
76 27 0.26
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (71 bp):
TTTATTATAAAAATAAATAAAATATAATAACTTTAAATATAATATAATTATATAAGAAAAAATAA
TTAAAA
Found at i:18034 original size:23 final size:22
Alignment explanation
Indices: 18009--18094 Score: 94
Period size: 23 Copynumber: 4.1 Consensus size: 22
17999 TAATATGATT
18009 ATATAATA-AAAAATAATTAAA
1 ATATAATATAAAAATAATTAAA
18030 ATATAATATAAAAATAATGTTAAA
1 ATATAATATAAAAATAA--TTAAA
* *
18054 A-ATAATATAAATATAA-TATA
1 ATATAATATAAAAATAATTAAA
18074 A-AT-ATATAAAAAT-ATTAAA
1 ATATAATATAAAAATAATTAAA
18093 AT
1 AT
18095 CTATTTATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.02
19 13 0.23
20 6 0.11
21 8 0.14
22 8 0.14
23 14 0.25
24 6 0.11
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (22 bp):
ATATAATATAAAAATAATTAAA
Found at i:18069 original size:11 final size:11
Alignment explanation
Indices: 17993--18088 Score: 81
Period size: 11 Copynumber: 8.6 Consensus size: 11
17983 ATGATAACTT
17993 TAAATATAATA
1 TAAATATAATA
*
18004 TGATTATATAATA
1 T-A-AATATAATA
*
18017 -AAAAATAAT-
1 TAAATATAATA
18026 TAAAATATAATA
1 T-AAATATAATA
* *
18038 TAAAAATAATGT
1 TAAATATAAT-A
*
18050 TAAAAATAATA
1 TAAATATAATA
18061 TAAATATAATA
1 TAAATATAATA
18072 TAAATAT-ATA
1 TAAATATAATA
*
18082 AAAATAT
1 TAAATAT
18089 TAAAATCTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
10 15 0.21
11 35 0.50
12 12 0.17
13 8 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
TAAATATAATA
Found at i:25384 original size:21 final size:22
Alignment explanation
Indices: 25339--25392 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
25329 TGGACATGTT
25339 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
25361 AAAAATGCATGAAACATAAT-A
1 AAAAATGCATGAAACATAATAA
25382 AAAAATGCATG
1 AAAAATGCATG
25393 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:26355 original size:20 final size:20
Alignment explanation
Indices: 26308--26382 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
26298 AAAAAGACAT
*
26308 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
26327 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
26348 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
26368 AATGTATCGATACAT
1 AATGTATCGATACAT
26383 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:26376 original size:40 final size:39
Alignment explanation
Indices: 26305--26382 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
26295 GGTAAAAAGA
* *
26305 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
26344 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
26383 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:27092 original size:28 final size:28
Alignment explanation
Indices: 26991--31287 Score: 4746
Period size: 28 Copynumber: 151.5 Consensus size: 28
26981 CACTGACACA
* **
26991 TGTGGGCTTTGAAAAGAGTGTTACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
27020 TGCGTGGGCTTTAAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
*
27050 TGCGTGGGCTTTGAAAGGCTGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
* *
27080 CGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
27108 TGTGGGCTTTGAAA-GGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
27135 CGTGGGCTTTGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
27163 CGTGGGC-TTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
27190 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
27218 CGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
27246 TGCGTGGGCTTTGAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGG-GTGCCACTGAC-T
*
27278 GTGTGGGCTTTGAAAGGGTGCCACTAACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
27307 CGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
27335 TATGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
27363 CGTGGGCTTTGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
27391 TGCGTGAGCTTTAAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGG-GTGCCACTGAC-T
*
27423 GTGTGGGCTTTAAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
27452 TGTGGGGTTTGAAAGAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
27480 TGTGGGCTTCGCAATGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
27508 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
27536 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
27564 TGTGGGCTCTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
27592 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
27620 TGTAGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
27649 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
27678 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
*
27707 TGTGGGCTTTGAAAGGAGTGCCACTAACTT
1 TGTGGGCTTTGAAAGG-GTGCCACTGAC-T
*
27737 GTGTGGGCTTTAAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
27766 TTTAGGCTTTGAAAGAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
27794 TGTGGGCTTCGCAATGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
27822 TGTGGGCTTCGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
27850 TGTGGGCTCTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
27878 TGTGGGCTTTGAAAGGGTGGCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
27906 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
27934 TGTGGGCTCTGAAAGGGTGCCATTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
27962 TGTGGGCTTTGAAAGGGTGGCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** *
27990 TGTGGGCTTTGAAAAAAGTGCCACTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* **
28019 TATGGGCTTTGAAAAAAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
28048 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
28077 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
28105 TGTGGGCTTTGAAAAGTGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
28134 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
28163 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
* *
28192 TGTAGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
28220 TGTGGGCTTTGAATGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
28248 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
28277 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
28305 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
28333 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
28361 TGTAGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
28390 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
28419 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
*
28448 TGTGGGCTTTGAAAGGAGTGCCACTAACTT
1 TGTGGGCTTTGAAAGG-GTGCCACTGAC-T
*
28478 GTGTGGGCTTTAAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
28507 TTTAGGCTTTGAAAGAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
28535 TGTGGGCTTCGCAATGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
28563 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
28591 TGTGGGCTCTGAAAGGGAGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
28619 TGTGGGCTTTGAAAGGGTGGCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
28647 TGTGGG-TTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTT-GAAAGGGTGCCACTGACT
**
28675 TGTGGGCTTTGAAAAAAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
28704 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
28733 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
28761 TGTGGGCTTTGAAAAGTGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
28790 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
28819 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
*
28848 TGTAGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
28876 TATGGGCTTT-AAATGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
* *
28904 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
28933 TGTGGGCTTTGAAA-GGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
28960 CGTGGGCTTTGAAA-GGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
28987 CGTGGGCTTTGAAAAGGTACCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
29015 TGTGAGCTTTGAAA-GGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
29042 CGTGGGCTTTGAAA-GGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
29069 CGTGGGCTTTGAAAAGGTACCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* **
29097 CGTAAGC-TTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
29124 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
29152 TGTGGGCTTTGAAAGGAGTGCCACTGACTT
1 TGTGGGCTTTGAAAGG-GTGCCACTGAC-T
*
29182 GTGTGGGCTTTAAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
29211 TGTGGGCTTTGAAAGAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
29239 TGTGGGCTTCGCAATGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
29267 TGTGAGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
29295 TGTGGGCTCTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
29323 TGTGGACTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
29351 TGTGGGCTTTGAAAAGAGTGCCACCGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
29380 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
29409 TATGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
29438 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
29467 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
29495 TGTGGGCTTTGAAAAGTGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
29524 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
29553 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
*
29582 TGTAGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
29610 TGTGGGCTTTGAATGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
29638 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
29667 TGTGGGCTTTGAAA-GGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
29694 CGTGGGCTTTGAAA-GGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
29721 CGTGGGCTTTGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* **
29749 CGTAAGC-TTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
29776 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
29804 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
29833 TGTGGGCTTTGAAAGGAGTGCCACTGACTT
1 TGTGGGCTTTGAAAGG-GTGCCACTGAC-T
*
29863 GTGTGGGCTTTAAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
** * *
29892 TGTGTTCTTTGAAAGAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
29920 TGTGGGCTTCGCAATGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
29948 TGTGAGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
29976 TGTGGGCTCTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
30004 TGTGGACTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
30032 TGTGGGCTTTGAAAAGAGTGCCACCGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
30061 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
30090 TATGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
30119 TGTGGGCTTTGAAAGGAGTGCCACTGACTT
1 TGTGGGCTTTGAAAGG-GTGCCACTGAC-T
30149 GTGTGGGCTTAT-AAA-GGTGCCACTGACT
1 -TGTGGGCTT-TGAAAGGGTGCCACTGACT
* *
30177 TGTGGGCTTTGAAAGAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
30205 TGTGGGCTTCGCAAA-GGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
30233 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
30261 TGCGTGGGCTTTGAAAAGGGTGCCACTGACT
1 T--GTGGGCTTTG-AAAGGGTGCCACTGACT
30292 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
30320 TGTGGGCTTTGGAAAGAGTGCCACTAACT
1 TGTGGGCTTT-GAAAGGGTGCCACTGACT
* * *
30349 TGTGGGCTTTAAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
30377 TGCGTGGGCTTTGAAAGGGGTGCCACTGACT
1 T--GTGGGCTTTGAAA-GGGTGCCACTGACT
*
30408 TGTGGGCTTTGAAAGGGTGCCACCGACTT
1 TGTGGGCTTTGAAAGGGTGCCACTGAC-T
* *
30437 GTGTGGGCTTTGAAAAGTGTTGCCACCGACTT
1 -TGTGGGCTTTG-AAAG-GGTGCCACTGAC-T
*
30469 GTGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T
*
30501 GTGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T
* * *
30533 GTGTGGGCTTTGAAATAGGTGCCACAGAGT
1 -TGTGGGCTTTGAAA-GGGTGCCACTGACT
** * * * *
30563 TGTGGATTTTAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** * * *
30591 TATGGATTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** * * *
30619 TGTGGATTTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** * * *
30647 TGTGGAC-TCAAAAGAGATGCCACGGAGT
1 TGTGGGCTTTGAAAG-GGTGCCACTGACT
* * * * *
30675 TATGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
30702 TGTGGTC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
30729 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
30756 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
30783 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
30810 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
30837 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** * *
30864 TGTGGAC-TAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
30891 TGTGGACTTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
30919 TGTGGAC-TTAAAAGAGATGCCACGGAGT
1 TGTGGGCTTTGAAAG-GGTGCCACTGACT
* * * * *
30947 TATGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
30974 TGTGGAC-TTAAAAGAGATGCCACGGAGT
1 TGTGGGCTTTGAAAG-GGTGCCACTGACT
* * * * *
31002 TATGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
31029 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
31056 TGTGGTC-TTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * *
31084 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * *
31111 TGTTGAC-TTAAAAGGGTGCTACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * ** * *
31138 TGTGGAC-TTAAAAGAATGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
31165 TGTGGACTTTAAAAGGATGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
* * * *
31193 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
31220 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
31247 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
31274 TGTGGGCTTT-AAAG
1 TGTGGGCTTTGAAAG
31288 AGGTCACACT
Statistics
Matches: 3837, Mismatches: 350, Indels: 164
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.00
27 701 0.18
28 1724 0.45
29 967 0.25
30 173 0.05
31 178 0.05
32 91 0.02
33 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.27
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:30985 original size:82 final size:81
Alignment explanation
Indices: 29107--31287 Score: 1151
Period size: 82 Copynumber: 25.7 Consensus size: 81
29097 CGTAAGCTTG
* * * * * * * * *
29107 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTG
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGG-GTG
* * *
29172 CCACTGACTTGTGTGGGCTTTA
63 CCACGGA-GT-TGTGGAC-TTA
* * * * * * * * ** *
29194 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAATGGTGC
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGC
* * *
29259 CACTGACTTGT-GAGCTTCG
64 CACGGAGTTGTGGA-CTT-A
* * * * ** * *
29278 AAAGGGTGCCACTGACTTGTGGGCTCTGAAAGGGTGCCACTAACTTGTGGACTTTGAAAGGGTGC
1 AAAGGGTGCCACGGAGTTGTGGACT-TAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGC
* * *
29343 CACTGACTTGTGGGCTTTGA
64 CACGGAGTTGTGGAC-TT-A
* * * * * * * * * *
29363 AAAGAGTGCCACCGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTGAAAGGAGT
1 AAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGG-GT
* * * *
29428 GCCACTGACTTGTGGGCTTTG
62 GCCACGGAGTTGTGGAC-TTA
* * * * * * * *
29449 AAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGTGT
1 AAAGG-GTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGT
* * *
29514 GCCACTGACTTGTGGGCTTTGA
62 GCCACGGAGTTGTGGAC-TT-A
* ** * * * * * *
29536 AAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTAGG-CTTTGAAAGGGT
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGG-GTGCCACGGAGTTGT-GGAC-TTAAAAGGGT
* * * *
29600 GCCACTGACTTGTGGGCTTTG
62 GCCACGGAGTTGTGGAC-TTA
* * * * * * * * *
29621 AATGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAA-GGTG
1 AAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTG
* * * * *
29685 CCACTGACTCGTGGGCTTTG
63 CCACGGAGTTGTGGAC-TTA
* * * * * * * * * *
29705 AAA-GGTGCCACTGACTCGTGGGCTTTGAAAA-GGTACCACTGACTCGT-AAGCTTGAAAGGGTG
1 AAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTG
* * * *
29767 CCACTGACTTGTGGGCTTTG
63 CCACGGAGTTGTGGAC-TTA
* * * * * * * * *
29787 AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGT
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGG-GTGCCACGGAGTTGTGGAC-TTAAAAGG-GT
* * *
29852 GCCACTGACTTGTGTGGGCTTTA
62 GCCACGGA-GT-TGTGGAC-TTA
* * ** * * * * * ** *
29875 AAAGGGTGCCACTGACTTGTGTTCTTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAATGGTGC
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGC
* * *
29940 CACTGACTTGT-GAGCTTCG
64 CACGGAGTTGTGGA-CTT-A
* * * * ** * *
29959 AAAGGGTGCCACTGACTTGTGGGCTCTGAAAGGGTGCCACTAACTTGTGGACTTTGAAAGGGTGC
1 AAAGGGTGCCACGGAGTTGTGGACT-TAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGC
* * *
30024 CACTGACTTGTGGGCTTTGA
64 CACGGAGTTGTGGAC-TT-A
* * * * * * * * * *
30044 AAAGAGTGCCACCGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTGAAAGGAGT
1 AAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGG-GT
* * * *
30109 GCCACTGACTTGTGGGCTTTG
62 GCCACGGAGTTGTGGAC-TTA
* * * * * * * *
30130 AAAGGAGTGCCACTGACTTGTGTGGGCTTATAAA-GGTGCCACTGACTTGTGGGCTTTGAAAGAG
1 AAAGG-GTGCCACGGA-GT-TGTGGACTTA-AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGG
* * * *
30194 TGCCACTGAATTGTGGGCTTCGC
61 TGCCACGGAGTTGTGGACTT--A
* * * * * * *
30217 AAA-GGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAAGGG
1 AAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTT--GTGGAC-TT-AAAAGGG
* * * *
30281 TGCCACTGACTTGTGGGCTTTG
61 TGCCACGGAGTTGTGGAC-TTA
* * * * * ** * * *
30303 AAAGGGTGCCACTGACTTGTGGGCTTTGGAAAGAGTGCCACTAACTTGTGGGCTTTAAAAAGGTG
1 AAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTG
** * *
30368 CCACTAACTTGCGTGGGCTTTGA
63 CCACGGAGTT--GTGGAC-TT-A
* * * * * * * *
30391 AAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGTGGGCTTTGAAAAGTG
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGA-GT-TGTGGAC-TT-AAAAG-G
* * * *
30456 TTGCCACCGACTTGTGTGGGCTTTGA
60 GTGCCACGGA-GT-TGTGGAC-TT-A
* * * * * * * *
30482 AATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAA
1 AAAGGG-TGCCACGGA-GT-TGTGGAC-TT-AAAAGGG-TGCCACGGA-GT-TGTGGAC-TT-AA
* *
30547 ATA-GGTGCCACAGAGTTGTGGATTTTA
56 A-AGGGTGCCACGGAGTTGTGGA-CTTA
* * * *
30574 AAAGAGTGCCACGGAGTTATGGATTTTAAAAGGGTGCCACGGAGTTGTGGATTTTAAAAGGGTGC
1 AAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGC
* *
30639 CACAGAGTTGTGGACTCA
64 CACGGAGTTGTGGACTTA
* * * *
30657 AAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGATGCC
1 AAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
30722 ACGGAGTTGTGGACTTA
65 ACGGAGTTGTGGACTTA
30739 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
30804 CGGAGTTGTGGACTTA
66 CGGAGTTGTGGACTTA
* *
30820 AAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
30885 CGGAGTTGTGGACTTTA
66 CGGAGTTGTGGAC-TTA
* * *
30902 AAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCC
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
30967 ACGGAGTTGTGGACTTA
65 ACGGAGTTGTGGACTTA
* *
30984 AAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1 AAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
*
31049 ACGGAGTTGTGGTCTTA
65 ACGGAGTTGTGGACTTA
* * *
31066 AAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTTGACTTAAAAGGGTGCT
1 AAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
31131 ACGGAGTTGTGGACTTA
65 ACGGAGTTGTGGACTTA
** * *
31148 AAAGAATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGGTGCC
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
31213 ACGGAGTTGTGGACTTA
65 ACGGAGTTGTGGACTTA
* *
31230 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAG
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
31288 AGGTCACACT
Statistics
Matches: 1832, Mismatches: 186, Indels: 158
0.84 0.09 0.07
Matches are distributed among these distances:
81 204 0.11
82 313 0.17
83 169 0.09
84 233 0.13
85 148 0.08
86 247 0.13
87 281 0.15
88 101 0.06
89 23 0.01
90 5 0.00
91 32 0.02
92 14 0.01
93 9 0.00
94 11 0.01
95 14 0.01
96 27 0.01
97 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.26
Consensus pattern (81 bp):
AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
CGGAGTTGTGGACTTA
Found at i:38817 original size:21 final size:22
Alignment explanation
Indices: 38772--38825 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
38762 TGGACATGTT
38772 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
38794 AAAAATGCATGAAACATAAT-A
1 AAAAATGCATGAAACATAATAA
38815 AAAAATGCATG
1 AAAAATGCATG
38826 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:39786 original size:20 final size:20
Alignment explanation
Indices: 39739--39813 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
39729 AAAAAGACAT
*
39739 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
39758 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
39779 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
39799 AATGTATCGATACAT
1 AATGTATCGATACAT
39814 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:39807 original size:40 final size:39
Alignment explanation
Indices: 39736--39813 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
39726 GGTAAAAAGA
* *
39736 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
39775 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
39814 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:41997 original size:22 final size:22
Alignment explanation
Indices: 41970--42016 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
41960 GTGTCAAATG
41970 ATGAAATTAATCACATTATTTA
1 ATGAAATTAATCACATTATTTA
*
41992 ATGAAATTAATCATATTATTTA
1 ATGAAATTAATCACATTATTTA
42014 ATG
1 ATG
42017 TTAGTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (22 bp):
ATGAAATTAATCACATTATTTA
Found at i:42221 original size:2 final size:2
Alignment explanation
Indices: 42214--42247 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
42204 CAAAAGAAAC
*
42214 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42248 CCGATACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:42423 original size:24 final size:24
Alignment explanation
Indices: 42365--42433 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 24
42355 AAATGATATT
* * * *
42365 ATAAAATTTAAAAATTAATTTTAT
1 ATAAAATTTTATAATTAAATTTAA
*
42389 AT-TAATATTTATAATTAAATTTAA
1 ATAAAAT-TTTATAATTAAATTTAA
*
42413 ATAAAATTTTATTATATAAAT
1 ATAAAATTTTATAAT-TAAAT
42434 AATAATTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 3 0.09
24 24 0.69
25 8 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
ATAAAATTTTATAATTAAATTTAA
Found at i:42476 original size:5 final size:5
Alignment explanation
Indices: 42466--42505 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
42456 AAAATATAAA
* * *
42466 AATTT AATTT AATTT AATTT AATAT AAATA AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATTT AATTT
42506 GATCGGATGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (5 bp):
AATTT
Found at i:42951 original size:22 final size:22
Alignment explanation
Indices: 42923--42964 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
42913 ATTAAAATAT
42923 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
42945 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
42965 ATTAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:43611 original size:54 final size:54
Alignment explanation
Indices: 43547--43651 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
43537 CTTGTTAAAA
* * * *
43547 GAGAACAAAATGAGTGGAGTGTCGGAGTTGATATTTTAAAGCGTATTCTGACCT
1 GAGAACAAAATCAATGGAGTGTCGGAGTTGATATTCTAAAACGTATTCTGACCT
*
43601 GAGAACAAAATCAATGGGGTGTCGGAGTTGATATTCTAAAACGTATTCTGA
1 GAGAACAAAATCAATGGAGTGTCGGAGTTGATATTCTAAAACGTATTCTGA
43652 TCTTTAATTC
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:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (54 bp):
GAGAACAAAATCAATGGAGTGTCGGAGTTGATATTCTAAAACGTATTCTGACCT
Found at i:45644 original size:43 final size:43
Alignment explanation
Indices: 45589--45683 Score: 106
Period size: 43 Copynumber: 2.2 Consensus size: 43
45579 AAATTTTTCT
* * *
45589 TTATTATAATTAA-ACATAAATATTTTAATATTTTAATAATAAA
1 TTATTATAATTAACAAAT-AATATTTTAATATTTAAAAAATAAA
*
45632 TTATTAGT-ATTAACAAATAATATTTTATTATTTAAAAAATAAA
1 TTATTA-TAATTAACAAATAATATTTTAATATTTAAAAAATAAA
45675 -TATTTATAA
1 TTA-TTATAA
45684 AAATATTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
42 3 0.07
43 37 0.84
44 4 0.09
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (43 bp):
TTATTATAATTAACAAATAATATTTTAATATTTAAAAAATAAA
Found at i:45681 original size:22 final size:23
Alignment explanation
Indices: 45604--45679 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 23
45594 ATAATTAAAC
* * *
45604 ATAAATATTTTAATATTTTAATA
1 ATAAATATTTTATTATTTAAAAA
* * *
45627 ATAAAT-TATTAGTA-TTAACAA
1 ATAAATATTTTATTATTTAAAAA
45648 AT-AATATTTTATTATTTAAAAA
1 ATAAATATTTTATTATTTAAAAA
45670 ATAAATATTT
1 ATAAATATTT
45680 ATAAAAATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.07
21 12 0.29
22 14 0.33
23 13 0.31
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (23 bp):
ATAAATATTTTATTATTTAAAAA
Found at i:45696 original size:18 final size:17
Alignment explanation
Indices: 45656--45697 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
45646 AAATAATATT
45656 TTATTATTTAAAAAATA
1 TTATTATTTAAAAAATA
*
45673 --AATATTTATAAAAATA
1 TTATTATTTA-AAAAATA
45689 TTATTATTT
1 TTATTATTT
45698 GAATAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 5
0.74 0.07 0.19
Matches are distributed among these distances:
15 7 0.35
16 7 0.35
18 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATTATTTAAAAAATA
Found at i:49227 original size:23 final size:22
Alignment explanation
Indices: 49201--49262 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
49191 AATTTTTATT
49201 TAAAT-TTAATTATAAAATATATA
1 TAAATATTAA-TATAAAATA-ATA
49224 TAAATATTAATATAAAATAATA
1 TAAATATTAATATAAAATAATA
* *
49246 TTTAATATTATTATAAA
1 -TAAATATTAATATAAA
49263 TAGTAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 3 0.09
23 28 0.80
24 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAATATTAATATAAAATAATA
Found at i:51626 original size:21 final size:21
Alignment explanation
Indices: 51602--51642 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
51592 AAAATAAAAA
51602 ATATTTTAT-ATTAATATTTAT
1 ATATTTTATAATTAA-ATTTAT
51623 ATATTTTATAATTAAATTTA
1 ATATTTTATAATTAAATTTA
51643 AATAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTTTATAATTAAATTTAT
Found at i:51679 original size:28 final size:27
Alignment explanation
Indices: 51613--51679 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
51603 TATTTTATAT
*
51613 TAAT-ATTTATATATTTTATAATTAAA
1 TAATAATTTAAATATTTTATAATTAAA
* * * *
51639 T-TTAAATAAAATATTTTTATTATTAAA
1 TAATAATTTAAATA-TTTTATAATTAAA
51666 TAATAATTTAAATA
1 TAATAATTTAAATA
51680 AAATAAATTA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
25 1 0.03
26 7 0.23
27 13 0.43
28 9 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TAATAATTTAAATATTTTATAATTAAA
Found at i:54214 original size:21 final size:21
Alignment explanation
Indices: 54172--54215 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
54162 ATAGCCAAAA
**
54172 TATAAAATTTAAAGTTTAATT
1 TATAAAATTTAAAACTTAATT
* *
54193 TATATAATTTAAAACTTGATT
1 TATAAAATTTAAAACTTAATT
54214 TA
1 TA
54216 ATTTCTTCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
TATAAAATTTAAAACTTAATT
Found at i:55746 original size:21 final size:21
Alignment explanation
Indices: 55698--55752 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
55688 TTTGGTAGAT
*
55698 TTAATATAATTTTATTAACTT
1 TTAATATAATTTTATTAACTA
*
55719 TTGATATAATTTTATTAA-TCA
1 TTAATATAATTTTATTAACT-A
55740 TTAATATAATTTT
1 TTAATATAATTTT
55753 GGTAACATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (21 bp):
TTAATATAATTTTATTAACTA
Found at i:60975 original size:17 final size:19
Alignment explanation
Indices: 60944--60981 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
60934 TTTTATATTA
60944 TAAAAAATTAAAATT-AAT
1 TAAAAAATTAAAATTCAAT
*
60962 TAAAAAA-TAGAATTCAAT
1 TAAAAAATTAAAATTCAAT
60980 TA
1 TA
60982 TATTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
TAAAAAATTAAAATTCAAT
Found at i:61083 original size:11 final size:10
Alignment explanation
Indices: 61059--61101 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
61049 GATCCGAATC
61059 AAAATTAAAT
1 AAAATTAAAT
*
61069 AAAATTTAAT
1 AAAATTAAAT
61079 AAAAATTAAACT
1 -AAAATTAAA-T
61091 AAACATTAAAT
1 AAA-ATTAAAT
61102 TTCTAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 9 0.32
11 12 0.43
12 7 0.25
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATTAAAT
Found at i:62082 original size:27 final size:28
Alignment explanation
Indices: 62029--62082 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
62019 TGTTAAAATT
*
62029 ATTATAAATATAAAATACATTAAATATG
1 ATTATAAATATAAAATACAATAAATATG
* * *
62057 ATTAT-AATATAATATATAATATATAT
1 ATTATAAATATAAAATACAATAAATAT
62083 ATACACTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (28 bp):
ATTATAAATATAAAATACAATAAATATG
Found at i:63750 original size:15 final size:18
Alignment explanation
Indices: 63719--63758 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
63709 ATTAAATAAT
63719 TTTAATATTAGATAAATA
1 TTTAATATTAGATAAATA
63737 -TTAATA-TA-ATAAATA
1 TTTAATATTAGATAAATA
63752 TTTAATA
1 TTTAATA
63759 AAAATATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 8 0.38
17 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
TTTAATATTAGATAAATA
Found at i:64288 original size:27 final size:27
Alignment explanation
Indices: 64238--64299 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
64228 ACGAATTATT
**
64238 AATATGTTAAAATTATTATAAATATAA
1 AATATGTTAAAACGATTATAAATATAA
64265 AATATGTTAAATACGATTATAATATAATAA
1 AATATGTTAAA-ACGATTATAA-AT-ATAA
64295 AATAT
1 AATAT
64300 ATAAATATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 11 0.37
28 8 0.27
29 2 0.07
30 9 0.30
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (27 bp):
AATATGTTAAAACGATTATAAATATAA
Found at i:65192 original size:2 final size:2
Alignment explanation
Indices: 65185--65216 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
65175 ACATACGTAC
65185 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
65217 ACACCGCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:66025 original size:3 final size:3
Alignment explanation
Indices: 66017--66041 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
66007 TTTCATTTTT
66017 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
66042 TATTATTATT
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:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:66046 original size:3 final size:3
Alignment explanation
Indices: 66040--66098 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
66030 GATGATGATG
66040 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
66088 ATT ATT ATT AT
1 ATT ATT ATT AT
66099 GTTTCTATTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:68162 original size:11 final size:10
Alignment explanation
Indices: 68145--68283 Score: 52
Period size: 10 Copynumber: 14.7 Consensus size: 10
68135 TAATAATATG
68145 TATATTTATA
1 TATATTTATA
68155 TCATATTTATA
1 T-ATATTTATA
*
68166 TATTTTTATA
1 TATATTTATA
*
68176 T-TA-TAAT-
1 TATATTTATA
68183 TATATTTA-A
1 TATATTTATA
*
68192 AATA-TTATA
1 TATATTTATA
68201 -A-ATTTATA
1 TATATTTATA
*
68209 TAAATTTAATAA
1 TATATTT-AT-A
* * * *
68221 GATAATAATT
1 TATATTTATA
68231 TATA-TTATA
1 TATATTTATA
*
68240 TAAATTTA-A
1 TATATTTATA
*
68249 -ACACTTT-TA
1 TATA-TTTATA
68258 TATATTCTAT-
1 TATATT-TATA
68268 TATATTTATA
1 TATATTTATA
68278 T-TATTT
1 TATATTT
68284 TTTCATATCT
Statistics
Matches: 96, Mismatches: 16, Indels: 35
0.65 0.11 0.24
Matches are distributed among these distances:
7 2 0.02
8 16 0.17
9 29 0.30
10 30 0.31
11 15 0.16
12 4 0.04
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (10 bp):
TATATTTATA
Found at i:68316 original size:20 final size:20
Alignment explanation
Indices: 68272--68332 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
68262 TTCTATTATA
*
68272 TTTATATTATTTTT-TCATAT
1 TTTATATTATTTTTAT-ATTT
* *
68292 CTTATGTTATTTATTA-ATTT
1 TTTATATTATTT-TTATATTT
68312 TTTATATTATTTTTATATTT
1 TTTATATTATTTTTATATTT
68332 T
1 T
68333 ATAATCATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 3 0.09
20 28 0.85
21 2 0.06
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTATATTATTTTTATATTT
Found at i:68334 original size:13 final size:12
Alignment explanation
Indices: 68272--68330 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 12
68262 TTCTATTATA
68272 TTTATATTATTT
1 TTTATATTATTT
68284 TTTCATATCTTATGTT
1 TTT-ATA--TTAT-TT
*
68300 ATTTAT-TAATTT
1 -TTTATATTATTT
68312 TTTATATTA-TT
1 TTTATATTATTT
68323 TTTATATT
1 TTTATATT
68331 TTATAATCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
11 15 0.38
12 7 0.18
13 6 0.15
15 4 0.10
16 4 0.10
17 3 0.08
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:68399 original size:46 final size:47
Alignment explanation
Indices: 68332--68424 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 47
68322 TTTTATATTT
*
68332 TATAATCATTTCACGTCTAATATTACTTTATCAATTTTCACAAGAAA
1 TATAATCATTTCACGTCTAATATTACCTTATCAATTTTCACAAGAAA
* *
68379 TATAATCATTTCA-GTCTAATATTACCTTATCTATTTTTACAAGAAA
1 TATAATCATTTCACGTCTAATATTACCTTATCAATTTTCACAAGAAA
68425 AGAGTCAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
46 30 0.70
47 13 0.30
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.42
Consensus pattern (47 bp):
TATAATCATTTCACGTCTAATATTACCTTATCAATTTTCACAAGAAA
Found at i:72220 original size:23 final size:22
Alignment explanation
Indices: 72178--72222 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
72168 GTAAAAATAT
72178 TATTTTTATATTAATATTTATA
1 TATTTTTATATTAATATTTATA
72200 TATTTTTATAATTAA-ATTT-TA
1 TATTTTTAT-ATTAATATTTATA
72221 TA
1 TA
72223 AAAAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.18
22 13 0.59
23 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATATTAATATTTATA
Found at i:72472 original size:21 final size:20
Alignment explanation
Indices: 72441--72483 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
72431 AATATTTATG
*
72441 TTATATTTATTTTTTTTTTA
1 TTATATTTATTTATTTTTTA
72461 TTATATTTTATTTATTTTTTA
1 TTATA-TTTATTTATTTTTTA
72482 TT
1 TT
72484 GTTATCTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (20 bp):
TTATATTTATTTATTTTTTA
Found at i:72481 original size:11 final size:11
Alignment explanation
Indices: 72446--72483 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
72436 TTATGTTATA
*
72446 TTTATTTTTTT
1 TTTATTTATTT
*
72457 TTTA-TTATAT
1 TTTATTTATTT
72467 TTTATTTATTT
1 TTTATTTATTT
72478 TTTATT
1 TTTATT
72484 GTTATCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:73668 original size:2 final size:2
Alignment explanation
Indices: 73661--73737 Score: 111
Period size: 2 Copynumber: 38.5 Consensus size: 2
73651 GGATTGGAGG
*
73661 AT AT AT AT A- AGT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
73703 AT AT AT AT AT AT GT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
73738 GATTGAGTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
1 1 0.01
2 66 0.99
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (2 bp):
AT
Found at i:73794 original size:2 final size:2
Alignment explanation
Indices: 73787--73813 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
73777 TTGTTGAGTC
73787 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
73814 CACGATAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74075 original size:15 final size:14
Alignment explanation
Indices: 74051--74084 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
74041 ATTAACTATT
74051 AAAA-TTTTTTAAA
1 AAAATTTTTTTAAA
74064 AATAATTTTTTTAAA
1 AA-AATTTTTTTAAA
74079 AAAATT
1 AAAATT
74085 AAAAATAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 6 0.32
15 11 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAAATTTTTTTAAA
Found at i:75889 original size:39 final size:41
Alignment explanation
Indices: 75824--75904 Score: 96
Period size: 39 Copynumber: 2.0 Consensus size: 41
75814 AATTTGACAA
* *
75824 TAATTTAAATAACGATTACATCATGATATTAT-ATT-TTTT
1 TAATTTAAATAACAATCACATCATGATATTATAATTATTTT
* *
75863 TAATTTAAATAGCAATCACAAT-ATGATGTTATAATTATTTT
1 TAATTTAAATAACAATCAC-ATCATGATATTATAATTATTTT
75904 T
1 T
75905 TTCGAGTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
39 25 0.71
40 5 0.14
41 5 0.14
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (41 bp):
TAATTTAAATAACAATCACATCATGATATTATAATTATTTT
Found at i:76274 original size:16 final size:16
Alignment explanation
Indices: 76223--76279 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
76213 ATTAAGATTC
*
76223 AAATCATTTCAAGTTT
1 AAATCATTTTAAGTTT
* * ** *
76239 AAGTAATTTTAAACTC
1 AAATCATTTTAAGTTT
76255 AAATCATTTTAAGTTT
1 AAATCATTTTAAGTTT
76271 AAATCATTT
1 AAATCATTT
76280 CAGATTCTAT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (16 bp):
AAATCATTTTAAGTTT
Found at i:76463 original size:17 final size:16
Alignment explanation
Indices: 76440--76513 Score: 94
Period size: 16 Copynumber: 4.6 Consensus size: 16
76430 ATTATATAAA
* *
76440 ATTTAAAATTCGAATC
1 ATTTTAAATTCAAATC
*
76456 ATTTTAAATTCAAATT
1 ATTTTAAATTCAAATC
76472 ATTTTAAATTCAAATC
1 ATTTTAAATTCAAATC
* *
76488 GTTTTAAATTAAAATC
1 ATTTTAAATTCAAATC
*
76504 ATTTCAAATT
1 ATTTTAAATT
76514 TGAATTTTCT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTTAAATTCAAATC
Found at i:82407 original size:10 final size:10
Alignment explanation
Indices: 82380--82408 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
82370 CTTTTAATTA
82380 AAATTTTT-T
1 AAATTTTTAT
82389 AAATTTTTAT
1 AAATTTTTAT
82399 AAATTTTTAT
1 AAATTTTTAT
82409 CATATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
AAATTTTTAT
Found at i:83276 original size:340 final size:340
Alignment explanation
Indices: 82125--83492 Score: 1631
Period size: 340 Copynumber: 3.9 Consensus size: 340
82115 TTAATTTATT
* *
82125 TAAATTATGTAATTTTTGTTTTACA-TTTTTTT-ATTTTAAATTACATATTATTCTTACCATATG
1 TAAATT-TATAATTTTT-TTTTACATTTTTTTTCATTTTAAATTACATATTATTCTTATCATATG
* * * * * *
82188 TATGGTCGGCAAAATAACCCAAACTTATTGCATTTCGAGTTGAGAGATTTTTATTGAAAATTGGA
64 TAAGGTTGGCAAAATAACCCAAACTCATTACATTTCAAGTTGAGAAATTTTTATTGAAAATTGGA
* * ** * * *
82253 TTTGAAAGTTGATTGGATCAATTTTTTATTAAAAATTTTTAAATTTTTTGGATAAAATTTTAACT
129 TTCGAAAGTTGATTAGATC----GGTT-TT----AGTTTTAAATCTTTTAGATAAAATTTTAACT
** * * *
82318 CAAAATATTTATTAAAATATATATTTTTTAATTTTA-AAATTATTTTTTATATCTTTTAATTAAA
185 TGAAATATTTACT-AAA-ATA-CTTTTTTAATTTTATAAA-T-TTTTTTATAT-ATTTAATT---
* * * *
82382 ATTTTTTAAATTTTTATAAATTTTTATCATATATATTTGATTTTATCTTATAAAAATTAATATAA
241 A------AGATTCTTATAAATTTTTATCACATATATTTGATTTTATCTTGTAAAAATTAATATAA
* * ** * *
82447 TATAAAGTA-CTAAGGAAAATTTTAACATGAAGTTAGATAGG
300 TATAAAGAATC-AAGAAAAATTTTAACATGGGGCTAGATGGG
* *
82488 TAAATTTTGTAA--TTTTTTTACATTTTTTTTCATTTTAAATTATATATTATT-TTATCATATGT
1 TAAA-TTTATAATTTTTTTTTACATTTTTTTTCATTTTAAATTACATATTATTCTTATCATATGT
82550 AAGGTTGGCAAAATAACCCAAACTCATTACATTTCAAGTTCGAGAAATTTTTATTGAAAATTGGA
65 AAGGTTGGCAAAATAACCCAAACTCATTACATTTCAAGTT-GAGAAATTTTTATTGAAAATTGGA
** * *
82615 TTCGAAAGTTGA-TAGATAAGTTTTCGTTTTGAAATCTTATAGATAAAATTTTAACTTGAAATAT
129 TTCGAAAGTTGATTAGATCGGTTTTAGTTTT-AAATCTTTTAGATAAAATTTTAACTTGAAATAT
* * * * *
82679 TTACTAAAATACTTTTTTAATTTTATATATTTTAATTA-AGAATCT--TTAA-ATTTTTATAAAT
193 TTACTAAAATACTTTTTTAATTTTATAAATTTT-TTTATA-TATTTAATTAAGATTCTTATAAAT
* * * * * *
82740 TTTTACCATATGTATTTGATTTTATCTTGTAAAAATTAATATAATATAAAGTACCGAGAAAAATT
256 TTTTATCACATATATTTGATTTTATCTTGTAAAAATTAATATAATATAAAGAATCAAGAAAAATT
*
82805 TTAACATGAGGGCTAGACGGG
321 TTAACATG-GGGCTAGATGGG
*
82826 CAAATTATATAATTTTTTTTTACATTTTTTTTTTCATTTTAAATTACATATTATTCTTATCATAT
1 TAAATT-TATAATTTTTTTTTACA--TTTTTTTTCATTTTAAATTACATATTATTCTTATCATAT
* *
82891 GTAAGGTTGGCAAAATAACCCGAACTCATTACATTTCAAGTTGAGAATTTTTTATTGAAAATTGG
63 GTAAGGTTGGCAAAATAACCCAAACTCATTACATTTCAAGTTGAGAAATTTTTATTGAAAATTGG
82956 ATTCGAAAGTTGATTAGATCGGTTTTAGTTTTAAGATCTTTTAGATAAAATTTTAACTTGAAATA
128 ATTCGAAAGTTGATTAGATCGGTTTTAGTTTTAA-ATCTTTTAGATAAAATTTTAACTTGAAATA
* *
83021 TTTACTAAAATATTTTTTTTAATTTTATAAATGTTTTTATATATTTAATTAAGATTCTT-TAAAT
192 TTTACTAAAATA-CTTTTTTAATTTTATAAATTTTTTTATATATTTAATTAAGATTCTTATAAAT
*
83085 TTTTATCACATGTATTTGATTTTATCTTGTAAAAATTAATATAATATAAAGAATCAAGAAAAATT
256 TTTTATCACATATATTTGATTTTATCTTGTAAAAATTAATATAATATAAAGAATCAAGAAAAATT
83150 TTAACATAGGGGCTAGATGGG
321 TTAACAT-GGGGCTAGATGGG
*
83171 TAAA-TTATAATTTTTTTTTACA-TTTTTTTCATTTTAAATTACATATTATTCTTTTCATATGTA
1 TAAATTTATAATTTTTTTTTACATTTTTTTTCATTTTAAATTACATATTATTCTTATCATATGTA
* * *
83234 AGGTTGGCAAAATAACCCGAACTCATTACATTTCAAGTTGAGAAATTTTTACTGAAAATTAGATT
66 AGGTTGGCAAAATAACCCAAACTCATTACATTTCAAGTTGAGAAATTTTTATTGAAAATTGGATT
* * * *
83299 C-AGAAGTTGATTAAATCGATTTTCGTTTTGAGATCTTTTAGATAAAATTTTAACTTGAAATATT
131 CGA-AAGTTGATTAGATCGGTTTTAGTTTT-AAATCTTTTAGATAAAATTTTAACTTGAAATATT
83363 TACTAAAATACTTTTTTAATTTTAT-AATTTTTTTATACATATTTTAATTAAGATTCTT-TAAAT
194 TACTAAAATACTTTTTTAATTTTATAAATTTTTTTAT--ATA-TTTAATTAAGATTCTTATAAAT
*
83426 TCTTATCACATATATTTGATTTTATCTTGTAAAAATTAATATAATATAAA-ATATCAAGAAAAAT
256 TTTTATCACATATATTTGATTTTATCTTGTAAAAATTAATATAATATAAAGA-ATCAAGAAAAAT
83490 TTT
320 TTT
83493 GACAAATGAG
Statistics
Matches: 903, Mismatches: 72, Indels: 82
0.85 0.07 0.08
Matches are distributed among these distances:
337 80 0.09
338 26 0.03
339 15 0.02
340 182 0.20
341 85 0.09
342 65 0.07
343 129 0.14
344 22 0.02
345 90 0.10
346 6 0.01
347 2 0.00
349 6 0.01
350 17 0.02
351 5 0.01
352 7 0.01
353 32 0.04
356 2 0.00
357 2 0.00
360 7 0.01
361 59 0.07
362 53 0.06
363 9 0.01
364 2 0.00
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.46
Consensus pattern (340 bp):
TAAATTTATAATTTTTTTTTACATTTTTTTTCATTTTAAATTACATATTATTCTTATCATATGTA
AGGTTGGCAAAATAACCCAAACTCATTACATTTCAAGTTGAGAAATTTTTATTGAAAATTGGATT
CGAAAGTTGATTAGATCGGTTTTAGTTTTAAATCTTTTAGATAAAATTTTAACTTGAAATATTTA
CTAAAATACTTTTTTAATTTTATAAATTTTTTTATATATTTAATTAAGATTCTTATAAATTTTTA
TCACATATATTTGATTTTATCTTGTAAAAATTAATATAATATAAAGAATCAAGAAAAATTTTAAC
ATGGGGCTAGATGGG
Found at i:88498 original size:16 final size:17
Alignment explanation
Indices: 88477--88512 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
88467 TTAATTTTGG
88477 TTTAAAAT-TTGATCAA
1 TTTAAAATATTGATCAA
88493 TTTAAAATATTGATCAA
1 TTTAAAATATTGATCAA
88510 TTT
1 TTT
88513 GTTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTAAAATATTGATCAA
Found at i:88612 original size:20 final size:20
Alignment explanation
Indices: 88575--88615 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
88565 TTAATATTTA
* *
88575 AAATATATTTCATAAAATAT
1 AAATATATTTAACAAAATAT
*
88595 AAATATATTTAACGAAATAT
1 AAATATATTTAACAAAATAT
88615 A
1 A
88616 TTTAAAATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (20 bp):
AAATATATTTAACAAAATAT
Found at i:90138 original size:3 final size:3
Alignment explanation
Indices: 90123--90160 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
90113 TAAAAAATTG
*
90123 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
90161 TTTTGCTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:91130 original size:2 final size:2
Alignment explanation
Indices: 91123--91180 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
91113 CATAACACAA
* *
91123 AT AT AT AT AT AT AT AT AT AT AC AT AC 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
91165 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
91181 CTATGTGTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:91659 original size:14 final size:14
Alignment explanation
Indices: 91637--91666 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
91627 TATCTGGTAT
*
91637 TAAATTTATTTAAA
1 TAAACTTATTTAAA
91651 TAAACTTATTTAAA
1 TAAACTTATTTAAA
91665 TA
1 TA
91667 GTGAAACTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAACTTATTTAAA
Found at i:92227 original size:3 final size:3
Alignment explanation
Indices: 92221--92253 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
92211 AAAAATCATC
92221 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
92254 GCAGCTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:93150 original size:2 final size:2
Alignment explanation
Indices: 93143--93191 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
93133 ATAAGAGAAC
* * *
93143 AT AT AT AT AT AT GT AT AT AT AT AT AT AT GT GT 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
93185 AT AT AT A
1 AT AT AT A
93192 AGTTGGAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:93268 original size:2 final size:2
Alignment explanation
Indices: 93261--93289 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93251 ATAATACAAG
93261 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93290 GTTTATGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:99574 original size:3 final size:3
Alignment explanation
Indices: 99566--99596 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
99556 ACTAGTGTAG
99566 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
99597 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:99601 original size:4 final size:4
Alignment explanation
Indices: 99592--99619 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
99582 TAATAATAAT
99592 AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA
99620 GAAACTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:100055 original size:21 final size:22
Alignment explanation
Indices: 100030--100079 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
100020 AGATGAAATG
*
100030 ATGTAATGATTGGAT-AAAAAA
1 ATGTAATGATTAGATGAAAAAA
* **
100051 ATGTATTTTTTAGATGAAAAAA
1 ATGTAATGATTAGATGAAAAAA
100073 ATGTAAT
1 ATGTAAT
100080 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (22 bp):
ATGTAATGATTAGATGAAAAAA
Found at i:100094 original size:23 final size:22
Alignment explanation
Indices: 100045--100088 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
100035 ATGATTGGAT
* *
100045 AAAAAAATGTATTTTTTAGATG
1 AAAAAAATGTAATTTTTAGATA
100067 AAAAAAATGTAATTTTTA-ATA
1 AAAAAAATGTAATTTTTAGATA
100088 A
1 A
100089 TCAAAAGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (22 bp):
AAAAAAATGTAATTTTTAGATA
Found at i:101235 original size:19 final size:18
Alignment explanation
Indices: 101194--101246 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
101184 ATACGTGTAT
101194 TATATTTATAAATTT-TAA
1 TATATTTAT-AATTTATAA
*
101212 CATATTTAATAATTTATAA
1 TATATTT-ATAATTTATAA
101231 TATATTTAT-ATTTATA
1 TATATTTATAATTTATA
101247 TTATTAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 7 0.23
18 13 0.42
19 11 0.35
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATTTATAATTTATAA
Found at i:102436 original size:20 final size:21
Alignment explanation
Indices: 102411--102457 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
102401 TTTATTATAT
*
102411 TATTAAAATAT-TATTTTTTA
1 TATTAAAATATATATTTTGTA
*
102431 TATTAATATATATATTTTGTA
1 TATTAAAATATATATTTTGTA
102452 -ATTAAA
1 TATTAAA
102458 TTTAAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TATTAAAATATATATTTTGTA
Found at i:103784 original size:39 final size:39
Alignment explanation
Indices: 103730--103808 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
103720 AGGAGACGAA
*
103730 GAGTCGACATACCAGAGGGTCCTTTAGCCGAACTAGGCC
1 GAGTCGACATACCAGAGGATCCTTTAGCCGAACTAGGCC
103769 GAGTCGACATACCAGAGGATCCTTTAGCCGAACTAGGCC
1 GAGTCGACATACCAGAGGATCCTTTAGCCGAACTAGGCC
103808 G
1 G
103809 GAAGCTAGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.18
Consensus pattern (39 bp):
GAGTCGACATACCAGAGGATCCTTTAGCCGAACTAGGCC
Found at i:105876 original size:3 final size:3
Alignment explanation
Indices: 105870--105920 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
105860 AGTGTATATG
105870 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
105917 ATA A
1 ATA A
105921 ACTTAAAATC
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:106562 original size:30 final size:26
Alignment explanation
Indices: 106504--106570 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 26
106494 CAAATCACTA
* *
106504 TTAATTTAATAAATAATAATTTTTAT
1 TTAATTTAATAAATAATAATATTAAT
* *
106530 TTAATTTAATTAAT-AT-ATATAAAT
1 TTAATTTAATAAATAATAATATTAAT
106554 ATTAATTTAA-AAATAAT
1 -TTAATTTAATAAATAAT
106571 TTTTAATAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
24 8 0.24
25 13 0.38
26 13 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TTAATTTAATAAATAATAATATTAAT
Found at i:107934 original size:17 final size:19
Alignment explanation
Indices: 107880--107940 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 19
107870 TTTAAATATG
107880 TATATTATATCTATAA-AATT
1 TATATTATAT-T-TAATAATT
107900 TA-A-TATATTTAATAATT
1 TATATTATATTTAATAATT
107917 TATATTATATTT-AT-ATT
1 TATATTATATTTAATAATT
107934 TATATTA
1 TATATTA
107941 CTACGTCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.08
17 17 0.45
18 8 0.21
19 8 0.21
20 2 0.05
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTTAATAATT
Found at i:108547 original size:11 final size:12
Alignment explanation
Indices: 108521--108553 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
108511 AATTAAATCT
108521 AAATTTAAATAA
1 AAATTTAAATAA
*
108533 AAATTTTAA-AA
1 AAATTTAAATAA
108544 AAATTTAAAT
1 AAATTTAAAT
108554 CTAATCTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAATTTAAATAA
Found at i:108955 original size:24 final size:23
Alignment explanation
Indices: 108928--108973 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
108918 TATATAAAAA
*
108928 ATTAAAAGAATTATTACAATTATG
1 ATTAAAAGAATTA-TAAAATTATG
*
108952 ATTAAAAGTATTATAAAATTAT
1 ATTAAAAGAATTATAAAATTAT
108974 ATCAATGACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (23 bp):
ATTAAAAGAATTATAAAATTATG
Found at i:109007 original size:18 final size:20
Alignment explanation
Indices: 108965--109009 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
108955 AAAAGTATTA
108965 TAAAATTATATCAATGACTAT
1 TAAAATTATATCAATGAC-AT
108986 TAAAATTATATCAAT-A-AT
1 TAAAATTATATCAATGACAT
109004 TAAAAT
1 TAAAAT
109010 ATGACAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.33
20 1 0.04
21 15 0.62
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAATTATATCAATGACAT
Found at i:109092 original size:17 final size:16
Alignment explanation
Indices: 109064--109117 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
109054 AAACGAGTCA
109064 AAAT-TTATATAATAT
1 AAATATTATATAATAT
109079 AAATATTAATATAATA-
1 AAATATT-ATATAATAT
109095 AAAT-TTATATAAATAT
1 AAATATTATAT-AATAT
109111 ATAATAT
1 A-AATAT
109118 CTTAAATATG
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.12
15 10 0.30
16 7 0.21
17 11 0.33
18 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATATTATATAATAT
Found at i:109106 original size:14 final size:14
Alignment explanation
Indices: 109063--109106 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 14
109053 TAAACGAGTC
109063 AAAATTTATATAAT
1 AAAATTTATATAAT
109077 ATAAATATTAATATAAT
1 A-AAAT-TT-ATATAAT
109094 AAAATTTATATAA
1 AAAATTTATATAA
109107 ATATATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 6 0.22
17 8 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATTTATATAAT
Found at i:110449 original size:23 final size:22
Alignment explanation
Indices: 110402--110449 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 22
110392 ATATGATGAC
*
110402 AAATTTGATAATAAAATAAAAT
1 AAATTTGAGAATAAAATAAAAT
110424 AAATTTG-GAATAAAATGAAAAAT
1 AAATTTGAGAATAAAAT--AAAAT
110447 AAA
1 AAA
110450 AATAAATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 7 0.30
23 8 0.35
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (22 bp):
AAATTTGAGAATAAAATAAAAT
Found at i:116782 original size:3 final size:3
Alignment explanation
Indices: 116774--116811 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
116764 GATTCTCCTT
116774 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
116812 TATTTTTTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:117184 original size:2 final size:2
Alignment explanation
Indices: 117177--117204 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
117167 TGCATATTAG
117177 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
117205 TTTCTGACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117583 original size:22 final size:22
Alignment explanation
Indices: 117557--117601 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
117547 AAAATATTTT
*
117557 TATTTAAAT-TTAATTATAAAAA
1 TATTTAAATAATAA-TATAAAAA
117579 TATTTAAATAATAATATAAAAA
1 TATTTAAATAATAATATAAAAA
117601 T
1 T
117602 TAATTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TATTTAAATAATAATATAAAAA
Found at i:119238 original size:24 final size:24
Alignment explanation
Indices: 119192--119239 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
119182 TTAAAAGAAT
**
119192 TTTTTATATTAATATTTGTATATA
1 TTTTTATATTAATATTTAAATATA
119216 TTTTTATAATT-ATATTTAAATATA
1 TTTTTAT-ATTAATATTTAAATATA
119240 AAATATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTTTATATTAATATTTAAATATA
Found at i:121550 original size:25 final size:25
Alignment explanation
Indices: 121508--121555 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
121498 TGGTAGGTGC
* * *
121508 GTTAGGTAGGCTTGTTCATAGATGT
1 GTTAGGTAGACTTATTCACAGATGT
121533 GTTAGGTAGACTTATTCACAGAT
1 GTTAGGTAGACTTATTCACAGAT
121556 ATGGTTAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.38
Consensus pattern (25 bp):
GTTAGGTAGACTTATTCACAGATGT
Found at i:122834 original size:16 final size:16
Alignment explanation
Indices: 122815--122847 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
122805 ATATTTAAAT
*
122815 TTAATAATAAAATATA
1 TTAATAAAAAAATATA
122831 TTAATAAAAAAATATA
1 TTAATAAAAAAATATA
122847 T
1 T
122848 ATTTTAAATT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAATAAAAAAATATA
Found at i:122835 original size:39 final size:42
Alignment explanation
Indices: 122762--122858 Score: 105
Period size: 39 Copynumber: 2.4 Consensus size: 42
122752 TAAATTAAAT
* * * *
122762 ATATTTATTT-AATTTAATTTAAATTATTATTTAATAATAAA
1 ATATATATTTAAATTTAATATAAAATATTATTTAATAAAAAA
122803 A-A-ATATTTAAATTTAATAATAAAATA-TA-TTAATAAAAAA
1 ATATATATTTAAATTTAAT-ATAAAATATTATTTAATAAAAAA
122842 ATATATATTTTAAATTT
1 ATATATA-TTTAAATTT
122859 TTTTATTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
39 16 0.34
40 12 0.26
41 10 0.21
42 9 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (42 bp):
ATATATATTTAAATTTAATATAAAATATTATTTAATAAAAAA
Found at i:123465 original size:33 final size:34
Alignment explanation
Indices: 123386--123473 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 34
123376 ACATTTGTGT
*
123386 TTAAA-GTATTATATATCTATGTAAAATTTGACACG
1 TTAAATGTATT-TATAT-TATATAAAATTTGACACG
* *
123421 TTAAAT-AATTTATATTATATAAATTTTGACACG
1 TTAAATGTATTTATATTATATAAAATTTGACACG
* *
123454 TT-TATGTATTTATGTTATAT
1 TTAAATGTATTTATATTATAT
123474 TTTTCATATC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
32 2 0.04
33 30 0.67
34 5 0.11
35 8 0.18
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.48
Consensus pattern (34 bp):
TTAAATGTATTTATATTATATAAAATTTGACACG
Found at i:123892 original size:14 final size:14
Alignment explanation
Indices: 123875--123904 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
123865 ATTAAGAAGA
123875 ATTAAAAAAGATTG
1 ATTAAAAAAGATTG
*
123889 ATTAAAGAAGATTG
1 ATTAAAAAAGATTG
123903 AT
1 AT
123905 AATTACTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (14 bp):
ATTAAAAAAGATTG
Found at i:123917 original size:25 final size:25
Alignment explanation
Indices: 123889--123939 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
123879 AAAAAGATTG
*
123889 ATTAAAGAAGATTGATAATTACTTT
1 ATTAAAGAAGACTGATAATTACTTT
123914 ATTAAAGAAGACTGATAATTACTTT
1 ATTAAAGAAGACTGATAATTACTTT
123939 A
1 A
123940 AAAAGTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (25 bp):
ATTAAAGAAGACTGATAATTACTTT
Found at i:123992 original size:29 final size:31
Alignment explanation
Indices: 123936--123995 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
123926 TGATAATTAC
*
123936 TTTAAAAAGTAAAAAAATTATTTCTAAAAAT
1 TTTAAAAAGTAAAAAAATCATTTCTAAAAAT
123967 TTTAAAAA-T-AAAAAATCATTAT-TAAAAAT
1 TTTAAAAAGTAAAAAAATCATT-TCTAAAAAT
123996 CATTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 17 0.63
30 2 0.07
31 8 0.30
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (31 bp):
TTTAAAAAGTAAAAAAATCATTTCTAAAAAT
Found at i:124257 original size:37 final size:37
Alignment explanation
Indices: 124213--124287 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
124203 TTTTGCTAGA
*
124213 ATTGATAGGATGAGAGAATTAATTCTTAAATGAATTG
1 ATTGATAGGATGAGAGAATTAATTCTCAAATGAATTG
*
124250 ATTGATAGGATGAGAGAATTAATTCTCAAATTAATTG
1 ATTGATAGGATGAGAGAATTAATTCTCAAATGAATTG
124287 A
1 A
124288 CTAATAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (37 bp):
ATTGATAGGATGAGAGAATTAATTCTCAAATGAATTG
Found at i:124500 original size:22 final size:22
Alignment explanation
Indices: 124434--124494 Score: 113
Period size: 22 Copynumber: 2.8 Consensus size: 22
124424 ATTTTATATT
*
124434 TATTAATAATTTTTTTACCAAA
1 TATTAATAATTTCTTTACCAAA
124456 TATTAATAATTTCTTTACCAAA
1 TATTAATAATTTCTTTACCAAA
124478 TATTAATAATTTCTTTA
1 TATTAATAATTTCTTTA
124495 ATAAATGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTAATAATTTCTTTACCAAA
Found at i:124872 original size:3 final size:3
Alignment explanation
Indices: 124864--124917 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
124854 CTAGGCATCG
124864 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
124912 AAT AAT
1 AAT AAT
124918 TTTTATGTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:124983 original size:26 final size:25
Alignment explanation
Indices: 124933--124985 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
124923 TGTAATTTTT
**
124933 ATAAATTTTAATATTTTAATATAAA
1 ATAAATTTTAATATTAAAATATAAA
*
124958 ATAAATTATTAATATTAAAATTTAAA
1 ATAAATT-TTAATATTAAAATATAAA
124984 AT
1 AT
124986 TTAAATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
ATAAATTTTAATATTAAAATATAAA
Found at i:125124 original size:3 final size:3
Alignment explanation
Indices: 125118--125183 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
125108 CTACTACTAC
125118 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
125166 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
125184 ATCCAATATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:127086 original size:2 final size:2
Alignment explanation
Indices: 127079--127104 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
127069 TGCAAGGTAT
127079 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
127105 CAAATTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:128586 original size:127 final size:129
Alignment explanation
Indices: 128399--128629 Score: 315
Period size: 127 Copynumber: 1.8 Consensus size: 129
128389 TAGACGTATC
*
128399 AAAAATATTTAATCATAAAATAAAATTAAAAAAATTCAAGAAGATTCAATATTAACATGAAATCA
1 AAAAATATTTAATCATAAAATAAAATTAAAAAAATTCAAGAAGACTCAATATTAACATGAAATCA
* *
128464 ATGGATTTTTATGCCACAAAATGTTAAAATTGAATTATATATATAACGTTTATTGAGACAAATA
66 ATGAATTTTTATGCCACAAAATGTTAAAATTAAATTATATATATAACGTTTATTGAGACAAATA
** * * ** *
128528 AAAAATATTTAATCATAAAA-AATTTTAAAAAAA-TCAATATA-ACTCAATGTTAGTATGAAGTC
1 AAAAATATTTAATCATAAAATAAAATTAAAAAAATTCAAGA-AGACTCAATATTAACATGAAATC
* * *
128590 AATGAATTTTTGTGTCATAAAATGTTAAAATTAAATTATA
65 AATGAATTTTTATGCCACAAAATGTTAAAATTAAATTATA
128630 CAATGTTTAG
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
127 56 0.64
128 12 0.14
129 20 0.23
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (129 bp):
AAAAATATTTAATCATAAAATAAAATTAAAAAAATTCAAGAAGACTCAATATTAACATGAAATCA
ATGAATTTTTATGCCACAAAATGTTAAAATTAAATTATATATATAACGTTTATTGAGACAAATA
Found at i:128845 original size:6 final size:6
Alignment explanation
Indices: 128808--128864 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
128798 TAAATTTTTT
*
128808 TAAATA AAAATA TAATATGA TAAA-A T--ATA TAAATA T-AATA TAAATA
1 TAAATA TAAATA TAA-AT-A TAAATA TAAATA TAAATA TAAATA TAAATA
*
128854 TACATA TAAAT
1 TAAATA TAAAT
128865 TATTAAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
3 1 0.02
4 2 0.05
5 7 0.17
6 24 0.59
7 3 0.07
8 4 0.10
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (6 bp):
TAAATA
Found at i:128860 original size:17 final size:16
Alignment explanation
Indices: 128810--128862 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
128800 AATTTTTTTA
128810 AATAAAAATATAATAT
1 AATAAAAATATAATAT
*
128826 GATAAAATATATAAATAT
1 AATAAAA-ATAT-AATAT
*
128844 AATATAAATATACATAT
1 AATAAAAATATA-ATAT
128861 AA
1 AA
128863 ATTATTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 7 0.23
17 14 0.45
18 10 0.32
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (16 bp):
AATAAAAATATAATAT
Found at i:129949 original size:119 final size:119
Alignment explanation
Indices: 129749--129963 Score: 306
Period size: 119 Copynumber: 1.8 Consensus size: 119
129739 AATTCACTAG
* * * *
129749 AGAGATTATATCTTAACTTTAAATGAAGTAAATTATTTAATTTTTTTTGAATAAATAACTTAAGT
1 AGAGATTATATCTTAACTTTAAATAAAGCAAATTATTCAATTTTTTTTGAATAAATAACTTAAGC
* *
129814 TAAAATATGAGAGATTATAATTACGGTTAAAGGTAAAACTATTTTTTTCGTTGA
66 TAAAATATGAAAGATTATAATTACGGCTAAAGGTAAAACTATTTTTTTCGTTGA
* * * *
129868 AGAGATTATATCTTAACTTTAAATAAAGCAAATTATTCAATTTTTTTTGAATAAGTGATTTAGGC
1 AGAGATTATATCTTAACTTTAAATAAAGCAAATTATTCAATTTTTTTTGAATAAATAACTTAAGC
* *
129933 TAATATAT-AAATGATTATAATTGCGGCTAAA
66 TAAAATATGAAA-GATTATAATTACGGCTAAA
129964 AAAAATTATT
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
118 2 0.02
119 81 0.98
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (119 bp):
AGAGATTATATCTTAACTTTAAATAAAGCAAATTATTCAATTTTTTTTGAATAAATAACTTAAGC
TAAAATATGAAAGATTATAATTACGGCTAAAGGTAAAACTATTTTTTTCGTTGA
Found at i:130201 original size:22 final size:21
Alignment explanation
Indices: 130173--130232 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 21
130163 ATAAAAAATA
*
130173 TTTATTTTAATAGTTTTTTTAT
1 TTTATTTTAA-AATTTTTTTAT
130195 TTTATTTTTAAAATTTTTTTAT
1 TTTA-TTTTAAAATTTTTTTAT
*
130217 TTTATTGATAAAATTT
1 TTTATT-TTAAAATTT
130233 ATTGTTGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 2 0.06
22 26 0.76
23 6 0.18
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTATTTTAAAATTTTTTTAT
Found at i:130331 original size:3 final size:3
Alignment explanation
Indices: 130323--130377 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
130313 GACTAATAAA
130323 ATT ATT ATT ATT ATT ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
130370 AAT ATT AT
1 ATT ATT AT
130378 ATCCAAAGTA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:132140 original size:1 final size:1
Alignment explanation
Indices: 132136--132257 Score: 208
Period size: 1 Copynumber: 122.0 Consensus size: 1
132126 TAGGGGGGTT
132136 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
* ** *
132201 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGAGGGGGGAAGGGGGGTGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
132258 AACAAGCAAT
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 115 1.00
ACGTcount: A:0.02, C:0.00, G:0.97, T:0.01
Consensus pattern (1 bp):
G
Found at i:134265 original size:5 final size:5
Alignment explanation
Indices: 134255--134301 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
134245 TCCAGCTATC
* * *
134255 AATTT AATTT AATTT AAATTA AATAT AA-TT ATTTT AATTT AATTT AA
1 AATTT AATTT AATTT -AATTT AATTT AATTT AATTT AATTT AATTT AA
134302 ATTATTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
4 2 0.06
5 28 0.82
6 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (5 bp):
AATTT
Found at i:134317 original size:25 final size:25
Alignment explanation
Indices: 134262--134311 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
134252 ATCAATTTAA
134262 TTTAATTTAAATTAAATATAATTAT
1 TTTAATTTAAATTAAATATAATTAT
*
134287 TTTAATTTAATTTAAAT-T-ATTAT
1 TTTAATTTAAATTAAATATAATTAT
134310 TT
1 TT
134312 AATAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 7 0.29
24 1 0.04
25 16 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTAATTTAAATTAAATATAATTAT
Found at i:134323 original size:20 final size:21
Alignment explanation
Indices: 134300--134360 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
134290 AATTTAATTT
134300 AAAT-TATTATTTAATAATAA
1 AAATATATTATTTAATAATAA
*
134320 AAATATATAAATATTAAT-ATAA
1 AAATATAT-TAT-TTAATAATAA
* *
134342 AAATATATTTTTTTATAAT
1 AAATATATTATTTAATAAT
134361 TTTTATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 8 0.24
21 6 0.18
22 14 0.42
23 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATATATTATTTAATAATAA
Found at i:135086 original size:3 final size:3
Alignment explanation
Indices: 135078--135120 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
135068 TACTTTATTT
135078 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
135121 ATTTAATTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:135990 original size:16 final size:15
Alignment explanation
Indices: 135966--136007 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
135956 TGTGATCTCG
135966 TAAATAAATATTTAATT
1 TAAA-AAATATTTAA-T
*
135983 TAAAAAATATATAAT
1 TAAAAAATATTTAAT
135998 T-AAAAATATT
1 TAAAAAATATT
136008 AATAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 8 0.35
15 2 0.09
16 9 0.39
17 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAAAATATTTAAT
Found at i:136255 original size:3 final size:3
Alignment explanation
Indices: 136247--136277 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
136237 GCGAATATAC
136247 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
136278 TTTTTATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:138212 original size:12 final size:12
Alignment explanation
Indices: 138195--138220 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
138185 TAGGTAGGTT
138195 GTGGGGGGTGGG
1 GTGGGGGGTGGG
138207 GTGGGGGGTGGG
1 GTGGGGGGTGGG
138219 GT
1 GT
138221 TAAGCAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.81, T:0.19
Consensus pattern (12 bp):
GTGGGGGGTGGG
Found at i:138853 original size:46 final size:46
Alignment explanation
Indices: 138765--138854 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
138755 TGTGAAAAGT
* * *
138765 TTATTTAGTCCAAAAAAATATATATTAAAAGACAAAATATAAAGAA
1 TTATTTAATCCAAAAAAATATATATTAAAAAACAAAAAATAAAGAA
*
138811 TTATTTAATCC-AAAAAATATATATTAAAAAAATAAAAAATAAAG
1 TTATTTAATCCAAAAAAATATATATT-AAAAAACAAAAAATAAAG
138855 GAAAAGAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 14 0.36
46 25 0.64
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (46 bp):
TTATTTAATCCAAAAAAATATATATTAAAAAACAAAAAATAAAGAA
Found at i:139016 original size:41 final size:41
Alignment explanation
Indices: 138963--139043 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
138953 ATTACAAAGA
* * *
138963 CCAAGACTATTCGATATATTGGTTATTTATTTATTGTAAAC
1 CCAAGACTATTCGATATACTGATCATTTATTTATTGTAAAC
139004 CCAAGA-TAATTCGATATACTGATCATTTATTTATTGTAAA
1 CCAAGACT-ATTCGATATACTGATCATTTATTTATTGTAAA
139044 GATGTGCAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 35 0.97
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (41 bp):
CCAAGACTATTCGATATACTGATCATTTATTTATTGTAAAC
Found at i:140312 original size:590 final size:590
Alignment explanation
Indices: 139660--140727 Score: 1305
Period size: 591 Copynumber: 1.8 Consensus size: 590
139650 AGTTACTCAA
* * * *
139660 TTATTTATTTATTTGCTGCCAATACCAAGACAATTCTATTTATTAGTGATTTATTTATTGTGAGG
1 TTATTTATTTACTTGCTGCCAAGACCAAGACAATTCTATTTATTAGTCATTTATTTATTGTGAAG
* * * *
139725 ATGTGAAA-ACCAAAATAATTCGATTTATTGGTCCTTTACTTATCGTGAAAACCATGACAAATAC
66 ATCTGAAAGACCAAAACAATTCAATTTATAGGTCCTTTACTTATCGTGAAAACCATGACAAATAC
* * * *
139789 CATAATGATTTGTTAATAATTT-TTTTTTCAAACAATTCCTTG-CA-GATCAAATTTAAATTTAA
131 CATAATGACTTGCTAATAATTTATTTTTT--AACAATGCCTCGCCAGGATCAAATTTAAATTTAA
*
139851 AATTTAATTTAATTAATTTATTTATTA-TATAAATCA-TAAATTACATTAATTATATGAGTTTA-
194 AATTTAATTTAATTAATTTATGTATTAGT-TAAA-CAGTAAATT--A-T-ATTATATGAG-TTAG
* *
139913 GTCGAGACATAATTTTTA-T-TTTGAGCCGACTTAATTCAACATAAATTACTAATAAAAAGTATA
252 GTCGAGACATAATTATTATTATTTGAACCGACTTAATTCAACATAAATTACTAAT-AAAAGTAT-
* * * * ** * *
139976 AAAATAA-TTTTTTATTTTTATCGATTTTTTAATAAATTTAATTTAGATTTAAATAAAAATTATA
315 AAAATAATTTTTTTATATTTATCAATATTTAAATAAACCTAATTCAGATTTAAATAAAAAATATA
** * * **
140040 AAAAGTTTATGCAAAAAATTATATTTTG-CATGGAATCAGGAAATTACTAGGCAAGTTTAAAAAA
380 AAAAAATCATCCAAAAAATTATATTTTGACATGGAATCAGGAAATTACTAGGCAAACTTAAAAAA
*
140104 GTTTATTTACTCCAAATATATATATATATTAAAGGACAAAATAGAGAAAAGTTTACATACTCTAA
445 GTTTATTTACTCAAAATATATATATATATTAAAGGACAAAATAGAGAAAAGTTTACATACTCTAA
140169 AGAATGCACATTAAAAAACAAAAAATAAAGTAAGAGAATGTGATGGGGTAAGTTCGGTGTACGTT
510 AGAATGCACATTAAAAAACAAAAAATAAAGTAAGAGAATGTGATGGGGTAAGTTCGGTGTACGTT
140234 GGAAAAAATGATTTAT
575 GGAAAAAATGATTTAT
* * * *
140250 TTATTTATTTACTTGCTGCGAAGACCAGGACAATT-TGATTTGTTGGTCATTTATTTATTGTGAA
1 TTATTTATTTACTTGCTGCCAAGACCAAGACAATTCT-ATTTATTAGTCATTTATTTATTGTGAA
* * * * * * * *
140314 GATCTTAAAGACCAAGACAATTCAATTTATAGGTCCTTTTCTTATTGTGAAGATCATGGCAACTA
65 GATCTGAAAGACCAAAACAATTCAATTTATAGGTCCTTTACTTATCGTGAAAACCATGACAAATA
* * * * *
140379 CCATGATGGCTTGCTAATCATTTATTTTTTATCAATGCCTCGCACCAGGATTAAATTTAAATTTA
130 CCATAATGACTTGCTAATAATTTATTTTTTAACAATGCCTCG--CCAGGATCAAATTTAAATTTA
* * **
140444 AAATTTAATTTAATTAGTTTATGTATTAGTTAAACAGTAAATTATATTGTATGAGTTAGGTTTAG
193 AAATTTAATTTAATTAATTTATGTATTAGTTAAACAGTAAATTATATTATATGAGTTAGGTCGAG
* ** * * * * *
140509 ATATAATTATTATTATTTGAATTGATTTAGTTCAACTTGAATTATTAATAAAAGTATAAAATAAT
258 ACATAATTATTATTATTTGAACCGACTTAATTCAACATAAATTACTAATAAAAGTATAAAATAAT
* *
140574 TTTTTTATATTTATTAATATTTAAATATACCTAATTCAGATTTAAATAAAAAATATAAAAAAATC
323 TTTTTTATATTTATCAATATTTAAATAAACCTAATTCAGATTTAAATAAAAAATATAAAAAAATC
* * * *
140639 ATCCAAAGAATTATATTTTGCAAACATGGAATTAGGAAATTACTGGGCAAACTTGAAAAAGTTTA
388 ATCCAAAAAATTATATTTTG---ACATGGAATCAGGAAATTACTAGGCAAACTTAAAAAAGTTTA
*
140704 TTTATTCAAAATATATATATATAT
450 TTTACTCAAAATATATATATATAT
140728 ATATATATAT
Statistics
Matches: 395, Mismatches: 66, Indels: 29
0.81 0.13 0.06
Matches are distributed among these distances:
589 4 0.01
590 100 0.25
591 143 0.36
592 33 0.08
593 4 0.01
594 52 0.13
595 59 0.15
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (590 bp):
TTATTTATTTACTTGCTGCCAAGACCAAGACAATTCTATTTATTAGTCATTTATTTATTGTGAAG
ATCTGAAAGACCAAAACAATTCAATTTATAGGTCCTTTACTTATCGTGAAAACCATGACAAATAC
CATAATGACTTGCTAATAATTTATTTTTTAACAATGCCTCGCCAGGATCAAATTTAAATTTAAAA
TTTAATTTAATTAATTTATGTATTAGTTAAACAGTAAATTATATTATATGAGTTAGGTCGAGACA
TAATTATTATTATTTGAACCGACTTAATTCAACATAAATTACTAATAAAAGTATAAAATAATTTT
TTTATATTTATCAATATTTAAATAAACCTAATTCAGATTTAAATAAAAAATATAAAAAAATCATC
CAAAAAATTATATTTTGACATGGAATCAGGAAATTACTAGGCAAACTTAAAAAAGTTTATTTACT
CAAAATATATATATATATTAAAGGACAAAATAGAGAAAAGTTTACATACTCTAAAGAATGCACAT
TAAAAAACAAAAAATAAAGTAAGAGAATGTGATGGGGTAAGTTCGGTGTACGTTGGAAAAAATGA
TTTAT
Found at i:140333 original size:51 final size:51
Alignment explanation
Indices: 140270--140368 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
140260 ACTTGCTGCG
* ** * *
140270 AAGACCAGGACAATTTGATTTGTTGGTCATTTAT-TTATTGTGAAGATCTTA
1 AAGACCAAGACAATTCAATTTATAGGTCATTT-TCTTATTGTGAAGATCTTA
*
140321 AAGACCAAGACAATTCAATTTATAGGTCCTTTTCTTATTGTGAAGATC
1 AAGACCAAGACAATTCAATTTATAGGTCATTTTCTTATTGTGAAGATC
140369 ATGGCAACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.02
51 40 0.98
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (51 bp):
AAGACCAAGACAATTCAATTTATAGGTCATTTTCTTATTGTGAAGATCTTA
Found at i:141134 original size:2 final size:2
Alignment explanation
Indices: 141127--141157 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
141117 TATTTTTATG
141127 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 A
141158 ACAAGTACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.