Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 165 of 356
Found at i:53560083 original size:9 final size:9
Alignment explanation
Indices: 53560066--53560120 Score: 56
Period size: 9 Copynumber: 5.7 Consensus size: 9
53560056 AATGTGTATG
*
53560066 TATTATATA
1 TATTTTATA
53560075 TATTTTATA
1 TATTTTATA
*
53560084 CATTTTATA
1 TATTTTATA
53560093 TATATTATATA
1 TAT-TT-TATA
53560104 TATATTTATTA
1 TAT-TTTA-TA
53560115 TATTTT
1 TATTTT
53560121 TATGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
9 18 0.45
10 7 0.17
11 15 0.38
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TATTTTATA
Found at i:53560094 original size:11 final size:11
Alignment explanation
Indices: 53560068--53560165 Score: 69
Period size: 11 Copynumber: 8.5 Consensus size: 11
53560058 TGTGTATGTA
53560068 TTATATATA-T
1 TTATATATATT
*
53560078 TT-TATACATT
1 TTATATATATT
53560088 TTATATATATT
1 TTATATATATT
*
53560099 ATATATATA-T
1 TTATATATATT
53560109 TTAT-TATATTT
1 TTATATATA-TT
53560120 TTATGTATATATTT
1 TTA--TATATA-TT
53560134 TTAATATCATATT
1 TT-ATAT-ATATT
*
53560147 ATTCATATATTTT
1 -TT-ATATATATT
53560160 TTATAT
1 TTATAT
53560166 TATGTAAATA
Statistics
Matches: 72, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
9 9 0.12
10 9 0.12
11 23 0.32
12 2 0.03
13 10 0.14
14 18 0.25
15 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (11 bp):
TTATATATATT
Found at i:53560145 original size:14 final size:14
Alignment explanation
Indices: 53560080--53560165 Score: 52
Period size: 14 Copynumber: 6.1 Consensus size: 14
53560070 ATATATATTT
*
53560080 TATACATTTTATATA
1 TATATATTTT-TATA
* * *
53560095 TATTATATATATATT
1 TA-TATATTTTTATA
*
53560110 TATTATATTTTTATG
1 TA-TATATTTTTATA
53560125 TATATATTTTTA-A
1 TATATATTTTTATA
* *
53560138 TATCATATTATT-CA
1 TAT-ATATTTTTATA
53560152 TATAT-TTTTTATA
1 TATATATTTTTATA
53560165 T
1 T
53560166 TATGTAAATA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
12 4 0.07
13 7 0.12
14 21 0.38
15 19 0.34
16 5 0.09
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (14 bp):
TATATATTTTTATA
Found at i:53560148 original size:25 final size:23
Alignment explanation
Indices: 53560068--53560214 Score: 112
Period size: 25 Copynumber: 6.5 Consensus size: 23
53560058 TGTGTATGTA
*
53560068 TTATATATATT-T-TATACA-TT
1 TTATATATATTATGTATATATTT
*
53560088 TTATATATATTATATATATATTT
1 TTATATATATTATGTATATATTT
*
53560111 ATTATAT-TTTTATGTATATATTT
1 -TTATATATATTATGTATATATTT
53560134 TTAATATCATATTAT-TCATATA-TT
1 TT-ATAT-ATATTATGT-ATATATTT
*
53560158 TT-T-TATATTATGTAAATATTT
1 TTATATATATTATGTATATATTT
* *
53560179 TCAATACTACATTATGTATATATTT
1 T-TATA-TATATTATGTATATATTT
* *
53560204 TTGTCTATATT
1 TTATATATATT
53560215 GTATACATAC
Statistics
Matches: 101, Mismatches: 12, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
20 22 0.22
21 6 0.06
22 8 0.08
23 26 0.26
24 12 0.12
25 27 0.27
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.59
Consensus pattern (23 bp):
TTATATATATTATGTATATATTT
Found at i:53560171 original size:45 final size:47
Alignment explanation
Indices: 53560086--53560205 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 47
53560076 ATTTTATACA
* *
53560086 TTTT-ATAT-ATATTATATATATATTTATTATATTTTTATGTATATAT
1 TTTTAATATCATATTATATATATATTT-TTATATTATTATGTAAATAT
53560132 TTTTAATATCATATTAT-TCATATATTTTT-TA-TATTATGTAAATAT
1 TTTTAATATCATATTATAT-ATATATTTTTATATTATTATGTAAATAT
* * *
53560177 TTTCAATA-CTACATTATGTATATATTTTT
1 TTTTAATATC-ATATTATATATATATTTTT
53560206 GTCTATATTG
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
44 1 0.02
45 35 0.54
46 7 0.11
47 7 0.11
48 15 0.23
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (47 bp):
TTTTAATATCATATTATATATATATTTTTATATTATTATGTAAATAT
Found at i:53563157 original size:23 final size:23
Alignment explanation
Indices: 53563131--53563183 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
53563121 CCTTTTTCGT
53563131 TTTATTTATTTTA-TTTTTCT-TTA
1 TTTATTTA-TTTACTTTTT-TATTA
*
53563154 TTTACTTATTTACTTTTTTATTA
1 TTTATTTATTTACTTTTTTATTA
53563177 TTTATTT
1 TTTATTT
53563184 GTCCTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTATTTATTTACTTTTTTATTA
Found at i:53563162 original size:27 final size:27
Alignment explanation
Indices: 53563132--53563183 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
53563122 CTTTTTCGTT
* *
53563132 TTATTTA-TTTTATTTTTCTTTATTTAC
1 TTATTTACTTTT-TTATTATTTATTTAC
53563159 TTATTTACTTTTTTATTATTTATTT
1 TTATTTACTTTTTTATTATTTATTT
53563184 GTCCTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (27 bp):
TTATTTACTTTTTTATTATTTATTTAC
Found at i:53563206 original size:15 final size:15
Alignment explanation
Indices: 53563130--53563224 Score: 59
Period size: 15 Copynumber: 5.9 Consensus size: 15
53563120 TCCTTTTTCG
*
53563130 TTTTATTTATTT-TAT
1 TTTTATTTGTTTAT-T
* *
53563145 TTTTCTTTATTTACTT
1 TTTTATTTGTTTA-TT
*
53563161 ATTTACTTT-TTTATT
1 TTTTA-TTTGTTTATT
*
53563176 ATTTATTTGTCCTTTATT
1 TTTTATTTG---TTTATT
53563194 TTTTATTTGTTTATT
1 TTTTATTTGTTTATT
53563209 TTTTAATTTGTATTAT
1 TTTT-ATTTGT-TTAT
53563225 GTAAAATTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
14 3 0.04
15 28 0.42
16 14 0.21
17 8 0.12
18 14 0.21
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTATTTGTTTATT
Found at i:53564188 original size:25 final size:25
Alignment explanation
Indices: 53564160--53564211 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
53564150 AAGTTCTTGT
53564160 ATGTAAGAT-AAATTTTCGAGTTTGA
1 ATGTAAGATAAAATTTT-GAGTTTGA
53564185 ATGTAAGATAAAATTTTGAGTTTGA
1 ATGTAAGATAAAATTTTGAGTTTGA
53564210 AT
1 AT
53564212 ATGCCTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (25 bp):
ATGTAAGATAAAATTTTGAGTTTGA
Found at i:53567577 original size:20 final size:20
Alignment explanation
Indices: 53567549--53567592 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
53567539 TACCAACTTG
*
53567549 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
*
53567569 CAACATACCATAGTCTTTCA
1 CAACATACCATAATCTTTCA
53567589 CAAC
1 CAAC
53567593 TTAAGCATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:53567797 original size:42 final size:43
Alignment explanation
Indices: 53567683--53567797 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
53567673 TACTAATGTG
* * ** *
53567683 ATATCTCAGATATGGTCTTACATGGGATCTCATATCGATGCCA
1 ATATCCCAGATATGGTCTTACACGAAATCTCATATCAATGCCA
* * *
53567726 ATAGT-CCAGCTATGGTCTTGCACGAAATCTCATATCAATTCC-
1 ATA-TCCCAGATATGGTCTTACACGAAATCTCATATCAATGCCA
*
53567768 ATATCCCAGATATGGTCTTACACGTAATCT
1 ATATCCCAGATATGGTCTTACACGAAATCT
53567798 TAACTAACCC
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 25 0.42
43 32 0.54
44 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACACGAAATCTCATATCAATGCCA
Found at i:53572403 original size:42 final size:43
Alignment explanation
Indices: 53572286--53572428 Score: 146
Period size: 43 Copynumber: 3.4 Consensus size: 43
53572276 GCGATATCCC
* * * * *
53572286 AGATATGGTCTTACATAAGATCTCATATCGATACCAATAGCCC
1 AGATATAGTCTTACACAAAATCTCATATCGATGCCAATAGCCT
* * *
53572329 AGCTATGGTCTTACACGAAATCTCATATCGATGCCAATAGCCT
1 AGATATAGTCTTACACAAAATCTCATATCGATGCCAATAGCCT
* ** * *
53572372 AGTTATAGTC-TACGTAAAATCTCATATCGATGTC-ATATCCT
1 AGATATAGTCTTACACAAAATCTCATATCGATGCCAATAGCCT
*
53572413 AGATATAGTCGTACAC
1 AGATATAGTCTTACAC
53572429 GTAATCTTAA
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
41 15 0.18
42 23 0.28
43 45 0.54
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (43 bp):
AGATATAGTCTTACACAAAATCTCATATCGATGCCAATAGCCT
Found at i:53576199 original size:12 final size:12
Alignment explanation
Indices: 53576182--53576270 Score: 57
Period size: 12 Copynumber: 7.6 Consensus size: 12
53576172 TTCTAAATGA
53576182 TTTAAAAAT-AT
1 TTTAAAAATAAT
53576193 CTTTAAAAATAAT
1 -TTTAAAAATAAT
*
53576206 TTTAAAAAATTAT
1 TTT-AAAAATAAT
53576219 ATTT-AAAAT--T
1 -TTTAAAAATAAT
*
53576229 TTAAAAAATAAT
1 TTTAAAAATAAT
*
53576241 TTTTAAAAT--T
1 TTTAAAAATAAT
53576251 TTTAAAATATACA-
1 TTTAAAA-ATA-AT
53576264 TTTAAAA
1 TTTAAAA
53576271 TATTATAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
9 2 0.03
10 13 0.21
11 2 0.03
12 25 0.40
13 17 0.27
14 3 0.05
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTAAAAATAAT
Found at i:53576231 original size:22 final size:22
Alignment explanation
Indices: 53576203--53576281 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 22
53576193 CTTTAAAAAT
53576203 AATTTTAAAAAATTATATTTAA
1 AATTTTAAAAAATTATATTTAA
* *
53576225 AATTTTAAAAAATAATTTTTAA
1 AATTTTAAAAAATTATATTTAA
* *
53576247 AATTTT-TAAAATATACATTTAA
1 AATTTTAAAAAAT-TATATTTAA
* *
53576269 AATATTATAAAAT
1 AATTTTAAAAAAT
53576282 AAATAATAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
21 5 0.10
22 37 0.77
23 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTTTAAAAAATTATATTTAA
Found at i:53576369 original size:22 final size:23
Alignment explanation
Indices: 53576344--53576407 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
53576334 TTATAATATT
**
53576344 AAAAATTTGTATTTAAAA-TTTA
1 AAAAATTAATATTTAAAATTTTA
53576366 AAAAA-TAATATTTAAAATTTTTA
1 AAAAATTAATATTTAAAA-TTTTA
53576389 AAAAA-TAATAATTTTAAAA
1 AAAAATTAAT-A-TTTAAAA
53576408 ATATATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 10 0.28
22 5 0.14
23 13 0.36
24 1 0.03
25 7 0.19
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AAAAATTAATATTTAAAATTTTA
Found at i:53576378 original size:14 final size:14
Alignment explanation
Indices: 53576361--53576421 Score: 60
Period size: 15 Copynumber: 4.6 Consensus size: 14
53576351 TGTATTTAAA
53576361 ATTTAAAAAATAAT
1 ATTTAAAAAATAAT
53576375 ATTT--AAAAT--T
1 ATTTAAAAAATAAT
53576385 -TTTAAAAAATAAT
1 ATTTAAAAAATAAT
*
53576398 AATTTTAAAAATATAT
1 -ATTTAAAAAATA-AT
53576414 ATTTAAAA
1 ATTTAAAA
53576422 TTTTAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
9 3 0.08
10 1 0.03
11 5 0.13
12 5 0.13
13 1 0.03
14 4 0.11
15 17 0.45
16 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTAAAAAATAAT
Found at i:53576386 original size:60 final size:62
Alignment explanation
Indices: 53576336--53576454 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 62
53576326 TAAATGTTTT
* *
53576336 ATAATATTAAAAATTTGTATTTAAAA-TTTAAAAAATA-ATATT-TAAAATTTTTAAAAAATA
1 ATAATATTAAAAATATATATTTAAAATTTTAAAAAATATATATTATAAAA-TTTTAAAAAATA
*
53576396 ATAATTTTAAAAATATATATTTAAAATTTTAAAAAATATATATTATAAAATATTTAAAA
1 ATAATATTAAAAATATATATTTAAAATTTTAAAAAATATATATTATAAAAT-TTTAAAA
53576455 TATACATTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
60 23 0.44
61 11 0.21
62 6 0.12
63 12 0.23
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (62 bp):
ATAATATTAAAAATATATATTTAAAATTTTAAAAAATATATATTATAAAATTTTAAAAAATA
Found at i:53576388 original size:23 final size:21
Alignment explanation
Indices: 53576353--53576446 Score: 88
Period size: 21 Copynumber: 4.5 Consensus size: 21
53576343 TAAAAATTTG
53576353 TATTTAAAATTTAAAAAATAA
1 TATTTAAAATTTAAAAAATAA
**
53576374 TATTTAAAATTTTTAAAA-AA
1 TATTTAAAATTTAAAAAATAA
* *
53576394 TA-AT-AATTTTAAAAATAT-A
1 TATTTAAAATTTAAAAA-ATAA
53576413 TATTTAAAATTTTAAAAAATATA
1 TATTTAAAA-TTTAAAAAATA-A
53576436 TATTATAAAAT
1 TATT-TAAAAT
53576447 ATTTAAAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
18 8 0.14
19 5 0.09
20 5 0.09
21 20 0.35
22 8 0.14
23 6 0.11
24 5 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATTTAAAATTTAAAAAATAA
Found at i:53576402 original size:38 final size:38
Alignment explanation
Indices: 53576360--53576433 Score: 123
Period size: 38 Copynumber: 1.9 Consensus size: 38
53576350 TTGTATTTAA
53576360 AATTTAAAAAATA-ATATTTAAAATTTTTAAAAAATAAT
1 AATTTAAAAAATATATATTTAAAA-TTTTAAAAAATAAT
*
53576398 AATTTTAAAAATATATATTTAAAATTTTAAAAAATA
1 AATTTAAAAAATATATATTTAAAATTTTAAAAAATA
53576434 TATATTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 24 0.71
39 10 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (38 bp):
AATTTAAAAAATATATATTTAAAATTTTAAAAAATAAT
Found at i:53576426 original size:22 final size:21
Alignment explanation
Indices: 53576353--53576465 Score: 94
Period size: 23 Copynumber: 5.3 Consensus size: 21
53576343 TAAAAATTTG
53576353 TATTTAAAA-TTTAAAAAATAA
1 TATTTAAAATTTTAAAAAAT-A
53576374 TATTTAAAATTTTTAAAAAATA
1 TATTTAAAA-TTTTAAAAAATA
*
53576396 -A--T--AATTTTAAAAATATA
1 TATTTAAAATTTT-AAAAAATA
53576413 TATTTAAAATTTTAAAAAATATA
1 TATTTAAAATTTT-AAAAA-ATA
*
53576436 TATTATAAAATATTTAAAATATA
1 TATT-TAAAAT-TTTAAAAAATA
*
53576459 CATTTAA
1 TATTTAA
53576466 CATATTATAA
Statistics
Matches: 77, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
16 4 0.05
17 9 0.12
18 1 0.01
19 1 0.01
20 1 0.01
21 10 0.13
22 15 0.19
23 23 0.30
24 10 0.13
25 3 0.04
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (21 bp):
TATTTAAAATTTTAAAAAATA
Found at i:53576445 original size:38 final size:38
Alignment explanation
Indices: 53576366--53576445 Score: 119
Period size: 38 Copynumber: 2.1 Consensus size: 38
53576356 TTAAAATTTA
*
53576366 AAAAATAATATTTAAAATTTTTAAAAAATAATAATTTT
1 AAAAATAATATTTAAAATTTTTAAAAAATAATAATTAT
53576404 AAAAATATATATTTAAAA-TTTTAAAAAAT-ATATATTAT
1 AAAAATA-ATATTTAAAATTTTTAAAAAATAATA-ATTAT
53576442 AAAA
1 AAAA
53576446 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
37 3 0.08
38 26 0.67
39 10 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (38 bp):
AAAAATAATATTTAAAATTTTTAAAAAATAATAATTAT
Found at i:53576451 original size:25 final size:24
Alignment explanation
Indices: 53576399--53576477 Score: 92
Period size: 23 Copynumber: 3.3 Consensus size: 24
53576389 AAAAATAATA
*
53576399 ATTTTAAAAATATATATTTAAAAT
1 ATTTAAAAAATATATATTTAAAAT
53576423 -TTTAAAAAATATATATTATAAAAT
1 ATTTAAAAAATATATATT-TAAAAT
* *
53576447 ATTT--AAAATATACATTTAACAT
1 ATTTAAAAAATATATATTTAAAAT
53576469 ATTATAAAA
1 ATT-TAAAA
53576478 TCAATAATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 8 0.17
23 28 0.60
24 6 0.13
25 5 0.11
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTTAAAAAATATATATTTAAAAT
Found at i:53578943 original size:4 final size:4
Alignment explanation
Indices: 53578934--53578965 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
53578924 AACAACTTAA
53578934 AAAT AAAT -AA- AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
53578966 TCACTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 4 0.15
4 22 0.85
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:53579723 original size:17 final size:18
Alignment explanation
Indices: 53579696--53579755 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
53579686 TATAAAAAAG
*
53579696 AAAAAGGACAAACAAATA
1 AAAAAAGACAAACAAATA
*
53579714 AAAATA-ACAAA-AAATGAA
1 AAAAAAGACAAACAAAT--A
53579732 AAAAAAGACAAACAAATA
1 AAAAAAGACAAACAAATA
53579750 AAAAAA
1 AAAAAA
53579756 TAAGAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 4 0.11
17 5 0.14
18 17 0.49
19 5 0.14
20 4 0.11
ACGTcount: A:0.78, C:0.08, G:0.07, T:0.07
Consensus pattern (18 bp):
AAAAAAGACAAACAAATA
Found at i:53579742 original size:19 final size:20
Alignment explanation
Indices: 53579720--53579765 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
53579710 AATAAAAATA
*
53579720 ACAAAAAATGAAAAAA-AAG
1 ACAAAAAATAAAAAAATAAG
53579739 ACAAACAAATAAAAAAATAAG
1 ACAAA-AAATAAAAAAATAAG
53579760 A-AAAAA
1 ACAAAAA
53579766 GACATAGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 13 0.54
21 4 0.17
ACGTcount: A:0.80, C:0.07, G:0.07, T:0.07
Consensus pattern (20 bp):
ACAAAAAATAAAAAAATAAG
Found at i:53580448 original size:33 final size:33
Alignment explanation
Indices: 53580395--53580462 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
53580385 AGATTAATTT
*
53580395 ATATGTTATATATTATTATATTAAATTAGTTAA
1 ATATGTTATATATAATTATATTAAATTAGTTAA
* * *
53580428 ATATTTTATGTATAATTATATTAAATTATTTAA
1 ATATGTTATATATAATTATATTAAATTAGTTAA
53580461 AT
1 AT
53580463 CTTATTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (33 bp):
ATATGTTATATATAATTATATTAAATTAGTTAA
Found at i:53581382 original size:25 final size:24
Alignment explanation
Indices: 53581336--53581392 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
53581326 TTTTATTTAC
* *
53581336 ATATTGTTATTAAATTGCTATTATT
1 ATATTTTTATTAAATTGATATTA-T
*
53581361 TTATTTTTATT-AATTGGATATTAT
1 ATATTTTTATTAAATT-GATATTAT
53581385 ATATTTTT
1 ATATTTTT
53581393 TATTTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (24 bp):
ATATTTTTATTAAATTGATATTAT
Found at i:53588467 original size:13 final size:13
Alignment explanation
Indices: 53588451--53588490 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
53588441 TTTCAATTTT
53588451 ATTTTAATAATAA
1 ATTTTAATAATAA
53588464 ATTTTATTATAATAA
1 ATTTTA--ATAATAA
*
53588479 ATTTAAATAATA
1 ATTTTAATAATA
53588491 GTATTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTTAATAATAA
Found at i:53588543 original size:15 final size:15
Alignment explanation
Indices: 53588523--53588579 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
53588513 ATCCAATATT
53588523 AATATTTTAATAATA
1 AATATTTTAATAATA
*
53588538 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
53588557 AATATATTAATAATA
1 AATATTTTAATAATA
*
53588572 AATGTTTT
1 AATATTTT
53588580 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:53588552 original size:19 final size:19
Alignment explanation
Indices: 53588525--53588561 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
53588515 CCAATATTAA
*
53588525 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
53588544 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
53588562 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:53597125 original size:101 final size:101
Alignment explanation
Indices: 53596961--53597284 Score: 377
Period size: 101 Copynumber: 3.2 Consensus size: 101
53596951 TTGGCACAGC
** *
53596961 AGTTTGGTGTGACAATCCA-TTTCATCCTAATTTAAATGCTTATAGAAATGTCCTCTTAATTTTG
1 AGTTTGGCATGACAATCCATTTTC-TCCTAATTTAAATGCTTAAAGAAATGTCCTCTTAATTTTG
* *
53597025 CATTCAATTAAATTTTGACAGGGGAGTTTGGCTGGAT
65 CATTCAATTAAATTTTGACAGGGTAGTTTGGCTGGGT
** * * **
53597062 AGTTTGGCATGACAATTTATTTTGT-CTCAATTTAAATGCTTAAAGAAATGTCTTCCAAATTTTG
1 AGTTTGGCATGACAATCCATTTTCTCCT-AATTTAAATGCTTAAAGAAATGTCCTCTTAATTTTG
* * * *
53597126 CATTCAATCAACTTTTGGCAGGGTAGTTTGGTTGGGT
65 CATTCAATTAAATTTTGACAGGGTAGTTTGGCTGGGT
* * * * *
53597163 AGCTTGGCATCACAATCCATTTTCTCCTAATTTGAATGTTTATAA-AAATTTCCTCTTAATTTTG
1 AGTTTGGCATGACAATCCATTTTCTCCTAATTTAAATGCTTA-AAGAAATGTCCTCTTAATTTTG
**
53597227 CATTCAATT-AATTTTGACAGAATAGTTTGGCTGGGT
65 CATTCAATTAAATTTTGACAGGGTAGTTTGGCTGGGT
* *
53597263 AGTTTGGCATGATAGTCCATTT
1 AGTTTGGCATGACAATCCATTT
53597285 CACAAATGTC
Statistics
Matches: 183, Mismatches: 36, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
100 42 0.23
101 134 0.73
102 7 0.04
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (101 bp):
AGTTTGGCATGACAATCCATTTTCTCCTAATTTAAATGCTTAAAGAAATGTCCTCTTAATTTTGC
ATTCAATTAAATTTTGACAGGGTAGTTTGGCTGGGT
Found at i:53597353 original size:81 final size:80
Alignment explanation
Indices: 53597208--53597365 Score: 203
Period size: 81 Copynumber: 2.0 Consensus size: 80
53597198 ATGTTTATAA
* * * * * *
53597208 AAATTTCCTCTTAATTTTGCATTCAATTAATTTTGACAGAATAGTTTGGCTGGGTAGTTTGGCAT
1 AAATGTCCTATTAATTTTGCATTCAATAAATTTTGACAGAACAGTTTAGCTGGGTAGTTCGGCAT
*
53597273 GATAGTCCATTTCAC
66 GACAGTCCATTTCAC
*
53597288 AAATGTCCTATTAATTTTGCATTCAATCAAATTTTGGTA-AG-GCAGTTTAGCTGGGTAGTTCGG
1 AAATGTCCTATTAATTTTGCATTCAAT-AAATTTT-G-ACAGAACAGTTTAGCTGGGTAGTTCGG
53597351 CATGACAGTCCATTT
63 CATGACAGTCCATTT
53597366 TGTTCCAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
80 25 0.37
81 38 0.57
82 3 0.04
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (80 bp):
AAATGTCCTATTAATTTTGCATTCAATAAATTTTGACAGAACAGTTTAGCTGGGTAGTTCGGCAT
GACAGTCCATTTCAC
Found at i:53597463 original size:101 final size:100
Alignment explanation
Indices: 53597288--53597621 Score: 411
Period size: 101 Copynumber: 3.3 Consensus size: 100
53597278 TCCATTTCAC
* * * * * *
53597288 AAATGTCCTATTAATTTTGCATTCAATCAAATTTTGGTAAGGCAGTTTAGCTGGGTAGTTCGGCA
1 AAATGTTCTCTTAATTTTGCATTCAATC-AATTTTGGTAGGGCAGTTTGGTTGGGTAGTTTGGCA
*
53597353 TGACAGTCCATTTTGTTCCAATTTGAATGTTTATAG
65 TGACAGTCCATTTTGTTCCAATTTGAATGCTTATAG
* * * *
53597389 AAATGTTCTCTTAATTTTGCATTCAATCAATTTTGGCAGGGGCAATTTGGTTAGGTAATTTGGCA
1 AAATGTTCTCTTAATTTTGCATTCAATCAATTTTGGTA-GGGCAGTTTGGTTGGGTAGTTTGGCA
* ** *
53597454 TGACAGTCCATTTCGCCCCAATTTGAATCCTTATAG
65 TGACAGTCCATTTTGTTCCAATTTGAATGCTTATAG
* * * *
53597490 AAATGTTTTGTTAAATTTGCATTCAATCCAATTTTGGTAGGGTAGTTTGGCTTGGGTAGTTTGGC
1 AAATGTTCTCTTAATTTTGCATTCAAT-CAATTTTGGTAGGGCAGTTTGG-TTGGGTAGTTTGGC
* *
53597555 ATGATAGTCCATCTT-TTCCAAATTTGAATGCTTATAG
64 ATGACAGTCCATTTTGTTCC-AATTTGAATGCTTATAG
53597592 AAAT-TTCCTCTTAATTTTGCATTCAATCAA
1 AAATGTT-CTCTTAATTTTGCATTCAATCAA
53597622 ATCTTATTAT
Statistics
Matches: 196, Mismatches: 32, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
100 9 0.05
101 116 0.59
102 71 0.36
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (100 bp):
AAATGTTCTCTTAATTTTGCATTCAATCAATTTTGGTAGGGCAGTTTGGTTGGGTAGTTTGGCAT
GACAGTCCATTTTGTTCCAATTTGAATGCTTATAG
Found at i:53597511 original size:282 final size:284
Alignment explanation
Indices: 53597006--53597566 Score: 695
Period size: 282 Copynumber: 2.0 Consensus size: 284
53596996 ATGCTTATAG
* * * * * *
53597006 AAATGTCCTCTTAATTTTGCATTCAATTAAATTTTGACAGGGGAGTTTGGCTGGATAGTTTGGCA
1 AAATGTCCTATTAATTTTGCATTCAATCAAATTTTGACAAGGCAGTTTAGCTGGATAGTTCGGCA
**
53597071 TGACAATTTATTTTGTCTCAATTTAAATGCTTAAAGAAATGTCTTCCAAATTTTGCATTCAATCA
66 TGACAATCCATTTTGTCTCAATTTAAATGCTTAAAGAAATGTCTTCCAAATTTTGCATTCAATCA
* * * * * * *
53597136 ACTTTTGGCAGGGTAGTTTGGTTGGGTAGCTTGGCATCACAATCCATTTTCTCCTAATTTGAATG
131 ACTTTTGGCAGGGCAATTTGGTTAGGTAACTTGGCATCACAATCCATTTTCCCCCAATTTGAATC
* * *
53597201 TTTATAAAAATTTCCTCTTAATTTTGCATTCAAT-TAATTTTGACAGAATAGTTTGGC-TGGGTA
196 CTTATAAAAATTTCCTCTTAAATTTGCATTCAATCCAATTTTGACAGAATAGTTTGGCTTGGGTA
53597264 GTTTGGCATGATAGTCCATTTCAC
261 GTTTGGCATGATAGTCCATTTCAC
** *
53597288 AAATGTCCTATTAATTTTGCATTCAATCAAATTTTGGTAAGGCAGTTTAGCTGGGTAGTTCGGCA
1 AAATGTCCTATTAATTTTGCATTCAATCAAATTTTGACAAGGCAGTTTAGCTGGATAGTTCGGCA
* * * * **
53597353 TGACAGTCCATTTTGT-TCCAATTTGAATGTTTATAGAAATGT-TCTCTTAATTTTGCATTCAAT
66 TGACAATCCATTTTGTCT-CAATTTAAATGCTTAAAGAAATGTCT-TCCAAATTTTGCATTCAAT
* * *
53597416 CAA-TTTTGGCAGGGGCAATTTGGTTAGGTAATTTGGCATGACAGTCCA-TTTCGCCCCAATTTG
129 CAACTTTTGGCA-GGGCAATTTGGTTAGGTAACTTGGCATCACAATCCATTTTC-CCCCAATTTG
* * * ** **
53597479 AATCCTTATAGAAATGTT-TTGTTAAATTTGCATTCAATCCAATTTTGGTAGGGTAGTTTGGCTT
192 AATCCTTATAAAAAT-TTCCTCTTAAATTTGCATTCAATCCAATTTTGACAGAATAGTTTGGCTT
53597543 GGGTAGTTTGGCATGATAGTCCAT
256 GGGTAGTTTGGCATGATAGTCCAT
53597567 CTTTTCCAAA
Statistics
Matches: 235, Mismatches: 37, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
281 14 0.06
282 176 0.75
283 20 0.09
284 25 0.11
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (284 bp):
AAATGTCCTATTAATTTTGCATTCAATCAAATTTTGACAAGGCAGTTTAGCTGGATAGTTCGGCA
TGACAATCCATTTTGTCTCAATTTAAATGCTTAAAGAAATGTCTTCCAAATTTTGCATTCAATCA
ACTTTTGGCAGGGCAATTTGGTTAGGTAACTTGGCATCACAATCCATTTTCCCCCAATTTGAATC
CTTATAAAAATTTCCTCTTAAATTTGCATTCAATCCAATTTTGACAGAATAGTTTGGCTTGGGTA
GTTTGGCATGATAGTCCATTTCAC
Found at i:53597781 original size:101 final size:101
Alignment explanation
Indices: 53597674--53602834 Score: 3920
Period size: 101 Copynumber: 53.1 Consensus size: 101
53597664 ATTTGAAAGA
** * * * *
53597674 GTAGTTTGATTGGGTAGTTTGGCATGGCAAATCCATTTCGT-CCAATTTGAAAGCTTACA-AAGA
1 GTAGTTTGGCTGGGTAGTTTGGCATGAC-AGTCCATTTCGTCCCAATTTGAATGCTTATAGAA-A
* *
53597737 TGTCCTCTTAATTCTGTATTCAATCAAATTTTGGCAGG
64 TGTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * * * ** *
53597775 GTAGTTTGGCTGTGTAGTTCGGCATTATAGTCCATTTCATCCAAATTTGAGTGCCCATTGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* *
53597840 TTCTCTTAATTTTTCATTCAATCAAATTTT-----G
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * *
53597871 GTAG---GGC-----AGTTTGGCATGACAGTCCATTT-TTTCCAATTTGAATGTTTATAGAAATA
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * *
53597927 TTCTTTTAATTTTGCATTCAATCAAATTTTAGCAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * ** * *
53597963 GCAGTTTGGCTGGATAGTTTAGCATGACAGTCCATTTTGTCCCAATTTGAATATTTATAAAAATA
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * *
53598028 TCCTCTTAATTTTGCATTTAATCAAATATTGGAAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
** * * * *
53598064 GCT-GTTTGGCTGGGTAGTTTGGCATGGTAGTCTATTCCATCCCAATTTGAATGTTTATAGAAAT
1 G-TAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAAT
* * * * *
53598128 GTCCTTTTAATATTACATTCAATCAAATATTGGCAAG
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * *
53598165 GCAGTTTGGCTGGGTAGTTTGGCTTGACAGTCCATTTCGTCCCAATTTGAATGTTTAAAGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
*
53598230 TCCT-TTTATTTTGCATTCAATC-AATTTT-----G
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * *
53598259 GTA--------GGGAAGTTTGGCATGACAGTCTATTTTGTCCCAATTTGAAAGTTTATTGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
53598316 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * * *
53598352 GCAGTTTGGTTGGATAGTTTGCCATGACAGTCCATTTTGTCCCAATTTGAATGCTTATAAAAATA
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * *
53598417 TCCTCTTAATTTTGCATTTAATCAAATATTGGAAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* ** * *
53598453 GCT-GTTTGGCTAGGTAGTTTGGCATGGTAGTCCATTTTGTCCCAATTTGAATGTTTATAGAAAT
1 G-TAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAAT
* * * * * *
53598517 GTCCTTTTAATATTACATTTTAA-CAAATATTGGCAAG
65 GTCCTCTTAATTTTGCA-TTCAATCAAATTTTGGCAGG
* * * * *
53598554 GCAGTTTGGTTGGGTAGTTTGGCTTGATAGTCCATTTCGTCCCAATTTGAATGCTTATTGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
*
53598619 TCTTCTTAATTTTGCATTCAATC-AATTTTGGCAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * *
53598654 G-A------------AGTTTGGCATGACAATCCATTTTGTCCCAATTTGAAAGTTTATTA-AAAT
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTA-TAGAAAT
53598705 GTCCTCTTAATTTTGCATTCAATCAAATTTT------
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * *
53598736 G--G--T---TGGGTAGTTTGGCATGACCGTCCATTTCTTCCAAATTTGAACT-CTTATAGAAAT
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAAT
** * *
53598793 GTTATCTTAATTTTGCAGTCAGTCAAATTTTGGCA--
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
** * * *
53598828 --A----AAC-----AGTTTGGCATGATAGTCCATTTTGTCCCAATTTGAATACTTATAGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
53598882 TCCTCTTAATTTTGCATTCAATC-AATTTTGGCA-G
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * ** * *
53598916 GTAAGTTTTGCTGGGTAGTTTGGCATGGCAGTTTATTTCGTCCCAATTTGAATGTTTATCGAAAT
1 GT-AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAAT
* * *
53598981 ATCCTCTTAATTTTGCATTTAATCAAATTTTGGCAAG
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * ** * * ** *
53599018 GAAATTTGGCTAGACATTTTGGAATGACTA-TCCATTTTATCCCAATTTAAACT-CTTATA-AAA
1 GTAGTTTGGCTGGGTAGTTTGGCATGAC-AGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAA
* **
53599080 CTGTCCTCTTAATTTTGCATTCAATCAATTTTTGGTTGG
64 -TGTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * *
53599119 GTAGTTTGGCTGGGTAGTTTGGCATGGCA-TCCCATTTCATTCCAATTTGAATGCTTATAGAAAT
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGT-CCATTTCGTCCCAATTTGAATGCTTATAGAAAT
* * *
53599183 ATTCTCTTAATTTTACATTCAATC-AATTTTGGCAGG
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * * *
53599219 GCAATTTGGTTAGGTAATTTGGCATGACAGTCCATTTCGCCCCAATTTGAATACTTATAGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
** * * * * *
53599284 TTTTGTTAAATTTGAATTCAATCCAATTTTGGTAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * *
53599320 GTAGTTTGGCTTGGGTAGTTTGGCATGATAGTCCATCTT-TTCCAAATTTGAATGCTTATAGAAA
1 GTAGTTTGGC-TGGGTAGTTTGGCATGACAGTCCAT-TTCGTCCCAATTTGAATGCTTATAGAAA
* ** *
53599384 TTTCCTCTTAATTTTG-ATTTCAATCAAATTTTGAAAGA
64 TGTCCTCTTAATTTTGCA-TTCAATCAAATTTTGGCAGG
* * * * *
53599422 GAAGGTTGACTGGGTAGTTTGGCCTGACAGTCCGTTTCGTCCCAATTTGAATGCTTATAGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* *
53599487 TCCTCTTAATTTTGCATTCAATCCAATTTTGGCAAG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * **
53599523 GCA------ATGGGTAGTTTGGCATGACAGTACATTTCATCCTAATTTGAATTTTTATAGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * *
53599582 TCCTCTTAATTTTGCATTTAATCAAATATTGGTAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
** * * * * * *
53599618 ACAGATTGGCTGGGTAGTTTGACATGACAATCCATTTCGTCCCAATTTAAATACATATAGAAA--
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * *
53599681 T-ATCTTAATTTTGCATTCCATC-AATTTTGGTAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * * *
53599715 GCAGTTTCGCTGGGTAGATTGACATGACAGTCCATTTCGTCCTAATTTTAATGTTTATAGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
*
53599780 TCCTCTTAATTTTGCATTCAATCAAATTTAGGCAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * *
53599816 GTAGTTTTGCTAGGTAGTTTGGCATAACAGTCAATTTTGTCCCAATTTTAATGCTTATAGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * * *
53599881 TCTTCTTAATTTTACATTCAATCTAATTTTGGTAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
** * * * * * * *
53599917 CCAGTTTGGCTGGATAGTTTGCCATTACAGTACATTTCGTCCCGATTTGAATGCGTACAGAAAT-
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * ** **
53599981 TTCTCTTAATTTTGCATTTAATCAAATTTTAACAAC
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
** * * * * *
53600017 ACAGTTTGGCTGGGTAGTTCGGCATGACAGTCCATTTCGTCCAAATTTGAGTGCCTATTGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
53600082 TCCTCTTAATTTTGCATTCAATCAAA-TTT-G-A--
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * *
53600113 -TA-------T-GGAAGTTTGGCATGACAGTTCATTTCTTCCTAATTTGAATGTTTATAGAAATA
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * * **
53600169 TTCTCTTAATTTTACATTCAATCAAATTTCGGCACA
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
** * * * * * *
53600205 ACAGTTTGGTTGGATAGTTTGGCATGACAGTCTATTTTGTCCCAATTTGAATGCTGATAGAAATA
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * * *
53600270 TTCTCTTAATGTTGCATTCAGTCAAATATTGGCAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* ** * * * *
53600306 GTTGTTTGGCCAGGTAGTTTGGCATGATAGTTCATTTCATCCCAATTTGAATGTTTATAGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
*
53600371 TCCTCTTAATTTTGCATTCAATCAAATATTT-GTAGG
66 TCCTCTTAATTTTGCATTCAATCAAAT-TTTGGCAGG
** * * * * *
53600407 CCAGTTTGGCTAGGTAGTTTGGCATGATAGTCTATTTCGTCCCAATTTTGACA--CTTACAAAAA
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAA-TTTGA-ATGCTTATAGAAA
* * *
53600470 TTTCCTTTTAATTTTGCATACAATCAAA-TTT------
64 TGTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * *
53600501 -TA-----GCTAGGTAGTTTGGCATGACATTCCATTTCATCCCAATTTGAATGTTTATAGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* *
53600560 TTCTCTTAATTTTGCATTCAATTAAATTTTGGCAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * *** * * * * * *
53600596 GCAATTTCATTTGATAGTTTAGCATG-CAGTCCATTTTGTCCC-ATTTGAATGCTTATATAAATA
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* *
53600659 TCCTCTTAATTTTGCATTCAATCAAATATTGGTAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * ** *
53600695 GCT-GTTTGGCTGAGTAGTTTGGCATAATAGTCCATTTCATCTTAATTTGAATGTTTATAGAAAT
1 G-TAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAAT
** * * * * *
53600759 GAACTTTTAATATTGTATTCAATCAAATATTGGCACG
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
** * * * *
53600796 ACAGTTGGGCTGGGTAGTTTGACTTGACAGTCCATTTCATCCCAATTTGAATGCTTATAGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* *
53600861 TTCTCTTAATTTTGCATTCAATC-GATTTT-----G
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * *
53600891 GTA-----GCT---AAGTTTGGCATGACAGTCCATTTCTTCCCAATTT-AAAGTTTATCGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* *
53600947 TCCTATTAATTTTGCATTCAATCAAATTTTGGCTGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * *
53600983 GAAATTTGGCTGGGTAGTTTGACATGACAATCCATTTCATCCAAATTTGAACT-CTTATAGAAAT
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAAT
* * *
53601047 GTCATCTTAATTTTTCATTTAATCAAATTTTGGCTAGG
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGC-AGG
* * * ** * *
53601085 ATA-TTTTGTTATGTAGTTTGGCATAACAGTCCATTTCGTCCCAATTTGAATGCTTATAGATATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* ** *
53601149 TCATCTTAATTTTGCATTCAATC-AATTTTTCCTGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * * * *
53601184 GAAGTTT-TCTGGGTAGTTTTGCATGACAGTCAATTTCATCCCAATTTGAATGTTTATCGAAATA
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * * *
53601248 CCCTCTTAATTTTGCATTTAATCAAATCTTGGTAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * * * * * *
53601284 GAAATTTGGCTGGGTATTTTAGCATGTCTGTCTATTTCATCCCAGTTTGAACT-TTTATAGAAAT
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAAT
*
53601348 GTCAC-CTTAATTTTGCATTCAATCAAATTTTTTGC---
65 GTC-CTCTTAATTTTGCATTCAATCAAA-TTTTGGCAGG
** * *
53601383 G--G--T-G-T---TA-TTTGGCATGGTA-TCCCATTTCATCCCAATTTGAATGCTTATAGACAT
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGT-CCATTTCGTCCCAATTTGAATGCTTATAGAAAT
* * * *
53601437 GTCTTATTAATTTTGCATTTAATC-AATATTGGCAGG
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * *
53601473 GAAGTGTT-TCTAGGTAGTTTGGCATGACAGTCCGTTTAGTCCCAATTTGAATGCTTATAGAATT
1 GTAGT-TTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAAT
*
53601537 GTCCTCTGAATTTTGCATT-AATC-AATTTT-GCAGG
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* *
53601571 GTAGTTTGGCTGGGTAGGCTT-GCATGACAGTCCATTTCGTACCAATTTGAATGCTTATAGAAAT
1 GTAGTTTGGCTGGGTA-GTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAAT
* * *
53601635 GTCCTCTTAATTTTGCATTCAATC-AATTGTAGCATG
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
** ** *
53601671 ACAGTTTGGCTGGGTAGTTTGGCATGATTGTCCATTTCGTCCCATTTTGAATGCTTATAG-AATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
*
53601735 TCCTTTTAATTTTGCATTCAATC-AATTTTGGCAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * ** ** * * *
53601770 GTAGTTTGGTTGGATAGTTTTCCATGACAGTCCACGTCGT-CTAAGTTAGAATGTTTATAGAAAT
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAA-TTTGAATGCTTATAGAAAT
* * * *
53601834 ATCATCTTAATTTTGAATTCAATCAAATTTTGGTAGG
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
** * * * * * *
53601871 GCGGTTTGGCTGAGTAGTTTGGCATGACAGTCCGTTTCATCCCAACTTGAATGTTTATAGTAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
*
53601936 TTCTCTTAATTTTGCATTCAATCAAATTTTGGCA--
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * *
53601970 --A---------GGAAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGCTTTTAGAAATA
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * * *
53602024 TCCTTTTAAATTTACACTCAATCAAATTTTGGCAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
** * * * * * * *
53602060 ACAATTTGGCT-GGTAGTTTTGCATGACAGTTCATTTCATCCCAATTTTAATTCTTTTA-ATAAT
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGA-AAT
** * *
53602123 GTCCTCTTAATTTTGCATTCAATC-AATTTCAGTAGA
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * * * *
53602159 GCAGTTTTG-TCGAGTAGTTTTGCATGACAGTCCATTTCGTACCGATTTAAATGTTTATAGAAAT
1 GTAGTTTGGCT-GGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAAT
* * * *
53602223 GTCTTCTTAATTTGGAATTCAATAAAATTTTGG-A--
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * *
53602257 --AG---GGC-----AGTTTGGCTTGACAATCAATTTTGTCCCAATTTGAATGCTTATAGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * * * *
53602312 TCTTCTTAATTTTGAATTCAACCAAATATTGGCAAG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
** * *
53602348 GTAGTTTGGCTCCGTAGTTTGGCATGACAGTCCATTTCATCCCAATTTGAATGTTTATAGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * * * * *
53602413 TCCTTTTAATTATGTATTTAATCAAATATTAGCAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* *
53602449 GTA-ATT---T-GGTA---T-G-AT---AGTCCATTTCGTCCTAATTTGAATGCTTATAGAAATG
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * * *
53602501 TTCTCTTAATTTTGCATTCAAT-TAGTTTTGGTAGG
66 TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* * * * * ***
53602536 G-AGGTTTGGTTGGGTAGTTTGACATGACAGTCCATTTCATTCTAATTTGAAAATTTATCA-AAA
1 GTA-GTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTAT-AGAAA
* * *
53602599 TGTCCTTTTAATTTTGAATTTAATCAAATTTTGGC---
64 TGTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
** * *
53602634 -TA---------GGTAGTTTGGCATGATTGTACATTTCAT-CCATATTTGAACT-CTTATAGAAA
1 GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCA-ATTTGAA-TGCTTATAGAAA
** * * * *
53602687 TGTAATATTAATTTTGCATTTAAACAAATTTTGGTAGG
64 TGTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
* ** * * ** * * * *
53602725 GCAGTTTCACTTGATAGTTCT-TTATGATAGTCTATTTTGTCCCAATTTGAATGCTTTTAGAAAT
1 GTAGTTTGGCTGGGTAGTT-TGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAAT
* *
53602789 GTCATCTTAATTTTGCGTTCAATC-AATTTTGGCAGG
65 GTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
53602825 GTAGTTTGGC
1 GTAGTTTGGC
53602835 ATGACAGTCC
Statistics
Matches: 4015, Mismatches: 796, Indels: 499
0.76 0.15 0.09
Matches are distributed among these distances:
82 1 0.00
86 87 0.02
87 263 0.07
88 490 0.12
89 60 0.01
90 7 0.00
91 4 0.00
92 15 0.00
93 13 0.00
94 4 0.00
95 91 0.02
96 15 0.00
97 72 0.02
98 95 0.02
99 264 0.07
100 716 0.18
101 1700 0.42
102 115 0.03
103 3 0.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (101 bp):
GTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
TCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGG
Found at i:53598390 original size:389 final size:390
Alignment explanation
Indices: 53597639--53602544 Score: 3498
Period size: 389 Copynumber: 12.6 Consensus size: 390
53597629 TATTTGTATG
* * * * **
53597639 AATGTCCTCTTAATTTTG-AATC-A--AAAT-TTGAAAGAGTAGTTTGATTGGGTAGTTTGGCAT
1 AATGTCCTCTTAATTTTGCATTCAATCAAATATTGGAAGGGCAGTTTGGCTGGGTAGTTTGGCAT
* * * * * * *
53597699 GGCAAATCCATTTCGT-CCAATTTGAAAGCTTACA-AAGATGTCCTCTTAATTCTGTATTCAATC
66 GAC-AGTCCATTTCGTCCCAATTTGAATGCTTATAGAA-ATGTCCTTTTAATTTTGCATTCAATC
* * * * * * * * *
53597762 AAATTTTGGCAGGGTAGTTTGGCTGTGTAGTTCGGCATTATAGTCCATTTCATCCAAATTTGAGT
129 AAATTTTGGCAAGGCAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAAT
*** * * * *
53597827 GCCCATTGAAATGTTCTCTTAATTTTTCATTCAATCAAATTTTGGTAGGGCAGTTTGGCATGACA
194 GTTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGGTAGGGAAGTTTGGCATGACA
* * * *
53597892 GTCCATTTT-TTCCAATTTGAATGTTTATAGAAATATTCTTTTAATTTTGCATTCAATCAAATTT
259 GTCCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTT
* * * **
53597956 TAGCAGGGCAGTTTGGCTGGATAGTTTAGCATGACAGTCCATTTTGTCCCAATTTGAATATTTAT
324 TGGCAGGGCAGTTTGGCTGG-TAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTAT
*
53598021 AAA
388 AGA
* * *
53598024 AATATCCTCTTAATTTTGCATTTAATCAAATATTGGAAGGGCTGTTTGGCTGGGTAGTTTGGCAT
1 AATGTCCTCTTAATTTTGCATTCAATCAAATATTGGAAGGGCAGTTTGGCTGGGTAGTTTGGCAT
** * * * * * *
53598089 GGTAGTCTATTCCATCCCAATTTGAATGTTTATAGAAATGTCCTTTTAATATTACATTCAATCAA
66 GACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCAA
* *
53598154 ATATTGGCAAGGCAGTTTGGCTGGGTAGTTTGGCTTGACAGTCCATTTCGTCCCAATTTGAATGT
131 ATTTTGGCAAGGCAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGT
* *
53598219 TTAAAGAAATGTCCT-TTTATTTTGCATTCAATC-AATTTTGGTAGGGAAGTTTGGCATGACAGT
196 TTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGGTAGGGAAGTTTGGCATGACAGT
* * *
53598282 CTATTTTGTCCCAATTTGAAAGTTTATTGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTG
261 CCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTG
* * * *
53598347 GCAGGGCAGTTTGGTTGGATAGTTTGCCATGACAGTCCATTTTGTCCCAATTTGAATGCTTATAA
326 GCAGGGCAGTTTGGCTGG-TAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAG
53598412 A
390 A
* * * *
53598413 AATATCCTCTTAATTTTGCATTTAATCAAATATTGGAAGGGCTGTTTGGCTAGGTAGTTTGGCAT
1 AATGTCCTCTTAATTTTGCATTCAATCAAATATTGGAAGGGCAGTTTGGCTGGGTAGTTTGGCAT
** * * * * *
53598478 GGTAGTCCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCCTTTTAATATTACATTTTAA-CA
66 GACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTTTTAATTTTGCA-TTCAATCA
* * * *
53598542 AATATTGGCAAGGCAGTTTGGTTGGGTAGTTTGGCTTGATAGTCCATTTCGTCCCAATTTGAATG
130 AATTTTGGCAAGGCAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATG
* * * * *
53598607 CTTATTGAAATGTCTTCTTAATTTTGCATTCAATC-AATTTTGGCAGGGAAGTTTGGCATGACAA
195 TTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGGTAGGGAAGTTTGGCATGACAG
*
53598671 TCCATTTTGTCCCAATTTGAAAGTTTATTA-AAATGTCCTCTTAATTTTGCATTCAATCAAATTT
260 TCCATTTTGTCCCAATTTGAATGTTTA-TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTT
* * *
53598735 T------G--G-TT-G--GGTAGTTTGGCATGACCGTCCATTTCTTCCAAATTTGAACT-CTTAT
324 TGGCAGGGCAGTTTGGCTGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAA-TGCTTAT
53598787 AGA
388 AGA
** * * * *
53598790 AATGTTATCTTAATTTTGCAGTCAGTCAAATTTTGGCAA----A-----AC-----AGTTTGGCA
1 AATGTCCTCTTAATTTTGCATTCAATCAAATATTGG-AAGGGCAGTTTGGCTGGGTAGTTTGGCA
* * * *
53598841 TGATAGTCCATTTTGTCCCAATTTGAATACTTATAGAAATGTCCTCTTAATTTTGCATTCAATC-
65 TGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCA
* * * **
53598905 AATTTTGGC-AGGTAAGTTTTGCTGGGTAGTTTGGCATGGCAGTTTATTTCGTCCCAATTTGAAT
130 AATTTTGGCAAGG-CAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAAT
* * * * * *
53598969 GTTTATCGAAATATCCTCTTAATTTTGCATTTAATCAAATTTTGGCAAGGAAATTTGGC-TAGAC
194 GTTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGGTAGGGAAGTTTGGCAT-GAC
* * *
53599033 ATTTTGGAATGACTATCCATTTTATCCCAATTTAAACT-CTTATA-AAACTGTCCTCTTAATTTT
258 --------A-G----TCCATTTTGTCCCAATTTGAA-TGTTTATAGAAA-TGTCCTCTTAATTTT
* ** * * * *
53599096 GCATTCAATCAATTTTTGGTTGGGTAGTTTGGCTGGGTAGTTTGGCATGGCA-TCCCATTTCATT
308 GCATTCAATCAAATTTTGGCAGGGCAGTTTGGCT-GGTAGTTTGGCATGACAGT-CCATTTCGTC
53599160 CCAATTTGAATGCTTATAGA
371 CCAATTTGAATGCTTATAGA
* * * * * * * * *
53599180 AATATTCTCTTAATTTTACATTCAATC-AATTTTGGCAGGGCAATTTGGTTAGGTAATTTGGCAT
1 AATGTCCTCTTAATTTTGCATTCAATCAAATATTGGAAGGGCAGTTTGGCTGGGTAGTTTGGCAT
* * * * * *
53599244 GACAGTCCATTTCGCCCCAATTTGAATACTTATAGAAATGT-TTTGTTAAATTTGAATTCAATCC
66 GACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTT-TTAATTTTGCATTCAATCA
* * * * * *
53599308 AATTTTGGTAGGGTAGTTTGGCTTGGGTAGTTTGGCATGATAGTCCATCTT-TTCCAAATTTGAA
130 AATTTTGGCAAGGCAGTTTGGC-TGGGTAGTTTGGCATGACAGTCCAT-TTCGTCCCAATTTGAA
* *
53599372 TGCTTATAGAAATTTCCTCTTAATTTTG-ATTTCAATCAAATTTTGAAAGAGAAGGTTGACTGGG
193 TGTTTATAGAAATGTCCTCTTAATTTTGCA-TTCAATCAAATTTT---------GG-T-A--GGG
* * * * *
53599436 TAGTTTGGCCTGACAGTCCGTTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTG
244 AAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTG
* * * * * *
53599501 CATTCAATCCAATTTTGGCAAGGCA--AT-G--GGTAGTTTGGCATGACAGTACATTTCATCCTA
309 CATTCAATCAAATTTTGGCAGGGCAGTTTGGCTGGTAGTTTGGCATGACAGTCCATTTCGTCCCA
**
53599561 ATTTGAATTTTTATAGA
374 ATTTGAATGCTTATAGA
* * * * *
53599578 AATGTCCTCTTAATTTTGCATTTAATCAAATATTGGTAGGACAGATTGGCTGGGTAGTTTGACAT
1 AATGTCCTCTTAATTTTGCATTCAATCAAATATTGGAAGGGCAGTTTGGCTGGGTAGTTTGGCAT
* * * * * *
53599643 GACAATCCATTTCGTCCCAATTTAAATACATATAGAAATAT-C--TTAATTTTGCATTCCATC-A
66 GACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCAA
* * * * * * *
53599704 ATTTTGGTAGGGCAGTTTCGCTGGGTAGATTGACATGACAGTCCATTTCGTCCTAATTTTAATGT
131 ATTTTGGCAAGGCAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGT
* *
53599769 TTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTAGGCAGGGTAGTTTTGCTAGGTAGT
196 TTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTT-----TGGTA-----G---GGAAGT
* * * * * *
53599834 TTGGCATAACAGTCAATTTTGTCCCAATTTTAATGCTTATAGAAATGTCTTCTTAATTTTACATT
248 TTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGCATT
* * * * * * *
53599899 CAATCTAATTTTGGTAGGCCAGTTTGGCTGGATAGTTTGCCATTACAGTACATTTCGTCCCGATT
313 CAATCAAATTTTGGCAGGGCAGTTTGGCTGG-TAGTTTGGCATGACAGTCCATTTCGTCCCAATT
* *
53599964 TGAATGCGTACAGA
377 TGAATGCTTATAGA
* * ** *** *
53599978 AAT-TTCTCTTAATTTTGCATTTAATCAAAT-TTTAACAACACAGTTTGGCTGGGTAGTTCGGCA
1 AATGTCCTCTTAATTTTGCATTCAATCAAATATTGGA-AGGGCAGTTTGGCTGGGTAGTTTGGCA
* * * * *
53600041 TGACAGTCCATTTCGTCCAAATTTGAGTGCCTATTGAAATGTCCTCTTAATTTTGCATTCAATCA
65 TGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCA
* * * * *
53600106 AA-TTT------G-A---T--AT-GGAAGTTTGGCATGACAGTTCATTTCTTCCTAATTTGAATG
130 AATTTTGGCAAGGCAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATG
* * * * *
53600157 TTTATAGAAATATTCTCTTAATTTTACATTCAATCAAATTTCGGCACAACAGTTTGGTTGGATAG
195 TTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTT-TG-------G--TAG--GGA-AG
* * * * * *
53600222 TTTGGCATGACAGTCTATTTTGTCCCAATTTGAATGCTGATAGAAATATTCTCTTAATGTTGCAT
247 TTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGCAT
* * ** * * * *
53600287 TCAGTCAAATATTGGCAGGGTTGTTTGGCCAGGTAGTTTGGCATGATAGTTCATTTCATCCCAAT
312 TCAATCAAATTTTGGCAGGGCAGTTTGG-CTGGTAGTTTGGCATGACAGTCCATTTCGTCCCAAT
*
53600352 TTGAATGTTTATAGA
376 TTGAATGCTTATAGA
* * * *
53600367 AATGTCCTCTTAATTTTGCATTCAATCAAATATTTGTAGGCCAGTTTGGCTAGGTAGTTTGGCAT
1 AATGTCCTCTTAATTTTGCATTCAATCAAATATTGGAAGGGCAGTTTGGCTGGGTAGTTTGGCAT
* * * * * *
53600432 GATAGTCTATTTCGTCCCAATTTTGACA--CTTACAAAAATTTCCTTTTAATTTTGCATACAATC
66 GACAGTCCATTTCGTCCCAA-TTTGA-ATGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATC
* * *
53600495 AAATTTT--------A-----GCTAGGTAGTTTGGCATGACATTCCATTTCATCCCAATTTGAAT
129 AAATTTTGGCAAGGCAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAAT
* * *
53600547 GTTTATAGAAATGTTCTCTTAATTTTGCATTCAATTAAATTTTGGCAGGGCAATTTCATTTGATA
194 GTTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGGTA-GG-----------GA-A
* * * *
53600612 GTTTAGCATG-CAGTCCATTTTGTCCC-ATTTGAATGCTTATATAAATATCCTCTTAATTTTGCA
246 GTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGCA
* * * * * * **
53600675 TTCAATCAAATATTGGTAGGGCTGTTTGGCTGAGTAGTTTGGCATAATAGTCCATTTCATCTTAA
311 TTCAATCAAATTTTGGCAGGGCAGTTTGGCTG-GTAGTTTGGCATGACAGTCCATTTCGTCCCAA
*
53600740 TTTGAATGTTTATAGA
375 TTTGAATGCTTATAGA
** * * * * * * * * *
53600756 AATGAACTTTTAATATTGTATTCAATCAAATATTGGCACGACAGTTGGGCTGGGTAGTTTGACTT
1 AATGTCCTCTTAATTTTGCATTCAATCAAATATTGGAAGGGCAGTTTGGCTGGGTAGTTTGGCAT
* * * *
53600821 GACAGTCCATTTCATCCCAATTTGAATGCTTATAGAAATGTTCTCTTAATTTTGCATTCAATC-G
66 GACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCAA
* * * *
53600885 ATTTT------G--G--TAGCT---AAGTTTGGCATGACAGTCCATTTCTTCCCAATTT-AAAGT
131 ATTTTGGCAAGGCAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGT
* * *
53600936 TTATCGAAATGTCCTATTAATTTTGCATTCAATCAAATTTTGGCT-GGGAAATTTGGCTGGGTAG
196 TTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGG-TAGGGAAGTTTGGC-----A-
** * * * *
53601000 TTTGACATGACAATCCATTTCATCCAAATTTGAACT-CTTATAGAAATGTCATCTTAATTTTTCA
254 --TGACA-G----TCCATTTTGTCCCAATTTGAA-TGTTTATAGAAATGTCCTCTTAATTTTGCA
* ** * * * *
53601064 TTTAATCAAATTTTGGCTAGGATA-TTTTGTTATGTAGTTTGGCATAACAGTCCATTTCGTCCCA
311 TTCAATCAAATTTTGGC-AGGGCAGTTTGGCT-GGTAGTTTGGCATGACAGTCCATTTCGTCCCA
53601128 ATTTGAATGCTTATAGA
374 ATTTGAATGCTTATAGA
* * * **** * * *
53601145 TATGTCATCTTAATTTTGCATTCAATC-AATTTTTCCTGGGAAGTTT-TCTGGGTAGTTTTGCAT
1 AATGTCCTCTTAATTTTGCATTCAATCAAATATTGGAAGGGCAGTTTGGCTGGGTAGTTTGGCAT
* * * * ** * *
53601208 GACAGTCAATTTCATCCCAATTTGAATGTTTATCGAAATACCCTCTTAATTTTGCATTTAATCAA
66 GACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCAA
* * * * * * * * * * * *
53601273 ATCTTGGTAGGGAAATTTGGCTGGGTATTTTAGCATGTCTGTCTATTTCATCCCAGTTTGAACT-
131 ATTTTGGCAAGGCAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAA-TG
* * *
53601337 TTTATAGAAATGTCAC-CTTAATTTTGCATTCAATCAAATTTT-TTGCGGTGTTA-TTTGGCATG
195 TTTATAGAAATGTC-CTCTTAATTTTGCATTCAATCAAATTTTGGT-AGG-G-AAGTTTGGCATG
** ** * * * * *
53601399 GTA-TCCCATTTCATCCCAATTTGAATGCTTATAGACATGTCTTATTAATTTTGCATTTAATC-A
256 ACAGT-CCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAA
* * * * *
53601462 ATATTGGCAGGGAAGTGTT-TCTAGGTAGTTTGGCATGACAGTCCGTTTAGTCCCAATTTGAATG
320 ATTTTGGCAGGGCAGT-TTGGCT-GGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATG
53601526 CTTATAGA
383 CTTATAGA
* * * * * *
53601534 ATTGTCCTCTGAATTTTGCATT-AATC-AAT-TTTGCAGGGTAGTTTGGCTGGGTAGGCTT-GCA
1 AATGTCCTCTTAATTTTGCATTCAATCAAATATTGGAAGGGCAGTTTGGCTGGGTA-GTTTGGCA
* *
53601595 TGACAGTCCATTTCGTACCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATC-
65 TGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCA
* * * * ** *
53601659 AATTGTAGCATGACAGTTTGGCTGGGTAGTTTGGCATGATTGTCCATTTCGTCCCATTTTGAATG
130 AATTTTGGCAAGGCAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATG
* *
53601724 CTTATAG-AATGTCCTTTTAATTTTGCATTCAATC-AATTTTGGCAGGGTAGTTTGGTTGGATAG
195 TTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT-----GGTA-----G--GGA-AG
** ** * * * * * *
53601787 TTTTCCATGACAGTCCACGTCGT-CTAAGTTAGAATGTTTATAGAAATATCATCTTAATTTTGAA
247 TTTGGCATGACAGTCCATTTTGTCCCAA-TTTGAATGTTTATAGAAATGTCCTCTTAATTTTGCA
* * * *
53601851 TTCAATCAAATTTTGGTAGGGCGGTTTGGCTGAGTAGTTTGGCATGACAGTCCGTTTCATCCCAA
311 TTCAATCAAATTTTGGCAGGGCAGTTTGGCTG-GTAGTTTGGCATGACAGTCCATTTCGTCCCAA
* * *
53601916 CTTGAATGTTTATAGT
375 TTTGAATGCTTATAGA
* *
53601932 AATGTTCTCTTAATTTTGCATTCAATCAAATTTTGGCAA-GG-A------------AGTTTGGCA
1 AATGTCCTCTTAATTTTGCATTCAATCAAATATTGG-AAGGGCAGTTTGGCTGGGTAGTTTGGCA
* * * * * *
53601983 TGATAGTCCATTTCGTCCCAATTTGAATGCTTTTAGAAATATCCTTTTAAATTTACACTCAATCA
65 TGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCA
* * * * *
53602048 AATTTTGGC-AGGACAATTTGGCT-GGTAGTTTTGCATGACAGTTCATTTCATCCCAATTTTAAT
130 AATTTTGGCAAGG-CAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAAT
* *
53602111 -TCTTTTA-ATAATGTCCTCTTAATTTTGCATTCAATC-AATTTCAGTAGAGCAGTTTTGTCGAG
194 GT-TTATAGA-AATGTCCTCTTAATTTTGCATTCAATCAAATTT---T-G-GTAG----G--GA-
* * * * * * *
53602173 TAGTTTTGCATGACAGTCCATTTCGTACCGATTTAAATGTTTATAGAAATGTCTTCTTAATTTGG
245 -AGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTG
* * * * * *
53602238 AATTCAATAAAATTTTGG-A----AG---GGC----AGTTTGGCTTGACAATCAATTTTGTCCCA
309 CATTCAATCAAATTTTGGCAGGGCAGTTTGGCTGGTAGTTTGGCATGACAGTCCATTTCGTCCCA
53602291 ATTTGAATGCTTATAGA
374 ATTTGAATGCTTATAGA
* * * * **
53602308 AATGTCTTCTTAATTTTGAATTCAACCAAATATTGGCAA-GGTAGTTTGGCTCCGTAGTTTGGCA
1 AATGTCCTCTTAATTTTGCATTCAATCAAATATTGG-AAGGGCAGTTTGGCTGGGTAGTTTGGCA
* * * * *
53602372 TGACAGTCCATTTCATCCCAATTTGAATGTTTATAGAAATGTCCTTTTAATTATGTATTTAATCA
65 TGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCA
* * * * *
53602437 AATATT----A-GCA--------GGGTAATTTGGTATGATAGTCCATTTCGTCCTAATTTGAATG
130 AATTTTGGCAAGGCAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATG
* * * * *
53602489 CTTATAGAAATGTTCTCTTAATTTTGCATTCAAT-TAGTTTTGGTAGGGAGGTTTGG
195 TTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGGTAGGGAAGTTTGG
53602545 TTGGGTAGTT
Statistics
Matches: 3677, Mismatches: 593, Indels: 523
0.77 0.12 0.11
Matches are distributed among these distances:
362 3 0.00
363 87 0.02
364 89 0.02
366 2 0.00
368 1 0.00
369 1 0.00
372 4 0.00
373 1 0.00
374 7 0.00
375 2 0.00
376 78 0.02
377 187 0.05
378 6 0.00
379 1 0.00
380 2 0.00
381 5 0.00
382 4 0.00
383 4 0.00
384 6 0.00
385 28 0.01
386 35 0.01
387 184 0.05
388 287 0.08
389 1116 0.30
390 479 0.13
391 107 0.03
392 4 0.00
393 2 0.00
394 153 0.04
395 26 0.01
396 22 0.01
397 54 0.01
398 149 0.04
399 153 0.04
400 47 0.01
401 33 0.01
402 127 0.03
403 27 0.01
404 131 0.04
405 5 0.00
408 1 0.00
409 1 0.00
413 2 0.00
415 1 0.00
417 12 0.00
418 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (390 bp):
AATGTCCTCTTAATTTTGCATTCAATCAAATATTGGAAGGGCAGTTTGGCTGGGTAGTTTGGCAT
GACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCAA
ATTTTGGCAAGGCAGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGT
TTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGGTAGGGAAGTTTGGCATGACAGT
CCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTG
GCAGGGCAGTTTGGCTGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGA
Found at i:53598705 original size:87 final size:88
Alignment explanation
Indices: 53598569--53598923 Score: 425
Period size: 88 Copynumber: 4.1 Consensus size: 88
53598559 TTGGTTGGGT
* * * * * *
53598569 AGTTTGGCTTGATAGTCCATTTCGTCCCAATTTGAATGCTTATTGAAATGTCTTCTTAATTTTGC
1 AGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAAAGCTTATAGAAATGTCCTCTTAATTTTGC
53598634 ATTCAATC-AATTTTGGCAGGGA
66 ATTCAATCAAATTTTGGCAGGGA
* *
53598656 AGTTTGGCATGACAATCCATTTTGTCCCAATTTGAAAGTTTATTA-AAATGTCCTCTTAATTTTG
1 AGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAAAGCTTA-TAGAAATGTCCTCTTAATTTTG
** *
53598720 CATTCAATCAAATTTTGGTTGGGT
65 CATTCAATCAAATTTTGGCAGGGA
* * ** **
53598744 AGTTTGGCATGACCGTCCATTTCT-TCCAAATTTGAACTCTTATAGAAATGTTATCTTAATTTTG
1 AGTTTGGCATGACAGTCCATTT-TGTCCCAATTTGAAAGCTTATAGAAATGTCCTCTTAATTTTG
* * **
53598808 CAGTCAGTCAAATTTTGGCA-AAA
65 CATTCAATCAAATTTTGGCAGGGA
*
53598831 CAGTTTGGCATGATAGTCCATTTTGTCCCAATTTGAATA-CTTATAGAAATGTCCTCTTAATTTT
1 -AGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAA-AGCTTATAGAAATGTCCTCTTAATTTT
*
53598895 GCATTCAATC-AATTTTGGCAGGTA
64 GCATTCAATCAAATTTTGGCAGGGA
53598919 AGTTT
1 AGTTT
53598924 TGCTGGGTAG
Statistics
Matches: 224, Mismatches: 36, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
87 81 0.36
88 142 0.63
89 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (88 bp):
AGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAAAGCTTATAGAAATGTCCTCTTAATTTTGC
ATTCAATCAAATTTTGGCAGGGA
Found at i:53599132 original size:13 final size:13
Alignment explanation
Indices: 53599110--53599141 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
53599100 TCAATCAATT
*
53599110 TTTGGTTGGGTAG
1 TTTGGCTGGGTAG
53599123 TTTGGCTGGGTAG
1 TTTGGCTGGGTAG
53599136 TTTGGC
1 TTTGGC
53599142 ATGGCATCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.06, G:0.44, T:0.44
Consensus pattern (13 bp):
TTTGGCTGGGTAG
Found at i:53600187 original size:87 final size:87
Alignment explanation
Indices: 53600032--53600197 Score: 233
Period size: 87 Copynumber: 1.9 Consensus size: 87
53600022 TTGGCTGGGT
* * * *
53600032 AGTTCGGCATGACAGTCCATTTCGTCCAAATTTGAGTGCCTATTGAAATGTCCTCTTAATTTTGC
1 AGTTCGGCATGACAGTCCATTTCGTCCAAATTTGAATGCCTATAGAAATATCCTCTTAATTTTAC
53600097 ATTCAATCAAATTTGATATGGA
66 ATTCAATCAAATTTGATATGGA
* * * * ** *
53600119 AGTTTGGCATGACAGTTCATTTCTTCCTAATTTGAATGTTTATAGAAATATTCTCTTAATTTTAC
1 AGTTCGGCATGACAGTCCATTTCGTCCAAATTTGAATGCCTATAGAAATATCCTCTTAATTTTAC
53600184 ATTCAATCAAATTT
66 ATTCAATCAAATTT
53600198 CGGCACAACA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (87 bp):
AGTTCGGCATGACAGTCCATTTCGTCCAAATTTGAATGCCTATAGAAATATCCTCTTAATTTTAC
ATTCAATCAAATTTGATATGGA
Found at i:53600569 original size:88 final size:88
Alignment explanation
Indices: 53600415--53600589 Score: 212
Period size: 88 Copynumber: 2.0 Consensus size: 88
53600405 GGCCAGTTTG
* * * *
53600415 GCTAGGTAGTTTGGCATGATAGTCTATTTCGTCCCAATTTTGACACTTACAAAAATTTCCTTTTA
1 GCTAGGTAGTTTGGCATGACAGTCCATTTCATCCCAATTTTGACACTTACAAAAATTTCCTCTTA
53600480 ATTTTGCATACAATCAAATTTTA
66 ATTTTGCATACAATCAAATTTTA
* * * *
53600503 GCTAGGTAGTTTGGCATGACATTCCATTTCATCCCAA-TTTGA-ATGTTTATAGAAATGTT-CTC
1 GCTAGGTAGTTTGGCATGACAGTCCATTTCATCCCAATTTTGACA--CTTACAAAAAT-TTCCTC
* *
53600565 TTAATTTTGCATTCAATTAAATTTT
63 TTAATTTTGCATACAATCAAATTTT
53600590 GGCAGGGCAA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
86 1 0.01
87 5 0.07
88 66 0.89
89 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (88 bp):
GCTAGGTAGTTTGGCATGACAGTCCATTTCATCCCAATTTTGACACTTACAAAAATTTCCTCTTA
ATTTTGCATACAATCAAATTTTA
Found at i:53600976 original size:87 final size:87
Alignment explanation
Indices: 53600811--53600978 Score: 239
Period size: 87 Copynumber: 1.9 Consensus size: 87
53600801 TGGGCTGGGT
* * * *
53600811 AGTTTGACTTGACAGTCCATTTCATCCCAATTTGAATGCTTATAGAAATGTTCTCTTAATTTTGC
1 AGTTTGACATGACAGTCCATTTCATCCCAATTTGAAAGCTTATAGAAATGTCCTATTAATTTTGC
*
53600876 ATTCAATCGATTTTGGTAGCTA
66 ATTCAATCAATTTTGGTAGCTA
* * * *
53600898 AGTTTGGCATGACAGTCCATTTCTTCCCAATTT-AAAGTTTATCGAAATGTCCTATTAATTTTGC
1 AGTTTGACATGACAGTCCATTTCATCCCAATTTGAAAGCTTATAGAAATGTCCTATTAATTTTGC
53600962 ATTCAATCAAATTTTGG
66 ATTCAATC-AATTTTGG
53600979 CTGGGAAATT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
86 34 0.48
87 37 0.52
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (87 bp):
AGTTTGACATGACAGTCCATTTCATCCCAATTTGAAAGCTTATAGAAATGTCCTATTAATTTTGC
ATTCAATCAATTTTGGTAGCTA
Found at i:53602045 original size:88 final size:88
Alignment explanation
Indices: 53601886--53602057 Score: 229
Period size: 88 Copynumber: 2.0 Consensus size: 88
53601876 TTGGCTGAGT
* * * * * *
53601886 AGTTTGGCATGACAGTCCGTTTCATCCCAACTTGAATGTTTATAGTAATGTTCTCTTAATTTTGC
1 AGTTTGGCATGACAGTCCATTTCATCCCAACTTGAATGTTTATAGAAATATCCTCTTAAATTTAC
*
53601951 ATTCAATCAAATTTTGGCAAGGA
66 ACTCAATCAAATTTTGGCAAGGA
* * * *
53601974 AGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGCTTT-TAGAAATATCCTTTTAAATTTA
1 AGTTTGGCATGACAGTCCATTTCATCCCAACTTGAATG-TTTATAGAAATATCCTCTTAAATTTA
53602038 CACTCAATCAAATTTTGGCA
65 CACTCAATCAAATTTTGGCA
53602058 GGACAATTTG
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 69 0.96
89 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (88 bp):
AGTTTGGCATGACAGTCCATTTCATCCCAACTTGAATGTTTATAGAAATATCCTCTTAAATTTAC
ACTCAATCAAATTTTGGCAAGGA
Found at i:53602492 original size:189 final size:183
Alignment explanation
Indices: 53602071--53602868 Score: 633
Period size: 188 Copynumber: 4.2 Consensus size: 183
53602061 CAATTTGGCT
* * * * * *
53602071 GGTAGTTTTGCATGACAGTTCATTTCATCCCAATTTTAATTCTTTTA-ATAATGTCCTCTTAATT
1 GGTAGTTTGGCATGACAGTCCATTTCGT-CCAATTTGAA-TCTTATAGA-AATGT-TTCTTAATT
** * * * *
53602135 TTGCATTCAATC-AATTTCAGTAGAGCAGTTTTG-TCGAGTAGTTTTGCATGACAGTCCATTTCG
62 TTGCATTCAA-CAAATTTTGGAAG-GCAGTTTGGCTC--GTAGTTTGGCATGACAGTCCATTTCA
* * * * * *
53602198 TACCGATTTAAATGTTTATAGAAATGT-CTTCTTAATTTGGAATTCAATAAAATTTTGGAAG
123 TCCCAATTTGAATGTTTATAGAAATGTCCTT-TTAATTTTGAATTCAATCAAATTTTGGCAG
* * * * *
53602259 GGCAGTTTGGCTTGACAATCAATTTTGTCCCAATTTGAATGCTTATAGAAATGTCTTCTTAATTT
1 GGTAGTTTGGCATGACAGTCCATTTCGT-CCAATTTGAAT-CTTATAGAAATGT-TTCTTAATTT
* * *
53602324 TGAATTCAACCAAATATTGGCAAGGTAGTTTGGCTCCGTAGTTTGGCATGACAGTCCATTTCATC
63 TGCATTCAA-CAAATTTTGG-AAGGCAGTTTGGCT-CGTAGTTTGGCATGACAGTCCATTTCATC
* * * * *
53602389 CCAATTTGAATGTTTATAGAAATGTCCTTTTAATTATGTATTTAATCAAATATTAGCAG
125 CCAATTTGAATGTTTATAGAAATGTCCTTTTAATTTTGAATTCAATCAAATTTTGGCAG
* * *
53602448 GGTAATTTGGTATGATAGTCCATTTCGTCCTAATTTGAATGCTTATAGAAATGTTCTCTTAATTT
1 GGTAGTTTGGCATGACAGTCCATTTCGTCC-AATTTGAAT-CTTATAGAAATGTT-TCTTAATTT
** * * * * * * *
53602513 TGCATTCAATTAGTTTTGGTAGGGAGGTTTGGTTGGGTAGTTTGACATGACAGTCCATTTCATTC
63 TGCATTCAACAAATTTTGGAAGGCA-GTTTGGCT-CGTAGTTTGGCATGACAGTCCATTTCATCC
* ** *
53602578 TAATTTGAAAATTTATCA-AAATGTCCTTTTAATTTTGAATTTAATCAAATTTTGGCTA-
126 CAATTTGAATGTTTAT-AGAAATGTCCTTTTAATTTTGAATTCAATCAAATTTTGGC-AG
** * * * *
53602636 GGTAGTTTGGCATGATTGTACATTTCATCCATATTTGAACTCTTATAGAAATGTAATATTAATTT
1 GGTAGTTTGGCATGACAGTCCATTTCGTCCA-ATTTGAA-TCTTATAGAAATGT-TTCTTAATTT
* * ** * ** * * **
53602701 TGCATTTAAACAAATTTTGGTAGGGCAGTTTCACTTGATAGTTCT-TTATGATAGTCTATTTTGT
63 TGCA-TTCAACAAATTTTGG-AAGGCAGTTTGGCTCG-TAGTT-TGGCATGACAGTCCATTTCAT
* * **
53602765 CCCAATTTGAATGCTTT-TAGAAATGTCATCTTAATTTTGCGTTCAATC-AATTTTGGCAG
124 CCCAATTTGAATG-TTTATAGAAATGTCCTTTTAATTTTGAATTCAATCAAATTTTGGCAG
*
53602824 GGTAGTTTGGCATGACAGTCCATTTTGTCCAAATTTGAATCTTAT
1 GGTAGTTTGGCATGACAGTCCATTTCGTCC-AATTTGAATCTTAT
53602869 GTAACATCCC
Statistics
Matches: 490, Mismatches: 97, Indels: 47
0.77 0.15 0.07
Matches are distributed among these distances:
187 13 0.03
188 249 0.51
189 214 0.44
190 13 0.03
191 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (183 bp):
GGTAGTTTGGCATGACAGTCCATTTCGTCCAATTTGAATCTTATAGAAATGTTTCTTAATTTTGC
ATTCAACAAATTTTGGAAGGCAGTTTGGCTCGTAGTTTGGCATGACAGTCCATTTCATCCCAATT
TGAATGTTTATAGAAATGTCCTTTTAATTTTGAATTCAATCAAATTTTGGCAG
Found at i:53602554 original size:477 final size:479
Alignment explanation
Indices: 53597910--53602625 Score: 1556
Period size: 490 Copynumber: 9.7 Consensus size: 479
53597900 TTTCCAATTT
* * * * * * *
53597910 GAATGTTTATAGAAATATTC-TTTTAATTTTGCATTCAATCAAATTTTAGCAGGGCAGTTTGGCT
1 GAATGCTTATAGAAATA-TCATCTTAATTTTGAATTCAACCAAATATTGGCAAGGCAGTTTGGCT
* * ** * * * *
53597974 -GGATAGTTTAGCATGACAGTCCATTTTGTCCCAATTTGAATATTTATAAAAATATCCTCTTAAT
65 CAG-TAGTTTGGCATGACAGTCCATTTCATCCCAACTTGAATGTTTATAGAAATGTCCTCTTAAT
* * ** * * * * *
53598038 TTTGCATTTAATCAAATATTGGAAGGGCTGTTTGGCTGGGTAGTTTGGCATGGTAGTCTATTCCA
129 TATGCATTCAATCAAATATT---A----------GCAAGGTAATTTGGCATGATAGTCCATTTCG
* * * * * *
53598103 TCCCAATTTGAATGTTTATAGAAATGTCCTTTTAATATTACATTCAATCAAATATTGGCAAGGCA
181 TCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAAT-AAATTTTGGC-AGGGA
* * * * *
53598168 GTTTGGCTGGGTAGTTTGGCTTGACAGTCCATTTCGTCCCAATTTGAATGTTTAAAGAAATGTCC
244 GTTTGGCTGGGTAGTTT-GCATGACAGTCCATTTCATACCAATTTGAATGCTTATAGAAATGTCC
* * *
53598233 T-TTTATTTTGCATTCAATCAATT-T----TG---G-TAGG--GA--AGTTTGGCATGACAGTCT
308 TCTTAATTTTGCATTCAATCAATTGTAGCATGACAGTTTGGCTGAGTAGTTTGGCATGACAGTCC
* * * * * * *
53598284 ATTTTGTCCCAATTTGAAA-GTTTATTGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGG
373 ATTTCGTCCC-ATTTTAAATGCTTATAG-AATGTCCTTTTAATTTGGAATTCAAT-AAATTTTGG
* * * * *
53598348 CAGGGCAGTTTGGTTGGATAGTTTGCCATGACAGTCCATTTTGTC-CCAA-TTT
435 AAGGGCAGTTTGGTTGGA-A---T-CAAT-ACAATCCA---CGTCGCCAAGTTA
* * * * * *
53598400 GAATGCTTATAAAAATATCCTCTTAATTTTGCATTTAATCAAATATTGG-AAGGGCTGTTTGGCT
1 GAATGCTTATAGAAATATCATCTTAATTTTGAATTCAACCAAATATTGGCAA-GGCAGTTTGGCT
** ** * *
53598464 -AGGTAGTTTGGCATGGTAGTCCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCCTTTTAA-
65 CA-GTAGTTTGGCATGACAGTCCATTTCATCCCAACTTGAATGTTTATAGAAATGTCCTCTTAAT
* * * * *
53598527 TATTACATTTTAA-CAAATATTGGCAAGGCAGTTTGGTTGGGTAGTTTGGCTTGATAGTCCATTT
129 TA-TGCA-TTCAATCAAATATT----A-GCA--------AGGTAATTTGGCATGATAGTCCATTT
* * *
53598591 CGTCCCAATTTGAATGCTTATTGAAATGTCTTCTTAATTTTGCATTCAATCAATTTTGGCAGGGA
179 CGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATAAATTTTGGCAGGGA
* ** * * *
53598656 ------------AGTTTGGCATGACAATCCATTTTGTCCCAATTTGAAAGTTTATTA-AAATGTC
244 GTTTGGCTGGGTAGTTT-GCATGACAGTCCATTTCATACCAATTTGAATGCTTA-TAGAAATGTC
*
53598708 CTCTTAATTTTGCATTCAATCAAATT-T----TG---G-TT-G--G-GTAGTTTGGCATGACCGT
307 CTCTTAATTTTGCATTCAATC-AATTGTAGCATGACAGTTTGGCTGAGTAGTTTGGCATGACAGT
* * * * ** * * * * *
53598760 CCATTTCTTCCAAATTTGAACT-CTTATAGAAATGTTATCTTAATTTTGCAGTCAGTCAAATTTT
371 CCATTTCGTCC-CATTTTAAATGCTTATAG-AATGTCCTTTTAATTTGGAATTCAAT-AAATTTT
** * * * *** *
53598824 GGCAA-AACAGTTTGGCAT-G-AT-AGT-CCAT-TTTGTC-CCAA-TTT
433 GG-AAGGGCAGTTTGG-TTGGAATCAATACAATCCACGTCGCCAAGTTA
* * * * * * * *
53598865 GAATACTTATAGAAATGTCCTCTTAATTTTGCATTCAATC-AATTTTGGC-AGGTAAGTTTTGCT
1 GAATGCTTATAGAAATATCATCTTAATTTTGAATTCAACCAAATATTGGCAAGG-CAGTTTGGCT
** * ** * * * *
53598928 GGGTAGTTTGGCATGGCAGTTTATTTCGTCCCAATTTGAATGTTTATCGAAATATCCTCTTAATT
65 CAGTAGTTTGGCATGACAGTCCATTTCATCCCAACTTGAATGTTTATAGAAATGTCCTCTTAATT
* * * * * * **
53598993 TTGCATTTAATCAAATTTTGGCAAGGAAATTTGGCTAGACATTTTGGAATGACTATCCATTTTAT
130 ATGCATTCAATCAAATATTAGCAAGGTAATTT-G---G-CA---T-G-AT-A--GTCCATTTCGT
* * **
53599058 CCCAATTTAAACT-CTTATA-AAACTGTCCTCTTAATTTTGCATTCAATCAATTTTTGGTTGGGT
182 CCCAATTTGAA-TGCTTATAGAAA-TGTCCTCTTAATTTTGCATTCAAT-AAATTTTGGCAGGG-
* * *
53599121 AGTTTGGCTGGGTAGTTTGGCATGGCA-TCCCATTTCATTCCAATTTGAATGCTTATAGAAATAT
243 AGTTTGGCTGGGTAGTTT-GCATGACAGT-CCATTTCATACCAATTTGAATGCTTATAGAAATGT
* * * * * * * * *
53599185 TCTCTTAATTTTACATTCAATCAATTTTGGCAGGGCAATTTGG-TTAGGTAATTTGGCATGACAG
306 CCTCTTAATTTTGCATTCAATCAATTGTAGCATGACAGTTTGGCTGA-GTAGTTTGGCATGACAG
* * * * * *
53599249 TCCATTTCGCCCCAATTTGAATACTTATAGAAATGT-TTTGTTAAATTT-GAATTCAATCCAATT
370 TCCATTTCGTCCCATTTTAAATGCTTATAG-AATGTCCTT-TT-AATTTGGAATTCAAT-AAATT
* * * * * * ** * *
53599312 TTGGTAGGGTAGTTTGGCTTGGGTAGTTTGGC-ATGATAGTCCATCTTTTCCAAATTT
431 TTGGAAGGGCAGTTTGG-TT-GG-A--AT--CAAT-ACAATCCA-CGTCGCCAAGTTA
* * * * * * * * *
53599369 GAATGCTTATAGAAATTTCCTCTTAATTTTGATTTCAATCAAAT-TTTGAAAGAGAAGGTTGACT
1 GAATGCTTATAGAAATATCATCTTAATTTTGAATTCAACCAAATATTGGCAAG-GCAGTTTGGCT
** * * * * *
53599433 GGGTAGTTTGGCCTGACAGTCCGTTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATT
65 CAGTAGTTTGGCATGACAGTCCATTTCATCCCAACTTGAATGTTTATAGAAATGTCCTCTTAATT
* * * * * * * *
53599498 TTGCATTCAATCCAATTTTGGCAAGGCAATGGGTAGTTTGGCATGACAGTACATTTCATCCTAAT
130 ATGCATTCAATCAAATATT----A-GCAA--GGTAATTTGGCATGATAGTCCATTTCGTCCCAAT
** * * * * *
53599563 TTGAATTTTTATAGAAATGTCCTCTTAATTTTGCATTTAATCAAATATTGGTAGGACAGATTGGC
188 TTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAAT-AAATTTTGGCAGG-GAGTTTGGC
* * * * * * *
53599628 TGGGTAGTTTGACATGACAATCCATTTCGTCCCAATTTAAATACATATAGAAA--T-ATCTTAAT
251 TGGGTAGTTTG-CATGACAGTCCATTTCATACCAATTTGAATGCTTATAGAAATGTCCTCTTAAT
* * * * * * * * * *
53599690 TTTGCATTCCATCAATTTTGGTAGGGCAGTTTCGCTGGGTAGATTGACATGACAGTCCATTTCGT
315 TTTGCATTCAATCAATTGTAGCATGACAGTTTGGCTGAGTAGTTTGGCATGACAGTCCATTTCGT
* * * * * * * *
53599755 CCTAATTTT-AATGTTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTAGGCAGGGTA
380 CC-CATTTTAAATGCTTATAG-AATGTCCTTTTAATTTGGAATTCAAT-AAATTTTGGAAGGGCA
* * * * * * *
53599819 GTTTTGCTAGGTAGTTTGGC-ATAACAGTCAATTTTGTC-CCAA-TTT
442 G-TTTGGTTGG-A--AT--CAAT-ACAATCCA---CGTCGCCAAGTTA
* * * * * * *
53599864 TAATGCTTATAGAAATGTCTTCTTAATTTT-ACATTCAATCTAATTTTGG-TAGGCCAGTTTGGC
1 GAATGCTTATAGAAATATCATCTTAATTTTGA-ATTCAACCAAATATTGGCAAGG-CAGTTTGGC
* * * * * * * ** * *
53599927 T-GGATAGTTTGCCATTACAGTACATTTCGTCCCGATTTGAATGCGTACAGAAAT-TTCTCTTAA
64 TCAG-TAGTTTGGCATGACAGTCCATTTCATCCCAACTTGAATGTTTATAGAAATGTCCTCTTAA
* * * * * * *
53599990 TTTTGCATTTAATCAAATTTTAACAACACAGTTTGGCTGGGTAGTTCGGCATGACAGTCCATTTC
128 TTATGCATTCAATCAAATATT---AGCA-A---------GGTAATTTGGCATGATAGTCCATTTC
* * * *
53600055 GTCCAAATTTGAGTGCCTATTGAAATGTCCTCTTAATTTTGCATTCAATCAAA-TTT------GA
180 GTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAAT-AAATTTTGGCAGGGA
* * * * * * *
53600113 ---T--AT-GGAAGTTTGGCATGACAGTTCATTTC-TTCCTAATTTGAATGTTTATAGAAATATT
244 GTTTGGCTGGGTAGTTT-GCATGACAGTCCATTTCATACC-AATTTGAATGCTTATAGAAATGTC
* * ** *
53600171 CTCTTAATTTTACATTCAATCAAATT-TCGGCACAACAGTTTGGTTG-GATAGTTTGGCATGACA
307 CTCTTAATTTTGCATTCAATC-AATTGT-AGCATGACAGTTTGGCTGAG-TAGTTTGGCATGACA
* * * * * * * * * * *
53600234 GTCTATTTTGTCCCAATTTGAATGCTGATAGAAATATTCTCTTAATGTT-GCATTCAGTCAAATA
369 GTCCATTTCGTCCCATTTTAAATGCTTATAG-AATGTCCTTTTAAT-TTGGAATTCAAT-AAATT
* ** * * * * * *
53600298 TTGGCAGGGTTGTTTGGCCAGGTAGTTTGGCATGATAGTTCATTTCA--TC-CCAA-TTT
431 TTGGAAGGGCAGTTT------G--G-TTGGAATCA-A-TACAATCCACGTCGCCAAGTTA
* * * * * * *
53600354 GAATGTTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATATTTG-TAGGCCAGTTTGGCT
1 GAATGCTTATAGAAATATCATCTTAATTTTGAATTCAACCAAATATTGGCAAGG-CAGTTTGGCT
* * * * * * * * *
53600418 -AGGTAGTTTGGCATGATAGTCTATTTCGTCCCAATTTTGACA--CTTACAAAAATTTCCTTTTA
65 CA-GTAGTTTGGCATGACAGTCCATTTCATCCCAA-CTTGA-ATGTTTATAGAAATGTCCTCTTA
* * * * * * * *
53600480 ATTTTGCATACAATCAAATTTTAGCTAGGTAGTTTGGCATGACATTCCATTTCATCCCAATTTGA
127 ATTATGCATTCAATCAAATATTAGCAAGGTAATTTGGCATGATAGTCCATTTCGTCCCAATTTGA
* * * *** * *
53600545 ATGTTTATAGAAATGTTCTCTTAATTTTGCATTCAATTAAATTTTGGCAGGGCAATTTCATTTGA
192 ATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAA-TAAATTTTGGCAGGG-AGTTTGGCTGGG
** * * *
53600610 TAGTTTAGCATG-CAGTCCATTTTGT-CCCATTTGAATGCTTATATAAATATCCTCTTAATTTTG
255 TAGTTT-GCATGACAGTCCATTTCATACCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTG
* * * * * * * * *
53600673 CATTCAATCAAATAT-TGGTAGGGCTGTTTGGCTGAGTAGTTTGGCATAATAGTCCATTTCATCT
319 CATTCAATC-AAT-TGTAGCATGACAGTTTGGCTGAGTAGTTTGGCATGACAGTCCATTTCGTCC
* * * * ** * * * * *
53600737 TAATTTGAATGTTTATAGAAATGAACTTTTAATATT-GTATTCAATCAAATATTGGCACGACAGT
382 CATTTTAAATGCTTATAG-AATGTCCTTTTAAT-TTGGAATTCAAT-AAATTTTGGAAGGGCAGT
* * * * * * * *
53600801 TGGGCTGGGTAGTTTGACTTGACAGTCCATTTCATC-CCAA-TTT
444 TTGG-TTGG-A--ATCA-AT-ACAATCCA---CGTCGCCAAGTTA
* * * * * *
53600844 GAATGCTTATAGAAATGTTC-TCTTAATTTTGCATTCAATC-GAT-TT-----TG--G--TAGCT
1 GAATGCTTATAGAAAT-ATCATCTTAATTTTGAATTCAACCAAATATTGGCAAGGCAGTTTGGCT
* * * * *
53600897 -A--AGTTTGGCATGACAGTCCATTTCTTCCCAA-TTTAAAGTTTATCGAAATGTCCTATTAATT
65 CAGTAGTTTGGCATGACAGTCCATTTCATCCCAACTTGAATGTTTATAGAAATGTCCTCTTAATT
* * * * * * * *
53600958 TTGCATTCAATCAAATTTTGGCTGGGAAATTTGGCTGGGTAGTTTGACATGACAATCCATTTCAT
130 ATGCATTCAATCAAATATTAGC-----AA--------GGTAATTTGGCATGATAGTCCATTTCGT
* * * *
53601023 CCAAATTTGAACT-CTTATAGAAATGTCATCTTAATTTTTCATTTAATCAAATTTTGGCTA-GGA
182 CCCAATTTGAA-TGCTTATAGAAATGTCCTCTTAATTTTGCATTCAAT-AAATTTTGGC-AGGGA
* * * ** * * * *
53601086 TATTTTGTTATGTAGTTTGGCATAACAGTCCATTTCGTCCCAATTTGAATGCTTATAGATATGTC
244 -GTTTGGCTGGGTAGTTT-GCATGACAGTCCATTTCATACCAATTTGAATGCTTATAGAAATGTC
* ** * * * *
53601151 ATCTTAATTTTGCATTCAATCAATT-TTTCCTGGGA-AGTTT-TCTGGGTAGTTTTGCATGACAG
307 CTCTTAATTTTGCATTCAATCAATTGTAGCAT--GACAGTTTGGCTGAGTAGTTTGGCATGACAG
* * * * * * ** * * * * *
53601213 TCAATTTCATCCCAATTTGAATGTTTATCGAAATACCCTCTTAATTTTGCATTTAATCAAATCTT
370 TCCATTTCGTCCCATTTTAAATGCTTATAG-AATGTCCTTTTAATTTGGAATTCAAT-AAATTTT
* * * * * ** * ** * * *
53601278 GGTAGGGAAATTTGGCTGGGTAT-TTTAGCATGTCTGTCTATTTCATCCCAGTTT
433 GGAAGGGCAGTTTGG-TTGGAATCAATA-CA-ATC---C-ACGTC-GCCAAGTTA
* * * * * * *
53601332 GAACT-TTTATAGAAATGTCACCTTAATTTTGCATTCAATCAAATTTTTTGC---G--G--T-G-
1 GAA-TGCTTATAGAAATATCATCTTAATTTTGAATTCAACCAAA-TATTGGCAAGGCAGTTTGGC
** * * * * *
53601387 T---TA-TTTGGCATGGTA-TCCCATTTCATCCCAATTTGAATGCTTATAGACATGTCTTATTAA
64 TCAGTAGTTTGGCATGACAGT-CCATTTCATCCCAACTTGAATGTTTATAGAAATGTCCTCTTAA
* * * * * *
53601447 TTTTGCATTTAATC-AATATTGGCAGGGAAGTGTTTCTAGGTAGTTTGGCATGACAGTCCGTTTA
128 TTATGCATTCAATCAAATATT---A-GCAAG-G----TA---A-TTTGGCATGATAGTCCATTTC
* * *
53601511 GTCCCAATTTGAATGCTTATAGAATTGTCCTCTGAATTTTGCATT-AATCAATTTT-GCAGGGTA
180 GTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATAAATTTTGGCAGGG-A
* *
53601574 GTTTGGCTGGGTAGGCTTGCATGACAGTCCATTTCGTACCAATTTGAATGCTTATAGAAATGTCC
244 GTTTGGCTGGGTA-GTTTGCATGACAGTCCATTTCATACCAATTTGAATGCTTATAGAAATGTCC
* **
53601639 TCTTAATTTTGCATTCAATCAATTGTAGCATGACAGTTTGGCTGGGTAGTTTGGCATGATTGTCC
308 TCTTAATTTTGCATTCAATCAATTGTAGCATGACAGTTTGGCTGAGTAGTTTGGCATGACAGTCC
* * * * *
53601704 ATTTCGTCCCATTTTGAATGCTTATAGAATGTCCTTTTAATTTTGCATTCAATCAATTTTGGCAG
373 ATTTCGTCCCATTTTAAATGCTTATAGAATGTCCTTTTAATTTGGAATTCAATAAATTTTGGAAG
* * * *
53601769 GGTAGTTTGGTTGGATAGTTTTCCATGACAGTCCACGTCGTCTAAGTTA
438 GGCAGTTTGGTTGGA-A----TCAAT-ACAATCCACGTCG-CCAAGTTA
* * * * * * *
53601818 GAATGTTTATAGAAATATCATCTTAATTTTGAATTCAATCAAATTTTGGTAGGGCGGTTTGGCTG
1 GAATGCTTATAGAAATATCATCTTAATTTTGAATTCAACCAAATATTGGCAAGGCAGTTTGGCTC
* * * *
53601883 AGTAGTTTGGCATGACAGTCCGTTTCATCCCAACTTGAATGTTTATAGTAATGTTCTCTTAATTT
66 AGTAGTTTGGCATGACAGTCCATTTCATCCCAACTTGAATGTTTATAGAAATGTCCTCTTAATTA
* *
53601948 TGCATTCAATCAAATTTTGGCAAGG-AAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAATG
131 TGCATTCAATCAAATATTAGCAAGGTAA-TTTGGCATGATAGTCCATTTCGTCCCAATTTGAATG
* * * * * * * *
53602012 CTTTTAGAAATATCCTTTTAAATTTACACTCAATCAAATTTTGGCAGGACAATTTGGCT-GGTAG
195 CTTATAGAAATGTCCTCTTAATTTTGCATTCAAT-AAATTTTGGCAGG-GAGTTTGGCTGGGTAG
* * * * *
53602076 TTTTGCATGACAGTTCATTTCATCCCAATTTTAATTCTTTTA-ATAATGTCCTCTTAATTTTGCA
258 -TTTGCATGACAGTCCATTTCATACCAATTTGAATGCTTATAGA-AATGTCCTCTTAATTTTGCA
* * *
53602140 TTCAATCAATT-TCAGTA-GAGCAGTTTTG-TCGAGTAGTTTTGCATGACAGTCCATTTCGTACC
321 TTCAATCAATTGT-AGCATGA-CAGTTTGGCT-GAGTAGTTTGGCATGACAGTCCATTTCGT-CC
* *
53602202 GA-TTTAAATGTTTATAGAAATGT-CTTCTTAATTTGGAATTCAATAAAATTTTGGAAGGGCAGT
382 CATTTTAAATGCTTATAG-AATGTCCTT-TTAATTTGGAATTCAAT-AAATTTTGGAAGGGCAGT
*** *
53602265 TTGGCTT-G-A-CAAT-CAAT-TTTGTC-CCAA-TTT
444 TTGG-TTGGAATCAATACAATCCACGTCGCCAAGTTA
* * *
53602295 GAATGCTTATAGAAATGTCTTCTTAATTTTGAATTCAACCAAATATTGGCAAGGTAGTTTGGCTC
1 GAATGCTTATAGAAATATCATCTTAATTTTGAATTCAACCAAATATTGGCAAGGCAGTTTGGCTC
* * *
53602360 CGTAGTTTGGCATGACAGTCCATTTCATCCCAATTTGAATGTTTATAGAAATGTCCTTTTAATTA
66 AGTAGTTTGGCATGACAGTCCATTTCATCCCAACTTGAATGTTTATAGAAATGTCCTCTTAATTA
* * * * *
53602425 TGTATTTAATCAAATATTAGCAGGGTAATTTGGTATGATAGTCCATTTCGTCCTAATTTGAATGC
131 TGCATTCAATCAAATATTAGCAAGGTAATTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGC
* * * * *
53602490 TTATAGAAATGTTCTCTTAATTTTGCATTCAATTAGTTTTGGTAGGGAGGTTTGGTTGGGTAGTT
196 TTATAGAAATGTCCTCTTAATTTTGCATTCAATAAATTTTGGCAGGGA-GTTTGGCTGGGTAGTT
* * *** * *
53602555 TGACATGACAGTCCATTTCATTCTAATTTGAAAATTTATCA-AAATGTCCTTTTAATTTTGAATT
260 TG-CATGACAGTCCATTTCATACCAATTTGAATGCTTAT-AGAAATGTCCTCTTAATTTTGCATT
*
53602619 TAATCAA
323 CAATCAA
53602626 ATTTTGGCTA
Statistics
Matches: 3320, Mismatches: 619, Indels: 587
0.73 0.14 0.13
Matches are distributed among these distances:
451 6 0.00
452 1 0.00
455 1 0.00
456 1 0.00
459 4 0.00
460 1 0.00
461 2 0.00
462 1 0.00
463 10 0.00
464 125 0.04
465 59 0.02
466 1 0.00
469 2 0.00
471 1 0.00
473 2 0.00
474 3 0.00
475 38 0.01
476 95 0.03
477 282 0.08
478 221 0.07
479 11 0.00
480 4 0.00
481 5 0.00
482 10 0.00
483 7 0.00
484 6 0.00
485 24 0.01
486 166 0.05
487 130 0.04
488 405 0.12
489 117 0.04
490 752 0.23
491 109 0.03
492 20 0.01
493 6 0.00
494 34 0.01
495 126 0.04
496 111 0.03
497 15 0.00
498 64 0.02
499 114 0.03
500 76 0.02
501 1 0.00
502 2 0.00
503 5 0.00
504 43 0.01
505 86 0.03
506 1 0.00
507 2 0.00
508 1 0.00
510 4 0.00
511 1 0.00
512 6 0.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (479 bp):
GAATGCTTATAGAAATATCATCTTAATTTTGAATTCAACCAAATATTGGCAAGGCAGTTTGGCTC
AGTAGTTTGGCATGACAGTCCATTTCATCCCAACTTGAATGTTTATAGAAATGTCCTCTTAATTA
TGCATTCAATCAAATATTAGCAAGGTAATTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGC
TTATAGAAATGTCCTCTTAATTTTGCATTCAATAAATTTTGGCAGGGAGTTTGGCTGGGTAGTTT
GCATGACAGTCCATTTCATACCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAA
TCAATTGTAGCATGACAGTTTGGCTGAGTAGTTTGGCATGACAGTCCATTTCGTCCCATTTTAAA
TGCTTATAGAATGTCCTTTTAATTTGGAATTCAATAAATTTTGGAAGGGCAGTTTGGTTGGAATC
AATACAATCCACGTCGCCAAGTTA
Found at i:53606862 original size:99 final size:100
Alignment explanation
Indices: 53606556--53607148 Score: 338
Period size: 100 Copynumber: 6.2 Consensus size: 100
53606546 AAATAAATTA
* * * ** *
53606556 TTAATTTTGCATTCAATCAAATATTGGCACTA-CTGTTTGGTTTGGAAGTTTGGCATGACAGTCC
1 TTAATTTTGCATTCAATCAAATGTTGCCA-AAGAAGTTTGG-CTGGAAGTTTGGCATGACAGTCC
* * * *
53606620 ATTTCGATCGAATTTGATTGCTTAAAG-AATGTCCTC
64 ATTTCGTTCCAATTTGAATGCTTATAGAAATGTCCTC
* * *
53606656 TTAATTTTGCATTCAATCAAATGTTGCCAAAGCAGTTTGGTTGGGTAGTTTGGCATGACAGTCCA
1 TTAATTTTGCATTCAATCAAATGTTGCCAAAGAAGTTTGGCT-GGAAGTTTGGCATGACAGTCCA
* *
53606721 TTTTGTACCAATTTGAATGCTTATAGAAATGTCCTC
65 TTTCGTTCCAATTTGAATGCTTATAGAAATGTCCTC
* * * *
53606757 TTAATTTTGCATTCAATC-AAT-TTAG-GAAGGGAAGTTTGGCTGGACAGTTTGACTTGACAGTC
1 TTAATTTTGCATTCAATCAAATGTT-GCCAA-AGAAGTTTGGCTGGA-AGTTTGGCATGACAGTC
* * *
53606819 CA-TTCGTTCCAATTTGAATGTTTATCGAAATGTCTTC
63 CATTTCGTTCCAATTTGAATGCTTATAGAAATGTCCTC
* * * * * * * *
53606856 TTAATTTTGCATTTAATAAAATTTTG-----GCAG---GG-T---ATTTTTGCATGGCTA-TCCT
1 TTAATTTTGCATTCAATCAAATGTTGCCAAAGAAGTTTGGCTGGAAGTTTGGCATGAC-AGTCCA
* * * *
53606908 TTTCGTCCCAATTTGAATGTTTTTTGAAATGTCCTC
65 TTTCGTTCCAATTTGAATGCTTATAGAAATGTCCTC
* * *
53606944 TTAATTTTGCATTCAATCAAA---T----------TTTGGCTGGGTAGTTTGACATTACAGTCCA
1 TTAATTTTGCATTCAATCAAATGTTGCCAAAGAAGTTTGGCT-GGAAGTTTGGCATGACAGTCCA
* * * * *
53606996 TTTCATCCCAATTTAAATACTTTTAGAAATGTCCT-
65 TTTCGTTCCAATTTGAATGCTTATAGAAATGTCCTC
** * * * ** * * *
53607031 TTGAATTTTGTGTTTAATC-AATTTTGGCAGGGTAGTTTGGCTAGGAAGTTTTGTATGACAGTCC
1 TT-AATTTTGCATTCAATCAAATGTTGCCAAAGAAGTTTGGCT-GGAAGTTTGGCATGACAGTCC
* * *
53607095 ATTTTG-TCCTAATTGGAATGCTTATAGAAATGTCATC
64 ATTTCGTTCC-AATTTGAATGCTTATAGAAATGTCCTC
*
53607132 TTAGTTTTGCATTCAAT
1 TTAATTTTGCATTCAAT
53607149 TAATTTTAGC
Statistics
Matches: 388, Mismatches: 70, Indels: 70
0.73 0.13 0.13
Matches are distributed among these distances:
83 2 0.01
84 1 0.00
85 1 0.00
87 16 0.04
88 105 0.27
90 1 0.00
91 1 0.00
92 2 0.01
95 3 0.01
99 57 0.15
100 168 0.43
101 31 0.08
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (100 bp):
TTAATTTTGCATTCAATCAAATGTTGCCAAAGAAGTTTGGCTGGAAGTTTGGCATGACAGTCCAT
TTCGTTCCAATTTGAATGCTTATAGAAATGTCCTC
Found at i:53606970 original size:88 final size:88
Alignment explanation
Indices: 53606802--53607069 Score: 303
Period size: 88 Copynumber: 3.1 Consensus size: 88
53606792 TTGGCTGGAC
* * * * *
53606802 AGTTTGACTTGACAGTCCA-TTCGTTCCAATTTGAATGTTTATCGAAATGTCTTCTTAATTTTGC
1 AGTTTGACATGACAGTCCATTTCGTCCCAATTTGAATGTTTTTAGAAATGTCCTCTTAATTTTGC
*
53606866 ATTTAATAAAATTTTGGCAGGGT
66 ATTTAATCAAATTTTGGCAGGGT
* * * *
53606889 ATTTTTG-CATGGCTA-TCCTTTTCGTCCCAATTTGAATGTTTTTTGAAATGTCCTCTTAATTTT
1 A-GTTTGACATGAC-AGTCCATTTCGTCCCAATTTGAATGTTTTTAGAAATGTCCTCTTAATTTT
* *
53606952 GCATTCAATCAAATTTTGGCTGGGT
64 GCATTTAATCAAATTTTGGCAGGGT
* * * **
53606977 AGTTTGACATTACAGTCCATTTCATCCCAATTTAAATACTTTTAGAAATGTCCT-TTGAATTTTG
1 AGTTTGACATGACAGTCCATTTCGTCCCAATTTGAATGTTTTTAGAAATGTCCTCTT-AATTTTG
**
53607041 TGTTTAATC-AATTTTGGCAGGGT
65 CATTTAATCAAATTTTGGCAGGGT
53607064 AGTTTG
1 AGTTTG
53607070 GCTAGGAAGT
Statistics
Matches: 151, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
87 34 0.23
88 117 0.77
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (88 bp):
AGTTTGACATGACAGTCCATTTCGTCCCAATTTGAATGTTTTTAGAAATGTCCTCTTAATTTTGC
ATTTAATCAAATTTTGGCAGGGT
Found at i:53607240 original size:100 final size:99
Alignment explanation
Indices: 53606966--53607245 Score: 278
Period size: 100 Copynumber: 2.8 Consensus size: 99
53606956 TCAATCAAAT
* * * * * *
53606966 TTTGGCTGGGTAGTTTGACATTACAGTCCATTTCATCCCAATTTAAATACTTTTAGAAATGTCCT
1 TTTGGCTAGGTAGTTTGACATGACAGTCCATTTCATCCTAATTTGAATGCTTATAGAAATGT-CT
* * * * *
53607031 TTGAATTTTGTGTTTAATCAATTTTGGCAGGGTAG
65 TTTAATTTTGTATTCAATCAATTTTAGCAGGATAG
* * ** *
53607066 TTTGGCTAGGAAGTTTTG-TATGACAGTCCATTTTGTCCTAATTGGAATGCTTATAGAAATGTCA
1 TTTGGCTAGGTAG-TTTGACATGACAGTCCATTTCATCCTAATTTGAATGCTTATAGAAATGTC-
* * * * *
53607130 TCTTAGTTTTGCATTCAATTAATTTTAGC-GTTATAG
64 TTTTAATTTTGTATTCAATCAATTTTAGCAG-GATAG
* *
53607166 TTTGGCTAGGTAGTTTGACATGACCA-TTCATTTCATCCTAATTTGAATGCTTAAAGAAATGGTC
1 TTTGGCTAGGTAGTTTGACATGA-CAGTCCATTTCATCCTAATTTGAATGCTTATAGAAAT-GTC
53607230 TTTTAATTTTGTATTC
64 TTTTAATTTTGTATTC
53607246 TCCATTTCAT
Statistics
Matches: 143, Mismatches: 31, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
99 6 0.04
100 128 0.90
101 9 0.06
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (99 bp):
TTTGGCTAGGTAGTTTGACATGACAGTCCATTTCATCCTAATTTGAATGCTTATAGAAATGTCTT
TTAATTTTGTATTCAATCAATTTTAGCAGGATAG
Found at i:53607253 original size:54 final size:54
Alignment explanation
Indices: 53607194--53607299 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
53607184 CATGACCATT
53607194 CATTTCATC-CTAATTTGAATGCTTAAAGAAATGGTCTT-TTAATTTTGTATTCTC
1 CATTTCATCTC-AATTTGAATGCTTAAAGAAAT-GTCTTATTAATTTTGTATTCTC
* * **
53607248 CATTTCATCTCAATTTTAATGTTTATTGAAATGTCTTATTAATTTTGTATTC
1 CATTTCATCTCAATTTGAATGCTTAAAGAAATGTCTTATTAATTTTGTATTC
53607300 AATCAAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
53 5 0.11
54 40 0.87
55 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.50
Consensus pattern (54 bp):
CATTTCATCTCAATTTGAATGCTTAAAGAAATGTCTTATTAATTTTGTATTCTC
Found at i:53607424 original size:101 final size:101
Alignment explanation
Indices: 53607246--53610467 Score: 2740
Period size: 101 Copynumber: 32.7 Consensus size: 101
53607236 TTTTGTATTC
* * * * * * * *
53607246 TCCATTTCATCTCAATTTTAATGTTTATTGAAATGTCTTATTAATTTTGTATTCAATCAAATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* * * *
53607311 AGCAAGGCAGTTTGGCTAGGTAGTTTGGCATGATAG
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * * * *
53607347 TACATTTCGTCCCAATTTGAGTG-TCTATTGAACTGTCCTCTTAATTTTGCATTCAATCAAATTC
1 TCCATTTCGTCCCAATTTGAATGCT-TATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTT
* * * * *
53607411 TGGCAGGGTAGTTTGG-TAAGGTAGTTTTGCAAGACAA
65 TGGCAGGGTAGTTTGGCT-GGGTAGTTTGGCATGATAG
* * *
53607448 TCCATTTTGTCCCAATCTGAATGCTTATAGAAATGTCTTCTTAATTTTGCATTCAATCAAATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* * *
53607513 GGTAGGGCAGTTTGGCTGGATAGTTTGGCATGATAG
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * * *
53607549 TCCATTTCGTCCCAATTTTAATGCTTACAAAAATGTCCTCTTAATTTTGCATTCAATC-TATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* * *
53607613 TGCAGGGCAGTTTGGCTGGGTAGTTTAGCAATG-TAG
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGC-ATGATAG
* * * *
53607649 TCCATTTCTTCCCAATTTTAATGCTTATAAAAATGTGCTCTTAATTTTGCATTCAAT--AATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* **** * * * * *
53607712 AGCATACCAGTTTTGTTGAGTAGTTTGACATGACAG
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * * * * *
53607748 TCGATTTCGTACCAATTTGAATGTTTATAGAAATGTCATTTTAATTATGCATTCAATCAAATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* *
53607813 -----GGTAG---GAC-----AGTTTGGCATGACAG
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* ** * ** * *
53607836 TCAATTTTATCTCAATTTGAATGCTTATAGTTATGTCCTCTTAATTTTGCATTCAGTCAAATATT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* * * * * *
53607901 GGCAGGGTAGTTTAGCTTGGAACTTTGGCATGACAA
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * ** * * * * * *
53607937 TCTATTTCATCTGAATTTGATTGCTTAAAGAAATATCCTCTTAATTTTACATTAAATCAAATATT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* * *
53608002 GGCAGGGCAATTTGGCTGGGTAGTTTGACATGACT-G
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGA-TAG
*** * * * *
53608038 TCCATTTCGAATCAAATTGAATGCCTATAGAAATGTCCTCTTGATTTTGCATTCAAT-TAATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* ** * *
53608102 GGAAATGAAGTTTGGCTGGATAGTTTGGCATGATAG
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * * * * *
53608138 TCCATTTCATTCCAATTTGAATGTTTATATAAATGTCCTCTTAATTTTGTATTAAATCAAATTTC
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTT-
* * * * * *
53608203 T-ACATGGAAATTTAGCTGGGTATTTTGGCATGACT-G
65 TGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGA-TAG
* * * * *
53608239 TCCATTTTGTCCCAATTTTAATGTTTATCA-AAATGTCCACTTAATTTTGCATTCAGTCAAA-TT
1 TCCATTTCGTCCCAATTTGAATGCTTAT-AGAAATGTCCTCTTAATTTTGCATTCAATCAAATTT
*
53608302 T-------TAG--T---TGGGTAGTTTGTCATGATA-
65 TGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * * * * * * *
53608326 ACCATTTAGTTCCAATCTGAATGCTTTTAGAAATGTCCTCTGAATTTTGCGTTCGATC-AATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* * **
53608390 GCCAAGGTAGTTTGGCTGGGTAGTTTTTCATGATAG
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* ** * *
53608426 TCCATTTTC-TCCCAATTGGAATGCTTATAGAAATGTTATCTTCATTTTGCATTCAAT-TAATTT
1 TCCA-TTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTT
* * * * * * *
53608489 TAGCATGATAGTTTAGCTGGATAGTTTGACATGATCG
65 TGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* *
53608526 TCCATTTCGTCCCAATTTGAATGCTTAAAGAAATGACCTCTTAATTTTGCATTCAATC-AATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
** * ** *
53608590 GGCCA-GGTAGTTTCACTGGGTAATTTTCCATGACAG
66 GG-CAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * *
53608626 TCCATTTCGTCCCAATTTGAATGTTTACAGAAATGTCCTCTTAATTTTGCATTTAATCAAATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* * * * * *
53608691 GGCAAGGCAGTTTGGTTGGATAGTTTGGCGTGACAG
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * * * * * *
53608727 TCTATTTCATTCCAATTTTAATGCTTATAAAAATGTCCTCTTAATTTTACGTTCAATC-AATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* * *
53608791 GGCAGAGCAGTTTGGCTGGGTAGTTTGGTATGATAG
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * ** * * *
53608827 TTCATTTCATATCAATTTAAATGTTTATAGAAATGTCCTCTTAATTTTGCGTTCAATCAAATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* *
53608892 GGTAGGGTAGTTTGGC------G--TGACA--AT--
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
** * * *
53608916 T-CATTTTATCCCATTTTGAATGCTTATAGAAATGTCCTCTTAATTTTGTATTCAATCAAATATT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* * * * * *
53608980 GGCAGGTTAGTTTGGCTTGGTAGTTTGACATTACAA
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * * *
53609016 TCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTACTTGTGCATTCAATCAAAATAT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATC-AAATTT
* * * *
53609081 TGACAGGGTAGTTTGGCTGTGTAGTTTGGCCTTATAG
65 TGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * * *
53609118 TTCATTTCATCCCAATTTGAATGCTTATAGAAATGTTCTCTTAATTTTGCAGTCAATC-AATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* *
53609182 GGCA-GGTAAGTTTGGCTGGATAGTTTGACATGATAG
66 GGCAGGGT-AGTTTGGCTGGGTAGTTTGGCATGATAG
* * *
53609218 TTCATTTCGTCCCAATTTGAAAGTTTA-ATGAAATGTCCT-TTCAATTTTGCATTCAATCAAATT
1 TCCATTTCGTCCCAATTTGAATGCTTATA-GAAATGTCCTCTT-AATTTTGCATTCAATCAAATT
* * * * * *
53609281 TT------G--G--T---TGGGAAATCTGGCATCACAT
64 TTGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* *
53609306 TCCATTTTGTCCCAATTTGAATGCTTATAGAAATGTTCTCTTAATTTTGCATTCAATC-AATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
53609370 GGCAGGG-AGGTTTGGCTGGGTAGTTTGGCATGATAG
66 GGCAGGGTA-GTTTGGCTGGGTAGTTTGGCATGATAG
* * *
53609406 TCCATTTCGTCCCAATTTGAAAGTTTATAGAAATGTCCTTTTCAATTTTGCATTCAATCAAATTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTT-AATTTTGCATTCAATCAAATTT
* * * * *
53609471 TGGCTGGGAAATTTGGTTAGGTAGTTTGGCATGATAG
65 TGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * ** *
53609508 TCTATTTCGTCCAAATTTGAACT-CTTATAGAAATGTAATCTTAATTTTGCATTTAATCAAATTT
1 TCCATTTCGTCCCAATTTGAA-TGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTT
* * * * *
53609572 TAGTAGGGCAGTTTCGCTTGGTAGTTCT-GCATGATAG
65 TGGCAGGGTAGTTTGGCTGGGTAGTT-TGGCATGATAG
* * * * * *
53609609 TCCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCTTTTTAATTTTGCGTTCGATC-AATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* * * * *
53609673 TGCAAGGAAGTTTGGCTGGGTAGTTTGTCATGACAG
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * * *
53609709 TCCATTCCGTCCAAATTTGAATGCTTAAAGAAAT-TCCTTCTTAATTTTGTATTCAATC-AATTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCC-TCTTAATTTTGCATTCAATCAAATTT
** * * * *
53609772 TTTCAGGGAAGTTTGGTTGGGTAGTTTGACATTATAG
65 TGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * ** * * *
53609809 TCCATTGCTTCAAAATTTGAATGTTTGTCGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* * * * **
53609874 GGCAGGGAAATTTTGTTGGGTAGTTTGGCATGGCAG
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * * *
53609910 TTCATTTCGTACTAATTTGAACGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* * * * *
53609975 GCCTGGGAAATTTGGCTGGGTAGTTTTGCATGATAG
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * * * *
53610011 TCCATTTCAT-CCATATTTGAACT-CTTATAGAAATGTCATTTTAATTCTACATTCAATCAAATT
1 TCCATTTCGTCCCA-ATTTGAA-TGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* *
53610074 TT-----GGTAG---GAC-----AGTTTGGCTTGATAG
64 TTGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
*** * *
53610099 TCCATTTCGTATAAATTTGAATGCTTATAGAAATGTCCTATTAATTTTTCATTCAATC-AATTTT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
* ** * *
53610163 GGAAGGAAAATTTGGCTGGGTAGTTTGGCATGACAG
66 GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
** * *
53610199 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTATTCTTAATCTTT-CTTTCAATCAAATAT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAAT-TTTGCATTCAATCAAATTT
* *
53610263 TGGCAGGGCT-GTTTGGC-AGGTAGTTTGGCATGACAG
65 TGGCAGGG-TAGTTTGGCTGGGTAGTTTGGCATGATAG
* * * * *
53610299 TCTATTTTGTCCCAATTTGAATGCTTATAGAAATGACTTCTTAATTTTGCATTTAATCAAATATT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAAT-TT
* * * * *
53610364 T-GCAGGGTTGTTTAGCTGGATAGTTTGTCATGACAG
65 TGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
* * * * * *
53610400 TCTATTTCGTCCCAATTTAAATGCTTATAAAAATGTCTTTTTAATTTTGCATTCAATCAAATATT
1 TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
53610465 GGC
66 GGC
53610468 TATAGACACC
Statistics
Matches: 2529, Mismatches: 473, Indels: 238
0.78 0.15 0.07
Matches are distributed among these distances:
86 3 0.00
87 61 0.02
88 269 0.11
89 5 0.00
91 4 0.00
92 2 0.00
93 13 0.01
94 4 0.00
95 4 0.00
96 13 0.01
97 1 0.00
98 4 0.00
99 111 0.04
100 896 0.35
101 976 0.39
102 162 0.06
103 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (101 bp):
TCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT
GGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGATAG
Found at i:53607835 original size:88 final size:88
Alignment explanation
Indices: 53607733--53607902 Score: 218
Period size: 88 Copynumber: 1.9 Consensus size: 88
53607723 TTTGTTGAGT
* * *
53607733 AGTTTGACATGACAGTCGATTTCGTA-C-CAATTTGAATGTTTATAGAAATGTCATTTTAATTAT
1 AGTTTGACATGACAGTCAATTT--TATCTCAATTTGAATGCTTATAGAAATGTCATCTTAATTAT
*
53607796 GCATTCAATCAAATTTTGGTAGGAC
64 GCATTCAATCAAATATTGGTAGGAC
* ** * *
53607821 AGTTTGGCATGACAGTCAATTTTATCTCAATTTGAATGCTTATAGTTATGTCCTCTTAATTTTGC
1 AGTTTGACATGACAGTCAATTTTATCTCAATTTGAATGCTTATAGAAATGTCATCTTAATTATGC
*
53607886 ATTCAGTCAAATATTGG
66 ATTCAATCAAATATTGG
53607903 CAGGGTAGTT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 2 0.03
87 1 0.01
88 67 0.96
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (88 bp):
AGTTTGACATGACAGTCAATTTTATCTCAATTTGAATGCTTATAGAAATGTCATCTTAATTATGC
ATTCAATCAAATATTGGTAGGAC
Found at i:53608198 original size:201 final size:201
Alignment explanation
Indices: 53607821--53610467 Score: 2172
Period size: 201 Copynumber: 13.4 Consensus size: 201
53607811 TTGGTAGGAC
* * * ** * * **
53607821 AGTTTGGCATGACAGTCAATTTTATCTCAATTTGAATGCTTATAGTTATGTCCTCTTAATTTTGC
1 AGTTTGACATGATAGTCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGC
* * * * * * * *
53607886 ATTCAGTCAAATATTGGCAGGGTAGTTTAGCTTGGA-ACTTTGGCATGACAATCTATTTCA-TCT
66 ATTCAATCAAATTTTGGCAAGGAAGTTTGGC-TGGATAGTTTGGCATGACAGTCCATTTCATTC-
* * * * * * * * *
53607949 GAATTTGATTGCTTAAAGAAATATCCTCTTAATTTTACATTAAATCAAATATTGGCAGGGCAATT
129 CAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATC-AATTTTGGCAGGGTAGTT
53608014 TGGCTGGGT
193 TGGCTGGGT
*** * ** *
53608023 AGTTTGACATGACT-GTCCATTTCGAATCAAATTGAATGCCTATAGAAATGTCCTCTTGATTTTG
1 AGTTTGACATGA-TAGTCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTG
* * * *
53608087 CATTCAAT-TAATTTTGGAAATGAAGTTTGGCTGGATAGTTTGGCATGATAGTCCATTTCATTCC
65 CATTCAATCAAATTTTGGCAAGGAAGTTTGGCTGGATAGTTTGGCATGACAGTCCATTTCATTCC
* * * * * * * *
53608151 AATTTGAATGTTTATATAAATGTCCTCTTAATTTTGTATTAAATCAAATTTCT-ACATGGAAATT
130 AATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATC-AATTT-TGGCAGGGTAGTT
*
53608215 TAGCTGGGT
193 TGGCTGGGT
* * * * *
53608224 ATTTTGGCATGACT-GTCCATTTTGTCCCAATTTTAATGTTTATCA-AAATGTCCACTTAATTTT
1 AGTTTGACATGA-TAGTCCATTTCGTCCCAATTTGAATGTTTAT-AGAAATGTCCTCTTAATTTT
* * * *
53608287 GCATTCAGTCAAATTTT--------AG-TT-G--GG-TAGTTTGTCATGATA-ACCATTT-AGTT
64 GCATTCAATCAAATTTTGGCAAGGAAGTTTGGCTGGATAGTTTGGCATGACAGTCCATTTCA-TT
* * * * * * *
53608337 CCAATCTGAATGCTTTTAGAAATGTCCTCTGAATTTTGCGTTCGATCAATTTTGCCAAGGTAGTT
128 CCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAATTTTGGCAGGGTAGTT
53608402 TGGCTGGGT
193 TGGCTGGGT
** * * ** *
53608411 AGTTTTTCATGATAGTCCATTTTC-TCCCAATTGGAATGCTTATAGAAATGTTATCTTCATTTTG
1 AGTTTGACATGATAGTCCA-TTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTG
* * * * * * *
53608475 CATTCAAT-TAATTTTAGC-ATGATAGTTTAGCTGGATAGTTTGACATGATC-GTCCATTTCGTC
65 CATTCAATCAAATTTTGGCAAGGA-AGTTTGGCTGGATAGTTTGGCATGA-CAGTCCATTTCATT
* *
53608537 CCAATTTGAATGCTTAAAGAAATGACCTCTTAATTTTGCATTCAATCAATTTTGGCCA-GGTAGT
128 CCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAATTTTGG-CAGGGTAGT
**
53608601 TTCACTGGGT
192 TTGGCTGGGT
* ** * *
53608611 AATTTTCCATGACAGTCCATTTCGTCCCAATTTGAATGTTTACAGAAATGTCCTCTTAATTTTGC
1 AGTTTGACATGATAGTCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGC
* * * * *
53608676 ATTTAATCAAATTTTGGCAAGGCAGTTTGGTTGGATAGTTTGGCGTGACAGTCTATTTCATTCCA
66 ATTCAATCAAATTTTGGCAAGGAAGTTTGGCTGGATAGTTTGGCATGACAGTCCATTTCATTCCA
* * * * * *
53608741 ATTTTAATGCTTATAAAAATGTCCTCTTAATTTTACGTTCAATCAATTTTGGCAGAGCAGTTTGG
131 ATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAATTTTGGCAGGGTAGTTTGG
53608806 CTGGGT
196 CTGGGT
** * * ** *
53608812 AGTTTGGTATGATAGTTCATTTCATATCAATTTAAATGTTTATAGAAATGTCCTCTTAATTTTGC
1 AGTTTGACATGATAGTCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGC
* * * * * * *
53608877 GTTCAATCAAATTTT------G--G--TAG--GG-TAGTTTGGCGTGACAATTCATTTTATCCCA
66 ATTCAATCAAATTTTGGCAAGGAAGTTTGGCTGGATAGTTTGGCATGACAGTCCATTTCATTCCA
* * * *
53608929 TTTTGAATGCTTATAGAAATGTCCTCTTAATTTTGTATTCAATCAAATATTGGCAGGTTAGTTTG
131 ATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATC-AATTTTGGCAGGGTAGTTTG
*
53608994 GCTTGGT
195 GCTGGGT
* * * * *
53609001 AGTTTGACATTACAATCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTACTTGTGC
1 AGTTTGACATGATAGTCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGC
* * * * * * * * *
53609066 ATTCAATCAAAATATTGACAGGGTAGTTTGGCTGTG-TAGTTTGGCCTTATAGTTCATTTCATCC
66 ATTCAATC-AAATTTTGGCAAGGAAGTTTGGCTG-GATAGTTTGGCATGACAGTCCATTTCATTC
* *
53609130 CAATTTGAATGCTTATAGAAATGTTCTCTTAATTTTGCAGTCAATCAATTTTGGCA-GGTAAGTT
129 CAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAATTTTGGCAGGGT-AGTT
*
53609194 TGGCTGGAT
193 TGGCTGGGT
* *
53609203 AGTTTGACATGATAGTTCATTTCGTCCCAATTTGAAAGTTTA-ATGAAATGTCCT-TTCAATTTT
1 AGTTTGACATGATAGTCCATTTCGTCCCAATTTGAATGTTTATA-GAAATGTCCTCTT-AATTTT
* * * * ** *
53609266 GCATTCAATCAAATTTT------G--G-TT-G--GGA-AATCTGGCATCACATTCCATTTTGTCC
64 GCATTCAATCAAATTTTGGCAAGGAAGTTTGGCTGGATAGTTTGGCATGACAGTCCATTTCATTC
*
53609318 CAATTTGAATGCTTATAGAAATGTTCTCTTAATTTTGCATTCAATCAATTTTGGCAGGG-AGGTT
129 CAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAATTTTGGCAGGGTA-GTT
53609382 TGGCTGGGT
193 TGGCTGGGT
* * *
53609391 AGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAAAGTTTATAGAAATGTCCTTTTCAATTTTG
1 AGTTTGACATGATAGTCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTT-AATTTTG
** * * * * *
53609456 CATTCAATCAAATTTTGGCTGGGAAATTTGGTTAGG-TAGTTTGGCATGATAGTCTATTTC-GTC
65 CATTCAATCAAATTTTGGCAAGGAAGTTTGGCT-GGATAGTTTGGCATGACAGTCCATTTCATTC
** * * * *
53609519 CAAATTTGAACT-CTTATAGAAATGTAATCTTAATTTTGCATTTAATCAAATTTTAGTAGGGCAG
129 C-AATTTGAA-TGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATC-AATTTTGGCAGGGTAG
* *
53609583 TTTCGCTTGGT
191 TTTGGCTGGGT
* * *
53609594 AGTTCTG-CATGATAGTCCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCTTTTTAATTTTG
1 AGTT-TGACATGATAGTCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTG
* * * * * **
53609658 CGTTCGATC-AATTTTTGCAAGGAAGTTTGGCTGGGTAGTTTGTCATGACAGTCCA-TTCCGTCC
65 CATTCAATCAAATTTTGGCAAGGAAGTTTGGCTGGATAGTTTGGCATGACAGTCCATTTCATTCC
* * ** *
53609721 AAATTTGAATGCTTAAAGAAAT-TCCTTCTTAATTTTGTATTCAATCAATTTTTTCAGGGAAGTT
130 -AATTTGAATGCTTATAGAAATGTCC-TCTTAATTTTGCATTCAATCAATTTTGGCAGGGTAGTT
*
53609785 TGGTTGGGT
193 TGGCTGGGT
* * * ** * *
53609794 AGTTTGACATTATAGTCCATTGCTTCAAAATTTGAATGTTTGTCGAAATGTCCTCTTAATTTTGC
1 AGTTTGACATGATAGTCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGC
* * * * * * * * * *
53609859 ATTCAATCAAATTTTGGCAGGGAAATTTTGTTGGGTAGTTTGGCATGGCAGTTCATTTCGTACTA
66 ATTCAATCAAATTTTGGCAAGGAAGTTTGGCTGGATAGTTTGGCATGACAGTCCATTTCATTCCA
* * * * *
53609924 ATTTGAACGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGCCTGGGAAATTTG
131 ATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATC-AATTTTGGCAGGGTAGTTTG
53609989 GCTGGGT
195 GCTGGGT
* * * * *
53609996 AGTTTTG-CATGATAGTCCATTTCAT-CCATATTTGAACT-CTTATAGAAATGTCATTTTAATTC
1 AG-TTTGACATGATAGTCCATTTCGTCCCA-ATTTGAA-TGTTTATAGAAATGTCCTCTTAATTT
* * *
53610058 TACATTCAATCAAATTTTGG-TAGGACAGTTTGGC--------TT-G-AT---AGTCCATTTCGT
63 TGCATTCAATCAAATTTTGGCAAGGA-AGTTTGGCTGGATAGTTTGGCATGACAGTCCATTTCAT
* * * * ** *
53610109 AT-AAATTTGAATGCTTATAGAAATGTCCTATTAATTTTTCATTCAATCAATTTTGGAAGGAAAA
127 -TCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAATTTTGGCAGGGTAG
53610173 TTTGGCTGGGT
191 TTTGGCTGGGT
* * * **
53610184 AGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTATTCTTAATCTTT-
1 AGTTTGACATGATAGTCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAAT-TTTG
* * * ** * * ** *
53610248 CTTTCAATCAAATATTGGCAGGGCTGTTTGGCAGG-TAGTTTGGCATGACAGTCTATTTTGTCCC
65 CATTCAATCAAATTTTGGCAAGGAAGTTTGGCTGGATAGTTTGGCATGACAGTCCATTTCATTCC
* * * *
53610312 AATTTGAATGCTTATAGAAATGACTTCTTAATTTTGCATTTAATCAAATATTT-GCAGGGTTGTT
130 AATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATC-AAT-TTTGGCAGGGTAGTT
* *
53610376 TAGCTGGAT
193 TGGCTGGGT
* * * * * * * *
53610385 AGTTTGTCATGACAGTCTATTTCGTCCCAATTTAAATGCTTATAAAAATGTCTTTTTAATTTTGC
1 AGTTTGACATGATAGTCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGC
*
53610450 ATTCAATCAAATATTGGC
66 ATTCAATCAAATTTTGGC
53610468 TATAGACACC
Statistics
Matches: 1994, Mismatches: 341, Indels: 221
0.78 0.13 0.09
Matches are distributed among these distances:
186 9 0.00
187 79 0.04
188 337 0.17
189 188 0.09
190 8 0.00
191 3 0.00
192 5 0.00
193 5 0.00
194 6 0.00
195 7 0.00
196 3 0.00
197 2 0.00
198 5 0.00
199 19 0.01
200 272 0.14
201 577 0.29
202 322 0.16
203 144 0.07
204 3 0.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (201 bp):
AGTTTGACATGATAGTCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGC
ATTCAATCAAATTTTGGCAAGGAAGTTTGGCTGGATAGTTTGGCATGACAGTCCATTTCATTCCA
ATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAATTTTGGCAGGGTAGTTTGG
CTGGGT
Found at i:53608341 original size:87 final size:88
Alignment explanation
Indices: 53608213--53608375 Score: 188
Period size: 87 Copynumber: 1.9 Consensus size: 88
53608203 TACATGGAAA
* ** * * *
53608213 TTTAGCTGGGTATTTTGGCATGACTGTCCATTTTGTCCCAATTTTAATG-TTTATCA-AAATGTC
1 TTTAGCTGGGTAGTTTGGCATGACTAACCATTTAGTCCCAATCTGAATGCTTT-T-AGAAATGTC
*
53608276 CACTTAATTTTGCATTCAGTCAAAT
64 CACTGAATTTTGCATTCAGTCAAAT
* * * *
53608301 TTTAGTTGGGTAGTTTGTCATGA-TAACCATTTAGTTCCAATCTGAATGCTTTTAGAAATGTCCT
1 TTTAGCTGGGTAGTTTGGCATGACTAACCATTTAGTCCCAATCTGAATGCTTTTAGAAATGTCCA
53608365 CTGAATTTTGC
66 CTGAATTTTGC
53608376 GTTCGATCAA
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
86 1 0.02
87 38 0.61
88 23 0.37
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (88 bp):
TTTAGCTGGGTAGTTTGGCATGACTAACCATTTAGTCCCAATCTGAATGCTTTTAGAAATGTCCA
CTGAATTTTGCATTCAGTCAAAT
Found at i:53608906 original size:88 final size:88
Alignment explanation
Indices: 53608802--53609097 Score: 250
Period size: 88 Copynumber: 3.2 Consensus size: 88
53608792 GCAGAGCAGT
* * * * * *
53608802 TTGGCTGGGTAGTTTGGTATGATAGTTCATTTCATATCAATTTAAATGTTTATAGAAATGTCCTC
1 TTGGCAGGGTAGTTTGGCATGACAATTCATTTCATACCAATTTAAATGCTTATAGAAATGTCCTC
* *
53608867 TTAATTTTGCGTTCAATCAAATT
66 TTAATTTTGCATTCAATCAAATA
* * * * * *
53608890 TTGGTAGGGTAGTTTGGCGTGACAATTCATTTTATCCCATTTTGAATGCTTATAGAAATGTCCTC
1 TTGGCAGGGTAGTTTGGCATGACAATTCATTTCATACCAATTTAAATGCTTATAGAAATGTCCTC
*
53608955 TTAATTTTGTATTCAATCAAATA
66 TTAATTTTGCATTCAATCAAATA
* * * * * *
53608978 TTGGCAGGTTAGTTTGGCTTGGTAGTTTGACATTACAATCCATTTCGTCCCAATTTGAATGTTTA
1 TTGGCAGGGTAGTTTGGC-----A---TG--A---CAATTCATTTCATACCAATTTAAATGCTTA
* *
53609043 TAGAAATGTCCTCTTACTTGTGCATTCAATCAAAATA
53 TAGAAATGTCCTCTTAATTTTGCATTCAATC-AAATA
*
53609080 TTGACAGGGTAGTTTGGC
1 TTGGCAGGGTAGTTTGGC
53609098 TGTGTAGTTT
Statistics
Matches: 166, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
88 89 0.54
96 2 0.01
98 1 0.01
101 53 0.32
102 21 0.13
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (88 bp):
TTGGCAGGGTAGTTTGGCATGACAATTCATTTCATACCAATTTAAATGCTTATAGAAATGTCCTC
TTAATTTTGCATTCAATCAAATA
Found at i:53610098 original size:88 final size:87
Alignment explanation
Indices: 53609996--53610179 Score: 226
Period size: 88 Copynumber: 2.1 Consensus size: 87
53609986 TTGGCTGGGT
* * * * *
53609996 AGTTTTGCATGATAGTCCATTTCATCCATATTTGAACT-CTTATAGAAATGTCATTTTAATTCTA
1 AGTTTGGCTTGATAGTCCATTTCATACAAATTTGAA-TGCTTATAGAAATGTCATATTAATTCTA
* *
53610060 CATTCAATCAAATTTTGGTAGGAC
65 CATTCAATC-AATTTTGGAAGGAA
* * * * *
53610084 AGTTTGGCTTGATAGTCCATTTCGTATAAATTTGAATGCTTATAGAAATGTCCTATTAATTTTTC
1 AGTTTGGCTTGATAGTCCATTTCATACAAATTTGAATGCTTATAGAAATGTCATATTAATTCTAC
53610149 ATTCAATCAATTTTGGAAGGAA
66 ATTCAATCAATTTTGGAAGGAA
*
53610171 AATTTGGCT
1 AGTTTGGCT
53610180 GGGTAGTTTG
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
87 21 0.26
88 61 0.74
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (87 bp):
AGTTTGGCTTGATAGTCCATTTCATACAAATTTGAATGCTTATAGAAATGTCATATTAATTCTAC
ATTCAATCAATTTTGGAAGGAA
Found at i:53610343 original size:490 final size:487
Alignment explanation
Indices: 53607329--53610461 Score: 1800
Period size: 489 Copynumber: 6.4 Consensus size: 487
53607319 AGTTTGGCTA
* * * * * * * *
53607329 GGTAGTTTGGCATGATAGTACATTTCGTCCCAATTTGAGTG-TCTATTGAACTGTCCTCTTAATT
1 GGTAGTTTGGCATCACAGTCCATTTTGTCCCAATTTGAATGCT-TATAGAAATG-CTTCTTAATT
* * * * * * * * *
53607393 TTGCATTCAATCAAATTCTGGCAGGGTAGTTT-GGTAAGGTAGTTTTGCAAGACAATCCATTTTG
64 TTGCATTCAATCAAATTTTGGCAGGGAAGTTTAGCT-GGGTAGTTTGGCATGACAGTTCATTTCG
* * *
53607457 TCCCAATCTGAATGCTTATAGAAATGT-CTTCTTAATTTTGCATTCAATCAAATTTTG-GTAGGG
128 TCCCAATTTGAAAGCTTATAGAAATGTCCTT-TTAATTTTGCATTCAATCAAATTTTGCCT-GGG
* * * * * * *
53607520 CAGTTTGGCT-GGATAGTTTGGCATGATAGTCCATTTCGTCCCAATTTTAA-TGCTTACAAAAAT
191 AAATTTGGCTAGG-TAGTTTGGCATGATAGTCCATTTCATCCAAATTTGAACT-CTTATAGAAAT
** * * * * * * * *
53607583 GTCCTCTTAATTTTGCATTCAATC-TATTTTTGCAGGGCAGTTTGGCTGGGTAGTTTA-GCAATG
254 GTAATCTTAATTCTACATTCAATCAAATTTTAGTAGGACAG-TT--CTTGG-AGTCTATG--A--
* * * * * * *
53607646 TAGTCCATTTCTTCCCAATTTTAATGCTTATAAAAATGTGCTCTTAATTTTGCATTCAAT-AATT
311 TAGTCCATTTCGTACAAATTTGAATGCTTATAGAAATGTCCTATTAATTTTGCATTCAATCAATT
* ** * * * * * *
53607710 TTAGCATA-CCAGTTTTGTTGAGTAGTTTGACATGACAGTCGATTTCGTACCAATTTGAATGTTT
376 TT-GGA-AGGAAGTTTGGCTGGGTAGTTTGACATGACAGTCCATTTCGTCCCAATTTGAATGCTT
* * * * *
53607774 ATAGAAATGTCATT-TTAATTATGCATTCAATCAAATTT-----TG-GTAG
439 A-AGAAATGTCCTTCTTAATT-TTCTTTCAATCAAATTTCAGGGTGTTTGG
** * * * * ** *
53607818 GACAGTTTGGCATGACAGTCAATTTTATCTCAATTTGAATGCTTATAGTTATGTCCTCTTAATTT
1 GGTAGTTTGGCATCACAGTCCATTTTGTCCCAATTTGAATGCTTATAGAAATG-CTTCTTAATTT
* * * * * * * *
53607883 TGCATTCAGTCAAATATTGGCAGGGTAGTTTAGCTTGGAACTTTGGCATGACA-ATCTATTTCAT
65 TGCATTCAATCAAATTTTGGCAGGGAAGTTTAGCTGGGTAGTTTGGCATGACAGTTC-ATTTCGT
** ** * * * * * * * * *
53607947 CTGAATTTGATTGCTTAAAGAAATATCCTCTTAATTTTACATTAAATCAAATATTGGCAGGGCAA
129 CCCAATTTGAAAGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCAAATTTTGCCTGGGAAA
* * *
53608012 TTTGGCTGGGTAGTTTGACATGACT-GTCCATTTCGAAT-CAAA-TTGAA-TGCCTATAGAAATG
194 TTTGGCTAGGTAGTTTGGCATGA-TAGTCCATTTC--ATCCAAATTTGAACT-CTTATAGAAATG
** * * * * * * * *
53608073 TCCTCTTGATTTTGCATTCAAT-TAATTTTGGAAATGA-AGTT-TGGCTGGATAGTTTGGCATGA
255 TAATCTTAATTCTACATTCAATCAAATTTTAG-TAGGACAGTTCT---TGG--AGTCT---ATGA
* * * * * * * *
53608135 TAGTCCATTTCATTCCAATTTGAATGTTTATATAAATGTCCTCTTAATTTTGTATTAAATCAAAT
311 TAGTCCATTTCGTACAAATTTGAATGCTTATAGAAATGTCCTATTAATTTTGCATTCAATC-AAT
** * * * * * * * * *
53608200 TTCTACATGGAAATTTAGCTGGGTATTTTGGCATGACTGTCCATTTTGTCCCAATTTTAATGTTT
375 TT-TGGAAGGAAGTTTGGCTGGGTAGTTTGACATGACAGTCCATTTCGTCCCAATTTGAATGCTT
* * * *
53608265 ATCA-AAATGTCC-ACTTAATTTTGCATTCAGTCAAATTTTA----G-TT-G
439 A--AGAAATGTCCTTCTTAATTTT-CTTTCAATCAAATTTCAGGGTGTTTGG
* * * * * * * * * *
53608309 GGTAGTTTGTCATGATA-ACCATTTAGTTCCAATCTGAATGCTTTTAGAAATGTCCTCTGAATTT
1 GGTAGTTTGGCATCACAGTCCATTTTGTCCCAATTTGAATGCTTATAGAAATG-CTTCTTAATTT
* * * * * * ** * *
53608373 TGCGTTCGATC-AATTTTGCCAAGGTAGTTTGGCTGGGTAGTTTTTCATGATAGTCCATTTTC-T
65 TGCATTCAATCAAATTTTGGCAGGGAAGTTTAGCTGGGTAGTTTGGCATGACAGTTCA-TTTCGT
* * ** * * * *
53608436 CCCAATTGGAATGCTTATAGAAATGTTATCTTCATTTTGCATTCAAT-TAATTTTAGCAT--GAT
129 CCCAATTTGAAAGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCAAATTTT-GCCTGGGA-
* * * * * * *
53608498 AGTTTAGCT-GGATAGTTTGACATGATCGTCCATTTCGTCCCAATTTGAA-TGCTTAAAGAAATG
192 AATTTGGCTAGG-TAGTTTGGCATGATAGTCCATTTCATCCAAATTTGAACT-CTTATAGAAATG
* * * * * * * * *
53608561 -ACCTCTTAATTTTGCATTCAATC-AATTTTGGCCAGG-TAGTTTCACTGGGTAATTTTCCATGA
255 TA-ATCTTAATTCTACATTCAATCAAATTTTAG-TAGGACAG-TT--CTTGG--A--GTCTATGA
* * * * * * *
53608623 CAGTCCATTTCGTCCCAATTTGAATGTTTACAGAAATGTCCTCTTAATTTTGCATTTAATCAAAT
311 TAGTCCATTTCGTACAAATTTGAATGCTTATAGAAATGTCCTATTAATTTTGCATTCAATC-AAT
* * * * * * * * *
53608688 TTTGGCAAGGCAGTTTGGTTGGATAGTTTGGCGTGACAGTCTATTTCATTCCAATTTTAATGCTT
375 TTTGG-AAGGAAGTTTGGCTGGGTAGTTTGACATGACAGTCCATTTCGTCCCAATTTGAATGCTT
* * * **
53608753 ATAAAAATGTCC-TCTTAATTTTACGTTCAATCAATTTTGGCAGAGCAGTTTGGCTG
439 A-AGAAATGTCCTTCTTAATTTT-CTTTCAATCAAATTT--CAG-GGTGTTT-G--G
* * * * ** ** * * *
53608809 GGTAGTTTGGTATGATAGTTCATTTCATATCAATTTAAATGTTTATAGAAATGTCCTCTTAATTT
1 GGTAGTTTGGCATCACAGTCCATTTTGTCCCAATTTGAATGCTTATAGAAATG-CTTCTTAATTT
* * * **
53608874 TGCGTTCAATCAAATTTT------G--G--TA---GGGTAGTTTGGCGTGACAATTCATTTTATC
65 TGCATTCAATCAAATTTTGGCAGGGAAGTTTAGCTGGGTAGTTTGGCATGACAGTTCATTTCGTC
* * * * * * * ** *
53608926 CCATTTTGAATGCTTATAGAAATGTCCTCTTAATTTTGTATTCAATCAAATATTGGCAGGTTAGT
130 CCAATTTGAAAGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCAAATTTTGCCTGGGAAAT
* * * * * * * * **
53608991 TTGGCTTGGTAGTTTGACATTACAATCCATTTCGTCCCAATTTGAA-TGTTTATAGAAATGTCCT
195 TTGGCTAGGTAGTTTGGCATGATAGTCCATTTCATCCAAATTTGAACT-CTTATAGAAATGTAAT
* * * * * ** * * * *
53609055 CTTACTTGTGCATTCAATCAAAATATT-GACAGGGTAGTTTGGCTGTGTAGTTTGGCCTTATAGT
259 CTTAATTCTACATTCAATC-AAATTTTAG-TAGGACAG-TT--CT-TGGAGTCT---ATGATAGT
* * * * * * *
53609119 TCATTTCATCCCAATTTGAATGCTTATAGAAATGTTCTCTTAATTTTGCAGTCAATCAATTTTGG
315 CCATTTCGTACAAATTTGAATGCTTATAGAAATGTCCTATTAATTTTGCATTCAATCAATTTTGG
* * * * * *
53609184 CAGGTAAGTTTGGCTGGATAGTTTGACATGATAGTTCATTTCGTCCCAATTTGAAAGTTTAATGA
380 AAGG-AAGTTTGGCTGGGTAGTTTGACATGACAGTCCATTTCGTCCCAATTTGAATGCTTAA-GA
* * *
53609249 AATGTCCTT-TCAATTTTGCATTCAATCAAATTT-----TGGTT-G
443 AATGTCCTTCTTAATTTT-CTTTCAATCAAATTTCAGGGTGTTTGG
* * * * *
53609288 GGAAATCTGGCATCACATTCCATTTTGTCCCAATTTGAATGCTTATAGAAATGTTCTCTTAATTT
1 GGTAGTTTGGCATCACAGTCCATTTTGTCCCAATTTGAATGCTTATAGAAATGCT-TCTTAATTT
* * * *
53609353 TGCATTCAATC-AATTTTGGCAGGGAGGTTTGGCTGGGTAGTTTGGCATGATAGTCCATTTCGTC
65 TGCATTCAATCAAATTTTGGCAGGGAAGTTTAGCTGGGTAGTTTGGCATGACAGTTCATTTCGTC
* *
53609417 CCAATTTGAAAGTTTATAGAAATGTCCTTTTCAATTTTGCATTCAATCAAATTTTGGCTGGGAAA
130 CCAATTTGAAAGCTTATAGAAATGTCCTTTT-AATTTTGCATTCAATCAAATTTTGCCTGGGAAA
* * *
53609482 TTTGGTTAGGTAGTTTGGCATGATAGTCTATTTCGTCCAAATTTGAACTCTTATAGAAATGTAAT
194 TTTGGCTAGGTAGTTTGGCATGATAGTCCATTTCATCCAAATTTGAACTCTTATAGAAATGTAAT
* * * *
53609547 CTTAATTTTGCATTTAATCAAATTTTAGTAGGGCAGTTTCGCTTGGTAGTTCTGCATGATAGTCC
259 CTTAATTCTACATTCAATCAAATTTTAGTAGGACAG-TT--CTTGG-AG-TCT--ATGATAGTCC
* * * * * * * * *
53609612 ATTTTGTCCCAATTTGAATGTTTATAGAAATGTCTTTTTAATTTTGCGTTCGATCAATTTTTGCA
317 ATTTCGTACAAATTTGAATGCTTATAGAAATGTCCTATTAATTTTGCATTCAATCAA-TTTTGGA
* * *
53609677 AGGAAGTTTGGCTGGGTAGTTTGTCATGACAGTCCATTCCGTCCAAATTTGAATGCTTAAAGAAA
381 AGGAAGTTTGGCTGGGTAGTTTGACATGACAGTCCATTTCGTCCCAATTTGAATGCTT-AAGAAA
* * *
53609742 T-TCCTTCTTAATTTTGTATTCAATCAATTTTTTCAGGGAAGTTTGGTTG
445 TGTCCTTCTTAATTTTCT-TTCAATCAA--ATTTCAGGG-TGTTT-G--G
* * * * ** * * * *
53609791 GGTAGTTTGACATTATAGTCCATTGCT-TCAAAATTTGAATGTTTGTCGAAATGTCCTCTTAATT
1 GGTAGTTTGGCATCACAGTCCATT-TTGTCCCAATTTGAATGCTTATAGAAATG-CTTCTTAATT
* * * *
53609855 TTGCATTCAATCAAATTTTGGCAGGGAAATTTTGTTGGGTAGTTTGGCATGGCAGTTCATTTCGT
64 TTGCATTCAATCAAATTTTGGCAGGGAAGTTTAGCTGGGTAGTTTGGCATGACAGTTCATTTCGT
* * * *
53609920 ACTAATTTGAACGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGCCTGGGAAA
129 CCCAATTTGAAAGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCAAATTTTGCCTGGGAAA
* * * *
53609985 TTTGGCTGGGTAGTTTTGCATGATAGTCCATTTCATCCATATTTGAACTCTTATAGAAATGTCAT
194 TTTGGCTAGGTAGTTTGGCATGATAGTCCATTTCATCCAAATTTGAACTCTTATAGAAATGTAAT
* *
53610050 TTTAATTCTACATTCAATCAAATTTTGGTAGGACAG-T-TT-G-G-CT-TGATAGTCCATTTCGT
259 CTTAATTCTACATTCAATCAAATTTTAGTAGGACAGTTCTTGGAGTCTATGATAGTCCATTTCGT
* * *
53610109 ATAAATTTGAATGCTTATAGAAATGTCCTATTAATTTTTCATTCAATCAATTTTGGAAGGAAAAT
324 ACAAATTTGAATGCTTATAGAAATGTCCTATTAATTTTGCATTCAATCAATTTTGGAAGG-AAGT
* *
53610174 TTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGT-ATT
388 TTGGCTGGGTAGTTTGACATGACAGTCCATTTCGTCCCAATTTGAATGCTTA-AGAAATGTCCTT
53610238 CTTAATCTTTCTTTCAATCAAATATTGGCAGGGCTGTTTGG
452 CTTAAT-TTTCTTTCAATCAAAT-TT--CAGGG-TGTTTGG
* *
53610279 CAGGTAGTTTGGCATGACAGTCTATTTTGTCCCAATTTGAATGCTTATAGAAATGACTTCTTAAT
1 --GGTAGTTTGGCATCACAGTCCATTTTGTCCCAATTTGAATGCTTATAGAAATG-CTTCTTAAT
* ** * *
53610344 TTTGCATTTAATCAAATATTT-GCAGGGTTGTTTAGCTGGATAGTTTGTCATGACAG-TCTATTT
63 TTTGCATTCAATCAAAT-TTTGGCAGGGAAGTTTAGCTGGGTAGTTTGGCATGACAGTTC-ATTT
* *
53610407 CGTCCCAATTT-AAATGCTTATAAAAATGTCTTTTTAATTTTGCATTCAATCAAAT
126 CGTCCCAATTTGAAA-GCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCAAAT
53610462 ATTGGCTATA
Statistics
Matches: 2086, Mismatches: 430, Indels: 255
0.75 0.16 0.09
Matches are distributed among these distances:
478 6 0.00
479 59 0.03
483 3 0.00
484 1 0.00
485 1 0.00
486 2 0.00
487 9 0.00
488 232 0.11
489 427 0.20
490 425 0.20
491 396 0.19
492 184 0.09
493 8 0.00
494 1 0.00
495 2 0.00
496 3 0.00
497 1 0.00
498 2 0.00
499 3 0.00
500 16 0.01
501 47 0.02
502 6 0.00
503 179 0.09
504 73 0.03
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (487 bp):
GGTAGTTTGGCATCACAGTCCATTTTGTCCCAATTTGAATGCTTATAGAAATGCTTCTTAATTTT
GCATTCAATCAAATTTTGGCAGGGAAGTTTAGCTGGGTAGTTTGGCATGACAGTTCATTTCGTCC
CAATTTGAAAGCTTATAGAAATGTCCTTTTAATTTTGCATTCAATCAAATTTTGCCTGGGAAATT
TGGCTAGGTAGTTTGGCATGATAGTCCATTTCATCCAAATTTGAACTCTTATAGAAATGTAATCT
TAATTCTACATTCAATCAAATTTTAGTAGGACAGTTCTTGGAGTCTATGATAGTCCATTTCGTAC
AAATTTGAATGCTTATAGAAATGTCCTATTAATTTTGCATTCAATCAATTTTGGAAGGAAGTTTG
GCTGGGTAGTTTGACATGACAGTCCATTTCGTCCCAATTTGAATGCTTAAGAAATGTCCTTCTTA
ATTTTCTTTCAATCAAATTTCAGGGTGTTTGG
Found at i:53610629 original size:3 final size:3
Alignment explanation
Indices: 53610621--53610668 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
53610611 AAGGGCCCAA
* * *
53610621 ATT ATT ATT ATC ATT ACT ATT ATT ATT ATT ATT AAAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
53610667 AT
1 AT
53610669 CTTTTTCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 36 0.95
4 2 0.05
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:53614413 original size:50 final size:50
Alignment explanation
Indices: 53614338--53614509 Score: 236
Period size: 50 Copynumber: 3.4 Consensus size: 50
53614328 GCAACTAGTA
* *
53614338 ATAAGTGATAGCTTCAGCTACACTTATTTGATCAAGGATAAGTGAAAATG
1 ATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAGTGAAAATG
* * *
53614388 ATAAGTAATAGCTTTAGCTACACTTATCTGATCAAGGACAAGTGAAAGTG
1 ATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAGTGAAAATG
* * *
53614438 ATAAGTGATAGCTTCCGCTACACTTATCTGATCAAGGACAAATGACAAGTG
1 ATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAGTGA-AAATG
* * *
53614489 AAAAGTGGTAGCTTCGGCTAC
1 ATAAGTGATAGCTTCAGCTAC
53614510 CTGATCAGTG
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 86 0.79
51 23 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
ATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAGTGAAAATG
Found at i:53614523 original size:31 final size:31
Alignment explanation
Indices: 53614485--53614664 Score: 254
Period size: 31 Copynumber: 5.8 Consensus size: 31
53614475 ACAAATGACA
53614485 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
53614516 AGTGAAAAGTGATAGCTTCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
53614547 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
53614578 AAT-AAATAATGGTAGCTTTGGCTACCTGATA
1 AGTGAAA-AGTGGTAGCTTCGGCTACCTGATC
*
53614609 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
53614640 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
53614665 AAGTGACAAG
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
30 3 0.02
31 124 0.95
32 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:53614798 original size:91 final size:87
Alignment explanation
Indices: 53614686--53614895 Score: 210
Period size: 91 Copynumber: 2.3 Consensus size: 87
53614676 GATTTCCGTA
* * *
53614686 TAAGACCATATCTGGGATATGGCATCATGTGATCATGCT-ACT-GTATAAGACCATATCTGTGAT
1 TAAGACCATAGCTGGGCTATGGCATCATGTGAT-ATG-TGACTAGTATAAGACCATATCTGGGAT
*
53614749 ATGGCATCAGTGAGATATGTGAT-TCGTG
64 ATGGCATCA---AGATATG-AATAT-GTG
* * *
53614777 TAAGACCATAGCTGGGCTATGGCATTGATATGTGATATGTGATTACGTGTAAGACCATATCTGGG
1 TAAGACCATAGCTGGGCTATGGCA-T--CATGTGATATGTGACTA-GTATAAGACCATATCTGGG
* *
53614842 CTATGGCATCAATATATGAATATGTG
62 ATATGGCATCAAGATATGAATATGTG
*
53614868 TAAGACCATAGCTGGGCTATGACATCAT
1 TAAGACCATAGCTGGGCTATGGCATCAT
53614896 TATGTTAAGA
Statistics
Matches: 101, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
88 2 0.02
90 1 0.01
91 50 0.50
92 9 0.09
93 5 0.05
94 7 0.07
95 27 0.27
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (87 bp):
TAAGACCATAGCTGGGCTATGGCATCATGTGATATGTGACTAGTATAAGACCATATCTGGGATAT
GGCATCAAGATATGAATATGTG
Found at i:53614832 original size:49 final size:45
Alignment explanation
Indices: 53614731--53614894 Score: 165
Period size: 42 Copynumber: 3.6 Consensus size: 45
53614721 TGCTACTGTA
* * * *
53614731 TAAGACCATATCTGTGATATGGCATCAGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCAAT--GATATGTGATTACGTG
*
53614777 TAAGACCATAGCTGGGCTATGGCATTGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCA-TCA-A--TGATATGTGATTACGTG
* * *
53614826 TAAGACCATATCTGGGCTATGGCATCAAT-ATA--TGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATGATATGTGATTACGTG
*
53614868 TAAGACCATAGCTGGGCTATGACATCA
1 TAAGACCATAGCTGGGCTATGGCATCA
53614895 TTATGTTAAG
Statistics
Matches: 102, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
42 33 0.32
44 3 0.03
45 1 0.01
46 21 0.21
47 3 0.03
48 13 0.13
49 27 0.26
50 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (45 bp):
TAAGACCATAGCTGGGCTATGGCATCAATGATATGTGATTACGTG
Found at i:53614872 original size:42 final size:42
Alignment explanation
Indices: 53614823--53614920 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
53614813 ATGTGATTAC
* * *
53614823 GTGTAAGACCATATCTGGGCTATGGCATCAATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGACATCAATATATGAAGAT
* * *
53614865 GTGTAAGACCATAGCTGGGCTATGACATCATTATGTTAAGAT
1 GTGTAAGACCATAGCTGGGCTATGACATCAATATATGAAGAT
53614907 GTGTAAGACCATAG
1 GTGTAAGACCATAG
53614921 TTGAACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGACATCAATATATGAAGAT
Found at i:53616108 original size:100 final size:100
Alignment explanation
Indices: 53615970--53619034 Score: 2658
Period size: 101 Copynumber: 30.9 Consensus size: 100
53615960 TTGGCAAGAT
* *
53615970 AGTTTGGCTGGGTAGTTTCGCATGACAGTCCATTTCGTACCAATTTGAATGCTTATAGAAATGTC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* *
53616035 CTCTTAATTTTGTATTTAATCAATTTTTGCAGGGA
66 CTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* * *
53616070 AGTTTGGCTGGGTAGTTTCGCATGACAGTCCATTTCGTACCAATTTGAATGCTTATAAAAATGTC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
** *
53616135 CTCTTAATTTTTTATTTAATCAATTTTTGCAGGGA
66 CTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* ** * *
53616170 AGTTTGGCTTGGTAGTTTGGCATGACAGTCCATTTATTCCCAATTTGAATGGTTATTGAAATGTC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* *
53616235 CTCTTAATTTTGCATTCAATCAATTTTTGTAGGAA
66 CTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* * * * * *
53616270 AGTTTGGCTAGGTAGTTTGGAATGACAGTCCATTTCTTCTCAATTTGAATGTTTATCGAAATGTC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* * **
53616335 CTCTTAATTTTGCATTCAATTAAATTTTGGCAGATA
66 CTCTTAATTTTGCATTCAA-TCAATTTTTGCAGGGA
* * * * * * * *
53616371 AATTTGGATGGG-AATTCTAGAATGACTGTCCATTTTGTGCCAATTTGAACT-CTTATAGAAATG
1 AGTTTGGCTGGGTAGTT-TGGCATGACAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAATG
*
53616434 TCCTCTTAATTTTACATTCAAT--A-------A---A
64 TCCTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* *
53616459 ATTTTGGCTTGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* * * **
53616524 CTCTTACTTTTGTATTCAATCAATTTTAG-AATGA
66 CTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* * * *
53616558 CAGTTTGGCTGGGTAGTTTGACATGACCA-TCCATTTCGTCCCAATTTTAACGCTTATCGAAATG
1 -AGTTTGGCTGGGTAGTTTGGCATGA-CAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * *
53616622 TCCTCTTAATTTTGCATTTAATCAATTTTGGCAGGGT
64 TCCTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* * * *
53616659 AGTTTGGCTGGGTAGTTTGCCATGATAGTCCATTTCATCCCAATTTTAATGCTTATAGAAATGTC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* * * *
53616724 CTCTTAATTTTACATTTAATCAATTTTGGCAGGGT
66 CTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* * * * *
53616759 AGTTTGGCTGGGTAGTTTGCCATGACAGTCTATTTCATCCCAATTTGAATGGTTATAGAAATATC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* * * *
53616824 TTCTTAATTTTGTATTCAATCAAATTTTGGC-GAGGT
66 CTCTTAATTTTGCATTCAATC-AATTTTTGCAG-GGA
* * *
53616860 AGTTTGGCTGGGTAGTTTGGCATGATAGCCCATTTCATCCCAATTTGAACT-CTTATAGAAATGT
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAATGT
* * ** *
53616924 CCTCTTAATTTTGCATTCAATAAAATTTTGACAAAGT
65 CCTCTTAATTTTGCATTCAATCAATTTTTG-CAGGGA
* * * * * *
53616961 AGTTTGGCTGGGTAGTTTGGTATGACGGTCTATTTCATCCTAATTTGAATGCTTATAAAAATGTC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* * *
53617026 TTATTAATTTTGCATTCAATCAATTTTGGCA-GGA
66 CTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* * ** * * *
53617060 CAGTTTGCCTGGATAG-TT----T-----T-CATTTCGTCTTAATTTGAATGTTTATAAAAATAT
1 -AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGT
* * * *
53617114 CCTCTTAATTTTGTATTGAATCAAATTATT-CTAGAGCA
65 CCTCTTAATTTTGCATTCAATC-AATTTTTGC-AG-GGA
* * * *
53617152 A-TTTGGTTGGGTAGTTTGGCATAACAATCCATTTCATCCCAATTTGAACT-CTTATAGAAATGT
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAATGT
* * * * *
53617215 CCTTTTAATTTTGCATTCAATAAAATTTTGTCAAGGC
65 CCTCTTAATTTTGCATTCAATCAATTTTTG-CAGGGA
* * * * * * *
53617252 AGTTTGGCTTGATAATTTGGCATGATAGTCTA-TTCTGTCCCAATTTGAATGCCTATAGAATTGT
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTC-GTCCCAATTTGAATGCTTATAGAAATGT
* * *
53617316 CTTCTTAATTTTGCATTAAATAAATTTTTGC----A
65 CCTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* ** * * *
53617348 A---------GGTAGTTTGGCATTACAAACCATTTCGTTCTAATTTGAATG-TTCATAGAAATGC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTT-ATAGAAATGT
*
53617403 CCTCTTAATTTTTCATTC-A-C------T-CA---A
65 CCTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* * * ** * *
53617427 ATTTTGGCAGGGTAGTTTGGCATGACAGTTCATTTTATCCCATTTTGAATGCTTATAGAAATGTT
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* * * * ** *
53617492 CACTTAATTTTGCATTCAATCAAATCTTGGTAACGT
66 CTCTTAATTTTGCATTCAATC-AATTTTTGCAGGGA
* * *
53617528 AGTTTGGCTTGGTAGCTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGTTTATAGAAATGTC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* * * * * *
53617593 CTCTTAATTGTGCACTCAATCAAATATTGGCAAGGC
66 CTCTTAATTTTGCATTCAATC-AATTTTTGCAGGGA
* * ** * * * *
53617629 AGTTTGGCTGTGTAGTTTGGCATCACTTTTCATTTCATTCCC-AGTTGATTGCTTATAGAAATGT
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTC-GTCCCAATTTGAATGCTTATAGAAATGT
** * * * * *
53617693 TGTCTTAATTTTGCATTCAATCTATTTTGGTAAGTA
65 CCTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* * * * * * *
53617729 GGTTTGGCTGGGTAGTTTGACAAGATAGTCCATTTTGTCCCAATTTGAAAGTTTATCA-AAATGT
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTAT-AGAAATGT
*
53617793 CCT-TTCAATTTTGCATTCAATCAAATTTTGGCTA-GGA
65 CCTCTT-AATTTTGCATTCAATC-AATTTTTGC-AGGGA
* * * * *
53617830 AATTTGGCAT-GGAAGTTTGGCATCATAGTCCATTTTGTCCCAATTTGAATGCTTATAGAAATGT
1 AGTTTGGC-TGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGT
** * *
53617894 TATCTTAATTTTGTATTCAATCAATTTTGGCAGGGA
65 CCTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* * * *
53617930 GGTTTGGCTGGGTAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAAAGTTTATAGAAATGTC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* ** *
53617995 CTTTTCAATTTTGCATTCAATCAAATTTCGGCTGGGA
66 CTCTT-AATTTTGCATTCAATC-AATTTTTGCAGGGA
* * * * * *
53618032 AATTTGGTTAGGTAGTTTGGCATGATAGTCTATTTCGTCCAAATTTGAACT-CTTATAGAAATGT
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAATGT
** * * * *
53618096 AATCTTAATTTTGCATTTAATCAAATTTTAGTAGGGC
65 CCTCTTAATTTTGCATTCAATC-AATTTTTGCAGGGA
* * * * *
53618133 AGTTTCGCTTGGTAGTTCT-GCATGATAGTCCATTTTGTCCCAATTTGAATGTTTATAGAAATGT
1 AGTTTGGCTGGGTAGTT-TGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGT
* * * *
53618197 CCTTTTAATTTTGCGTTCGATCAATTTTTGCAGGGT
65 CCTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* * * *
53618233 AGTTTGGCTGGGTAGTTTGTCATGACAGTCCATTCCGTCCAAATTTGAATGCTTAAAGAAAT-TC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* *
53618297 CTTCTTAATTTTGTATTCAATCAATTTTTTCAGGGA
66 C-TCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
* * * * * ** * * *
53618333 AGTTTGGTTGGGTAGTTTGACATTACAGTCCATTGCTTCAAAATTTGAATGTTTGTCGAAATGTC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* * *
53618398 CTCTTAATTTTGCATTTAATCAAATTTTGGCAGGCA
66 CTCTTAATTTTGCATTCAATC-AATTTTTGCAGGGA
* * * * * * * *
53618434 AATTTTGTTGGGTAGTTTGGCATGACAGTTCATTTCATACCAATTTGAACGTTTATAGAAATGTC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* * *
53618499 CTCTTAATTTTGCATTCAATCAAATTTTGCTTGAGA
66 CTCTTAATTTTGCATTCAATCAATTTTTGC-AGGGA
* * * * *
53618535 AATTTGGCTGGGTAGTTTTGCATGATAGTCCATTTCAT-CCATATTTTAACT-CTTATAGAAATG
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCA-ATTTGAA-TGCTTATAGAAATG
* * * * *
53618598 TCATTTTAATTCTGCATTCAATCAAATTTTGGTA-GGA
64 TCCTCTTAATTTTGCATTCAATC-AATTTTTGCAGGGA
* * * * *** *
53618635 CAGTTTGGCTTGGTAGTTTGGCTTGACAGTCCTTTTTGTATAAATTTGAATGCTTATAAAAATGT
1 -AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGT
* * *
53618700 CCTCTTAATTTTTCGTAATTTTTCGTTCAATCAATTTTGGCA-AGA
65 CCTCTTAA-TTTT-G--------CATTCAATCAATTTTTGCAGGGA
* * *
53618745 CAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGCAATGG
1 -AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGT
* * ** * *
53618810 CTTCTTAATTTTTCATTCAATCAAACATTAGCAGGGC
65 CCTCTTAATTTTGCATTCAATC-AATTTTTGCAGGGA
* * * *
53618847 TGTTTGGCT-GGTATTTTGGCATGACAGTCCATTTCATCCCAATTTGAATGCTTATAGAAATGAC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* * *
53618911 TTCTTAATTTTGCATTCAATCAAATATTTGCAGGGT
66 CTCTTAATTTTGCATTCAATC-AATTTTTGCAGGGA
* * * *
53618947 TGTTTTGCTGGATAGTTTGGCATGACAGTCCATTTCGTCCCAATTTAAATGCTTATAGAAATGTC
1 AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* * *
53619012 TTTTTAATTTTACATTCAATCAA
66 CTCTTAATTTTGCATTCAATCAA
53619035 ATATTGGCTG
Statistics
Matches: 2430, Mismatches: 421, Indels: 228
0.79 0.14 0.07
Matches are distributed among these distances:
78 1 0.00
79 3 0.00
86 2 0.00
87 52 0.02
88 127 0.05
89 54 0.02
90 19 0.01
91 4 0.00
92 2 0.00
95 2 0.00
96 2 0.00
98 2 0.00
99 17 0.01
100 967 0.40
101 997 0.41
102 94 0.04
103 1 0.00
109 4 0.00
110 72 0.03
111 8 0.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (100 bp):
AGTTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
CTCTTAATTTTGCATTCAATCAATTTTTGCAGGGA
Found at i:53616465 original size:88 final size:88
Alignment explanation
Indices: 53616373--53616543 Score: 211
Period size: 88 Copynumber: 1.9 Consensus size: 88
53616363 GGCAGATAAA
* * *
53616373 TTTGG-ATGGGAATTCTAGAATGACTGTCCATTTTGTGCCAATTTGAACT-CTTATAGAAATGTC
1 TTTGGCATGGGAATT-TAGAATGACAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAATGTC
53616436 CTCTTAATTTTACATTCAATAAAAT
64 CTCTTAATTTTACATTCAATAAAAT
* * * * *
53616461 TTTGGCTTGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
1 TTTGGCATGGGAATTTAGAATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* **
53616526 CTTACTTTTGTATTCAAT
66 CTTAATTTTACATTCAAT
53616544 CAATTTTAGA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 1 0.01
88 63 0.90
89 6 0.09
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (88 bp):
TTTGGCATGGGAATTTAGAATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
CTTAATTTTACATTCAATAAAAT
Found at i:53616666 original size:13 final size:13
Alignment explanation
Indices: 53616648--53616677 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
53616638 TTTAATCAAT
53616648 TTTGGCAGGGTAG
1 TTTGGCAGGGTAG
*
53616661 TTTGGCTGGGTAG
1 TTTGGCAGGGTAG
53616674 TTTG
1 TTTG
53616678 CCATGATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.07, G:0.43, T:0.40
Consensus pattern (13 bp):
TTTGGCAGGGTAG
Found at i:53616766 original size:13 final size:13
Alignment explanation
Indices: 53616748--53616777 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
53616738 TTTAATCAAT
53616748 TTTGGCAGGGTAG
1 TTTGGCAGGGTAG
*
53616761 TTTGGCTGGGTAG
1 TTTGGCAGGGTAG
53616774 TTTG
1 TTTG
53616778 CCATGACAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.07, G:0.43, T:0.40
Consensus pattern (13 bp):
TTTGGCAGGGTAG
Found at i:53616927 original size:201 final size:200
Alignment explanation
Indices: 53616461--53619042 Score: 2243
Period size: 201 Copynumber: 13.0 Consensus size: 200
53616451 TCAATAAAAT
* *
53616461 TTTGGCTTGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
1 TTTGGCTGGGTAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * * * * ** *
53616526 CTTACTTTTGTATTCAATCAATTTTAGAATGACAGTTTGGCTGGGTAGTTTGACATGACCA-TCC
66 CTTAATTTTGCATTCAATCAATTTTGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGA-CAGTCC
* * * * *
53616590 ATTTCGTCCCAATTTTAACGCTTATCGAAATGTCCTCTTAATTTTGCATTTAATC-AATTTTGGC
130 ATTTCGTCCCAATTTGAATGCTTATAGAAATGTCTTCTTAATTTTGCATTCAATCAAATTTTGGC
*
53616654 AGGGTAG
195 A-GGCAG
* * *
53616661 TTTGGCTGGGTAGTTTGCCATGATAGTCCATTTCATCCCAATTTTAATGCTTATAGAAATGTCCT
1 TTTGGCTGGGTAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * * *
53616726 CTTAATTTTACATTTAATCAATTTTGGCAGGGTAGTTTGGCTGGGTAGTTTGCCATGACAGTCTA
66 CTTAATTTTGCATTCAATCAATTTTGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCA
* * * *
53616791 TTTCATCCCAATTTGAATGGTTATAGAAATATCTTCTTAATTTTGTATTCAATCAAATTTTGGCG
131 TTTCGTCCCAATTTGAATGCTTATAGAAATGTCTTCTTAATTTTGCATTCAATCAAATTTTGGC-
*
53616856 AGGTAG
195 AGGCAG
* *
53616862 TTTGGCTGGGTAGTTTGGCATGATAGCCCATTTCATCCCAATTTGAACT-CTTATAGAAATGTCC
1 TTTGGCTGGGTAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAATGTCC
* * ** * *
53616926 TCTTAATTTTGCATTCAATAAAATTTTGACAAAGTAGTTTGGCTGGGTAGTTTGGTATGACGGTC
65 TCTTAATTTTGCATTCAAT-CAATTTTGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGACAGTC
* * * * *
53616991 TATTTCATCCTAATTTGAATGCTTATAAAAATGTCTTATTAATTTTGCATTCAATC-AATTTTGG
129 CATTTCGTCCCAATTTGAATGCTTATAGAAATGTCTTCTTAATTTTGCATTCAATCAAATTTTGG
53617055 CAGGACAG
194 CAGG-CAG
* * ** * * *
53617063 TTTGCCTGGATAG--T----T--T--T-CATTTCGTCTTAATTTGAATGTTTATAAAAATATCCT
1 TTTGGCTGGGTAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * * * * * * *
53617117 CTTAATTTTGTATTGAATCAAATTATT--CTAGAGCAATTTGGTTGGGTAGTTTGGCATAACAAT
66 CTTAATTTTGCATTCAATC-AATT-TTGGC-AGGGTAGTTTGGCTGGGTAGTTTGGCATGACAGT
* *
53617180 CCATTTCATCCCAATTTGAACT-CTTATAGAAATGTCCTT-TTAATTTTGCATTCAATAAAATTT
128 CCATTTCGTCCCAATTTGAA-TGCTTATAGAAATGT-CTTCTTAATTTTGCATTCAATCAAATTT
*
53617243 TGTCAAGGCAG
191 TGGC-AGGCAG
* * * * * * *
53617254 TTTGGCTTGATAATTTGGCATGATAGTCTA-TTCTGTCCCAATTTGAATGCCTATAGAATTGTCT
1 TTTGGCTGGGTAGTTTGGCATGATAGTCCATTTC-GTCCCAATTTGAATGCTTATAGAAATGTCC
* * * * *
53617318 TCTTAATTTTGCATTAAATAAATTTTTGCAAGGTAGTTTGGC-----A--TT-ACA--A-A--CC
65 TCTTAATTTTGCATTCAATCAATTTTGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGACAGTCC
* * * * * *
53617370 ATTTCGTTCTAATTTGAATG-TTCATAGAAATGCCCTCTTAATTTTTCATTCACTCAAATTTT--
130 ATTTCGTCCCAATTTGAATGCTT-ATAGAAATGTCTTCTTAATTTTGCATTCAATCAAATTTTGG
53617432 --GGCA-
194 CAGGCAG
* * ** * * *
53617436 -------GGGTAGTTTGGCATGACAGTTCATTTTATCCCATTTTGAATGCTTATAGAAATGTTCA
1 TTTGGCTGGGTAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * ** * *
53617494 CTTAATTTTGCATTCAATCAAATCTTGGTAACGTAGTTTGGCTTGGTAGCTTGGCATGACAGTCC
66 CTTAATTTTGCATTCAATC-AATTTTGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGACAGTCC
* * * * *
53617559 ATTTCGTCCCAATTTGAATGTTTATAGAAATGTCCTCTTAATTGTGCACTCAATCAAATATTGGC
130 ATTTCGTCCCAATTTGAATGCTTATAGAAATGTCTTCTTAATTTTGCATTCAATCAAATTTTGGC
53617624 AAGGCAG
195 -AGGCAG
* * * * * * * *
53617631 TTTGGCTGTGTAGTTTGGCATCACT-TTTCATTTCATTCCC-AGTTGATTGCTTATAGAAATGTT
1 TTTGGCTGGGTAGTTTGGCATGA-TAGTCCATTTC-GTCCCAATTTGAATGCTTATAGAAATGTC
* * * * * * *
53617694 GTCTTAATTTTGCATTCAATCTATTTTGGTA-AGTAGGTTTGGCTGGGTAGTTTGACAAGATAGT
64 CTCTTAATTTTGCATTCAATCAATTTTGGCAGGGTA-GTTTGGCTGGGTAGTTTGGCATGACAGT
* * * *
53617758 CCATTTTGTCCCAATTTGAAAGTTTATCA-AAATGTCCTT-TCAATTTTGCATTCAATCAAATTT
128 CCATTTCGTCCCAATTTGAATGCTTAT-AGAAATGT-CTTCTTAATTTTGCATTCAATCAAATTT
* *
53617821 TGGCTAGGAAA
191 TGGC-AGGCAG
* * * **
53617832 TTTGGCAT-GGAAGTTTGGCATCATAGTCCATTTTGTCCCAATTTGAATGCTTATAGAAATGTTA
1 TTTGGC-TGGGTAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCC
* *
53617896 TCTTAATTTTGTATTCAATCAATTTTGGCAGGG-AGGTTTGGCTGGGTAGTTTGGCATGATAGTC
65 TCTTAATTTTGCATTCAATCAATTTTGGCAGGGTA-GTTTGGCTGGGTAGTTTGGCATGACAGTC
* * *
53617960 CATTTCGTCCCAATTTGAAAGTTTATAGAAATGTCCTT-TTCAATTTTGCATTCAATCAAATTTC
129 CATTTCGTCCCAATTTGAATGCTTATAGAAATGT-CTTCTT-AATTTTGCATTCAATCAAATTTT
* * *
53618024 GGCTGGGAAA
192 GGC-AGGCAG
* * * * **
53618034 TTTGGTTAGGTAGTTTGGCATGATAGTCTATTTCGTCCAAATTTGAACT-CTTATAGAAATGTAA
1 TTTGGCTGGGTAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAATGTCC
* * * * * * *
53618098 TCTTAATTTTGCATTTAATCAAATTTTAGTAGGGCAGTTTCGCTTGGTAGTTCT-GCATGATAGT
65 TCTTAATTTTGCATTCAATC-AATTTTGGCAGGGTAGTTTGGCTGGGTAGTT-TGGCATGACAGT
* * * *
53618162 CCATTTTGTCCCAATTTGAATGTTTATAGAAATGTCCTT-TTAATTTTGCGTTCGATC-AATTTT
128 CCATTTCGTCCCAATTTGAATGCTTATAGAAATGT-CTTCTTAATTTTGCATTCAATCAAATTTT
* *
53618225 TGCAGGGTAG
192 GGCA-GGCAG
* * * * *
53618235 TTTGGCTGGGTAGTTTGTCATGACAGTCCATTCCGTCCAAATTTGAATGCTTAAAGAAAT-TCCT
1 TTTGGCTGGGTAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCC-
* ** * * * *
53618299 TCTTAATTTTGTATTCAATCAATTTTTTCAGGGAAGTTTGGTTGGGTAGTTTGACATTACAGTCC
65 TCTTAATTTTGCATTCAATCAATTTTGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGACAGTCC
* * ** * * * * *
53618364 ATTGCTTCAAAATTTGAATGTTTGTCGAAATGTCCTCTTAATTTTGCATTTAATCAAATTTTGGC
130 ATTTCGTCCCAATTTGAATGCTTATAGAAATGTCTTCTTAATTTTGCATTCAATCAAATTTTGGC
*
53618429 AGGCAAA
195 AGGC-AG
* * * * * * * *
53618436 TTTTGTTGGGTAGTTTGGCATGACAGTTCATTTCATACCAATTTGAACGTTTATAGAAATGTCCT
1 TTTGGCTGGGTAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * * * * *
53618501 CTTAATTTTGCATTCAATCAAATTTT-GCTTGAGAAATTTGGCTGGGTAGTTTTGCATGATAGTC
66 CTTAATTTTGCATTCAATC-AATTTTGGC-AGGGTAGTTTGGCTGGGTAGTTTGGCATGACAGTC
* * *
53618565 CATTTCAT-CCATATTTTAACT-CTTATAGAAATGTCATT-TTAATTCTGCATTCAATCAAATTT
129 CATTTCGTCCCA-ATTTGAA-TGCTTATAGAAATGTC-TTCTTAATTTTGCATTCAATCAAATTT
*
53618627 TGGTAGGACAG
191 TGGCAGG-CAG
* * * * * *** *
53618638 TTTGGCTTGGTAGTTTGGCTTGACAGTCCTTTTTGTATAAATTTGAATGCTTATAAAAATGTCCT
1 TTTGGCTGGGTAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * ** *
53618703 CTTAATTTTTCGTAATTTTTCGTTCAATCAATTTTGGCAAGACAATTTGGCTGGGTAGTTTGGCA
66 CTTAA-TTTT-G--------CATTCAATCAATTTTGGCAGGGTAGTTTGGCTGGGTAGTTTGGCA
* * *
53618768 TGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGCAATGGCTTCTTAATTTTTCATTCAATCA
121 TGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCTTCTTAATTTTGCATTCAATCA
** * *
53618833 AACATTAGCAGGGCTG
186 AATTTTGGCA-GGCAG
* * * * *
53618849 TTTGGCT-GGTATTTTGGCATGACAGTCCATTTCATCCCAATTTGAATGCTTATAGAAATGACTT
1 TTTGGCTGGGTAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * *
53618913 CTTAATTTTGCATTCAATCAAATATTT-GCAGGGTTGTTTTGCTGGATAGTTTGGCATGACAGTC
66 CTTAATTTTGCATTCAATC-AAT-TTTGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGACAGTC
* * * *
53618977 CATTTCGTCCCAATTTAAATGCTTATAGAAATGTCTTTTTAATTTTACATTCAATCAAATATTGG
129 CATTTCGTCCCAATTTGAATGCTTATAGAAATGTCTTCTTAATTTTGCATTCAATCAAATTTTGG
53619042 C
194 C
53619043 TGTAGACACC
Statistics
Matches: 1951, Mismatches: 324, Indels: 213
0.78 0.13 0.09
Matches are distributed among these distances:
175 58 0.03
176 20 0.01
181 1 0.00
183 6 0.00
184 2 0.00
186 1 0.00
187 6 0.00
188 48 0.02
189 55 0.03
190 125 0.06
191 28 0.01
192 3 0.00
193 4 0.00
194 6 0.00
195 1 0.00
196 1 0.00
197 1 0.00
199 7 0.00
200 256 0.13
201 608 0.31
202 460 0.24
203 86 0.04
204 3 0.00
208 1 0.00
209 4 0.00
210 54 0.03
211 91 0.05
212 15 0.01
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (200 bp):
TTTGGCTGGGTAGTTTGGCATGATAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
CTTAATTTTGCATTCAATCAATTTTGGCAGGGTAGTTTGGCTGGGTAGTTTGGCATGACAGTCCA
TTTCGTCCCAATTTGAATGCTTATAGAAATGTCTTCTTAATTTTGCATTCAATCAAATTTTGGCA
GGCAG
Found at i:53618753 original size:110 final size:111
Alignment explanation
Indices: 53618614--53618823 Score: 287
Period size: 110 Copynumber: 1.9 Consensus size: 111
53618604 TAATTCTGCA
* * * * * * * *
53618614 TTCAATCAAATTTTGGTAGGACAGTTTGGCTTGGTAGTTTGGCTTGACAGTCCTTTTTGTATAAA
1 TTCAATCAAATTTTGGCAAGACAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTACAAA
*
53618679 TTTGAATGCTTATAAAAATGTCCTCTTAATTTTTCGTAATTTTTCG
66 TTTGAATGCTTATAAAAATGGCCTCTTAATTTTTCGTAATTTTTCG
* *
53618725 TTCAATC-AATTTTGGCAAGACAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAA
1 TTCAATCAAATTTTGGCAAGACAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTACAAA
** *
53618789 TTTGAATGCTTATAGCAATGGCTTCTTAATTTTTC
66 TTTGAATGCTTATAAAAATGGCCTCTTAATTTTTC
53618824 ATTCAATCAA
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
110 78 0.92
111 7 0.08
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (111 bp):
TTCAATCAAATTTTGGCAAGACAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTACAAA
TTTGAATGCTTATAAAAATGGCCTCTTAATTTTTCGTAATTTTTCG
Found at i:53619037 original size:101 final size:100
Alignment explanation
Indices: 53618748--53619039 Score: 449
Period size: 100 Copynumber: 2.9 Consensus size: 100
53618738 GGCAAGACAA
* *
53618748 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGCAATGGCTT
1 TTTGGCT-GGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGACTT
* *
53618813 CTTAATTTTTCATTCAATCAAACATTAGCAGGGCTG
65 CTTAATTTTACATTCAATCAAATATTAGCAGGGCTG
* *
53618849 TTTGGCTGGTATTTTGGCATGACAGTCCATTTCATCCCAATTTGAATGCTTATAGAAATGACTTC
1 TTTGGCTGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGACTTC
* * *
53618914 TTAATTTTGCATTCAATCAAATATTTGCAGGGTTG
66 TTAATTTTACATTCAATCAAATATTAGCAGGGCTG
* * *
53618949 TTTTGCTGGATAGTTTGGCATGACAGTCCATTTCGTCCCAATTTAAATGCTTATAGAAATGTCTT
1 TTTGGCTGG-TAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGACTT
*
53619014 TTTAATTTTACATTCAATCAAATATT
65 CTTAATTTTACATTCAATCAAATATT
53619040 GGCTGTAGAC
Statistics
Matches: 175, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
100 93 0.53
101 82 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (100 bp):
TTTGGCTGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGACTTC
TTAATTTTACATTCAATCAAATATTAGCAGGGCTG
Found at i:53619388 original size:20 final size:21
Alignment explanation
Indices: 53619363--53619402 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53619353 ACAACAAGCA
53619363 TTCTAT-TTT-TTTTTCTTTTC
1 TTCTATCTTTCTTTTT-TTTTC
53619383 TTCTATCTTTCTTTTTTTTT
1 TTCTATCTTTCTTTTTTTTT
53619403 ATAATAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (21 bp):
TTCTATCTTTCTTTTTTTTTC
Found at i:53619765 original size:153 final size:155
Alignment explanation
Indices: 53619590--53619884 Score: 456
Period size: 154 Copynumber: 1.9 Consensus size: 155
53619580 TTTAAAAGAG
*
53619590 AGTTTAGATTTTAAAAATAAAAATCTGTTTTTTAGTCATTTTAAAGG-AAAGTTTAAAA-TTTTA
1 AGTTTAGATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAAG-TTAAAATTTTTA
* * *
53619653 AAAT-AAGTTTTGATTTTTTTCAACTATTTCGAAATAAAAACTTTGATCTTTAAGAAAAGTAGTG
65 AAATAAAATTTTGATCTTTTTCAACTATTTCGAAAT-AAAACTTTGATCTTTAAGAAAAATAGTG
53619717 ATTTTT-TTTAAAAGAAAAAAAATGAA
129 ATTTTTCTTTAAAAGAAAAAAAATGAA
* *
53619743 AGTTTAGATTTTTAAGAA-AAAAATATGTTTTTTAGTCGTTTTAAAGGAAAAGTTAAAATTTTTA
1 AGTTTAGA-TTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAAGTTAAAATTTTTA
**
53619807 AAATAAAATTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTGATCTTTAAGAAAAATAGTGA
65 AAATAAAATTTTGATCTTTTTCAACTATTTCGAAATAAAACTTTGATCTTTAAGAAAAATAGTGA
53619872 TTTTTCTTTAAAA
130 TTTTTCTTTAAAA
53619885 AAAGCTTTGA
Statistics
Matches: 129, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
153 41 0.32
154 52 0.40
155 36 0.28
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (155 bp):
AGTTTAGATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAAGTTAAAATTTTTAA
AATAAAATTTTGATCTTTTTCAACTATTTCGAAATAAAACTTTGATCTTTAAGAAAAATAGTGAT
TTTTCTTTAAAAGAAAAAAAATGAA
Found at i:53621235 original size:100 final size:100
Alignment explanation
Indices: 53621113--53624059 Score: 1836
Period size: 100 Copynumber: 30.4 Consensus size: 100
53621103 GGCAGGACAA
* * *
53621113 TTTGGCTGGGTAGTTTGGCATGAGAGTCCATTTCGTACCAATTTGAATGTTTATAGAAATGTCCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
53621178 CTTAATTTTGCATTCAATCAATTTTTGTAGGGAAG
66 CTTAATTTTGCATTCAATCAATTTTTGTAGGGAAG
* * * * *
53621213 TTTGGCTGGGTAGTTTGGCATGACAGTCAATTTCTTCCCAATTTGAATGTTTATTGAAGTGTCCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * *
53621278 CTTAATTTTGCATTCAATCAAATTTTGGCAGGGAAA
66 CTTAATTTTGCATTCAATC-AATTTTTGTAGGGAAG
* * * * * * *
53621314 TTTTG-TTGGTAGTTTGGAATGACAGTCCATTTTGTACCAATTCGAATGCTTATAGAAATGTCTT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * *
53621378 CTTAATTTCGCATTCGATCAATTTTTGCAGGGAAG
66 CTTAATTTTGCATTCAATCAATTTTTGTAGGGAAG
* * * * * * **
53621413 TTTGGCTAGGTAGTTTGGAATGACAGTTCATTTCTTCCCAATTTGAATGTTTATCGAAAAT-TTT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAG-AAATGTCC
* * *
53621477 TCTTAATTTTGCATTCAATCAAATTTTGGCAGGGAAA
65 TCTTAATTTTGCATTCAATC-AATTTTTGTAGGGAAG
* * * * * *
53621514 TTTGGCTGGGAATTTTGGCATAACTGTCCATTTTGTCCCAATTTGAACT-CTTATAGAAATGTTC
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAATGTCC
* * *
53621578 TCTTAGTTTTACATTCAATCAA-ATTT-T---G-A-
65 TCTTAATTTTGCATTCAATCAATTTTTGTAGGGAAG
* * * * *
53621607 -----CTTGGTAGTTTGGCATGGCAGTCTATTTCGTCCTAATTTGAATGCTTATAGAAATTTCCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * * * * * *
53621667 CTAAATTTTACGTTCAATCAAATTTGGCAAGGCAA-
66 CTTAATTTTGCATTCAATCAATTTTTG-TAGGGAAG
* * *
53621702 TTTGGCTGGGTAGTTTTGCATGACAGTTCATTTCGTCCCGATTTGAATGCTTATAGAAATGTCCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * * * *
53621767 ATTAATTTTGCATTCAATCAATTTTAGAAAGGCAG
66 CTTAATTTTGCATTCAATCAATTTTTGTAGGGAAG
* * *
53621802 TTTGGCTAGGTAGTTTGGCATGACCGTCCATTTCGTCCAAATTTGAATGCTTATAGAAATGTCCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* **
53621867 TTTAATTTTGCATT---T-AA-----CCA---AA-
66 CTTAATTTTGCATTCAATCAATTTTTGTAGGGAAG
* * * * * * *
53621889 TTTGGTTGAGAAGTTTGCCATGACAGTCTATTTCGTCCCAATTTGAATGCTTATGGAAATGTCAT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * * *
53621954 CTTAATTTTGCATTCAATAAAATTTTGGAAGGGTAG
66 CTTAATTTTGCATTCAAT-CAATTTTTGTAGGGAAG
* * * *
53621990 TTTGGCTGGGTAGTTTGGCATGACAGCCCAATTC-ACCTCAATTTGAACT-CTTATAGAAATGCC
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCC-CAATTTGAA-TGCTTATAGAAATGTC
* * * * * ** *
53622053 CTCTTAATTTTGCATTTAATAAAATCTTGGCAAAGTAG
64 CTCTTAATTTTGCATTCAAT-CAATTTTTGTAGGGAAG
* * * * ** * * *
53622091 TTTGGTTGGGTAGTTTGGGATAACTGTTTATTTCGTCCTAATTTGAATGCTTATAAAAATGTCTT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * *
53622156 CTAAATTTTGCATTCAATCAATTTTGGCA-GGATAG
66 CTTAATTTTGCATTCAATCAATTTTTGTAGGGA-AG
** * * * * * *
53622191 TTTGATTAGGTAGTTTGACATGAGAGTCCATTTCATCCCAA--TG--T--TTATAAAAATTTCCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * * *
53622250 CTTATTTTTGCATTCAATCAAATTCTTCTAGAGTAA-
66 CTTAATTTTGCATTCAATC-AATTTTTGTAG-GGAAG
* * * * *
53622286 TTTGGC-GGAGTAGTTTGGCATAATAGTCTATTTCGTCCCAATTTGAACT-CTTATAAAAATGTT
1 TTTGGCTGG-GTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAATGTC
* * * ** *
53622349 CTCTTAATTTTGCTTTTAATAAAAATTTGTCAGGGCAG
64 CTCTTAATTTTGCATTCAATCAATTTTTGT-AGGGAAG
* * * * * *
53622387 TTTGGCTTGGTAGTTTGGCATGACAGTCTATTTCATCTCAATTTGAATGCCTATTGAAATGTCCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
53622452 CTTAATTTTGCATTCAATCAATTTTTGT-----A-
66 CTTAATTTTGCATTCAATCAATTTTTGTAGGGAAG
* * *
53622481 -------GGGTAGTTTGGCATGACAGTCCATTTCATCCTAATTTGAATGTTTATAGAAATGTCCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* *
53622539 CTTAATTTTGCATTCAATCAA-ATTT-T--GGCAG
66 CTTAATTTTGCATTCAATCAATTTTTGTAGGGAAG
* * * *
53622570 --T-GC-----AGTTTGGCATGACAGTCCATTTAGTCTCAATTTGAACT-TTTATAGAAATGCCC
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAATGTCC
* * * * *
53622626 TTTTAATTTTTCATTCAATCAAATTTTGGCAGGGCAG
65 TCTTAATTTTGCATTCAATC-AATTTTTGTAGGGAAG
* * * * * ** * * *
53622663 TTTAGATTGGTAGTTT--C--GTC---CCAATTT-GAATGCTTA-TAGAAATGTCTTCT-GAATT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCC-ATTTCG--TCCCAATTTG-AATG-CTTATAGAAAT
* * * * * *
53622718 TTGCGTTCAATCAATTTT---TTCAA-GAA----AGTATGG-A-
61 GT-C-CTC--TTAATTTTGCATTCAATCAATTTTTGTAGGGAAG
* * * * * * * *
53622752 --TGAG-T-AGT-TTT--GCATGATAGTTCATTTGGTCCTAATTTGAATGCTTATTGAAATGTTC
1 TTTG-GCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCC
* * *
53622810 TCTTAATTTTGCATTCAATC-ATTTTTAGCATGGTAG
65 TCTTAATTTTGCATTCAATCAATTTTT-GTAGGGAAG
* * ** * * *
53622846 TTTGGCTGGGTAGTTCGGTATGACAGTTTATTTTGTCCCAATTTGAATGCCTATATAAATGTCCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * * *
53622911 CTTAATTGTGTATT--A--AA----T-CA---AAT
66 CTTAATTTTGCATTCAATCAATTTTTGTAGGGAAG
* * * * * * * *
53622934 TTTGGCAGAGTAGTTTGGCATAACAGTCGATTTCATTCCAATTTAAATGCTAATAGAAATGTCCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * * * ** *
53622999 CTTAATTATGGATTCAAGCAAATACTGTAGGGCAG
66 CTTAATTTTGCATTCAATCAATTTTTGTAGGGAAG
*** ** *
53623034 TTTGGGAAGGTAGTTTGATATGACAGTCCATTTCGTCCCAAATTGAAATGCTTATAGAAATGTCC
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTG-AATGCTTATAGAAATGTCC
* * * * **
53623099 TCTTGATTTTTCATTCAATAAAATTTTGGTAGGGCCG
65 TCTTAATTTTGCATTCAAT-CAATTTTTGTAGGGAAG
* * ** ** *
53623136 TTTGGTTGTGTAGTTTGGCATGACAACCCATTTTTTTCCCAATTTGAATGCTTATAGAAATATCC
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCA-TTTCGTCCCAATTTGAATGCTTATAGAAATGTCC
* * * *
53623201 TTTTATTTTTGCATTTAATCAATTTTGGTAGGGCAA-
65 TCTTAATTTTGCATTCAATCAATTTTTGTAGGG-AAG
* * *
53623237 TTT-GCTAGGGTAGTTTGGAATGACAGTCCATTTCGTCCTAATTTGAATGCTTATATAAATGTCC
1 TTTGGCT-GGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCC
** *
53623301 TCTTAA-AGTGCATTCAATCAAATTTTGGTAGGGCAA-
65 TCTTAATTTTGCATTCAATC-AATTTTTGTAGGG-AAG
* * * * *
53623337 TTTGGCTAGGTAGTTTGGCATGACAATCCATTTCATCTCAATTTGAATGCTTATAGAAATTTCCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
*
53623402 CTTAATTTTGCATTCAATCAA--TTT-TA-GCAA-
66 CTTAATTTTGCATTCAATCAATTTTTGTAGGGAAG
* * * * ** * * * **
53623432 --------GGTAGTTTAGCCTAACAATTAATTTCCTTCCAATTTGAATGCTTAAAGAAATGTATT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * *
53623489 CTTAATTTTGCATTCAATCTCATTTTGGTAGGGCAG
66 CTTAATTTTGCATTCAATC-AATTTTTGTAGGGAAG
* *
53623525 TTTGGCTGGGTAGTTTGGCATTACAGTCCATTTCGTCCCAATTTGAATGCTTACAGAAATGTCCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* *
53623590 CTTAATTTTTCATTCAATCAAATTTTG--GCGG-A-
66 CTTAATTTTGCATTCAATCAATTTTTGTAG-GGAAG
* * * *
53623622 ----G-T---T-GTTTGGCATGACAATCCATTTCGTCCCAATTTAAATGCTAATAGAAATGTTCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * * * **
53623678 CTTAATTTTGCATTTAAGCAAATATTTGCAGGGTGG
66 CTTAATTTTGCATTCAATC-AATTTTTGTAGGGAAG
* * * * * * * * *
53623714 TTTGGCAGAGTAGTTTGACATGACAATCTACTTCATCCCAAATTGAATGCTTATAGTAATGTCCT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * *
53623779 CTTAATTTTGCATTCAATCAAATTTTGGCAGGGCAG
66 CTTAATTTTGCATTCAATC-AATTTTTGTAGGGAAG
* * ** * * * * *
53623815 TTTGGTTGTGTAGTTTGGCATGACAGTTTATTTTGTCGCAATTTGAATCCTTATATAAATGTCAT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
* * * *
53623880 CTTATTTTTGCTTTCAATCAA-TTTTGTCAGAGTAG
66 CTTAATTTTGCATTCAATCAATTTTTGT-AGGGAAG
* * * * *
53623915 TTTAGCTGGGTAGTTTGGCTTGATAGTCCATTTTGTTCCAATTTGAATGCTTATA-AAATTGTCC
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAA-TGTCC
* * * *
53623979 TCTT-ATATTTGCATTCAACCAAATTTTGGCAGGGCAG
65 TCTTAAT-TTTGCATTCAATC-AATTTTTGTAGGGAAG
* * * *
53624016 TTTGGCTGGTTAGTTTGGCATGATAATCGATTTCGTCCCAATTT
1 TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTT
53624060 AGCACTTACA
Statistics
Matches: 2212, Mismatches: 468, Indels: 333
0.73 0.16 0.11
Matches are distributed among these distances:
84 7 0.00
85 4 0.00
86 7 0.00
87 218 0.10
88 273 0.12
89 18 0.01
90 11 0.00
91 10 0.00
92 12 0.01
93 8 0.00
94 35 0.02
95 53 0.02
96 19 0.01
97 23 0.01
98 10 0.00
99 46 0.02
100 691 0.31
101 681 0.31
102 74 0.03
103 12 0.01
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (100 bp):
TTTGGCTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCT
CTTAATTTTGCATTCAATCAATTTTTGTAGGGAAG
Found at i:53621554 original size:101 final size:101
Alignment explanation
Indices: 53621101--53624059 Score: 1633
Period size: 101 Copynumber: 30.6 Consensus size: 101
53621091 CGTTATGACA
* * *
53621101 TTGGCA-GGACAATTTGGCTGGGTAGTTTGGCATGAGAGTCCATTTCGTACCAATTTGAATGTTT
1 TTGGCAGGGA-AATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTT
53621165 ATAGAAATGTCCTCTTAATTTTGCATTCAATC-AATT
65 ATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * *
53621201 TTTGTAGGGAAGTTTGGCTGGGTAGTTTGGCATGACAGTCAATTTCT-TCCCAATTTGAATGTTT
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTT-TGTCCCAATTTGAATGTTT
* *
53621265 ATTGAAGTGTCCTCTTAATTTTGCATTCAATCAAATT
65 ATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * *
53621302 TTGGCAGGGAAATTTTG-TTGGTAGTTTGGAATGACAGTCCATTTTGTACCAATTCGAATGCTTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
* * *
53621366 TAGAAATGTCTTCTTAATTTCGCATTCGATC-AATT
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * *
53621401 TTTGCAGGGAAGTTTGGCTAGGTAGTTTGGAATGACAGTTCATTTCT-TCCCAATTTGAATGTTT
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTT-TGTCCCAATTTGAATGTTT
* **
53621465 ATCGAAAAT-TTTTCTTAATTTTGCATTCAATCAAATT
65 ATAG-AAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * *
53621502 TTGGCAGGGAAATTTGGCTGGGAATTTTGGCATAACTGTCCATTTTGTCCCAATTTGAACT-CTT
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAA-TGTTT
* * *
53621566 ATAGAAATGTTCTCTTAGTTTTACATTCAATCAAATT
65 ATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * *
53621603 TT------G--A-----CTTGGTAGTTTGGCATGGCAGTCTATTTCGTCCTAATTTGAATGCTTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
* * * *
53621655 TAGAAATTTCCTCTAAATTTTACGTTCAATCAAA-T
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * * *
53621690 TTGGCAAGGCAATTTGGCTGGGTAGTTTTGCATGACAGTTCATTTCGTCCCGATTTGAATGCTTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
*
53621755 TAGAAATGTCCTATTAATTTTGCATTCAATC-AATT
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * * * * * *
53621790 TTAGAAAGGCAGTTTGGCTAGGTAGTTTGGCATGACCGTCCATTTCGTCCAAATTTGAATGCTTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
*
53621855 TAGAAATGTCCTTTTAATTTTGCATT---T--AA--
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * * * *
53621884 ----C---CAAATTTGGTTGAGAAGTTTGCCATGACAGTCTATTTCGTCCCAATTTGAATGCTTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
* * *
53621942 TGGAAATGTCATCTTAATTTTGCATTCAATAAAATT
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * ** *
53621978 TTGGAAGGGTAGTTTGGCTGGGTAGTTTGGCATGACAGCCCA-ATTCACCTCAATTTGAACT-CT
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCC-CAATTTGAA-TGTT
* * * *
53622041 TATAGAAATGCCCTCTTAATTTTGCATTTAATAAAATC
64 TATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
** * * * * * * ** * * *
53622079 TTGGCAAAGTAGTTTGGTTGGGTAGTTTGGGATAACTGTTTATTTCGTCCTAATTTGAATGCTTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
* * *
53622144 TAAAAATGTCTTCTAAATTTTGCATTCAATC-AATT
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* ** * * * **
53622179 TTGGCA-GGATAGTTTGATTAGGTAGTTTGACATGAGAGTCCATTTCATCCC------AATGTTT
1 TTGGCAGGGA-AATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTT
* * *
53622237 ATAAAAATTTCCTCTTATTTTTGCATTCAATCAAATT
65 ATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * *
53622274 CTT--CTAGAGTAATTTGGC-GGAGTAGTTTGGCATAATAGTCTATTTCGTCCCAATTTGAACT-
1 -TTGGC-AGGGAAATTTGGCTGG-GTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAA-TG
* * * * * * *
53622335 CTTATAAAAATGTTCTCTTAATTTTGCTTTTAATAAAAAT
62 TTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * ** * **
53622375 TTGTCAGGGCAGTTTGGCTTGGTAGTTTGGCATGACAGTCTATTTCATCTCAATTTGAATGCCTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
*
53622440 TTGAAATGTCCTCTTAATTTTGCATTCAATC-AA--
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
** *
53622473 TT----------TTT-G-TAGGGTAGTTTGGCATGACAGTCCATTTCATCCTAATTTGAATGTTT
1 TTGGCAGGGAAATTTGGCT-GGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTT
53622526 ATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
65 ATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* *
53622563 TTGGCA--G-----T-GC-----AGTTTGGCATGACAGTCCATTTAGTCTCAATTTGAACT-TTT
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAA-TGTTT
* * *
53622614 ATAGAAATGCCCTTTTAATTTTTCATTCAATCAAATT
65 ATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * * * * ** *
53622651 TTGGCAGGGCAGTTTAGATTGGTAGTTT--C--GTC---CCAATTTGAATGCTTA-TAGAAATGT
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTG--TCCCAATTTG-AATGT
* * * * * * *
53622708 CTTCT-GAATTTTGCGTTCAATCAATTTT---TTCAA-GAAAGT
63 -TTATAGAAATGT-C-CTC--TTAATTTTGCATTCAATCAAATT
* * * * * * * * *
53622747 ATGG-ATGAGTAGTTTTGCAT-GATAG--T----T-------CATTTGGTCCTAATTTGAATGCT
1 TTGGCA-GGGAAATTTGGC-TGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTT
* * *
53622797 TATTGAAATGTTCTCTTAATTTTGCATTCAATC-ATTT
64 TATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * * ** **
53622834 TTAGCATGGTAGTTTGGCTGGGTAGTTCGGTATGACAGTTTATTTTGTCCCAATTTGAATGCCTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
* * * *
53622899 TATAAATGTCCTCTTAATTGTGTATTAAATCAAATT
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * ** * * * *
53622935 TTGGCA--G--A---------GTAGTTTGGCATAACAGTCGATTTCATTCCAATTTAAATGCTAA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
* * * *
53622987 TAGAAATGTCCTCTTAATTATGGATTCAAGCAAATA
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * *** ** * * *
53623023 CT-GTAGGGCAGTTTGGGAAGGTAGTTTGATATGACAGTCCATTTCGTCCCAAATTGAAATGCTT
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTG-AATGTTT
* * *
53623087 ATAGAAATGTCCTCTTGATTTTTCATTCAATAAAATT
65 ATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* *** * * ** * *
53623124 TTGGTAGGGCCGTTTGGTTGTGTAGTTTGGCATGACAACCCATTTTTTTCCCAATTTGAATGCTT
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCA-TTTTGTCCCAATTTGAATGTTT
* * * *
53623189 ATAGAAATATCCTTTTATTTTTGCATTTAATC-AATT
65 ATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * *
53623225 TTGGTAGGGCAATTT-GCTAGGGTAGTTTGGAATGACAGTCCATTTCGTCCTAATTTGAATGCTT
1 TTGGCAGGGAAATTTGGCT-GGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTT
* **
53623289 ATATAAATGTCCTCTTAA-AGTGCATTCAATCAAATT
65 ATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * ** * *
53623325 TTGGTAGGGCAATTTGGCTAGGTAGTTTGGCATGACAATCCATTTCATCTCAATTTGAATGCTTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
*
53623390 TAGAAATTTCCTCTTAATTTTGCATTCAATC-AATT
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * ** ** * *
53623425 TT---A--GCAA--------GGTAGTTTAGCCTAACAATTAATTTCCTTCCAATTTGAATGCTTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
* ** **
53623477 AAGAAATGTATTCTTAATTTTGCATTCAATCTCATT
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * *
53623513 TTGGTAGGGCAGTTTGGCTGGGTAGTTTGGCATTACAGTCCATTTCGTCCCAATTTGAATGCTTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
* *
53623578 CAGAAATGTCCTCTTAATTTTTCATTCAATCAAATT
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * *
53623614 TTGGC--GG--A----G-T---T-GTTTGGCATGACAATCCATTTCGTCCCAATTTAAATGCTAA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
* * *
53623666 TAGAAATGTTCTCTTAATTTTGCATTTAAGCAAATAT
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAAT-T
*** * * * * * * ** * *
53623703 TT-GCAGGGTGGTTTGGCAGAGTAGTTTGACATGACAATCTACTTCATCCCAAATTGAATGCTTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
*
53623767 TAGTAATGTCCTCTTAATTTTGCATTCAATCAAATT
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * ** * **
53623803 TTGGCAGGGCAGTTTGGTTGTGTAGTTTGGCATGACAGTTTATTTTGTCGCAATTTGAATCCTTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
* * * *
53623868 TATAAATGTCATCTTATTTTTGCTTTCAATC-AATT
66 TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
* * * * * * * * *
53623903 TTGTCAGAGTAGTTTAGCTGGGTAGTTTGGCTTGATAGTCCATTTTGTTCCAATTTGAATGCTTA
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
*
53623968 TA-AAATTGTCCTCTT-ATATTTGCATTCAACCAAATT
66 TAGAAA-TGTCCTCTTAAT-TTTGCATTCAATCAAATT
* * * * * * *
53624004 TTGGCAGGGCAGTTTGGCTGGTTAGTTTGGCATGATAATCGATTTCGTCCCAATTT
1 TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTT
53624060 AGCACTTACA
Statistics
Matches: 2240, Mismatches: 448, Indels: 341
0.74 0.15 0.11
Matches are distributed among these distances:
84 7 0.00
86 4 0.00
87 235 0.10
88 298 0.13
89 8 0.00
90 11 0.00
91 1 0.00
92 3 0.00
93 9 0.00
94 43 0.02
95 46 0.02
96 35 0.02
97 14 0.01
98 3 0.00
99 40 0.02
100 688 0.31
101 713 0.32
102 70 0.03
103 12 0.01
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (101 bp):
TTGGCAGGGAAATTTGGCTGGGTAGTTTGGCATGACAGTCCATTTTGTCCCAATTTGAATGTTTA
TAGAAATGTCCTCTTAATTTTGCATTCAATCAAATT
Found at i:53621757 original size:188 final size:188
Alignment explanation
Indices: 53621421--53621791 Score: 464
Period size: 188 Copynumber: 2.0 Consensus size: 188
53621411 AGTTTGGCTA
* * * * *
53621421 GGTAGTTTGGAATGACAGTTCATTTCTTCCCAATTTGAATGTTTATCGAAAATTTTTCTTAATTT
1 GGTAGTTTGGAATGACAGTTCATTTCGTCCCAATTTGAATGCTTATAGAAAATTTCTCTAAATTT
* * * *
53621486 TGCATTCAATCAAATTTTGGCAGGGAAATTTGGCTGGGAATTTTGGCATAACTGTCCATTTTGTC
66 TACATTCAATCAAATTTTGGCAAGGAAATTTGGCTGGGAATTTTGGCATAACAGTCCATTTCGTC
* * *
53621551 CCAATTTGAACTCTTATAGAAATGTTCTCTTAGTTTTACATTCAATCAAATTTTGACTT
131 CCAATTTGAACTCTTATAGAAATGTCCTATTAATTTTACATTCAATC-AATTTTGACTT
* * *
53621610 GGTAGTTTGGCATGGCAG-TCTATTTCGTCCTAATTTGAATGCTTATAG-AAATTTCCTCTAAAT
1 GGTAGTTTGGAATGACAGTTC-ATTTCGTCCCAATTTGAATGCTTATAGAAAATTT-CTCTAAAT
* * * * *
53621673 TTTACGTTCAATCAAA-TTTGGCAAGGCAATTTGGCTGGGTAGTTTT-GCATGACAGTTCATTTC
64 TTTACATTCAATCAAATTTTGGCAAGGAAATTTGGCTGGG-AATTTTGGCATAACAGTCCATTTC
* *
53621736 GTCCCGATTTGAA-TGCTTATAGAAATGTCCTATTAATTTTGCATTCAATCAATTTT
128 GTCCCAATTTGAACT-CTTATAGAAATGTCCTATTAATTTTACATTCAATCAATTTT
53621792 AGAAAGGCAG
Statistics
Matches: 156, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
187 7 0.04
188 85 0.54
189 64 0.41
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.41
Consensus pattern (188 bp):
GGTAGTTTGGAATGACAGTTCATTTCGTCCCAATTTGAATGCTTATAGAAAATTTCTCTAAATTT
TACATTCAATCAAATTTTGGCAAGGAAATTTGGCTGGGAATTTTGGCATAACAGTCCATTTCGTC
CCAATTTGAACTCTTATAGAAATGTCCTATTAATTTTACATTCAATCAATTTTGACTT
Found at i:53621977 original size:87 final size:87
Alignment explanation
Indices: 53621813--53621978 Score: 242
Period size: 87 Copynumber: 1.9 Consensus size: 87
53621803 TTGGCTAGGT
* * * *
53621813 AGTTTGGCATGACCGTCCATTTCGTCCAAATTTGAATGCTTATAGAAATGTCCTTTTAATTTTGC
1 AGTTTGCCATGACAGTCCATTTCGTCCAAATTTGAATGCTTATAGAAATGTCATCTTAATTTTGC
* *
53621878 ATTTAACCAAATTTGGTTGAGA
66 ATTCAACAAAATTTGGTTGAGA
* * *
53621900 AGTTTGCCATGACAGTCTATTTCGTCCCAATTTGAATGCTTATGGAAATGTCATCTTAATTTTGC
1 AGTTTGCCATGACAGTCCATTTCGTCCAAATTTGAATGCTTATAGAAATGTCATCTTAATTTTGC
*
53621965 ATTCAATAAAATTT
66 ATTCAACAAAATTT
53621979 TGGAAGGGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (87 bp):
AGTTTGCCATGACAGTCCATTTCGTCCAAATTTGAATGCTTATAGAAATGTCATCTTAATTTTGC
ATTCAACAAAATTTGGTTGAGA
Found at i:53622000 original size:13 final size:13
Alignment explanation
Indices: 53621984--53622008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53621974 AATTTTGGAA
53621984 GGGTAGTTTGGCT
1 GGGTAGTTTGGCT
53621997 GGGTAGTTTGGC
1 GGGTAGTTTGGC
53622009 ATGACAGCCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.48, T:0.36
Consensus pattern (13 bp):
GGGTAGTTTGGCT
Found at i:53622085 original size:389 final size:381
Alignment explanation
Indices: 53621111--53624059 Score: 1982
Period size: 389 Copynumber: 7.6 Consensus size: 381
53621101 TTGGCAGGAC
* * * * *
53621111 AATTTGGCTGGGTAGTTTGGCATGAGAGTCCATTTCGTACCAATTTGAATGTTTATAGAAATGTC
1 AATTTGGCTGAGTAGTTTGGCATGACAGTCTATTTCGTCCCAATTTGAATGCTTATAGAAATGT-
* * *
53621176 CTCTTAATTTTGCATTCAAT-CAATTTTTGTAGGGAAGTTTGGCTGGGTAGTTTGGCATGACAGT
65 CTCTTAATTTTGCATTCAATAAAATTTTGGTAGGGCAGTTTGGCTGGGTAGTTTGGCATGACAGT
* * * *
53621240 CAATTTCTTCC-CAATTTGAATGTTTATTGAAGTGTCCTCTTAATTTTGCATTCAATCAAATTTT
130 CCATTTC-TCCTCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAAT-AAATTTT
* * * * *
53621304 GGCAGGGAAATTTTGTTGGTAGTTTGGAATGACAGTCCATTTTGTACCAATTCGAATGCTTATAG
193 GGCA-GG-AA-TTTGTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAG
* * * * * *
53621369 AAATGTCTTCTTAATTTCGCATTCGATCAATTTTTGCAGGGAAGTTTGGCTAGGTAGTTTGGAAT
255 AAATGTCCTCTTAATTTTGCATTCAATCAAATTTTG-AGGGCAGTTTGGCTAGGTAGTTTGGCAT
* * * * **
53621434 GACAGTTCATTTCTTCCCAATTTGAATGTTTATCGAAAAT-TTTTCTTAATTTTGCATTCAATCA
319 GACAGTCCATTTCAT-CCAATTTGAATGCTTATAG-AAATGTCCTCTTAATTTTGCATTCAA-C-
53621498 AATTTTGGCAGGGA
380 --------C----A
* * * * * * *
53621512 AATTTGGCTGGGAATTTTGGCATAACTGTCCATTTTGTCCCAATTTGAACT-CTTATAGAAATGT
1 AATTTGGCTGAGTAGTTTGGCATGACAGTCTATTTCGTCCCAATTTGAA-TGCTTATAGAAATG-
* * * *
53621576 TCTCTTAGTTTTACATTCAATCAAATTTT-G-A---C----T---T-GGTAGTTTGGCATGGCAG
64 TCTCTTAATTTTGCATTCAATAAAATTTTGGTAGGGCAGTTTGGCTGGGTAGTTTGGCATGACAG
* * * * *
53621628 TCTATTTCGTCCT-AATTTGAATGCTTATAGAAATTTCCTCTAAATTTTACGTTCAATCAAA-TT
129 TCCATTTC-TCCTCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAAT-AAATTT
* * *
53621691 TGGCAAGGCAATTTGGCTGGGTAGTTTTGCATGACAGTTCATTTCGTCCCGATTTGAATGCTTAT
192 TGGC-AGG-AATTT-G-TGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTAT
* *
53621756 AGAAATGTCCTATTAATTTTGCATTCAATC-AATTTTAGAAAGGCAGTTTGGCTAGGTAGTTTGG
253 AGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT-G-AGGGCAGTTTGGCTAGGTAGTTTGG
* * * *
53621820 CATGACCGTCCATTTCGTCCAAATTTGAATGCTTATAGAAATGTCCTTTTAATTTTGCATTTAAC
316 CATGACAGTCCATTTCATCC-AATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAAC
53621885 CA
380 CA
* * * *
53621887 AATTTGGTTGAGAAGTTTGCCATGACAGTCTATTTCGTCCCAATTTGAATGCTTATGGAAATGTC
1 AATTTGGCTGAGTAGTTTGGCATGACAGTCTATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
* * *
53621952 ATCTTAATTTTGCATTCAATAAAATTTTGGAAGGGTAGTTTGGCTGGGTAGTTTGGCATGACAGC
66 -TCTTAATTTTGCATTCAATAAAATTTTGGTAGGGCAGTTTGGCTGGGTAGTTTGGCATGACAGT
* * * * *
53622017 CCAATTCACCTCAATTTGAACT-CTTATAGAAATGCCCTCTTAATTTTGCATTTAATAAAATCTT
130 CCATTTCTCCTCAATTTGAA-TGCTTATAGAAATGTCCTCTTAATTTTGCATTCAAT-AAATTTT
* * * * * ** *
53622081 GGCAAAGTAGTTTGGTTGGGTAGTTTGGGATAACTGTTTATTTCGTCCTAATTTGAATGCTTATA
193 GGC--AGGAATTT-G-TGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATA
* * * ** ** *
53622146 AAAATGTCTTCTAAATTTTGCATTCAATC-AATTTTGGCAGGATAGTTTGATTAGGTAGTTTGAC
254 GAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT-G-AGGGCAGTTTGGCTAGGTAGTTTGGC
* * * *
53622210 ATGAGAGTCCATTTCATCCCAA--TG--T--TTATAAAAATTTCCTCTTATTTTTGCATTCAATC
317 ATGACAGTCCATTTCAT-CCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCA-T---TC
53622269 AAATTCTTCTAGA
377 -AA--C--C---A
* * * *
53622282 GTAATTTGGCGGAGTAGTTTGGCATAATAGTCTATTTCGTCCCAATTTGAACT-CTTATAAAAAT
1 --AATTTGGCTGAGTAGTTTGGCATGACAGTCTATTTCGTCCCAATTTGAA-TGCTTATAGAAAT
* * * *
53622346 GTTCTCTTAATTTTGCTTTTAATAAAAATTT-GTCAGGGCAGTTTGGCTTGGTAGTTTGGCATGA
63 G-TCTCTTAATTTTGCATTCAATAAAATTTTGGT-AGGGCAGTTTGGCTGGGTAGTTTGGCATGA
* * * *
53622410 CAGTCTATTTCAT-CTCAATTTGAATGCCTATTGAAATGTCCTCTTAATTTTGCATTCAATCAA-
126 CAGTCCATTTC-TCCTCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATAAAT
* * *
53622473 -TT--------TTTGTAGGGTAGTTTGGCATGACAGTCCATTTCATCCTAATTTGAATGTTTATA
190 TTTGGCAGGAATTTGT-GGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATA
53622529 GAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT---GGCAG--T-GC-----AGTTTGGCAT
254 GAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGAGGGCAGTTTGGCTAGGTAGTTTGGCAT
* * * * *
53622583 GACAGTCCATTT-AGTCTCAATTTGAACT-TTTATAGAAATGCCCTTTTAATTTTTCATTCAATC
319 GACAGTCCATTTCA-TC-CAATTTGAA-TGCTTATAGAAATGTCCTCTTAATTTTGCATTCAACC
53622646 A
381 A
* * * *
53622647 AATTTTGGCAGGGCAGTTTAG-ATTG---G--TAGTTTCGTCCCAATTTGAATGCTTATAGAAAT
1 AA-TTTGGCTGAGTAGTTTGGCA-TGACAGTCTA-TTTCGTCCCAATTTGAATGCTTATAGAAAT
* * * * * ** * * * *
53622706 GTCTTCTGAATTTTGCGTTCAAT-CAATTTT-TTCAAGAAAGTATGGATGAGTAGTTTTGCATGA
63 GTC-TCTTAATTTTGCATTCAATAAAATTTTGGT-AGGGCAGTTTGGCTGGGTAGTTTGGCATGA
* * * * * * *
53622769 TAGTTCATTTGGTCCT-AATTTGAATGCTTATTGAAATGTTCTCTTAATTTTGCATTCAATCATT
126 CAGTCCATTT-CTCCTCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATAAAT
* * * * ** * *
53622833 TTTAGCATGGTAGTTTGGCTGGGTAGTTCGGTATGACAGTTTATTTTGTCCCAATTTGAATGCCT
190 TTTGGCA-GG-AATTT-G-TGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTT
* * * *
53622898 ATATAAATGTCCTCTTAATTGTGTATTAAATCAAATTTT---GGCA-----G--A-GTAGTTTGG
251 ATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGAGGGCAGTTTGGCTAGGTAGTTTGG
* * * * * * *
53622952 CATAACAGTCGATTTCATTCCAATTTAAATGCTAATAGAAATGTCCTCTTAATTATGGATTCAAG
316 CATGACAGTCCATTTCA-TCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAAC
53623017 CA
380 CA
** * *
53623019 AATACTGTAGGGCAGTTTGGGAAGGTAGTTTGATATGACAGTCCATTTCGTCCCAAATTGAAATG
1 AAT--T-T--GGC----T--G-A-GTAGTTTGGCATGACAGTCTATTTCGTCCCAATTTG-AATG
* * * * *
53623084 CTTATAGAAATGTCCTCTTGATTTTTCATTCAATAAAATTTTGGTAGGGCCGTTTGGTTGTGTAG
52 CTTATAGAAATGT-CTCTTAATTTTGCATTCAATAAAATTTTGGTAGGGCAGTTTGGCTGGGTAG
** * * * *
53623149 TTTGGCATGACAACCCATTTTTTTCC-CAATTTGAATGCTTATAGAAATATCCTTTTATTTTTGC
116 TTTGGCATGACAGTCCA--TTTCTCCTCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGC
* * * * *
53623213 ATTTAATCAATTTTGGTAGGGCAATTTGCTAGGGTAGTTTGGAATGACAGTCCATTTCGTCCTAA
179 ATTCAATAAATTTTGGCA-GG-AATTTG-T-GGGTAGTTTGGCATGACAGTCCATTTCGTCCCAA
* ** *
53623278 TTTGAATGCTTATATAAATGTCCTCTTAA-AGTGCATTCAATCAAATTTTGGTAGGGCAATTTGG
240 TTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTT-G-AGGGCAGTTTGG
* *
53623342 CTAGGTAGTTTGGCATGACAATCCATTTCATCTCAATTTGAATGCTTATAGAAATTTCCTCTTAA
303 CTAGGTAGTTTGGCATGACAGTCCATTTCATC-CAATTTGAATGCTTATAGAAATGTCCTCTTAA
*
53623407 TTTTGCATTCAATCA
367 TTTTGCATTCAACCA
* * * * * * * * * *
53623422 ATTTTAGC-AAGGTAGTTTAGCCTAACAAT-TAATTTCCTTCCAATTTGAATGCTTAAAGAAATG
1 AATTTGGCTGA-GTAGTTTGGCATGACAGTCT-ATTTCGTCCCAATTTGAATGCTTATAGAAATG
* *** *
53623485 TATTCTTAATTTTGCATTCAATCTCATTTTGGTAGGGCAGTTTGGCTGGGTAGTTTGGCATTACA
64 T-CTCTTAATTTTGCATTCAATAAAATTTTGGTAGGGCAGTTTGGCTGGGTAGTTTGGCATGACA
* *
53623550 GTCCATTTCGTCC-CAATTTGAATGCTTACAGAAATGTCCTCTTAATTTTTCATTCAATCAAATT
128 GTCCATTTC-TCCTCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAAT-AAATT
* * *
53623614 TTGGC-GG-A---GT---T-GTTTGGCATGACAATCCATTTCGTCCCAATTTAAATGCTAATAGA
191 TTGGCAGGAATTTGTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGA
* * * ** *
53623670 AATGTTCTCTTAATTTTGCATTTAAGCAAATATTTGCAGGGTGGTTTGGC-AGAGTAGTTTGACA
256 AATGTCCTCTTAATTTTGCATTCAATCAAAT-TTTG-AGGGCAGTTTGGCTAG-GTAGTTTGGCA
* * * * * *
53623734 TGACAATCTACTTCATCCCAAATTGAATGCTTATAGTAATGTCCTCTTAATTTTGCATTCAATCA
318 TGACAGTCCATTTCAT-CCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAACCA
* * * * *
53623799 AATTTTGGCAGGGCAGTTTGGTTGTGTAGTTTGGCATGACAGTTTATTTTGTCGCAATTTGAATC
1 AA-TTT-----GGC--------TGAGTAGTTTGGCATGACAGTCTATTTCGTCCCAATTTGAATG
* * * * * * *
53623864 CTTATATAAATGTCATCTTATTTTTGCTTTCAAT-CAATTTT-GTCAGAGTAGTTTAGCTGGGTA
52 CTTATAGAAATGTC-TCTTAATTTTGCATTCAATAAAATTTTGGT-AGGGCAGTTTGGCTGGGTA
* * **
53623927 GTTTGGCTTGATAGTCCATTT-TGTTCCAATTTGAATGCTTATA-AAATTGTCCTCTT-ATATTT
115 GTTTGGCATGACAGTCCATTTCTCCT-CAATTTGAATGCTTATAGAAA-TGTCCTCTTAAT-TTT
* * * * * *
53623989 GCATTCAACCAAATTTTGGCAGGGCAGTTTGGCTGGTTAGTTTGGCATGATAATCGATTTCGTCC
177 GCATTCAA-TAAATTTTGGCA-GG-AATTT-G-TGGGTAGTTTGGCATGACAGTCCATTTCGTCC
53624054 CAATTT
237 CAATTT
53624060 AGCACTTACA
Statistics
Matches: 2028, Mismatches: 351, Indels: 336
0.75 0.13 0.12
Matches are distributed among these distances:
359 86 0.04
360 46 0.02
361 3 0.00
363 3 0.00
364 15 0.01
365 1 0.00
368 1 0.00
370 3 0.00
371 29 0.01
372 136 0.07
373 9 0.00
374 4 0.00
375 77 0.04
376 59 0.03
377 117 0.06
378 7 0.00
379 4 0.00
381 1 0.00
382 3 0.00
383 93 0.05
384 19 0.01
385 3 0.00
387 16 0.01
388 143 0.07
389 447 0.22
390 170 0.08
391 169 0.08
392 7 0.00
393 1 0.00
394 2 0.00
395 5 0.00
396 4 0.00
397 154 0.08
398 6 0.00
399 1 0.00
400 3 0.00
401 73 0.04
402 12 0.01
403 96 0.05
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (381 bp):
AATTTGGCTGAGTAGTTTGGCATGACAGTCTATTTCGTCCCAATTTGAATGCTTATAGAAATGTC
TCTTAATTTTGCATTCAATAAAATTTTGGTAGGGCAGTTTGGCTGGGTAGTTTGGCATGACAGTC
CATTTCTCCTCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATAAATTTTGGC
AGGAATTTGTGGGTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGT
CCTCTTAATTTTGCATTCAATCAAATTTTGAGGGCAGTTTGGCTAGGTAGTTTGGCATGACAGTC
CATTTCATCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAACCA
Found at i:53622544 original size:188 final size:187
Alignment explanation
Indices: 53622295--53624021 Score: 1035
Period size: 188 Copynumber: 9.1 Consensus size: 187
53622285 ATTTGGCGGA
* * * * *
53622295 GTAGTTTGGCATAATAGTCTATTTCGTCCCAATTTGAACT-CTTATAAAAATGTTCTCTTAATTT
1 GTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAA-TGCTTATAGAAATGTCCTCTTAATTT
* * *
53622359 TGCTTTTAATAAAAATTTGTCAGGGCAGTTTGGCTTGGTAGTTTGGCATGACAGTCTATTTCATC
65 TGCATTCAATAAAAATTTGT-AGGGCAGTTTGGCTTGGTAGTTTGGCATGACAGTCCATTTCATC
* * *
53622424 TCAATTTGAATGCCTATTGAAATGTCCTCTTAATTTTGCATTCAATCAATTTTTGTAGG
129 TCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAATTTTTGCAGG
* * *
53622483 GTAGTTTGGCATGACAGTCCATTTCATCCTAATTTGAATGTTTATAGAAATGTCCTCTTAATTTT
1 GTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTT
*
53622548 GCATTCAAT-CAAATTT-T--GGCAG--T-GC-----AGTTTGGCATGACAGTCCATTT-AGTCT
66 GCATTCAATAAAAATTTGTAGGGCAGTTTGGCTTGGTAGTTTGGCATGACAGTCCATTTCA-TCT
* * * * *
53622600 CAATTTGAACT-TTTATAGAAATGCCCTTTTAATTTTTCATTCAATCAAATTTTGGCAGG
130 CAATTTGAA-TGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATC-AATTTTTGCAGG
* * * *
53622659 GCAGTTTAG-ATTG---GT--AGTTTCGTCCCAATTTGAATGCTTATAGAAATGTCTTCTGAATT
1 GTAGTTTGGCA-TGACAGTCCA-TTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATT
* * * * * ** * * * * * **
53622718 TTGCGTTCAAT-CAATTTTTTCAAGAAAGTATGG-ATGAGTAGTTTTGCATGATAGTTCATTTGG
64 TTGCATTCAATAAAAATTTGT-AGGGCAGTTTGGCTTG-GTAGTTTGGCATGACAGTCCATTTCA
* * *
53622781 TC-CTAATTTGAATGCTTATTGAAATGTTCTCTTAATTTTGCATTCAATC-ATTTTTAGCATG
127 TCTC-AATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAATTTTT-GCAGG
** * * *
53622842 GTAGTTTGGCTGGGTAGTTCGGTATGACAGTTTATTTTGTCCCAATTTGAATGCCTATATAAATG
1 GTAG-TT---T--G--G--C---ATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATG
* * * * * *
53622907 TCCTCTTAATTGTGTATTAAAT-CAAATTT-T--GGCA-----G---AGTAGTTTGGCATAACAG
53 TCCTCTTAATTTTGCATTCAATAAAAATTTGTAGGGCAGTTTGGCTTGGTAGTTTGGCATGACAG
* * * * * *
53622960 TCGATTTCAT-TCCAATTTAAATGCTAATAGAAATGTCCTCTTAATTATGGATTCAAGCAAATAC
118 TCCATTTCATCT-CAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATC--A-A-
* *
53623024 TGTAGGGCAGTTTGGGAAG
178 T-T-------TTT-GCAGG
** * *
53623043 GTAGTTTGATATGACAGTCCATTTCGTCCCAAATTGAAATGCTTATAGAAATGTCCTCTTGATTT
1 GTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTG-AATGCTTATAGAAATGTCCTCTTAATTT
* * * ** **
53623108 TTCATTCAATAAAATTTTGGTAGGGCCGTTTGG-TTGTGTAGTTTGGCATGACAACCCATTTTTT
65 TGCATTCAATAAAAATTT-GTAGGGCAGTTTGGCTTG-GTAGTTTGGCATGACAGTCCA-TTTCA
* * * * *
53623172 TCCCAATTTGAATGCTTATAGAAATATCCTTTTATTTTTGCATTTAATCAATTTTGGTAGGGCAA
127 TCTCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAA---T--T-------
53623237 TTTGCTAGG
180 TTTGC-AGG
* * * **
53623246 GTAGTTTGGAATGACAGTCCATTTCGTCCTAATTTGAATGCTTATATAAATGTCCTCTTAA-AGT
1 GTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTT
* * * * *
53623310 GCATTCAATCAAATTTTGGTAGGGCAATTTGGCTAGGTAGTTTGGCATGACAATCCATTTCATCT
66 GCATTCAATAAAAATTT-GTAGGGCAGTTTGGCTTGGTAGTTTGGCATGACAGTCCATTTCATCT
* * *
53623375 CAATTTGAATGCTTATAGAAATTTCCTCTTAATTTTGCATTCAATCAATTTTAGCAAG
130 CAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAATTTTTGCAGG
* * * * ** * * * **
53623433 GTAGTTTAGCCTAACAATTAATTTCCTTCCAATTTGAATGCTTAAAGAAATGTATTCTTAATTTT
1 GTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTT
*** * * * * *
53623498 GCATTCAATCTCATTTTGGTAGGGCAGTTTGGCTGGGTAGTTTGGCATTACAGTCCATTTCGTCC
66 GCATTCAATAAAAATTT-GTAGGGCAGTTTGGCTTGGTAGTTTGGCATGACAGTCCATTTCATCT
* * *
53623563 CAATTTGAATGCTTACAGAAATGTCCTCTTAATTTTTCATTCAATCAAATTTTGGC-GG
130 CAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATC-AATTTTTGCAGG
* * * * *
53623621 AGTTGTTTGGCATGACAATCCATTTCGTCCCAATTTAAATGCTAATAGAAATGTTCTCTTAATTT
1 -GTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTT
* * * * ** * * * * *
53623686 TGCATTTAAGCAAATATTTGCAGGGTGGTTTGGC-AGAGTAGTTTGACATGACAATCTACTTCAT
65 TGCATTCAA-TAAAAATTTGTAGGGCAGTTTGGCTTG-GTAGTTTGGCATGACAGTCCATTTCAT
* * * *
53623750 CCCAAATTGAATGCTTATAGTAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGGGCAG
128 CTCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATC-AATTTT-----TGCA-
53623815 TTTGGTTG
186 ----G--G
** * * * * * *
53623823 TGTAGTTTGGCATGACAGTTTATTTTGTCGCAATTTGAATCCTTATATAAATGTCATCTTATTTT
1 -GTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTT
* * * * * * * * * **
53623888 TGCTTTCAAT-CAATTTTGTCAGAGTAGTTTAGCTGGGTAGTTTGGCTTGATAGTCCATTTTGT-
65 TGCATTCAATAAAAATTTGT-AGGGCAGTTTGGCTTGGTAGTTTGGCATGACAGTCCATTTCATC
* *
53623951 TCCAATTTGAATGCTTATA-AAATTGTCCTCTT-ATATTTGCATTCAACCAAATTTTGGCAGG
129 T-CAATTTGAATGCTTATAGAAA-TGTCCTCTTAAT-TTTGCATTCAATC-AATTTTTGCAGG
*
53624012 GCAGTTTGGC
1 GTAGTTTGGC
53624022 TGGTTAGTTT
Statistics
Matches: 1202, Mismatches: 236, Indels: 202
0.73 0.14 0.12
Matches are distributed among these distances:
171 1 0.00
172 53 0.04
173 3 0.00
174 1 0.00
175 63 0.05
176 23 0.02
178 1 0.00
179 1 0.00
180 2 0.00
181 1 0.00
182 5 0.00
183 14 0.01
184 60 0.05
186 1 0.00
187 57 0.05
188 258 0.21
189 184 0.15
190 8 0.01
191 3 0.00
192 2 0.00
193 1 0.00
194 7 0.01
195 2 0.00
196 8 0.01
197 3 0.00
199 4 0.00
200 112 0.09
201 134 0.11
202 104 0.09
203 86 0.07
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (187 bp):
GTAGTTTGGCATGACAGTCCATTTCGTCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTT
GCATTCAATAAAAATTTGTAGGGCAGTTTGGCTTGGTAGTTTGGCATGACAGTCCATTTCATCTC
AATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAATTTTTGCAGG
Found at i:53622615 original size:88 final size:88
Alignment explanation
Indices: 53622398--53622736 Score: 392
Period size: 88 Copynumber: 3.9 Consensus size: 88
53622388 TTGGCTTGGT
* ** *
53622398 AGTTTGGCATGACAGTCTATTTCATCTCAATTTGAATGCCTATTGAAATGTCCTCTTAATTTTGC
1 AGTTTGGCATGACAGTCCATTTCATCTCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGC
* * *
53622463 ATTCAATC-AATTTTTGTAGGGT
66 ATTCAATCAAATTTTGGCAGGGC
53622485 AGTTTGGCATGACAGTCCATTTCATC-CTAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTG
1 AGTTTGGCATGACAGTCCATTTCATCTC-AATTTGAATGTTTATAGAAATGTCCTCTTAATTTTG
*
53622549 CATTCAATCAAATTTTGGCAGTGC
65 CATTCAATCAAATTTTGGCAGGGC
* *
53622573 AGTTTGGCATGACAGTCCATTT-AGTCTCAATTTGAACT-TTTATAGAAATGCCCTTTTAATTTT
1 AGTTTGGCATGACAGTCCATTTCA-TCTCAATTTGAA-TGTTTATAGAAATGTCCTCTTAATTTT
*
53622636 TCATTCAATCAAATTTTGGCAGGGC
64 GCATTCAATCAAATTTTGGCAGGGC
* * * * * *
53622661 AGTTTAG-ATTG---GT--AGTTTCGTCCCAATTTGAATGCTTATAGAAATGTCTTCTGAATTTT
1 AGTTTGGCA-TGACAGTCCA-TTTCATCTCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTT
* *
53622720 GCGTTCAATCAATTTTT
64 GCATTCAATCAAATTTT
53622737 TCAAGAAAGT
Statistics
Matches: 220, Mismatches: 23, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
83 2 0.01
84 48 0.22
85 2 0.01
86 1 0.00
87 69 0.31
88 96 0.44
89 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (88 bp):
AGTTTGGCATGACAGTCCATTTCATCTCAATTTGAATGTTTATAGAAATGTCCTCTTAATTTTGC
ATTCAATCAAATTTTGGCAGGGC
Found at i:53623717 original size:88 final size:87
Alignment explanation
Indices: 53623525--53623720 Score: 250
Period size: 88 Copynumber: 2.2 Consensus size: 87
53623515 GGTAGGGCAG
* * * *
53623525 TTTGGCTGGGTAGTTTGGCATTACAGTCCATTTCGTCCCAATTTGAATGCTTACAGAAATGTCCT
1 TTTGGC-GGGTAGTTTGGCATGACAATCCATTTCGTCCCAATTTAAATGCTAACAGAAATGTCCT
* *
53623590 CTTAATTTTTCATTCAATCAAAT
65 CTTAATTTTGCATTCAAGCAAAT
* * *
53623613 TTTGGCGGAGTTGTTTGGCATGACAATCCATTTCGTCCCAATTTAAATGCTAATAGAAATGTTCT
1 TTTGGCGG-GTAGTTTGGCATGACAATCCATTTCGTCCCAATTTAAATGCTAACAGAAATGTCCT
*
53623678 CTTAATTTTGCATTTAAGCAAAT
65 CTTAATTTTGCATTCAAGCAAAT
*
53623701 ATTT-GCAGGGTGGTTTGGCA
1 -TTTGGC-GGGTAGTTTGGCA
53623721 GAGTAGTTTG
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
87 2 0.02
88 87 0.93
89 5 0.05
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (87 bp):
TTTGGCGGGTAGTTTGGCATGACAATCCATTTCGTCCCAATTTAAATGCTAACAGAAATGTCCTC
TTAATTTTGCATTCAAGCAAAT
Found at i:53623781 original size:189 final size:188
Alignment explanation
Indices: 53623245--53624021 Score: 685
Period size: 189 Copynumber: 4.1 Consensus size: 188
53623235 AATTTGCTAG
* * * * * * **
53623245 GGTAGTTTGGAATGACAGTCCATTTCGTCCTAATTTGAATGCTTATATAAATGTCCTCTTAA-AG
1 GGTAGTTTGGCATGACAATCCATTTCGTCCCAATTTGAATGCTAATAGAAATGTTCTCTTAATTT
*
53623309 TGCATTCAATCAAATTTTGGTAGGGCAATTTGGCTAGGTAGTTTGGCATGACAATCCATTTCATC
66 TGCATTCAATCAAATTTTGGTAGGGCAGTTTGGC-AGGTAGTTTGGCATGACAATCCATTTCATC
* * *
53623374 TCAATTTGAATGCTTATAGAAATTTCCTCTTAATTTTGCATTCAATC-AATTTTAGCAA
130 CCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAA
* * * ** * *
53623432 GGTAGTTTAGCCTAACAATTAATTTCCTTCCAATTTGAATGCTTAA-AGAAATGTAT-TCTTAAT
1 GGTAGTTTGGCATGACAATCCATTTCGTCCCAATTTGAATGC-TAATAGAAATGT-TCTCTTAAT
** * * * *
53623495 TTTGCATTCAATCTCATTTTGGTAGGGCAGTTTGGCTGGGTAGTTTGGCATTACAGTCCATTTCG
64 TTTGCATTCAATCAAATTTTGGTAGGGCAGTTTGGC-AGGTAGTTTGGCATGACAATCCATTTCA
* * *
53623560 TCCCAATTTGAATGCTTACAGAAATGTCCTCTTAATTTTTCATTCAATCAAATTTTGGC-G
128 TCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAA
* *
53623620 GAGTTGTTTGGCATGACAATCCATTTCGTCCCAATTTAAATGCTAATAGAAATGTTCTCTTAATT
1 G-GTAGTTTGGCATGACAATCCATTTCGTCCCAATTTGAATGCTAATAGAAATGTTCTCTTAATT
* * * ** * * *
53623685 TTGCATTTAAGCAAATATTT-GCAGGGTGGTTTGGCAGAGTAGTTTGACATGACAATCTACTTCA
65 TTGCATTCAATCAAAT-TTTGGTAGGGCAGTTTGGCAG-GTAGTTTGGCATGACAATCCATTTCA
* *
53623749 TCCCAAATTGAATGCTTATAGTAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAGGGCA
128 TCCCAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGGCA----A
* ** * * * * *
53623814 GTTTGGTTGTGTAGTTTGGCATGACAGTTTATTTTGTCGCAATTTGAATCCTTATATAAATG-TC
1 --------G-GTAGTTTGGCATGACAATCCATTTCGTCCCAATTTGAATGCTAATAGAAATGTTC
* * * * * * * * *
53623878 ATCTTATTTTTGCTTTCAATC-AATTTT-GTCAGAGTAGTTTAGCTGGGTAGTTTGGCTTGATAG
57 -TCTTAATTTTGCATTCAATCAAATTTTGGT-AGGGCAGTTTGGC-AGGTAGTTTGGCATGACAA
** * *
53623941 TCCATTTTGTTCCAATTTGAATGCTTATA-AAATTGTCCTCTT-ATATTTGCATTCAACCAAATT
119 TCCATTTCATCCCAATTTGAATGCTTATAGAAA-TGTCCTCTTAAT-TTTGCATTCAATCAAATT
*
53624004 TTGGCAG
182 TTGGCAA
*
53624011 GGCAGTTTGGC
1 GGTAGTTTGGC
53624022 TGGTTAGTTT
Statistics
Matches: 473, Mismatches: 90, Indels: 53
0.77 0.15 0.09
Matches are distributed among these distances:
187 45 0.10
188 118 0.25
189 156 0.33
190 3 0.01
200 8 0.02
201 83 0.18
202 60 0.13
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (188 bp):
GGTAGTTTGGCATGACAATCCATTTCGTCCCAATTTGAATGCTAATAGAAATGTTCTCTTAATTT
TGCATTCAATCAAATTTTGGTAGGGCAGTTTGGCAGGTAGTTTGGCATGACAATCCATTTCATCC
CAATTTGAATGCTTATAGAAATGTCCTCTTAATTTTGCATTCAATCAAATTTTGGCAA
Found at i:53624429 original size:10 final size:10
Alignment explanation
Indices: 53624414--53624459 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
53624404 TAATATTAGC
53624414 ATTTATCTTT
1 ATTTATCTTT
53624424 ATTTATCTTT
1 ATTTATCTTT
*
53624434 AATTATCTTT
1 ATTTATCTTT
*
53624444 AATTAT-TTGT
1 ATTTATCTT-T
53624454 ATTTAT
1 ATTTAT
53624460 ATTTTAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 2 0.06
10 31 0.94
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:53639020 original size:46 final size:46
Alignment explanation
Indices: 53638953--53639125 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
53638943 TAACCCACCT
*
53638953 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
*
53638999 ATAAGCAAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
* * * *
53639045 ATAAGTGAACT-GGAACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT-C
1 ATAAGCGAACTCGG-ACTCAACTCAACGAGCTCGG--G-C--GTTCGCATCC
*
53639094 -TCA-CGAACTCGGACTCAACTCAACGAGCTCGG
1 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
53639126 AACTCAAATA
Statistics
Matches: 109, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
45 2 0.02
46 71 0.65
47 23 0.21
48 5 0.05
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
Found at i:53644920 original size:28 final size:28
Alignment explanation
Indices: 53644854--53644979 Score: 171
Period size: 29 Copynumber: 4.4 Consensus size: 28
53644844 CATGAGATTG
* * **
53644854 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
53644883 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
53644911 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
53644940 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
53644968 ACACTAAGTGTG
1 GCACTAAGTGTG
53644980 TGGACTTACT
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 43 0.49
29 44 0.51
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:53644943 original size:57 final size:57
Alignment explanation
Indices: 53644854--53644979 Score: 182
Period size: 57 Copynumber: 2.2 Consensus size: 57
53644844 CATGAGATTG
*
53644854 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
53644911 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
53644968 ACACTAAGTGTG
1 GCACTAAGTGTG
53644980 TGGACTTACT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
57 59 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:53646718 original size:15 final size:16
Alignment explanation
Indices: 53646695--53646741 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
53646685 GAGGCAACCC
53646695 AATTTTTATTTTTATT
1 AATTTTTATTTTTATT
* *
53646711 TA-TTTTATTTTTCTT
1 AATTTTTATTTTTATT
53646726 AATTTTTA-TTTTATT
1 AATTTTTATTTTTATT
53646741 A
1 A
53646742 TTACTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 20 0.77
16 6 0.23
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
AATTTTTATTTTTATT
Found at i:53646753 original size:21 final size:20
Alignment explanation
Indices: 53646705--53646753 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
53646695 AATTTTTATT
*
53646705 TTTA-TTTATTTTATTTTTC
1 TTTATTTTATTTTATTTTAC
*
53646724 TTAATTTTTATTTTATTATTAC
1 TTTA-TTTTATTTTATT-TTAC
53646746 TTTATTTT
1 TTTATTTT
53646754 GTTTGGATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.12
21 15 0.62
22 6 0.25
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTATTTTATTTTATTTTAC
Found at i:53648537 original size:40 final size:40
Alignment explanation
Indices: 53648482--53648706 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
53648472 CTTGCACAAG
* * * * *
53648482 GCCTTCGGGTCTTAGCCTGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
53648522 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
** * *
53648562 GCCTTTAGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
53648602 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * *
53648642 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* *
53648683 GCCTTCGAGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
53648707 CATTCGAATA
Statistics
Matches: 153, Mismatches: 30, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 123 0.80
41 29 0.19
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:53648595 original size:80 final size:81
Alignment explanation
Indices: 53648446--53648706 Score: 237
Period size: 80 Copynumber: 3.3 Consensus size: 81
53648436 CTCAAGTAAT
* * * * * * * * * * **
53648446 CTTCGGGATTTAG-TCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCTGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTAGGATCTTAGCCCGGATATAAT
*
53648509 CA-CTAGCATAAATGC
66 CACCTAGCACAAATGC
* *
53648524 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTTAGG-TTTTAGCCCGGATATA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCC-TTAGGATCTTAGCCCGGATATA
*
53648587 ATC-GCTAGCACAAATGC
64 ATCACCTAGCACAAATGC
* * * * * * *
53648604 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTAGGATCTTAGCCCGGATATAAT
*
53648669 CACCTAGCACAAAAGC
66 CACCTAGCACAAATGC
*
53648685 CTTCGAGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
53648707 CATTCGAATA
Statistics
Matches: 149, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
78 12 0.08
79 19 0.13
80 82 0.55
81 36 0.24
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTAGGATCTTAGCCCGGATATAAT
CACCTAGCACAAATGC
Found at i:53656678 original size:40 final size:40
Alignment explanation
Indices: 53656588--53656848 Score: 262
Period size: 40 Copynumber: 6.5 Consensus size: 40
53656578 CTCAAGTAAT
* * * *
53656588 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * *
53656626 CTTTGGGTCTTAGCCCGGATGTGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
53656666 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* ** * *
53656706 CTTCAGGTTTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
53656746 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
53656786 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
53656827 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
53656849 CATTCGAATA
Statistics
Matches: 182, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
38 10 0.05
39 16 0.09
40 126 0.69
41 27 0.15
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:53658753 original size:16 final size:14
Alignment explanation
Indices: 53658726--53658772 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
53658716 TACGATTTTG
53658726 TCTGTTTGATTTCA
1 TCTGTTTGATTTCA
**
53658740 TCTAGTTATGATTTTG
1 TCT-GTT-TGATTTCA
53658756 TCTGTTTGATTTCA
1 TCTGTTTGATTTCA
53658770 TCT
1 TCT
53658773 CCACTGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 12 0.44
15 6 0.22
16 9 0.33
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.57
Consensus pattern (14 bp):
TCTGTTTGATTTCA
Found at i:53658753 original size:30 final size:30
Alignment explanation
Indices: 53658712--53658772 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
53658702 TCTACTGAGT
53658712 TAGTTACGATTTTGTCTGTTTGATTTCATC
1 TAGTTACGATTTTGTCTGTTTGATTTCATC
*
53658742 TAGTTATGATTTTGTCTGTTTGATTTCATC
1 TAGTTACGATTTTGTCTGTTTGATTTCATC
53658772 T
1 T
53658773 CCACTGTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.56
Consensus pattern (30 bp):
TAGTTACGATTTTGTCTGTTTGATTTCATC
Found at i:53658767 original size:14 final size:14
Alignment explanation
Indices: 53658719--53658767 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
53658709 AGTTAGTTAC
53658719 GATTTTGTCTGTTT
1 GATTTTGTCTGTTT
**
53658733 GATTTCATCTAGTTAT
1 GATTTTGTCT-GTT-T
53658749 GATTTTGTCTGTTT
1 GATTTTGTCTGTTT
53658763 GATTT
1 GATTT
53658768 CATCTCCACT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 14 0.48
15 6 0.21
16 9 0.31
ACGTcount: A:0.14, C:0.08, G:0.18, T:0.59
Consensus pattern (14 bp):
GATTTTGTCTGTTT
Found at i:53660001 original size:10 final size:10
Alignment explanation
Indices: 53659986--53660023 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
53659976 AATTTAGCAT
53659986 TTATCTTTAA
1 TTATCTTTAA
53659996 TTATCTTTAA
1 TTATCTTTAA
* *
53660006 TTATTTTTAT
1 TTATCTTTAA
53660016 TTATCTTT
1 TTATCTTT
53660024 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:53664401 original size:76 final size:77
Alignment explanation
Indices: 53664308--53664462 Score: 240
Period size: 76 Copynumber: 2.0 Consensus size: 77
53664298 AATTAAATTG
* * *
53664308 TGGTGCATCAAGTAAATTGCATGAGTAATTACAATAAAAATTAATTAAT-AAATATTTTTTAATT
1 TGGTGCATCAAGTAAATTGCATGAATAATTACAATAAAAATTAATTAATAAAAAATCTTTTAATT
53664372 AATACAAAAGTA
66 AATACAAAAGTA
* *
53664384 TGGTTCATCAATTAAATTGCATGAATAATTACAATAAAAATTAATTAATAAAAAATCTTTTAATT
1 TGGTGCATCAAGTAAATTGCATGAATAATTACAATAAAAATTAATTAATAAAAAATCTTTTAATT
* *
53664449 AATGCAAAATTA
66 AATACAAAAGTA
53664461 TG
1 TG
53664463 ATACAAAATC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
76 46 0.65
77 25 0.35
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (77 bp):
TGGTGCATCAAGTAAATTGCATGAATAATTACAATAAAAATTAATTAATAAAAAATCTTTTAATT
AATACAAAAGTA
Found at i:53665584 original size:27 final size:27
Alignment explanation
Indices: 53665544--53665595 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
53665534 GAACGATCTC
*
53665544 GGTCTCAATGATAATCCAAATGGTCTT
1 GGTCTCAATAATAATCCAAATGGTCTT
*
53665571 GGTCTCGATAATAATCCAAATGGTC
1 GGTCTCAATAATAATCCAAATGGTC
53665596 AGGATGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (27 bp):
GGTCTCAATAATAATCCAAATGGTCTT
Found at i:53666658 original size:16 final size:16
Alignment explanation
Indices: 53666637--53666676 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
53666627 GTTTAGGGTT
*
53666637 TTCTTTGTGTTTTGTA
1 TTCTTTATGTTTTGTA
53666653 TTCTTTATGTTTTGTA
1 TTCTTTATGTTTTGTA
53666669 TTCTTTAT
1 TTCTTTAT
53666677 TCTTCTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.10, C:0.07, G:0.12, T:0.70
Consensus pattern (16 bp):
TTCTTTATGTTTTGTA
Found at i:53675257 original size:67 final size:70
Alignment explanation
Indices: 53675110--53675270 Score: 193
Period size: 67 Copynumber: 2.3 Consensus size: 70
53675100 TATTTTTTGC
* * * *
53675110 CATAGTCAAGCTATGGTCTTACACAATGTAACCCCCTATTTTTGTTGTCCTGGCAGACTCTATTT
1 CATAGTCGAGCTATGGTCTTACACAATGTAACCCCCTATTTATGTTGTCCTAGCAGACTCTATTG
*
53675175 GTTTT
66 GTTAT
* * * * * **
53675180 CATAGCCGAGCCAT-GTCTTACATAATGTAACCCCGTGTTTAT-TT-TCCTAGTGGACTCTATTG
1 CATAGTCGAGCTATGGTCTTACACAATGTAACCCCCTATTTATGTTGTCCTAGCAGACTCTATTG
53675242 GTTAT
66 GTTAT
53675247 CATAGTCGAGCTATGGTCTTACAC
1 CATAGTCGAGCTATGGTCTTACAC
53675271 CATAAACCTC
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
67 30 0.40
68 10 0.13
69 24 0.32
70 11 0.15
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.37
Consensus pattern (70 bp):
CATAGTCGAGCTATGGTCTTACACAATGTAACCCCCTATTTATGTTGTCCTAGCAGACTCTATTG
GTTAT
Found at i:53692823 original size:9 final size:9
Alignment explanation
Indices: 53692809--53692866 Score: 59
Period size: 9 Copynumber: 6.3 Consensus size: 9
53692799 TAAGTCTTCA
53692809 AAAATAAAT
1 AAAATAAAT
53692818 AAAATAAAATT
1 AAAAT-AAA-T
53692829 AAAATTAAA-
1 AAAA-TAAAT
53692838 AAAAT-AAT
1 AAAATAAAT
53692846 AAAA-ATAAT
1 AAAATA-AAT
53692855 AAAATAAAT
1 AAAATAAAT
53692864 AAA
1 AAA
53692867 CTCAAAAGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
7 2 0.05
8 5 0.12
9 22 0.52
10 4 0.10
11 8 0.19
12 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAATAAAT
Found at i:53692848 original size:17 final size:18
Alignment explanation
Indices: 53692808--53692866 Score: 66
Period size: 17 Copynumber: 3.2 Consensus size: 18
53692798 ATAAGTCTTC
53692808 AAAAATAAATAAAATAAAATT
1 AAAAATAAA-AAAAT-AAA-T
*
53692829 AAAATTAAAAAAAT-AAT
1 AAAAATAAAAAAATAAAT
*
53692846 AAAAATAATAAAATAAAT
1 AAAAATAAAAAAATAAAT
53692864 AAA
1 AAA
53692867 CTCAAAAGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 13 0.38
18 8 0.24
20 5 0.15
21 8 0.24
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAATAAAAAAATAAAT
Found at i:53694975 original size:26 final size:27
Alignment explanation
Indices: 53694946--53694998 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
53694936 AGGCCCATGT
* *
53694946 TGGCTTGAATATTGCCCGTGTG-TGTG
1 TGGCTCGAATATTGCCAGTGTGCTGTG
*
53694972 TGGCTCGGATATTGCCAGTGTGCTGTG
1 TGGCTCGAATATTGCCAGTGTGCTGTG
53694999 GATCGAGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.11, C:0.17, G:0.36, T:0.36
Consensus pattern (27 bp):
TGGCTCGAATATTGCCAGTGTGCTGTG
Found at i:53710717 original size:24 final size:25
Alignment explanation
Indices: 53710690--53710738 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
53710680 ATATTTTTCT
53710690 ACTGATTTTTT-TGTTGAATTTGGA
1 ACTGATTTTTTCTGTTGAATTTGGA
53710714 ACTGATTTTTTCTGTTGAATTTGGA
1 ACTGATTTTTTCTGTTGAATTTGGA
53710739 CTTCTTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.20, C:0.06, G:0.20, T:0.53
Consensus pattern (25 bp):
ACTGATTTTTTCTGTTGAATTTGGA
Found at i:53719981 original size:47 final size:47
Alignment explanation
Indices: 53719927--53720378 Score: 642
Period size: 47 Copynumber: 9.6 Consensus size: 47
53719917 TATTTGAATA
* *
53719927 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53719974 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
53720021 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53720070 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53720117 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
53720164 AATGTGAACA-TGTGTATGTGTGATAAGGTCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
53720211 AATATGAACA-TGCATATCTGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53720258 AATGTGAAAATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
53720305 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
53720352 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53720379 TCCCGAAGGG
Statistics
Matches: 374, Mismatches: 27, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
46 1 0.00
47 329 0.88
49 43 0.11
50 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:53735035 original size:20 final size:22
Alignment explanation
Indices: 53735010--53735049 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
53735000 ATATGATGAT
*
53735010 TTGCTT-TTAATT-TTTTTTAC
1 TTGCTTATAAATTCTTTTTTAC
53735030 TTGCTTATAAATTCTTTTTT
1 TTGCTTATAAATTCTTTTTT
53735050 TATCATACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (22 bp):
TTGCTTATAAATTCTTTTTTAC
Found at i:53736175 original size:20 final size:20
Alignment explanation
Indices: 53736125--53736176 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
53736115 ATTTGTAATG
53736125 ATTATATTTTAATATTTTAA
1 ATTATATTTTAATATTTTAA
* *
53736145 AATATAGTTT-ATATATTTAA
1 ATTATATTTTAATAT-TTTAA
*
53736165 ATTAAATTTTAA
1 ATTATATTTTAA
53736177 AAATAATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 4 0.16
20 20 0.80
21 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTATATTTTAATATTTTAA
Found at i:53736192 original size:23 final size:23
Alignment explanation
Indices: 53736161--53736211 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
53736151 GTTTATATAT
53736161 TTAAATTAAAT-TTTAAAAATAA
1 TTAAATTAAATGTTTAAAAATAA
* *
53736183 TTAATATTAATTGTTTAAAAATAT
1 TTAA-ATTAAATGTTTAAAAATAA
53736207 TTAAA
1 TTAAA
53736212 AATTATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.16
23 7 0.28
24 14 0.56
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TTAAATTAAATGTTTAAAAATAA
Found at i:53736223 original size:24 final size:22
Alignment explanation
Indices: 53736163--53736223 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 22
53736153 TTATATATTT
53736163 AAATTAAATTTTAAAAATAATTA
1 AAATT-AATTTTAAAAATAATTA
* *
53736186 ATATTAATTGTTTAAAAATATTTAA
1 AAATTAA-T-TTTAAAAATAATT-A
53736211 AAATTATATTTTA
1 AAATTA-ATTTTA
53736224 TATATCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 2 0.06
23 5 0.16
24 16 0.52
25 7 0.23
26 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AAATTAATTTTAAAAATAATTA
Found at i:53736278 original size:6 final size:7
Alignment explanation
Indices: 53736257--53736283 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
53736247 GTTACAATAA
53736257 TTTATTT
1 TTTATTT
53736264 TTTATTT
1 TTTATTT
53736271 TTTATTT
1 TTTATTT
53736278 TTTATT
1 TTTATT
53736284 ATAATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTATTT
Found at i:53739015 original size:41 final size:41
Alignment explanation
Indices: 53738920--53739198 Score: 398
Period size: 41 Copynumber: 6.8 Consensus size: 41
53738910 TTTTAGAATA
* *** *
53738920 AAACGCCACTAAAAACTGAGCAATAGCGGC-TTTTTTGTTC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
* *
53738960 AAACGCCACTAAAAACCGAGCAATAGTGGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
*
53739001 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
** *
53739042 AAACGCCACTAAAAATAGAGCAATAGCGGCGTTTTAAGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
* **
53739083 AAACGCCACTAAAAACCGAGCAATAACGGCGTTTCAAGTGA
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
* *
53739124 AAAAGCCAGTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
*
53739165 AAACGCCACTAAAAATCGAGCAATAGCGGCGTTT
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTT
53739199 TTGGTCAAAA
Statistics
Matches: 213, Mismatches: 25, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
40 28 0.13
41 185 0.87
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (41 bp):
AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
Found at i:53739373 original size:18 final size:17
Alignment explanation
Indices: 53739341--53739375 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
53739331 ATTTTCTTAT
*
53739341 TTTTGTTTTGAATTTGA
1 TTTTATTTTGAATTTGA
53739358 TTTTATTTTGATATTTGA
1 TTTTATTTTGA-ATTTGA
53739376 AACTGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (17 bp):
TTTTATTTTGAATTTGA
Found at i:53740149 original size:21 final size:21
Alignment explanation
Indices: 53740098--53740150 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
53740088 TAAGTTTATG
*
53740098 GTTTAAGGTTTGTTATTTTGG
1 GTTTAAGGTTTGTTATTTTGA
* **
53740119 GCTTGGGGTTTGTTATTTTGA
1 GTTTAAGGTTTGTTATTTTGA
53740140 GTTTAAGGTTT
1 GTTTAAGGTTT
53740151 AGGGTATATA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.13, C:0.02, G:0.30, T:0.55
Consensus pattern (21 bp):
GTTTAAGGTTTGTTATTTTGA
Found at i:53740173 original size:22 final size:21
Alignment explanation
Indices: 53740148--53740194 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
53740138 GAGTTTAAGG
*
53740148 TTTAGGGTATATAATTTTAGGC
1 TTTAGGCTATAT-ATTTTAGGC
* *
53740170 TTTAGGCTTTATATTTTAGGG
1 TTTAGGCTATATATTTTAGGC
53740191 TTTA
1 TTTA
53740195 ATTGTGACAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.23, C:0.04, G:0.21, T:0.51
Consensus pattern (21 bp):
TTTAGGCTATATATTTTAGGC
Found at i:53741936 original size:79 final size:81
Alignment explanation
Indices: 53741800--53741984 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
53741790 TTGAATGATG
*
53741800 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
53741864 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
53741879 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
53741941 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
53741959 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53741985 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:53741998 original size:40 final size:40
Alignment explanation
Indices: 53741801--53741984 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
53741791 TGAATGATGT
* * * *
53741801 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
53741841 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
53741881 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
53741919 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
53741960 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53741985 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:53742006 original size:79 final size:79
Alignment explanation
Indices: 53741853--53742017 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
53741843 GGACTAAGAT
* **
53741853 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
53741918 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
53741932 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
53741995 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
53742011 CCGAAGG
1 CCGAAGG
53742018 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:53743737 original size:60 final size:59
Alignment explanation
Indices: 53743669--53744068 Score: 235
Period size: 60 Copynumber: 6.8 Consensus size: 59
53743659 TCGTCCACAA
53743669 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGT
1 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAG-TTAATAATTTTATTAAAAGT
* * * **
53743729 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAATTAATT-TACTT
1 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAG-TTAATAATTTTATTAAAAGT
* * ** * * * * * * *
53743788 TTAAATAAAATAAAATTATTTAAAAGTCTATATAATTATACAAA-TTAATTTTAGTTTATTTAAA
1 TT--ATAAAATTATACAAATT--AATTTTATTTTATT-TA-AAAGTTAA--TAATTTTA-TTAAA
53743852 AGT
57 AGT
* * ** * *** **
53743855 TTA-ATAATTTTATTAA--AAGTTTATAAAATTATACAAA--T--TAATTTTATT-TTA-T
1 TTATAAAATTATACAAATTAATTTTATTTTATT-TA-AAAGTTAATAATTTTATTAAAAGT
** *
53743907 TTA-AAATATTAATA-AAATTAA-TTTACTTTTAAATAAAA--TAA-AATTAT-TTAAAAGT
1 TTATAAA-ATT-ATACAAATTAATTTTA-TTTTATTTAAAAGTTAATAATTTTATTAAAAGT
53743962 TTA-AATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGT
1 TTATAA-AATTATACAAATTAATTTTATTTTATTTAAAAG-TTAATAATTTTATTAAAAGT
53744022 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAA
1 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAG-TTAATAA
53744069 AATTAATTTA
Statistics
Matches: 265, Mismatches: 47, Indels: 56
0.72 0.13 0.15
Matches are distributed among these distances:
52 6 0.02
53 12 0.05
54 19 0.07
55 36 0.14
56 5 0.02
58 3 0.01
59 10 0.04
60 121 0.46
61 14 0.05
63 14 0.05
64 10 0.04
65 9 0.03
66 2 0.01
67 4 0.02
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (59 bp):
TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGTTAATAATTTTATTAAAAGT
Found at i:53743738 original size:21 final size:21
Alignment explanation
Indices: 53743694--53743738 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
53743684 AATTAATTTT
*
53743694 ATTTTATTTAAAAGTTTAATA
1 ATTTTATTTAAAAGTTTAAAA
53743715 ATTTTA-TTAAAAGTTTATAAA
1 ATTTTATTTAAAAGTTTA-AAA
53743736 ATT
1 ATT
53743739 ATACAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTTATTTAAAAGTTTAAAA
Found at i:53743884 original size:21 final size:21
Alignment explanation
Indices: 53743842--53743884 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
53743832 TTAATTTTAG
*
53743842 TTTATTTAAAAGTTTAATAAT
1 TTTATTTAAAAGTTTAAAAAT
53743863 TTTA-TTAAAAGTTTATAAAAT
1 TTTATTTAAAAGTTTA-AAAAT
53743884 T
1 T
53743885 ATACAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
TTTATTTAAAAGTTTAAAAAT
Found at i:53743973 original size:20 final size:19
Alignment explanation
Indices: 53743948--53744024 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 19
53743938 AATAAAATAA
53743948 AATTATTTAAAAGTTTAAAT
1 AATTATTTAAAAGTTT-AAT
** * *
53743968 AATTATACAAATTAATTTTAT
1 AATTATTTAAA--AGTTTAAT
*
53743989 -TTTATTTAAAAGTTTAAT
1 AATTATTTAAAAGTTTAAT
*
53744007 AATTTTATTAAAAGTTTA
1 AATTAT-TTAAAAGTTTA
53744025 TAAAATTATA
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
18 6 0.14
19 3 0.07
20 27 0.64
21 2 0.05
22 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (19 bp):
AATTATTTAAAAGTTTAAT
Found at i:53744005 original size:147 final size:147
Alignment explanation
Indices: 53743675--53744301 Score: 1202
Period size: 147 Copynumber: 4.3 Consensus size: 147
53743665 ACAATTATAA
53743675 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTA
1 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTA
53743740 TACAAATTAATTTTATTTTATTTAAAAGATTAAT-AAATTAATTTACTTTTAAATAAAATAAAAT
66 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
* *
53743804 TATTTAAAAGTCTATAT
131 TATTTAAAAGTTTAAAT
*
53743821 AATTATACAAATTAATTTTAGTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTA
1 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTA
*
53743886 TACAAATTAATTTTATTTTATTTAAAATATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
66 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
53743951 TATTTAAAAGTTTAAAT
131 TATTTAAAAGTTTAAAT
53743968 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTA
1 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTA
53744033 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
66 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
*
53744098 TATTTAAAAGTTTATAT
131 TATTTAAAAGTTTAAAT
53744115 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTA
1 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTA
53744180 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
66 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
53744245 TATTTAAAAGTTTAAAT
131 TATTTAAAAGTTTAAAT
53744262 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATA
1 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATA
53744302 CAAATTATTT
Statistics
Matches: 472, Mismatches: 8, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
146 97 0.21
147 375 0.79
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (147 bp):
AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTA
TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
TATTTAAAAGTTTAAAT
Found at i:53744031 original size:21 final size:21
Alignment explanation
Indices: 53743987--53744031 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
53743977 AATTAATTTT
*
53743987 ATTTTATTTAAAAGTTTAATA
1 ATTTTATTTAAAAGTTTAAAA
53744008 ATTTTA-TTAAAAGTTTATAAA
1 ATTTTATTTAAAAGTTTA-AAA
53744029 ATT
1 ATT
53744032 ATACAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTTATTTAAAAGTTTAAAA
Done.