Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 152 of 297
Found at i:52236539 original size:26 final size:25
Alignment explanation
Indices: 52236504--52236570 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
52236494 AACACTTAAA
52236504 ATTTTT-AAAAGTATTTCTCAAAAGT
1 ATTTTTCAAAAGTATTT-TCAAAAGT
* ** *
52236529 ATTTTTCAAAAATACTTTTTTACAGT
1 ATTTTTCAAAAGTA-TTTTCAAAAGT
*
52236555 ACTTTTCAAAAGTATT
1 ATTTTTCAAAAGTATT
52236571 GACAAACACA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 8 0.24
26 23 0.68
27 3 0.09
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.46
Consensus pattern (25 bp):
ATTTTTCAAAAGTATTTTCAAAAGT
Found at i:52236568 original size:13 final size:13
Alignment explanation
Indices: 52236505--52236568 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
52236495 ACACTTAAAA
*
52236505 TTTTTAAAAGTA-
1 TTTTCAAAAGTAC
*
52236517 TTTCTCAAAAGTAT
1 TTT-TCAAAAGTAC
*
52236531 TTTTCAAAAATAC
1 TTTTCAAAAGTAC
** *
52236544 TTTTTTACAGTAC
1 TTTTCAAAAGTAC
52236557 TTTTCAAAAGTA
1 TTTTCAAAAGTA
52236569 TTGACAAACA
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
12 3 0.08
13 34 0.85
14 3 0.08
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:52244282 original size:19 final size:19
Alignment explanation
Indices: 52244238--52244287 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
52244228 TTTTATTTAT
*
52244238 TTATTTTATTTTGTTAGTTA
1 TTATTTTA-TTTCTTAGTTA
* *
52244258 TTATTTTATTTCTTATTTG
1 TTATTTTATTTCTTAGTTA
*
52244277 TTATTTCATTT
1 TTATTTTATTT
52244288 TAAGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.18, C:0.04, G:0.06, T:0.72
Consensus pattern (19 bp):
TTATTTTATTTCTTAGTTA
Found at i:52249420 original size:40 final size:40
Alignment explanation
Indices: 52249376--52249456 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
52249366 TATTTGACTG
52249376 TGAAAGATCTATTCATGAGCAATAGAATATAATAATTCTA
1 TGAAAGATCTATTCATGAGCAATAGAATATAATAATTCTA
52249416 TGAAAGATCTATTCATGAGCAATAGAATATAATAATTCTA
1 TGAAAGATCTATTCATGAGCAATAGAATATAATAATTCTA
52249456 T
1 T
52249457 CTAAAGCTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (40 bp):
TGAAAGATCTATTCATGAGCAATAGAATATAATAATTCTA
Found at i:52257965 original size:18 final size:18
Alignment explanation
Indices: 52257942--52257979 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
52257932 ATGTCGGAAG
52257942 TTAGGTTTCAAAATATGT
1 TTAGGTTTCAAAATATGT
52257960 TTAGGTTTCAAAATATGT
1 TTAGGTTTCAAAATATGT
52257978 TT
1 TT
52257980 TTATTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (18 bp):
TTAGGTTTCAAAATATGT
Found at i:52258728 original size:14 final size:16
Alignment explanation
Indices: 52258709--52258740 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
52258699 TTAGGCAACA
52258709 TTAAAATG-T-ATATT
1 TTAAAATGCTAATATT
52258723 TTAAAATGCTAATATT
1 TTAAAATGCTAATATT
52258739 TT
1 TT
52258741 CACAAGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TTAAAATGCTAATATT
Found at i:52259074 original size:15 final size:16
Alignment explanation
Indices: 52259049--52259082 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
52259039 TAAAAATTAT
52259049 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
52259065 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
52259080 TTT
1 TTT
52259083 TTAAAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Found at i:52263350 original size:64 final size:65
Alignment explanation
Indices: 52263244--52263371 Score: 179
Period size: 64 Copynumber: 2.0 Consensus size: 65
52263234 ACAAACTTAT
* * *
52263244 TAATAATATAACGACTTTGGATATAGTTTATCTTTAATATTACTATTATGGCACAACTAGATTAC
1 TAATAACATAACGACTTTGGATATAATTTATCTTTAATATTACTATTATAGCACAACTAGATTAC
* * *
52263309 TAATAACATAGCGAC-TTGGATGTAATTTA-CTTTTAGTATTACTATTATAGCACAACTAGATTA
1 TAATAACATAACGACTTTGGATATAATTTATC-TTTAATATTACTATTATAGCACAACTAGATTA
52263372 ATATCTGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 1 0.02
64 42 0.75
65 13 0.23
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (65 bp):
TAATAACATAACGACTTTGGATATAATTTATCTTTAATATTACTATTATAGCACAACTAGATTAC
Found at i:52265074 original size:17 final size:17
Alignment explanation
Indices: 52265052--52265094 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
52265042 TATAATAATA
*
52265052 TCTATTTTTTGTAATTT
1 TCTATTATTTGTAATTT
52265069 TCTATTATTTGTAATTT
1 TCTATTATTTGTAATTT
52265086 TCTA-TATTT
1 TCTATTATTT
52265095 CTATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (17 bp):
TCTATTATTTGTAATTT
Found at i:52265102 original size:16 final size:17
Alignment explanation
Indices: 52265052--52265101 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
52265042 TATAATAATA
* *
52265052 TCTATTTTTTGTAATTT
1 TCTATTATTTCTAATTT
*
52265069 TCTATTATTTGTAATTT
1 TCTATTATTTCTAATTT
52265086 TCTA-TATTTCT-ATTT
1 TCTATTATTTCTAATTT
52265101 T
1 T
52265102 TTTTAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.16
16 6 0.19
17 20 0.65
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.68
Consensus pattern (17 bp):
TCTATTATTTCTAATTT
Found at i:52268701 original size:20 final size:20
Alignment explanation
Indices: 52268676--52268713 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
52268666 TTTTTAAAAT
52268676 TATTTTTATAAATTTTTGAA
1 TATTTTTATAAATTTTTGAA
*
52268696 TATTTTTATAATTTTTTG
1 TATTTTTATAAATTTTTG
52268714 TTAGGGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TATTTTTATAAATTTTTGAA
Found at i:52273146 original size:21 final size:21
Alignment explanation
Indices: 52273120--52273168 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
52273110 AATTGGGTAA
52273120 TTTGCGCAATTGGTCCCCTCC
1 TTTGCGCAATTGGTCCCCTCC
52273141 TTTGCGCAATTGGTCCCCTCC
1 TTTGCGCAATTGGTCCCCTCC
52273162 TTTGCGC
1 TTTGCGC
52273169 TAGCCTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.08, C:0.37, G:0.20, T:0.35
Consensus pattern (21 bp):
TTTGCGCAATTGGTCCCCTCC
Found at i:52273574 original size:16 final size:16
Alignment explanation
Indices: 52273553--52273585 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52273543 AAGCTTTTCC
52273553 TGTGTA-TATATTACTT
1 TGTGTATTAT-TTACTT
52273569 TGTGTATTATTTACTT
1 TGTGTATTATTTACTT
52273585 T
1 T
52273586 TAATCATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.61
Consensus pattern (16 bp):
TGTGTATTATTTACTT
Found at i:52289916 original size:13 final size:13
Alignment explanation
Indices: 52289898--52289924 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52289888 GATTACCGAG
52289898 GACACAAGGCATA
1 GACACAAGGCATA
52289911 GACACAAGGCATA
1 GACACAAGGCATA
52289924 G
1 G
52289925 TCTGGTTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.22, G:0.26, T:0.07
Consensus pattern (13 bp):
GACACAAGGCATA
Found at i:52291740 original size:16 final size:16
Alignment explanation
Indices: 52291719--52291751 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52291709 AAGCTTTTCC
52291719 TGTGTA-TATATTACTT
1 TGTGTATTAT-TTACTT
52291735 TGTGTATTATTTACTT
1 TGTGTATTATTTACTT
52291751 T
1 T
52291752 TAATCATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.61
Consensus pattern (16 bp):
TGTGTATTATTTACTT
Found at i:52295268 original size:25 final size:25
Alignment explanation
Indices: 52295230--52295290 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
52295220 TTAAGAGGAA
52295230 AATAAT-AG-ATAAAAATAATA-AA-
1 AATAATAAGAATAAAAATAA-ACAAG
*
52295252 AATGATAAGAATAAAAATAAACAAG
1 AATAATAAGAATAAAAATAAACAAG
52295277 AATAATAAGAATAA
1 AATAATAAGAATAA
52295291 GTAAAAAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 5 0.15
23 3 0.09
24 12 0.36
25 13 0.39
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (25 bp):
AATAATAAGAATAAAAATAAACAAG
Found at i:52295484 original size:20 final size:21
Alignment explanation
Indices: 52295446--52295484 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
52295436 TAATGATAAT
*
52295446 AATAATAGTTGTAAAAGTAGA
1 AATAATAGTAGTAAAAGTAGA
*
52295467 AATAAT-GTAGTAATAGTA
1 AATAATAGTAGTAAAAGTA
52295485 ATAAAAGGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (21 bp):
AATAATAGTAGTAAAAGTAGA
Found at i:52295699 original size:3 final size:3
Alignment explanation
Indices: 52295620--52295684 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
52295610 CAATGCTAAG
52295620 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
52295668 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
52295685 GCAAAATGAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:52295826 original size:18 final size:18
Alignment explanation
Indices: 52295769--52295827 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
52295759 TACGTAAATG
*
52295769 TAAATATAAATATAATACA
1 TAAATATAAATA-AATAAA
52295788 TAAA-ATAAAGT-AATAACA
1 TAAATATAAA-TAAATAA-A
*
52295806 TAAATTTAAATAAATAAA
1 TAAATATAAATAAATAAA
52295824 TAAA
1 TAAA
52295828 GTTAGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 4 0.12
18 16 0.47
19 14 0.41
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (18 bp):
TAAATATAAATAAATAAA
Found at i:52296634 original size:11 final size:12
Alignment explanation
Indices: 52296618--52296649 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
52296608 GAAAGGTATC
52296618 TATTTTTTATT-
1 TATTTTTTATTG
52296629 TATTTTTT-TTG
1 TATTTTTTATTG
52296640 TATTTTTTAT
1 TATTTTTTAT
52296650 GTCTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.11
11 16 0.84
12 1 0.05
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (12 bp):
TATTTTTTATTG
Found at i:52296726 original size:15 final size:15
Alignment explanation
Indices: 52296689--52296727 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
52296679 ACTAGATTCA
52296689 AAAATAGAAAGAAAAG
1 AAAA-AGAAAGAAAAG
52296705 AAAAAGAAA-AAAAG
1 AAAAAGAAAGAAAAG
52296719 AAACAAGAA
1 AAA-AAGAA
52296728 CACGAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.36
15 10 0.45
16 4 0.18
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAAGAAAGAAAAG
Found at i:52299314 original size:22 final size:24
Alignment explanation
Indices: 52299266--52299317 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
52299256 ATATAATAAA
52299266 ATACGTTTTTAAGGAATATATTAT
1 ATACGTTTTTAAGGAATATATTAT
52299290 ATACGTTTTTAAGGAATATATTAT
1 ATACGTTTTTAAGGAATATATTAT
52299314 ATAC
1 ATAC
52299318 ATAACAGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (24 bp):
ATACGTTTTTAAGGAATATATTAT
Found at i:52299374 original size:28 final size:27
Alignment explanation
Indices: 52299342--52299438 Score: 85
Period size: 26 Copynumber: 3.6 Consensus size: 27
52299332 AGGTATATAC
*
52299342 ATAAAATAGTTTAAAGTAAATAACATAT
1 ATAAAATAGTTTAAAATAAATAA-ATAT
* *
52299370 ATAAAAATA-TTGAAAATAAAT-AATAC
1 AT-AAAATAGTTTAAAATAAATAAATAT
* *
52299396 GTAAAATAGTTTAAAATAACTAATATAT
1 ATAAAATAGTTTAAAATAAATAA-ATAT
*
52299424 ATACAA-A-TTTAAAAT
1 ATAAAATAGTTTAAAAT
52299439 GGGTAATAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
25 6 0.11
26 22 0.39
27 3 0.05
28 19 0.34
29 6 0.11
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (27 bp):
ATAAAATAGTTTAAAATAAATAAATAT
Found at i:52299401 original size:54 final size:52
Alignment explanation
Indices: 52299338--52299438 Score: 139
Period size: 54 Copynumber: 1.9 Consensus size: 52
52299328 TAAAAGGTAT
*
52299338 ATACATAAAATAGTTTAAAGTAAATAACATATATAAAAATATTGAAAATAAATA
1 ATACATAAAATAGTTTAAAATAAATAACATATATAAAAAT-TT-AAAATAAATA
* * * *
52299392 ATACGTAAAATAGTTTAAAATAACTAATATATATACAAATTTAAAAT
1 ATACATAAAATAGTTTAAAATAAATAACATATATAAAAATTTAAAAT
52299439 GGGTAATAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 5 0.12
53 2 0.05
54 35 0.83
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (52 bp):
ATACATAAAATAGTTTAAAATAAATAACATATATAAAAATTTAAAATAAATA
Found at i:52299411 original size:26 final size:26
Alignment explanation
Indices: 52299338--52299420 Score: 87
Period size: 26 Copynumber: 3.1 Consensus size: 26
52299328 TAAAAGGTAT
*
52299338 ATACATAAAATAGTTTAAAGTAAATAA
1 ATACATAAAATAGTTTAAAATAAAT-A
* *
52299365 CATATATAAAAATA-TTGAAAATAAATA
1 -ATACAT-AAAATAGTTTAAAATAAATA
* *
52299392 ATACGTAAAATAGTTTAAAATAACTA
1 ATACATAAAATAGTTTAAAATAAATA
52299418 ATA
1 ATA
52299421 TATATACAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
25 6 0.13
26 18 0.39
27 1 0.02
28 15 0.33
29 6 0.13
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (26 bp):
ATACATAAAATAGTTTAAAATAAATA
Found at i:52299540 original size:25 final size:27
Alignment explanation
Indices: 52299479--52299558 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 27
52299469 TAATATGTCA
*
52299479 AAAACTTAAAGTAAATAATAATAGAAC
1 AAAACTTAAAATAAATAATAATAGAAC
** *
52299506 -AATTTTAAAATAAGTAAT-ATA-AAC
1 AAAACTTAAAATAAATAATAATAGAAC
* *
52299530 AAAACTTAAAATATAATAATGATAAAAC
1 AAAACTTAAAATA-AATAATAATAGAAC
52299558 A
1 A
52299559 GTTTTATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
24 3 0.07
25 13 0.31
26 19 0.45
27 3 0.07
28 4 0.10
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.26
Consensus pattern (27 bp):
AAAACTTAAAATAAATAATAATAGAAC
Found at i:52301009 original size:33 final size:33
Alignment explanation
Indices: 52300968--52301241 Score: 196
Period size: 33 Copynumber: 8.2 Consensus size: 33
52300958 CTTGGGCACA
* *
52300968 TCAGGAACTTTAGGCAATTCTGACTTTGGTAAC
1 TCAGGAACTTTAGGCAATTTTGGCTTTGGTAAC
* * * * *
52301001 TCAAGAACTTTTGGTAATTTAGGATTTGGTAAC
1 TCAGGAACTTTAGGCAATTTTGGCTTTGGTAAC
** * * * * *
52301034 TTGGGAGCTTTGGGCAATTTTGGCTTGGGCACC
1 TCAGGAACTTTAGGCAATTTTGGCTTTGGTAAC
52301067 TCAGGAACTTT-GGACAATTTTGGCTTTGGTAAC
1 TCAGGAACTTTAGG-CAATTTTGGCTTTGGTAAC
* *
52301100 TCAGGAGCTTTGGGCAATTTTGGC-TTGG-ACATC
1 TCAGGAACTTTAGGCAATTTTGGCTTTGGTA-A-C
* *
52301133 TCAGGAACTTTAAGCAATTCTGGCTTTGGTAAC
1 TCAGGAACTTTAGGCAATTTTGGCTTTGGTAAC
** * * * ** *
52301166 TTGGGAATTTTTGGTAATTCAAGAGCTTTGGGAATC
1 TCAGGAACTTTAGGCAATT-TTG-GCTTTGGTAA-C
* * *
52301202 TTAGGAAC-TTAGGTAATTCTGGCTTTGGTAAC
1 TCAGGAACTTTAGGCAATTTTGGCTTTGGTAAC
*
52301234 TCTGGAAC
1 TCAGGAAC
52301242 ATTGACTTTT
Statistics
Matches: 186, Mismatches: 46, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
31 1 0.01
32 14 0.08
33 136 0.73
34 9 0.05
35 19 0.10
36 7 0.04
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (33 bp):
TCAGGAACTTTAGGCAATTTTGGCTTTGGTAAC
Found at i:52301119 original size:99 final size:99
Alignment explanation
Indices: 52300938--52301119 Score: 267
Period size: 99 Copynumber: 1.8 Consensus size: 99
52300928 TGACAATTTA
*
52300938 GGAGCTTTGGGTAATTCTGGCTTGGGCACATCAGGAACTTTAGGCAATTCTGACTTTGGTAACTC
1 GGAGCTTTGGGCAATTCTGGCTTGGGCACATCAGGAACTTTAGGCAATTCTGACTTTGGTAACTC
* *
52301003 AAGAACTTTTGGTAATTTAGGATTTGGTAACTTG
66 AAGAACTTTGGGCAATTTAGGATTTGGTAACTTG
* * * *
52301037 GGAGCTTTGGGCAATTTTGGCTTGGGCACCTCAGGAACTTT-GGACAATTTTGGCTTTGGTAACT
1 GGAGCTTTGGGCAATTCTGGCTTGGGCACATCAGGAACTTTAGG-CAATTCTGACTTTGGTAACT
* *
52301101 CAGGAGCTTTGGGCAATTT
65 CAAGAACTTTGGGCAATTT
52301120 TGGCTTGGAC
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 2 0.03
99 71 0.97
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (99 bp):
GGAGCTTTGGGCAATTCTGGCTTGGGCACATCAGGAACTTTAGGCAATTCTGACTTTGGTAACTC
AAGAACTTTGGGCAATTTAGGATTTGGTAACTTG
Found at i:52301150 original size:99 final size:99
Alignment explanation
Indices: 52300950--52301158 Score: 235
Period size: 99 Copynumber: 2.1 Consensus size: 99
52300940 AGCTTTGGGT
*
52300950 AATTCTGGCTTGGGCACATCAGGAACTTTAGGCAATTCTGACTTTGGTAACTCAAGAACTTTTGG
1 AATTCTGGCTTGGGCACATCAGGAACTTTAGGCAATTCTGACTTTGGTAACTCAAGAACTTTGGG
* * ** * **
52301015 TAATTTAGGATTTGGTAACTTGGGAGCTTTGGGC
66 CAATTTAGGACTTGGTAACTCAGGAACTTTAAGC
* * * * * *
52301049 AATTTTGGCTTGGGCACCTCAGGAACTTT-GGACAATTTTGGCTTTGGTAACTCAGGAGCTTTGG
1 AATTCTGGCTTGGGCACATCAGGAACTTTAGG-CAATTCTGACTTTGGTAACTCAAGAACTTTGG
*
52301113 GCAATTTTGG-CTTGG-ACATCTCAGGAACTTTAAGC
65 GCAATTTAGGACTTGGTA-A-CTCAGGAACTTTAAGC
52301148 AATTCTGGCTT
1 AATTCTGGCTT
52301159 TGGTAACTTG
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
97 1 0.01
98 7 0.08
99 83 0.91
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (99 bp):
AATTCTGGCTTGGGCACATCAGGAACTTTAGGCAATTCTGACTTTGGTAACTCAAGAACTTTGGG
CAATTTAGGACTTGGTAACTCAGGAACTTTAAGC
Found at i:52301194 original size:35 final size:32
Alignment explanation
Indices: 52301148--52301234 Score: 84
Period size: 35 Copynumber: 2.6 Consensus size: 32
52301138 AACTTTAAGC
* * * *
52301148 AATTCTGGCTTTGGTAACTTGGGAATTTTTGGT
1 AATTCAGGCTTTGGTAACTTAGGAA-CTTAGGT
*
52301181 AATTCAAGAGCTTTGGGAATCTTAGGAACTTAGGT
1 AATTC-AG-GCTTTGGTAA-CTTAGGAACTTAGGT
*
52301216 AATTCTGGCTTTGGTAACT
1 AATTCAGGCTTTGGTAACT
52301235 CTGGAACATT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
32 2 0.05
33 14 0.32
34 2 0.05
35 19 0.43
36 7 0.16
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.39
Consensus pattern (32 bp):
AATTCAGGCTTTGGTAACTTAGGAACTTAGGT
Found at i:52306318 original size:11 final size:11
Alignment explanation
Indices: 52306302--52306327 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
52306292 TCAACTTTGG
52306302 AAATTCACCAT
1 AAATTCACCAT
52306313 AAATTCACCAT
1 AAATTCACCAT
52306324 AAAT
1 AAAT
52306328 GAGTAGCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATTCACCAT
Found at i:52311722 original size:87 final size:85
Alignment explanation
Indices: 52311368--52311965 Score: 674
Period size: 88 Copynumber: 6.8 Consensus size: 85
52311358 TGAATTCACA
* * * *
52311368 AGCCTTAACCCCTTAAGCAGTAGGGTAACAAGCTGAATTACAGATCTTGTCTCCCTAAGCAGTAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTATCACCCTAAGCAGTAG
* ** *
52311433 CGGAGTAGATCGAAGACGATG
66 -GAAACAGATCGAAGATGATG
* * * * *
52311454 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTATAGATATTGTCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTACAGATCTTATCACCCTAAGCAGT
* * * *
52311519 AGTGGAGCAGATCGAAGACGGTG
64 AG-GAAACAGATCGAAGATGATG
* * * * *
52311542 AGCCTTAATCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTATAGATCTTATCACCCCAAGAAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT--GAATTACAGATCTTATCACCCTAAGCAGT
*
52311607 AGGGAAACAGATCGAAGATGACG
64 A-GGAAACAGATCGAAGATGATG
* * * *
52311630 GGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTGATAGATCTTTTCACCCTAAGCAGTA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATT-ACAGATCTTATCACCCTAAGCAGTA
* * *
52311695 GGAAAACAGATCAAAGGTGGTG
65 GG-AAACAGATCGAAGATGATG
* * *
52311717 AGCCTTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTGACAGATCTTATCACCCTAAGAAGTA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATT-ACAGATCTTATCACCCTAAGCAGT-
*
52311782 AGGAAACAGATCGAAGGTGATG
64 AGGAAACAGATCGAAGATGATG
* * *
52311804 GGCCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAA-TTACAGATCTTATCACCCTAAGCAGTA
* *
52311869 GGGAAACAGATCGAAGGTGGTG
65 -GGAAACAGATCGAAGATGATG
* *
52311891 AGCCTTAACCCCCCTAAGCAGTAGGGTAAAAGGCTGAATTGACAGATCTTATCACCCTAAACAGT
1 AGCCTTAA-CCCCCTAAGCAGTAGGGTAACAGGCTGAATT-ACAGATCTTATCACCCTAAGCAGT
*
52311956 AAGGCAACAG
64 -AGGAAACAG
52311966 GCTAAAAATT
Statistics
Matches: 450, Mismatches: 49, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
86 40 0.09
87 198 0.44
88 209 0.46
89 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (85 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTATCACCCTAAGCAGTAG
GAAACAGATCGAAGATGATG
Found at i:52311810 original size:174 final size:171
Alignment explanation
Indices: 52311368--52311965 Score: 752
Period size: 174 Copynumber: 3.4 Consensus size: 171
52311358 TGAATTCACA
* * * *
52311368 AGCCTTAACCCCTTAAGCAGTAGGGTAACAAGCTGAATTACAGATCTTGTCTCCCTAAGCAGT-A
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTACAGATCTTATCACCCTAAGAAGTAA
* ** * *
52311432 GCGGAGTAGATCGAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTAT
66 G-GAAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCT-AA-ATTAT
* * * * * **
52311497 AGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTG
128 AGATCTTATCACCCTAAGCAGTAG-GAAACAGATCGAAGGTGGTG
* * * * *
52311542 AGCCTTAATCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTATAGATCTTATCACCCCAAGAAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCT--GAATTACAGATCTTATCACCCTAAGAAGT
* * *
52311607 AGGGAAACAGATCGAAGATGACGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTGAT
64 AAGGAAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATT-AT
* *
52311672 AGATCTTTTCACCCTAAGCAGTAGGAAAACAGATCAAAGGTGGTG
128 AGATCTTATCACCCTAAGCAGTAGG-AAACAGATCGAAGGTGGTG
*
52311717 AGCCTTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTGACAGATCTTATCACCCTAAGAAGTA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATT-ACAGATCTTATCACCCTAAGAAGTA
* * * *
52311782 AGGAAACAGATCGAAGGTGATGGGCCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAATTTACA
65 AGGAAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCT-AAATTATA
52311847 GATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGTGGTG
129 GATCTTATCACCCTAAGCAGTA-GGAAACAGATCGAAGGTGGTG
52311891 AGCCTTAACCCCCCTAAGCAGTAGGGTAA-AAGGCTGAATTGACAGATCTTATCACCCTAA-ACA
1 AGCCTTAA-CCCCCTAAGCAGTAGGGTAACAA-GCTGAATT-ACAGATCTTATCACCCTAAGA-A
*
52311954 GTAAGGCAACAG
62 GTAAGGAAACAG
52311966 GCTAAAAATT
Statistics
Matches: 371, Mismatches: 42, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
173 4 0.01
174 161 0.43
175 135 0.36
176 70 0.19
177 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (171 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTACAGATCTTATCACCCTAAGAAGTAA
GGAAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTATAGA
TCTTATCACCCTAAGCAGTAGGAAACAGATCGAAGGTGGTG
Found at i:52312031 original size:45 final size:45
Alignment explanation
Indices: 52311977--52312101 Score: 171
Period size: 45 Copynumber: 2.8 Consensus size: 45
52311967 CTAAAAATTA
* *
52311977 CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGTCTGAAGATAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
*
52312022 CAAGTCTTATCTCCTTGAAGTTGC-GTTGGAGCAGACTGAAGATAG
1 CAAGTCTTATCTCCCTGAAGTTGCAG-TGGAGCAGACTGAAGATAG
* * * *
52312067 CAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
52312102 TCTCCTTGAA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
44 1 0.01
45 68 0.97
46 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (45 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
Found at i:52313539 original size:24 final size:26
Alignment explanation
Indices: 52313511--52313576 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 26
52313501 TTGTGAATTT
52313511 GTATTATTATTTATATCATT-G-TTA
1 GTATTATTATTTATATCATTAGTTTA
*
52313535 GTATTATTA-TTAT-TCCTTAGTTTA
1 GTATTATTATTTATATCATTAGTTTA
*
52313559 TTATTATTATTT-TATCAT
1 GTATTATTATTTATATCAT
52313577 CATTTTCCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 4 0.11
23 5 0.14
24 21 0.60
25 5 0.14
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (26 bp):
GTATTATTATTTATATCATTAGTTTA
Found at i:52319640 original size:14 final size:14
Alignment explanation
Indices: 52319621--52319647 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52319611 CATGAAAATA
52319621 AAAAACCTCACAAC
1 AAAAACCTCACAAC
52319635 AAAAACCTCACAA
1 AAAAACCTCACAA
52319648 ATCTCTCGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.33, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAAACCTCACAAC
Found at i:52320671 original size:22 final size:23
Alignment explanation
Indices: 52320646--52320694 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
52320636 ATCAGCTTCT
52320646 TTAATAC-ACCTATTAAGACACA
1 TTAATACGACCTATTAAGACACA
* *
52320668 TTAA-ACGACTTATTAGGACACA
1 TTAATACGACCTATTAAGACACA
52320690 TTAAT
1 TTAAT
52320695 CATACCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (23 bp):
TTAATACGACCTATTAAGACACA
Found at i:52326169 original size:164 final size:166
Alignment explanation
Indices: 52325893--52326225 Score: 589
Period size: 164 Copynumber: 2.0 Consensus size: 166
52325883 CCAATTAACT
52325893 TTGATTTCTGAATAGGGCTTAGGCCCAGTAAAGCTTAAACTGATTTGGGCTCTGGTTGGGATACT
1 TTGATTTCTGAATAGGGCTTAGGCCCAGTAAAGCTT--A-TGATTTGGGCTCTGGTTGGGATACT
* * *
52325958 TTACACAATGAGTTTTCCAAACTTACCCCCTTTTTTCCCATCTTTGCATGTGAGCCTTAGATCGA
63 TTACACAATGAGTTTTCCAAACTCACCCCCCTTTTTCCCATCTTTGCAGGTGAGCCTTAGATCGA
52326023 TGGACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAG
128 TGGACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAG
52326062 TTGATTTCTGAATAGGGCTTAGGCCCAGTAAAGC-T-TGATTTGGGCTCTGGTTGGGATACTTTA
1 TTGATTTCTGAATAGGGCTTAGGCCCAGTAAAGCTTATGATTTGGGCTCTGGTTGGGATACTTTA
*
52326125 CACACTGAGTTTTCCAAACTCACCCCCCTTTTTCCCATCTTTGCAGGTGAGCCTTAGATCGATGG
66 CACAATGAGTTTTCCAAACTCACCCCCCTTTTTCCCATCTTTGCAGGTGAGCCTTAGATCGATGG
52326190 ACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAG
131 ACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAG
52326226 ATTAAATTTC
Statistics
Matches: 160, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
164 125 0.78
168 1 0.01
169 34 0.21
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (166 bp):
TTGATTTCTGAATAGGGCTTAGGCCCAGTAAAGCTTATGATTTGGGCTCTGGTTGGGATACTTTA
CACAATGAGTTTTCCAAACTCACCCCCCTTTTTCCCATCTTTGCAGGTGAGCCTTAGATCGATGG
ACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAG
Found at i:52327625 original size:33 final size:33
Alignment explanation
Indices: 52327521--52327738 Score: 161
Period size: 33 Copynumber: 6.6 Consensus size: 33
52327511 TTCTGGTTTC
* * * *
52327521 AATTCAGGCTTTGGTAATTCAGGAGCTTTGGGT
1 AATTCAGGCTTTGGCAACTCAGGAACTTTTGGT
** * * * *
52327554 AATTTTGGCTTAGGC-ACTTCAAGAACTTTAGGC
1 AATTCAGGCTTTGGCAAC-TCAGGAACTTTTGGT
* * *
52327587 AATTCAGGCATTGGTAACTTAGGAACTTTTGGT
1 AATTCAGGCTTTGGCAACTCAGGAACTTTTGGT
* * * * *
52327620 GATTCATGTTTTGGCAACTTAGGAACTTTGGGT
1 AATTCAGGCTTTGGCAACTCAGGAACTTTTGGT
* * * ** *
52327653 AATTCTGGCTTGGGCATCTCAGGAACTTTAAGC
1 AATTCAGGCTTTGGCAACTCAGGAACTTTTGGT
* *
52327686 AATTCAGGCTTTGGTAAATCAGGAACTTTTGGT
1 AATTCAGGCTTTGGCAACTCAGGAACTTTTGGT
*
52327719 AATTC-GGGTTATGGCAACTC
1 AATTCAGGCTT-TGGCAACTC
52327739 TAGCTTGGGC
Statistics
Matches: 137, Mismatches: 45, Indels: 6
0.73 0.24 0.03
Matches are distributed among these distances:
32 5 0.04
33 130 0.95
34 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (33 bp):
AATTCAGGCTTTGGCAACTCAGGAACTTTTGGT
Found at i:52327693 original size:99 final size:99
Alignment explanation
Indices: 52327541--52327737 Score: 270
Period size: 99 Copynumber: 2.0 Consensus size: 99
52327531 TTGGTAATTC
* * * *
52327541 AGGAGCTTTGGGTAATTTTGGCTTAGGCACTTCAAGAACTTTAGGCAATTCAGGCATTGGTAACT
1 AGGAACTTTGGGTAATTCTGGCTTAGGCACTTCAAGAACTTTAAGCAATTCAGGCATTGGTAAAT
* * * *
52327606 TAGGAACTTTTGGTGATTCATGTTTTGGCAACTT
66 CAGGAACTTTTGGTAATTCAGGTTATGGCAACTT
* * *
52327640 AGGAACTTTGGGTAATTCTGGCTTGGGCA-TCTCAGGAACTTTAAGCAATTCAGGCTTTGGTAAA
1 AGGAACTTTGGGTAATTCTGGCTTAGGCACT-TCAAGAACTTTAAGCAATTCAGGCATTGGTAAA
*
52327704 TCAGGAACTTTTGGTAATTCGGGTTATGGCAACT
65 TCAGGAACTTTTGGTAATTCAGGTTATGGCAACT
52327738 CTAGCTTGGG
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 1 0.01
99 84 0.99
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.35
Consensus pattern (99 bp):
AGGAACTTTGGGTAATTCTGGCTTAGGCACTTCAAGAACTTTAAGCAATTCAGGCATTGGTAAAT
CAGGAACTTTTGGTAATTCAGGTTATGGCAACTT
Found at i:52327755 original size:81 final size:81
Alignment explanation
Indices: 52327660--52327818 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
52327650 GGTAATTCTG
* * * *
52327660 GCTTGGGCATCTCAGGAACTTTAAGCAATTCAGGCTTTGGTAAATCAGGAACTTTTGGTAATTCG
1 GCTTGGGCACCTCAGGAACTTTAAGAAATTCAGACTTTGGTAAATCAGGAACTTTTAGTAATTCG
52327725 GGTTATGGCAACTCTA
66 GGTTATGGCAACTCTA
* ** * *
52327741 GCTTGGGCACCTCAGGAAGTTTGGGAAATTCTGACTTTGGTAACTCAGGAACTTTTAGTAATTCG
1 GCTTGGGCACCTCAGGAACTTTAAGAAATTCAGACTTTGGTAAATCAGGAACTTTTAGTAATTCG
*
52327806 GGTTTTGGCAACT
66 GGTTATGGCAACT
52327819 TAGGAGCTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (81 bp):
GCTTGGGCACCTCAGGAACTTTAAGAAATTCAGACTTTGGTAAATCAGGAACTTTTAGTAATTCG
GGTTATGGCAACTCTA
Found at i:52327804 original size:33 final size:33
Alignment explanation
Indices: 52327751--52328159 Score: 216
Period size: 33 Copynumber: 12.7 Consensus size: 33
52327741 GCTTGGGCAC
* * * *
52327751 CTCAGGAAGTTTGGGAAATTCTGACTTTGGTAA
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * *
52327784 CTCAGGAACTTTTA-GTAATTCGGGTTTTGGCAA
1 CTCAGGAAC-TTTAGGTAATTCTGGCTTTGGTAA
* *
52327817 CTTAGGAGCTTTAGGTAATTCTGGC-TTGG-ACA
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTA-A
*
52327849 CCTCAGGAACTTTAGGCAATTCTGGCTTTGGTAA
1 -CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* *
52327883 CTCAGAAACTTTAAGTAA---TGGC------AA
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * * * *
52327907 CTCAGGAGCTTTAGGTAATTCTAGCTTGGGCAC
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * *
52327940 CTCAGGAATTTTGGGTAATTCTAGCTTTGGTAA
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * * * * * *
52327973 CTCAAGAGCTTTTGATAATTCAGGTTTTGGCAA
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * * * * * *
52328006 TTCAGGAACTTTGGGTGATTCTAGCTTGGGCAC
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * * * *
52328039 CTTAGGAACTTTCGGCAATTCTTGTTTTGGTAA
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * * * *
52328072 TTCAGGAACTTTTGGTAATT-TAGGTTTTAGTAG
1 CTCAGGAACTTTAGGTAATTCT-GGCTTTGGTAA
* ** * *
52328105 CTCAAGAGTTTTAGGTAATTCTGG-TTTGGGCAC
1 CTCAGGAACTTTAGGTAATTCTGGCTTT-GGTAA
* *
52328138 CTTAGGAACTTTAAGTAATTCT
1 CTCAGGAACTTTAGGTAATTCT
52328160 ATCTTTGGAA
Statistics
Matches: 280, Mismatches: 78, Indels: 36
0.71 0.20 0.09
Matches are distributed among these distances:
24 17 0.06
27 3 0.01
30 4 0.01
31 1 0.00
32 13 0.05
33 232 0.83
34 9 0.03
35 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (33 bp):
CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
Found at i:52327857 original size:99 final size:99
Alignment explanation
Indices: 52327737--52328149 Score: 427
Period size: 99 Copynumber: 4.3 Consensus size: 99
52327727 TTATGGCAAC
* *
52327737 TCTAGCTTGGGCACCTCAGGAAGTTTGGGAAATTCTGACTTTGGTAACTCAGGAACTTTTAGTAA
1 TCTAGCTTGGGCACCTCAGGAACTTTGGGCAATTCTGACTTTGGTAACTCAGGAACTTTTAGTAA
* *
52327802 TTCGGGTTTTGGCAACTTAGGAGCTTTAGGTAAT
66 TTCAGGTTTTGGCAACTCAGGAGCTTTAGGTAAT
* * * * * *
52327836 TCTGGCTTGGACACCTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGAAACTTTAAGT-A
1 TCTAGCTTGGGCACCTCAGGAACTTTGGGCAATTCTGACTTTGGTAACTCAGGAACTTTTAGTAA
52327900 ---A-----TGGCAACTCAGGAGCTTTAGGTAAT
66 TTCAGGTTTTGGCAACTCAGGAGCTTTAGGTAAT
* * * *
52327926 TCTAGCTTGGGCACCTCAGGAATTTTGGGTAATTCT-AGCTTTGGTAACTCAAGAGCTTTT-GAT
1 TCTAGCTTGGGCACCTCAGGAACTTTGGGCAATTCTGA-CTTTGGTAACTCAGGAACTTTTAG-T
* * * *
52327989 AATTCAGGTTTTGGCAATTCAGGAACTTTGGGTGAT
64 AATTCAGGTTTTGGCAACTCAGGAGCTTTAGGTAAT
* * * * *
52328025 TCTAGCTTGGGCACCTTAGGAACTTTCGGCAATTCTTG-TTTTGGTAATTCAGGAACTTTTGGTA
1 TCTAGCTTGGGCACCTCAGGAACTTTGGGCAATTC-TGACTTTGGTAACTCAGGAACTTTTAGTA
* * * * * *
52328089 ATTTAGGTTTTAGTAGCTCAAGAGTTTTAGGTAAT
65 ATTCAGGTTTTGGCAACTCAGGAGCTTTAGGTAAT
* * *
52328124 TCTGGTTTGGGCACCTTAGGAACTTT
1 TCTAGCTTGGGCACCTCAGGAACTTT
52328150 AAGTAATTCT
Statistics
Matches: 256, Mismatches: 44, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
89 1 0.00
90 74 0.29
91 1 0.00
94 1 0.00
98 1 0.00
99 176 0.69
100 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.36
Consensus pattern (99 bp):
TCTAGCTTGGGCACCTCAGGAACTTTGGGCAATTCTGACTTTGGTAACTCAGGAACTTTTAGTAA
TTCAGGTTTTGGCAACTCAGGAGCTTTAGGTAAT
Found at i:52327967 original size:90 final size:90
Alignment explanation
Indices: 52327811--52327976 Score: 269
Period size: 90 Copynumber: 1.8 Consensus size: 90
52327801 ATTCGGGTTT
* * *
52327811 TGGCAACTTAGGAGCTTTAGGTAATTCTGGCTTGGACACCTCAGGAACTTTAGGCAATTCTGGCT
1 TGGCAACTCAGGAGCTTTAGGTAATTCTAGCTTGGACACCTCAGGAACTTTAGGCAATTCTAGCT
52327876 TTGGTAACTCAGAAACTTTAAGTAA
66 TTGGTAACTCAGAAACTTTAAGTAA
* * * *
52327901 TGGCAACTCAGGAGCTTTAGGTAATTCTAGCTTGGGCACCTCAGGAATTTTGGGTAATTCTAGCT
1 TGGCAACTCAGGAGCTTTAGGTAATTCTAGCTTGGACACCTCAGGAACTTTAGGCAATTCTAGCT
52327966 TTGGTAACTCA
66 TTGGTAACTCA
52327977 AGAGCTTTTG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 69 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (90 bp):
TGGCAACTCAGGAGCTTTAGGTAATTCTAGCTTGGACACCTCAGGAACTTTAGGCAATTCTAGCT
TTGGTAACTCAGAAACTTTAAGTAA
Found at i:52329346 original size:20 final size:19
Alignment explanation
Indices: 52329320--52329377 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
52329310 CTCTATTAAC
52329320 AAAAATTACAAAATAATTT-T
1 AAAAATT-CAAAAT-ATTTAT
*
52329340 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
52329359 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
52329377 A
1 A
52329378 TTTCTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 11 0.32
19 17 0.50
20 6 0.18
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:52331973 original size:23 final size:22
Alignment explanation
Indices: 52331915--52331958 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
52331905 AAGAAAAAGA
52331915 AAGAAAAATCTAATGAGAGTTC
1 AAGAAAAATCTAATGAGAGTTC
52331937 AAGAAAAATCTAATGAGAGTTC
1 AAGAAAAATCTAATGAGAGTTC
52331959 TTTTAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.23
Consensus pattern (22 bp):
AAGAAAAATCTAATGAGAGTTC
Found at i:52332237 original size:14 final size:15
Alignment explanation
Indices: 52332218--52332273 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
52332208 AATCTTCAAT
52332218 GATATG-CAATCTTA
1 GATATGACAATCTTA
52332232 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
52332249 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
52332267 GATATGA
1 GATATGA
52332274 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:52332244 original size:17 final size:17
Alignment explanation
Indices: 52332224--52332287 Score: 92
Period size: 17 Copynumber: 3.6 Consensus size: 17
52332214 CAATGATATG
52332224 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
52332241 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
52332259 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
52332278 CAATCTTAGA
1 CAATCTTAGA
52332288 AGATATGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.36
18 15 0.36
19 11 0.26
20 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:52332262 original size:35 final size:37
Alignment explanation
Indices: 52332216--52332294 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
52332206 ATAATCTTCA
52332216 ATGATATGCAATCTTAGATATG-ATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
52332252 ATGAT-TGCAATCTTAGATATGATATACAATCTTAGA-
1 ATGATATGCAATCTTAGATATGA-ATACAATCTTAGAT
52332288 A-GATATG
1 ATGATATG
52332295 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 19 0.47
36 8 0.20
37 13 0.32
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
Found at i:52332857 original size:26 final size:26
Alignment explanation
Indices: 52332809--52332858 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
52332799 TTATAAATAT
* * * *
52332809 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
52332835 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
52332859 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:52334823 original size:22 final size:22
Alignment explanation
Indices: 52334781--52334823 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
52334771 GATATATAAT
*
52334781 AGATTAATTATAACGTAGAATC
1 AGATTAATTATAACGGAGAATC
*
52334803 AGATTAA-TATAATGGATGAAT
1 AGATTAATTATAACGGA-GAAT
52334824 AATCATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.33
Consensus pattern (22 bp):
AGATTAATTATAACGGAGAATC
Found at i:52336519 original size:17 final size:17
Alignment explanation
Indices: 52336494--52336545 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
52336484 CAATGATATG
*
52336494 CAATTTTAGATATGATA
1 CAATATTAGATATGATA
*
52336511 CAATATTAGATATGATTG
1 CAATATTAGATATGA-TA
*
52336529 CAATCTTAGATATGATA
1 CAATATTAGATATGATA
52336546 TGCAATCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (17 bp):
CAATATTAGATATGATA
Found at i:52336564 original size:17 final size:19
Alignment explanation
Indices: 52336486--52336557 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
52336476 ATAATCTTCA
*
52336486 ATGATATGCAATTTTAGAT
1 ATGATATGCAATCTTAGAT
*
52336505 ATGATA--CAATATTAGAT
1 ATGATATGCAATCTTAGAT
52336522 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
52336540 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
52336558 AGATATGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.31
18 15 0.31
19 18 0.38
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:52336583 original size:22 final size:22
Alignment explanation
Indices: 52336518--52336580 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
52336508 ATACAATATT
52336518 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
52336536 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
52336558 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
52336581 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:52337637 original size:3 final size:3
Alignment explanation
Indices: 52337631--52337660 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
52337621 TAGTAGTTCC
52337631 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
52337661 GTAAAACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:52340217 original size:39 final size:39
Alignment explanation
Indices: 52340171--52340310 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
52340161 GCTCTGATGA
*
52340171 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
* *
52340210 GCTTCAGTTAGCCTTC-AGGTTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGA-GCTTCCGTTTAGCACTTGTGT
* *
52340249 ACTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
* *
52340288 GCTTCAGCTAGACTTCGAGCTTC
1 GCTTCAGTTAGCCTTCGAGCTTC
52340311 AGATCACAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 88 0.99
40 1 0.01
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
Found at i:52342639 original size:15 final size:15
Alignment explanation
Indices: 52342619--52342647 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52342609 GGGTTCTTCC
52342619 GGTTTTGGCAATTCA
1 GGTTTTGGCAATTCA
52342634 GGTTTTGGCAATTC
1 GGTTTTGGCAATTC
52342648 GGGAACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (15 bp):
GGTTTTGGCAATTCA
Found at i:52342659 original size:33 final size:33
Alignment explanation
Indices: 52342621--52342767 Score: 118
Period size: 33 Copynumber: 4.5 Consensus size: 33
52342611 GTTCTTCCGG
* *
52342621 TTTTGGCAATTCAGGTTTTGGCAATTCGGGAAC
1 TTTTGGCAATTCAGGTTTTGGCAACTCAGGAAC
* * *
52342654 TTTTGGTAATTCAAGTTTTGGTC-CCTCAGGAAC
1 TTTTGGCAATTCAGGTTTTGG-CAACTCAGGAAC
* * * * *
52342687 TTTGGGCAATTCTGGTTTCGGTACCTCAGGAA-
1 TTTTGGCAATTCAGGTTTTGGCAACTCAGGAAC
* ** * *
52342719 TTTTAGGCAATTCTGGTTTTGTTAACTCGGGAAT
1 TTTT-GGCAATTCAGGTTTTGGCAACTCAGGAAC
*
52342753 TTTTGGTAATTCAGG
1 TTTTGGCAATTCAGG
52342768 AGCTTTGGGC
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
32 3 0.03
33 84 0.91
34 5 0.05
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.39
Consensus pattern (33 bp):
TTTTGGCAATTCAGGTTTTGGCAACTCAGGAAC
Found at i:52342675 original size:15 final size:15
Alignment explanation
Indices: 52342620--52342674 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
52342610 GGTTCTTCCG
*
52342620 GTTTTGGCAATTCAG
1 GTTTTGGCAATTCAA
52342635 GTTTTGGCAATTCGGGAA
1 GTTTTGGCAATTC---AA
* *
52342653 CTTTTGGTAATTCAA
1 GTTTTGGCAATTCAA
52342668 GTTTTGG
1 GTTTTGG
52342675 TCCCTCAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 21 0.64
18 12 0.36
ACGTcount: A:0.20, C:0.11, G:0.27, T:0.42
Consensus pattern (15 bp):
GTTTTGGCAATTCAA
Found at i:52342768 original size:84 final size:84
Alignment explanation
Indices: 52342669--52342927 Score: 275
Period size: 84 Copynumber: 3.1 Consensus size: 84
52342659 GTAATTCAAG
** * * * *
52342669 TTTTGGTCCCTCAGGAACTTTGGGCAATTCTGGTTTCGGTACCTCAGGAATTTTAGGCAATTCTG
1 TTTTGGTAACTCAGGAGCTTTGGGCAATTCTGGCTTAGGTACCTCAGGAACTTTAGGCAATTCTG
* *
52342734 GTTTTGTTAACTCGGGAAT
66 GCTTTGGTAACTCGGGAAT
* * * **
52342753 TTTTGGTAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCTGGAACTTTAGGCAATTCCA
1 TTTTGGTAACTCAGGAGCTTTGGGCAATTCTGGCTTAGGTACCTCAGGAACTTTAGGCAATTCTG
* * * * *
52342818 ACGTCGGTAACTCTGGAAC
66 GCTTTGGTAACTCGGGAAT
* * * * * * * *
52342837 TTTTGGCAACTCGGGAGCCTTGGGTAATTCAGGCTTGGGTACCTCGGGAACTTTAGGCAACTCTG
1 TTTTGGTAACTCAGGAGCTTTGGGCAATTCTGGCTTAGGTACCTCAGGAACTTTAGGCAATTCTG
*
52342902 GCTTTGGCAACTCGGGAAT
66 GCTTTGGTAACTCGGGAAT
52342921 TTTTGGT
1 TTTTGGT
52342928 GCTTCAAATT
Statistics
Matches: 138, Mismatches: 37, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
84 138 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (84 bp):
TTTTGGTAACTCAGGAGCTTTGGGCAATTCTGGCTTAGGTACCTCAGGAACTTTAGGCAATTCTG
GCTTTGGTAACTCGGGAAT
Found at i:52343110 original size:51 final size:51
Alignment explanation
Indices: 52343033--52343166 Score: 196
Period size: 51 Copynumber: 2.6 Consensus size: 51
52343023 TTTCATCTCG
* ** *
52343033 GGAACCTTAGGAAATTCAAGCATTGGCAACTCTGACACTTTTGGAAACTCA
1 GGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGACACTTTCGGAAACTCA
* * *
52343084 GGAACCTTAGGTAATTCAGGTTTTGGCAACTCTGGCACTTTCGGAAACTCG
1 GGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGACACTTTCGGAAACTCA
*
52343135 GGAACCTTAGGCAATTCAGGTTTTGGCAACTC
1 GGAACCTTAGGAAATTCAGGTTTTGGCAACTC
52343167 CGGAACTTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (51 bp):
GGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGACACTTTCGGAAACTCA
Found at i:52343194 original size:18 final size:18
Alignment explanation
Indices: 52343155--52343196 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
52343145 GCAATTCAGG
52343155 TTTT-GGCAACTCCGGAA
1 TTTTAGGCAACTCCGGAA
* * *
52343172 CTTTAGGCAACTCTGGCA
1 TTTTAGGCAACTCCGGAA
52343190 TTTTAGG
1 TTTTAGG
52343197 TATTTCGGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (18 bp):
TTTTAGGCAACTCCGGAA
Found at i:52343196 original size:51 final size:51
Alignment explanation
Indices: 52343029--52343211 Score: 188
Period size: 51 Copynumber: 3.6 Consensus size: 51
52343019 GTTTTTTCAT
* * ** * *
52343029 CTCGGGAACCTTAGGAAATTCAAGCATTGGCAACT-CTGACACTTTTGGAAA
1 CTCGGGAACCTTAGGTAATTCAGGTTTTGGCAACTCCGGA-ACTTTAGGAAA
* * * *
52343080 CTCAGGAACCTTAGGTAATTCAGGTTTTGGCAACTCTGGCACTTTCGGAAA
1 CTCGGGAACCTTAGGTAATTCAGGTTTTGGCAACTCCGGAACTTTAGGAAA
* *
52343131 CTCGGGAACCTTAGGCAATTCAGGTTTTGGCAACTCCGGAACTTTAGGCAA
1 CTCGGGAACCTTAGGTAATTCAGGTTTTGGCAACTCCGGAACTTTAGGAAA
* * ** * *
52343182 CTCTGGCATTTTAGGTATTTCGGGTTTTGG
1 CTCGGGAACCTTAGGTAATTCAGGTTTTGG
52343212 AATTTCTGGC
Statistics
Matches: 109, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
51 108 0.99
52 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (51 bp):
CTCGGGAACCTTAGGTAATTCAGGTTTTGGCAACTCCGGAACTTTAGGAAA
Found at i:52344548 original size:19 final size:20
Alignment explanation
Indices: 52344506--52344550 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
52344496 CTCTGTTTTT
*
52344506 TTTTTATATTCCCTCAATAT
1 TTTTTATATTCCCTCAATAG
* *
52344526 TTTTTGTATTTCCTC-ATAG
1 TTTTTATATTCCCTCAATAG
52344545 TTTTTA
1 TTTTTA
52344551 GTACTTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.20, C:0.16, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTTATATTCCCTCAATAG
Found at i:52344601 original size:20 final size:19
Alignment explanation
Indices: 52344561--52344645 Score: 84
Period size: 20 Copynumber: 4.4 Consensus size: 19
52344551 GTACTTATTC
**
52344561 ATAATTTTTATTATTCGCTT
1 ATAATTTTTA-TATTTTCTT
52344581 ATAATTTTTGATATTTTCTT
1 ATAATTTTT-ATATTTTCTT
* * *
52344601 A-ATTTTTTTTATTTTCTC
1 ATAATTTTTATATTTTCTT
52344619 ATAATTTTTAGTATTTTCTT
1 ATAATTTTTA-TATTTTCTT
52344639 AT-ATTTT
1 ATAATTTT
52344646 CCGGTAGTCC
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
18 9 0.17
19 17 0.31
20 27 0.50
21 1 0.02
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.66
Consensus pattern (19 bp):
ATAATTTTTATATTTTCTT
Found at i:52344605 original size:18 final size:17
Alignment explanation
Indices: 52344582--52344645 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 17
52344572 TATTCGCTTA
52344582 TAATTTTTGATATTTTCT
1 TAATTTTT-ATATTTTCT
*
52344600 TAATTTTTTTTATTTTCT
1 TAA-TTTTTATATTTTCT
52344618 CATAATTTTTAGTATTTTCT
1 --TAATTTTTA-TATTTTCT
52344638 TATATTTT
1 TA-ATTTT
52344646 CCGGTAGTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 13 0.33
19 15 0.38
20 11 0.28
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (17 bp):
TAATTTTTATATTTTCT
Found at i:52344613 original size:38 final size:38
Alignment explanation
Indices: 52344538--52344645 Score: 119
Period size: 38 Copynumber: 2.8 Consensus size: 38
52344528 TTTGTATTTC
* *
52344538 CTCATAGTTTTTAGTACTTATTCATAATTTTTATTATTCG
1 CTCATAATTTTTAGTA-TT-TTCTTAATTTTTATTATTCG
* * **
52344578 CTTATAATTTTT-GATATTTTCTTAATTTTTTTTATTTT
1 CTCATAATTTTTAG-TATTTTCTTAATTTTTATTATTCG
52344616 CTCATAATTTTTAGTATTTTCTTATATTTT
1 CTCATAATTTTTAGTATTTTCTTA-ATTTT
52344646 CCGGTAGTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
38 37 0.64
39 9 0.16
40 12 0.21
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.63
Consensus pattern (38 bp):
CTCATAATTTTTAGTATTTTCTTAATTTTTATTATTCG
Found at i:52346112 original size:13 final size:13
Alignment explanation
Indices: 52346094--52346128 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
52346084 AGTTTGGCAA
52346094 TGCTTTTGAGAAC
1 TGCTTTTGAGAAC
*
52346107 TGCTTTTGAGAAG
1 TGCTTTTGAGAAC
52346120 TGCTTTTGA
1 TGCTTTTGA
52346129 AATTTGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.11, G:0.26, T:0.43
Consensus pattern (13 bp):
TGCTTTTGAGAAC
Found at i:52347094 original size:7 final size:7
Alignment explanation
Indices: 52347057--52347099 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
52347047 TTGTTACTTA
52347057 ATAT-TT
1 ATATATT
52347063 ATATATT
1 ATATATT
52347070 AGTATATT
1 A-TATATT
52347078 ATATCA-T
1 ATAT-ATT
52347085 ATATATT
1 ATATATT
52347092 ATATATT
1 ATATATT
52347099 A
1 A
52347100 CAAGGTTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 5 0.15
7 20 0.61
8 8 0.24
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
ATATATT
Found at i:52348971 original size:33 final size:33
Alignment explanation
Indices: 52348928--52349187 Score: 178
Period size: 33 Copynumber: 7.9 Consensus size: 33
52348918 AGGCATGCTA
* *
52348928 GGCAATTCAGGAACTTTAGGTAATTCAGGTTTT
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
** * * *
52348961 GGCAACTCAGGAGTTTTGGGCAATTCTGGTTTC
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
* * * *
52348994 GGTACCTCTGGAACTTTAGGCAATTCTGGTTTT
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
** * * * *
52349027 GTTAACTCGGGAATTTTAGGTAATTGAGGTTTT
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
* * * * * * * *
52349060 GGTAATTTAGGAGCTTTTGGCAATTCTGGCTTA
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
* * *
52349093 GGCACCTCAGGAACTTTTGGTAATTCAGGTTTT
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
* *** * *
52349126 GGCAGCTCAGTCGCTTTGGGCAATTCTGGTTTT
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
* * * *
52349159 GGTACCTCAGGAATTTTTGGCAATTCAGG
1 GGCAACTCAGGAACTTTAGGCAATTCAGG
52349188 AGCTTTGGGC
Statistics
Matches: 170, Mismatches: 57, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 170 1.00
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (33 bp):
GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
Found at i:52349060 original size:99 final size:99
Alignment explanation
Indices: 52348937--52349126 Score: 256
Period size: 99 Copynumber: 1.9 Consensus size: 99
52348927 AGGCAATTCA
* * *
52348937 GGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAG-TTTTGGGCAATTCTGGTTTCGGTACCT
1 GGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAGCTTTT-GGCAATTCTGGCTTAGGCACCT
* *
52349001 CTGGAACTTTAGGCAATTCTGGTTTTGTTAACTCG
65 CAGGAACTTTAGGCAATTCAGGTTTTGTTAACTCG
* * * * *
52349036 GGAATTTTAGGTAATTGAGGTTTTGGTAATTTAGGAGCTTTTGGCAATTCTGGCTTAGGCACCTC
1 GGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAGCTTTTGGCAATTCTGGCTTAGGCACCTC
* *
52349101 AGGAACTTTTGGTAATTCAGGTTTTG
66 AGGAACTTTAGGCAATTCAGGTTTTG
52349127 GCAGCTCAGT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 74 0.95
100 4 0.05
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (99 bp):
GGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAGCTTTTGGCAATTCTGGCTTAGGCACCTC
AGGAACTTTAGGCAATTCAGGTTTTGTTAACTCG
Found at i:52349193 original size:51 final size:51
Alignment explanation
Indices: 52349138--52349235 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
52349128 CAGCTCAGTC
* * * * *
52349138 GCTTTGGGCAA-TTCTGGTTTTGGTACCTCAGGAATTTTTGGCAATTCAGGA
1 GCTTTGGGCAATTTCT-GCTTAGGCACCTCAGGAACTTTAGGCAATTCAGGA
52349189 GCTTTGGGCAATTTCTGCTTAGGCACCTCAGGAACTTTAGGCAATTC
1 GCTTTGGGCAATTTCTGCTTAGGCACCTCAGGAACTTTAGGCAATTC
52349236 TGGCTTTGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 37 0.90
52 4 0.10
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (51 bp):
GCTTTGGGCAATTTCTGCTTAGGCACCTCAGGAACTTTAGGCAATTCAGGA
Found at i:52349220 original size:33 final size:32
Alignment explanation
Indices: 52349174--52349523 Score: 254
Period size: 33 Copynumber: 10.6 Consensus size: 32
52349164 CTCAGGAATT
* *
52349174 TTTGGCAATTCAGGAGCTTTGGGCAATTTCTGC
1 TTTGGCAACTCAGGAACTTTGGGCAA-TTCTGC
* * *
52349207 TTAGGCACCTCAGGAACTTTAGGCAATTCTGGC
1 TTTGGCAACTCAGGAACTTTGGGCAATTCT-GC
* * ** *
52349240 TTTGGTAACTCAGGAACTTTTGGTGATTCAAGC
1 TTTGGCAACTCAGGAACTTTGGGCAATTC-TGC
* * * *
52349273 TTTGGCAACTCGGGAGCTTTGGGTAATTCAGGC
1 TTTGGCAACTCAGGAACTTTGGGCAATTC-TGC
* * *
52349306 TTGGGC-ACTTCAGGAGCTTTGGGCAATTCCGGC
1 TTTGGCAAC-TCAGGAACTTTGGGCAATT-CTGC
* * *
52349339 TTAGGCACCTCAGGAACTTTAGGCAATTCTGGC
1 TTTGGCAACTCAGGAACTTTGGGCAATTCT-GC
* * *
52349372 TTAGGCACCTCAGGAACTTTAGGCAATTCTGGC
1 TTTGGCAACTCAGGAACTTTGGGCAATTCT-GC
* * * * *
52349405 TTTGGTAACTCAGGAACTTTTGGTAATTCAGGT
1 TTTGGCAACTCAGGAACTTTGGGCAATTC-TGC
* * *
52349438 TTTGGCAACTCAGGAGCTTTGGGTAATTCAGGC
1 TTTGGCAACTCAGGAACTTTGGGCAATTC-TGC
* * *
52349471 TTGGGC-ACTTCAGGAACTTTAGGAAATTCTGGC
1 TTTGGCAAC-TCAGGAACTTTGGGCAATTCT-GC
* *
52349504 TTTGGTAACTCCGGAACTTT
1 TTTGGCAACTCAGGAACTTT
52349524 TGGTGCTTCA
Statistics
Matches: 262, Mismatches: 45, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
32 9 0.03
33 249 0.95
34 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (32 bp):
TTTGGCAACTCAGGAACTTTGGGCAATTCTGC
Found at i:52349277 original size:117 final size:117
Alignment explanation
Indices: 52349056--52349277 Score: 266
Period size: 117 Copynumber: 1.9 Consensus size: 117
52349046 GTAATTGAGG
* * * * *
52349056 TTTTGGTAATTTAGGAGCTTTTGGCAATTCTGGCTTAGGCACCTCAGGAACTTTTGGTAATTCAG
1 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAG
* * *** ** *
52349121 GTTTTGGCAGCTCAGTCGCTTTGGGCAATTCTGGTTTTGGTACCTCAGGAAT
66 GCTTTGGCAACTCAGGAACTTTGGGCAATTCAAGCTTTGGTACCTCAGGAAT
*
52349173 TTTTGGCAATTCAGGAGCTTTGGGCAATTTCT-GCTTAGGCACCTCAGGAACTTTAGGCAATTCT
1 TTTTGGCAATTCAGGAGCTTTGGGCAA-TTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCA
* * **
52349237 GGCTTTGGTAACTCAGGAACTTTTGGTGATTCAAGCTTTGG
65 GGCTTTGGCAACTCAGGAACTTTGGGCAATTCAAGCTTTGG
52349278 CAACTCGGGA
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
117 82 0.95
118 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (117 bp):
TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAG
GCTTTGGCAACTCAGGAACTTTGGGCAATTCAAGCTTTGGTACCTCAGGAAT
Found at i:52349301 original size:117 final size:117
Alignment explanation
Indices: 52349060--52349304 Score: 258
Period size: 117 Copynumber: 2.1 Consensus size: 117
52349050 TTGAGGTTTT
* * * * *
52349060 GGTAATTTAGGAGCTTTTGGCAATTCTGGCTTAGGCACCTCAGGAACTTTTGGTAATTCAGGTTT
1 GGTAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAGGCTT
* *** ** * * * * *
52349125 TGGCAGCTCAGTCGCTTTGGGCAATTCTGGTTTTGGTACCTCAGGAATTTTT
66 TGGCAACTCAGGAACTTTGGGCAATTCAAGCTTTGGCAACTCAGGAACTTTG
* *
52349177 GGCAATTCAGGAGCTTTGGGCAATTTCT-GCTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCT
1 GGTAATTCAGGAGCTTTGGGCAA-TTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAGGCT
* * ** * *
52349241 TTGGTAACTCAGGAACTTTTGGTGATTCAAGCTTTGGCAACTCGGGAGCTTTG
65 TTGGCAACTCAGGAACTTTGGGCAATTCAAGCTTTGGCAACTCAGGAACTTTG
52349294 GGTAATTCAGG
1 GGTAATTCAGG
52349305 CTTGGGCACT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
117 98 0.96
118 4 0.04
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.34
Consensus pattern (117 bp):
GGTAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAGGCTT
TGGCAACTCAGGAACTTTGGGCAATTCAAGCTTTGGCAACTCAGGAACTTTG
Found at i:52349307 original size:66 final size:66
Alignment explanation
Indices: 52349174--52349523 Score: 328
Period size: 66 Copynumber: 5.3 Consensus size: 66
52349164 CTCAGGAATT
* * * * * * *
52349174 TTTGGCAATTCAGGAGCTTTGGGCAATTTC-TGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
1 TTTGGCAACTCAGGAACTTTGGGTAA-TTCAGGCTTTGGCAACTCAGGAACTTTAGGTAATTCTG
52349238 GC
65 GC
* * * * * * * *
52349240 TTTGGTAACTCAGGAACTTTTGGTGATTCAAGCTTTGGCAACTCGGGAGCTTTGGGTAATTCAGG
1 TTTGGCAACTCAGGAACTTTGGGTAATTCAGGCTTTGGCAACTCAGGAACTTTAGGTAATTCTGG
52349305 C
66 C
* * * * * * *
52349306 TTGGGC-ACTTCAGGAGCTTTGGGCAATTCCGGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
1 TTTGGCAAC-TCAGGAACTTTGGGTAATTCAGGCTTTGGCAACTCAGGAACTTTAGGTAATTCTG
52349370 GC
65 GC
* * * * * * * *
52349372 TTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGTAATTCAGG
1 TTTGGCAACTCAGGAACTTTGGGTAATTCAGGCTTTGGCAACTCAGGAACTTTAGGTAATTCTGG
*
52349437 T
66 C
* * *
52349438 TTTGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTGGGC-ACTTCAGGAACTTTAGGAAATTCTG
1 TTTGGCAACTCAGGAACTTTGGGTAATTCAGGCTTTGGCAAC-TCAGGAACTTTAGGTAATTCTG
52349502 GC
65 GC
* *
52349504 TTTGGTAACTCCGGAACTTT
1 TTTGGCAACTCAGGAACTTT
52349524 TGGTGCTTCA
Statistics
Matches: 224, Mismatches: 56, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
65 7 0.03
66 216 0.96
67 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (66 bp):
TTTGGCAACTCAGGAACTTTGGGTAATTCAGGCTTTGGCAACTCAGGAACTTTAGGTAATTCTGG
C
Found at i:52349329 original size:18 final size:18
Alignment explanation
Indices: 52349270--52349334 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
52349260 TGGTGATTCA
* *
52349270 AGCTTT-GGCAACTCGGG
1 AGCTTTGGGCAATTCAGG
*
52349287 AGCTTTGGGTAATTCA-G
1 AGCTTTGGGCAATTCAGG
*
52349304 -GC-TTGGGCACTTCAGG
1 AGCTTTGGGCAATTCAGG
52349320 AGCTTTGGGCAATTC
1 AGCTTTGGGCAATTC
52349335 CGGCTTAGGC
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
15 10 0.26
16 3 0.08
17 9 0.24
18 16 0.42
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.29
Consensus pattern (18 bp):
AGCTTTGGGCAATTCAGG
Found at i:52349362 original size:18 final size:18
Alignment explanation
Indices: 52349339--52349396 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
52349329 CAATTCCGGC
52349339 TTAGGCACCTCAGGAACT
1 TTAGGCACCTCAGGAACT
** *
52349357 TTAGGCAATTCTGG--C-
1 TTAGGCACCTCAGGAACT
52349372 TTAGGCACCTCAGGAACT
1 TTAGGCACCTCAGGAACT
52349390 TTAGGCA
1 TTAGGCA
52349397 ATTCTGGCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 11 0.35
16 1 0.03
17 1 0.03
18 18 0.58
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (18 bp):
TTAGGCACCTCAGGAACT
Found at i:52349428 original size:18 final size:17
Alignment explanation
Indices: 52349405--52349469 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
52349395 CAATTCTGGC
52349405 TTTGGTAACTCAGGAACT
1 TTTGGTAACTCAGG-ACT
*
52349423 TTTGGTAATTCAGG--T
1 TTTGGTAACTCAGGACT
*
52349438 TTTGGCAACTCAGGAGCT
1 TTTGGTAACTCAGGA-CT
* *
52349456 TTGGGTAATTCAGG
1 TTTGGTAACTCAGG
52349470 CTTGGGCACT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 13 0.34
18 25 0.66
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (17 bp):
TTTGGTAACTCAGGACT
Found at i:52349491 original size:99 final size:99
Alignment explanation
Indices: 52349177--52349526 Score: 337
Period size: 99 Copynumber: 3.5 Consensus size: 99
52349167 AGGAATTTTT
* * * * * * * *
52349177 GGCAATTCAGGAGCTTTGGGCAATTTCT-GCTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCT
1 GGCACTTCAGGAACTTTAGGCAA-TTCTGGCTTTGGTAACTCAGGAACTTTTGGCAATTCAGGCT
* * * * *
52349241 TTGGTAACTCAGGAACTTTTGGTGATTCAAGCTTT
65 TTGGCAACTCAGGAACTTTGGGTAATTCAGGCTTA
* * * * * ** * * *
52349276 GGCAAC-TCGGGAGCTTTGGGTAATTCAGGC-TTGGGCACTTCAGGAGCTTTGGGCAATTCCGGC
1 GGC-ACTTCAGGAACTTTAGGCAATTCTGGCTTTGGTAAC-TCAGGAACTTTTGGCAATTCAGGC
* * * * *
52349339 TTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTTA
64 TTTGGCAACTCAGGAACTTTGGGTAATTCAGGCTTA
* * *
52349375 GGCACCTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGTAATTCAGGTTT
1 GGCACTTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGCAATTCAGGCTT
* *
52349440 TGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTG
66 TGGCAACTCAGGAACTTTGGGTAATTCAGGCTTA
* *
52349474 GGCACTTCAGGAACTTTAGGAAATTCTGGCTTTGGTAACTCCGGAACTTTTGG
1 GGCACTTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGG
52349527 TGCTTCAGAT
Statistics
Matches: 204, Mismatches: 42, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
98 9 0.04
99 188 0.92
100 7 0.03
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (99 bp):
GGCACTTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGCAATTCAGGCTT
TGGCAACTCAGGAACTTTGGGTAATTCAGGCTTA
Found at i:52349520 original size:132 final size:131
Alignment explanation
Indices: 52349173--52349523 Score: 470
Period size: 132 Copynumber: 2.7 Consensus size: 131
52349163 CCTCAGGAAT
* *
52349173 TTTTGGCAATTCAGGAGCTTTGGGCAATTTCTGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
1 TTTTGGCAACTCAGGAGCTTTGGGCAA-TTCGGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
* ** * *
52349238 GCTTTGGTAACTCAGGAACTTTTGGTGATTCAAGCTTTGGCAACTCGGGAGCTTTGGGTAATTCA
65 GCTTTGGTAACTCAGGAACTTTAGGCAATTCAAGCTTTGGCAACTCAGGAACTTTGGGTAATTCA
52349303 GG
130 GG
* *
52349305 CTTGGGC-ACTTCAGGAGCTTTGGGCAATTCCGGCTTAGGCACCTCAGGAACTTTAGGCAATTCT
1 TTTTGGCAAC-TCAGGAGCTTTGGGCAATT-CGGCTTAGGCACCTCAGGAACTTTAGGCAATTCT
* * * ** * *
52349369 GGCTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGTAATTC
64 GGCTTTGGTAACTCAGGAACTTTAGGCAATTCAAGCTTTGGCAACTCAGGAACTTTGGGTAATTC
52349434 AGG
129 AGG
* * * *
52349437 TTTTGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTGGGCACTTCAGGAACTTTAGGAAATTCTG
1 TTTTGGCAACTCAGGAGCTTTGGGCAATTC-GGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
*
52349502 GCTTTGGTAACTCCGGAACTTT
65 GCTTTGGTAACTCAGGAACTTT
52349524 TGGTGCTTCA
Statistics
Matches: 189, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
131 4 0.02
132 183 0.97
133 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (131 bp):
TTTTGGCAACTCAGGAGCTTTGGGCAATTCGGCTTAGGCACCTCAGGAACTTTAGGCAATTCTGG
CTTTGGTAACTCAGGAACTTTAGGCAATTCAAGCTTTGGCAACTCAGGAACTTTGGGTAATTCAG
G
Found at i:52349527 original size:99 final size:99
Alignment explanation
Indices: 52349342--52349561 Score: 296
Period size: 99 Copynumber: 2.2 Consensus size: 99
52349332 TTCCGGCTTA
* * * * *
52349342 GGCACCTCAGGAACTTTAGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTT
1 GGCAACTCAGGAGCTTTGGGCAATTCAGGCTTAGGCACCTCAGGAACTTTAGGAAATTCTGGCTT
*
52349407 TGGTAACTCAGGAACTTTTGGTAATTCAGGTTTT
66 TGGTAACTCAGGAACTTTTGGTAATTCAGATTTT
* * *
52349441 GGCAACTCAGGAGCTTTGGGTAATTCAGGCTTGGGCACTTCAGGAACTTTAGGAAATTCTGGCTT
1 GGCAACTCAGGAGCTTTGGGCAATTCAGGCTTAGGCACCTCAGGAACTTTAGGAAATTCTGGCTT
* **
52349506 TGGTAACTCCGGAACTTTTGGTGCTTCAGATTTT
66 TGGTAACTCAGGAACTTTTGGTAATTCAGATTTT
* * * *
52349540 GACAATTTAGGAGCATTGGGCA
1 GGCAACTCAGGAGCTTTGGGCA
52349562 TCTCTGGAAC
Statistics
Matches: 104, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
99 104 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (99 bp):
GGCAACTCAGGAGCTTTGGGCAATTCAGGCTTAGGCACCTCAGGAACTTTAGGAAATTCTGGCTT
TGGTAACTCAGGAACTTTTGGTAATTCAGATTTT
Found at i:52349673 original size:51 final size:51
Alignment explanation
Indices: 52349594--52349742 Score: 183
Period size: 51 Copynumber: 2.9 Consensus size: 51
52349584 AGGTTTTTTC
* *
52349594 AACTCAGGAATCTTAGGAAATTCAGGTTTTGGCAACTCTGGAACTTTCGGA
1 AACTCAGGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGGAACTTTCAGA
* * * *
52349645 AACTCAGGAACCTTGGGTAATTCTGGTTTTGGCAATTCTGGAACTTTCAGA
1 AACTCAGGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGGAACTTTCAGA
* * * * *
52349696 AACTTC-GGAACCTCAGGCAATTCGGGCTTTGGCAACTCCGGAACTTT
1 AAC-TCAGGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGGAACTTT
52349743 AGGCAATTCA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 82 0.98
52 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (51 bp):
AACTCAGGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGGAACTTTCAGA
Found at i:52349747 original size:33 final size:33
Alignment explanation
Indices: 52349696--52349766 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
52349686 AACTTTCAGA
* *
52349696 AACTTCGGAACCTCAGGCAATTCGGGCTTTGGC
1 AACTCCGGAACCTCAGGCAATTCAGGCTTTGGC
* * *
52349729 AACTCCGGAACTTTAGGCAATTCAGGTTTTGGC
1 AACTCCGGAACCTCAGGCAATTCAGGCTTTGGC
52349762 AACTC
1 AACTC
52349767 AGGCATTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (33 bp):
AACTCCGGAACCTCAGGCAATTCAGGCTTTGGC
Found at i:52349777 original size:33 final size:33
Alignment explanation
Indices: 52349710--52349790 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 33
52349700 TCGGAACCTC
* * *
52349710 AGGCAATTCGGGCTTTGGCAACTCCGGAACTTT
1 AGGCAATTCAGGTTTTGGCAACTCAGGAACTTT
* *
52349743 AGGCAATTCAGGTTTTGGCAACTCAGGCATTTT
1 AGGCAATTCAGGTTTTGGCAACTCAGGAACTTT
* *
52349776 AGGTATTTCAGGTTT
1 AGGCAATTCAGGTTT
52349791 CGGGATTTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (33 bp):
AGGCAATTCAGGTTTTGGCAACTCAGGAACTTT
Found at i:52352357 original size:47 final size:47
Alignment explanation
Indices: 52352259--52352425 Score: 221
Period size: 46 Copynumber: 3.6 Consensus size: 47
52352249 TGATGTCATA
* *
52352259 GTATCTTTCAACCATGGTTTTACTCGTTTT-CTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
* * *
52352305 GTATCTTTCAACCATTGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
* * * * *
52352352 GTATCTGTCAACCATGGTTTTACTCA-TTTCATGTCAGGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
*
52352398 GTATCTTTCAACCATGGTCTTACACATT
1 GTATCTTTCAACCATGGTCTTACTCATT
52352426 CCATATTAGA
Statistics
Matches: 103, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
46 65 0.63
47 38 0.37
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.43
Consensus pattern (47 bp):
GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
Found at i:52355162 original size:24 final size:25
Alignment explanation
Indices: 52355135--52355183 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
52355125 CTTTTTTTAT
*
52355135 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
52355159 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
52355184 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:52355176 original size:25 final size:23
Alignment explanation
Indices: 52355147--52355211 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
52355137 AATAAAAAAC
*
52355147 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
52355172 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
52355193 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
52355212 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:52355206 original size:19 final size:20
Alignment explanation
Indices: 52355173--52355211 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
52355163 TCAAATACAT
52355173 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
52355193 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
52355212 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:52356564 original size:21 final size:21
Alignment explanation
Indices: 52356538--52356579 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
52356528 GGCCCAGACC
52356538 AACAAACAAACAAAAACAAAA
1 AACAAACAAACAAAAACAAAA
* * *
52356559 AACAAACTAACTAAAATAAAA
1 AACAAACAAACAAAAACAAAA
52356580 GTCCATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.76, C:0.17, G:0.00, T:0.07
Consensus pattern (21 bp):
AACAAACAAACAAAAACAAAA
Found at i:52361286 original size:52 final size:49
Alignment explanation
Indices: 52361230--52361346 Score: 114
Period size: 50 Copynumber: 2.3 Consensus size: 49
52361220 TTAGACTATT
* **
52361230 TTATTTATTTTAAATTTCATATATTGA-ACTTTTTTAAATTGTTTTAGATACA
1 TTATTTATTTTAAATTTCATATACT-ATAC-ACTTTAAATTGTTTT-G-TACA
**
52361282 TTATTTTAAATT--ATTTCATATACTATACACTTTAAATTGTTTTGTACA
1 TTA-TTTATTTTAAATTTCATATACTATACACTTTAAATTGTTTTGTACA
*
52361330 TTGTTTATTTTAAATTT
1 TTATTTATTTTAAATTT
52361347 GTTTAATGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
47 6 0.11
48 6 0.11
49 5 0.09
50 14 0.26
51 13 0.25
52 3 0.06
53 6 0.11
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (49 bp):
TTATTTATTTTAAATTTCATATACTATACACTTTAAATTGTTTTGTACA
Found at i:52361420 original size:48 final size:48
Alignment explanation
Indices: 52361333--52361426 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
52361323 TTGTACATTG
* * *
52361333 TTTATTTTAAATTTGTTTAATGTATTATCCATTTTAAATTGTTTTATTA
1 TTTACTTTAAATTTGTTTAATGTATTATCAATTTCAAATT-TTTTATTA
* *
52361382 TTTACTTTAAATTT-TTTCATGTATTATTAATTTCAAATTTTTTAT
1 TTTACTTTAAATTTGTTTAATGTATTATCAATTTCAAATTTTTTAT
52361427 ATGTTTATCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 6 0.15
48 21 0.52
49 13 0.32
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (48 bp):
TTTACTTTAAATTTGTTTAATGTATTATCAATTTCAAATTTTTTATTA
Found at i:52361440 original size:26 final size:27
Alignment explanation
Indices: 52361335--52361441 Score: 88
Period size: 26 Copynumber: 4.2 Consensus size: 27
52361325 GTACATTGTT
52361335 TATTTTAAATTTGTTTA-ATGTATTATC
1 TATTTTAAATTT-TTTATATGTATTATC
* *
52361362 CATTTTAAATTGTTT-TAT-TA-T-T-
1 TATTTTAAATTTTTTATATGTATTATC
* *
52361384 TACTTTAAATTTTTT-CATGTATTAT-
1 TATTTTAAATTTTTTATATGTATTATC
*
52361409 TAATTTCAAATTTTTTATATGT-TTATC
1 T-ATTTTAAATTTTTTATATGTATTATC
52361436 TATTTT
1 TATTTT
52361442 TTTTATATCC
Statistics
Matches: 63, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
22 14 0.22
23 3 0.05
24 2 0.03
25 4 0.06
26 25 0.40
27 15 0.24
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.62
Consensus pattern (27 bp):
TATTTTAAATTTTTTATATGTATTATC
Found at i:52363952 original size:21 final size:20
Alignment explanation
Indices: 52363927--52363989 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
52363917 TGTTATTTAA
52363927 TATTTACATTATAATATATAT
1 TATTT-CATTATAATATATAT
52363948 TATTT-A-TATAATATTATAT
1 TATTTCATTATAATA-TATAT
* *
52363967 TATATCATATATATTATATAT
1 TATTTCAT-TATAATATATAT
52363988 TA
1 TA
52363990 CAAGGTTCTG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
18 7 0.19
19 10 0.28
20 1 0.03
21 12 0.33
22 6 0.17
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTTCATTATAATATATAT
Found at i:52363957 original size:11 final size:10
Alignment explanation
Indices: 52363936--52363986 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 10
52363926 ATATTTACAT
52363936 TATAATA-TA
1 TATAATATTA
*
52363945 TATTAT-TTA
1 TATAATATTA
52363954 TATAATATTA
1 TATAATATTA
* *
52363964 TATTATATCA
1 TATAATATTA
52363974 TAT-ATATTA
1 TATAATATTA
52363983 TATA
1 TATA
52363987 TTACAAGGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (10 bp):
TATAATATTA
Found at i:52363961 original size:5 final size:5
Alignment explanation
Indices: 52363943--52363985 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
52363933 CATTATAATA
* *
52363943 TATAT TAT-T TATAT AATAT TATAT TATAT CATA- TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
52363986 ATTACAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 7 0.22
5 25 0.78
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:52365015 original size:13 final size:13
Alignment explanation
Indices: 52364994--52365027 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
52364984 TCATTTGAAG
52364994 AAATTTATAAATT
1 AAATTTATAAATT
* *
52365007 AAGTTTATAATTT
1 AAATTTATAAATT
52365020 AAATTTAT
1 AAATTTAT
52365028 TCATATATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
AAATTTATAAATT
Found at i:52366423 original size:33 final size:33
Alignment explanation
Indices: 52366386--52366669 Score: 244
Period size: 33 Copynumber: 8.6 Consensus size: 33
52366376 GCTAGGCAAT
* * *
52366386 TCAGGAACTTTAGGTAATTCAGGTTTTGGCAAC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
** * * *
52366419 TCAGGAGTTTTGGGCAATTCTGGTTTCGGTACC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
* *
52366452 TCTGGAACTTTAGGCAATTCTGGTTTTGTTAAC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
* * * * ** *
52366485 CCGGGAATTTTAGGTAATTGAGGTTTTGGTAAT
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
* * * * * *
52366518 TCAGGAGCTTTTGGCAATTCTGGCTTAGGCACC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
* * * * *
52366551 TCTGGAACTTTTGGTAATTCAGGTTTTGGCAAC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
** * *
52366584 TCAGTCACTTTGGGCAATTCTGGTTTTGGTACC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
* *
52366617 TCAGGAATTTTAGGCAATTCTGGTTTTGTTAAC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
* *
52366650 TCAGGAATTTTTGGCAATTC
1 TCAGGAACTTTAGGCAATTC
52366670 AGGAGCTTTG
Statistics
Matches: 193, Mismatches: 58, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
33 193 1.00
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (33 bp):
TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
Found at i:52366609 original size:99 final size:99
Alignment explanation
Indices: 52366387--52366639 Score: 292
Period size: 99 Copynumber: 2.6 Consensus size: 99
52366377 CTAGGCAATT
* * * * *
52366387 CAGGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAGTTTTGGGCAATTCTGGTTTCGGTACC
1 CAGGAACTTTAGGTAATTCAGGTTTTGGTAACTCAGGAGTTTTAGGCAATTCTGGCTTAGGCACC
* **
52366452 TCTGGAACTTTAGGCAATTCTGGTTTTGTTAACC
66 TCTGGAACTTTAGGCAATTCAGGTTTTGGCAACC
* * * *
52366486 CGGGAATTTTAGGTAATTGAGGTTTTGGTAATTCAGGAGCTTTT-GGCAATTCTGGCTTAGGCAC
1 CAGGAACTTTAGGTAATTCAGGTTTTGGTAACTCAGGAG-TTTTAGGCAATTCTGGCTTAGGCAC
* * *
52366550 CTCTGGAACTTTTGGTAATTCAGGTTTTGGCAACT
65 CTCTGGAACTTTAGGCAATTCAGGTTTTGGCAACC
** * * * * *
52366585 CAGTCACTTTGGGCAATTCTGGTTTTGGTACCTCAGGAATTTTAGGCAATTCTGG
1 CAGGAACTTTAGGTAATTCAGGTTTTGGTAACTCAGGAGTTTTAGGCAATTCTGG
52366640 TTTTGTTAAC
Statistics
Matches: 127, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
98 4 0.03
99 119 0.94
100 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (99 bp):
CAGGAACTTTAGGTAATTCAGGTTTTGGTAACTCAGGAGTTTTAGGCAATTCTGGCTTAGGCACC
TCTGGAACTTTAGGCAATTCAGGTTTTGGCAACC
Found at i:52366671 original size:18 final size:18
Alignment explanation
Indices: 52366650--52366942 Score: 76
Period size: 18 Copynumber: 17.6 Consensus size: 18
52366640 TTTTGTTAAC
* *
52366650 TCAGGAATTTTTGGCAAT
1 TCAGGAACTTTGGGCAAT
*
52366668 TCAGGAGCTTTGGGCAAT
1 TCAGGAACTTTGGGCAAT
* * *
52366686 TCTGG--C-TTAGGCACT
1 TCAGGAACTTTGGGCAAT
*
52366701 TCAGGAACTTTAGGCAAT
1 TCAGGAACTTTGGGCAAT
* * *
52366719 TCTGG--CTTT-GGTAAC
1 TCAGGAACTTTGGGCAAT
* **
52366734 TCAGGAACTTTTGGTGAT
1 TCAGGAACTTTGGGCAAT
* * *
52366752 TC---AAGTTTTGGCAAC
1 TCAGGAACTTTGGGCAAT
* * *
52366767 TCGGGAGCTTTGGGTAAT
1 TCAGGAACTTTGGGCAAT
*
52366785 TCAGG--C-TTGGGCACT
1 TCAGGAACTTTGGGCAAT
*
52366800 TCAGGAGCTTTGGGCAAT
1 TCAGGAACTTTGGGCAAT
* * * **
52366818 TC-CG-AC-TTAGGTACC
1 TCAGGAACTTTGGGCAAT
*
52366833 TCAGGAACTTTAGGCAAT
1 TCAGGAACTTTGGGCAAT
* * *
52366851 TCTGG--CTTT-GGTAAC
1 TCAGGAACTTTGGGCAAT
* *
52366866 TCAGGAACTTTTGGTAAT
1 TCAGGAACTTTGGGCAAT
* *
52366884 TCAGG---TTTTGGCAAC
1 TCAGGAACTTTGGGCAAT
* * *
52366899 TCGGGAGCTTTGGGTAAT
1 TCAGGAACTTTGGGCAAT
*
52366917 TCAGG--C-TTGGGCACT
1 TCAGGAACTTTGGGCAAT
52366932 TCAGGAACTTT
1 TCAGGAACTTT
52366943 AGGAAATTCT
Statistics
Matches: 200, Mismatches: 51, Indels: 48
0.67 0.17 0.16
Matches are distributed among these distances:
15 81 0.41
16 13 0.06
17 14 0.07
18 92 0.46
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.33
Consensus pattern (18 bp):
TCAGGAACTTTGGGCAAT
Found at i:52366717 original size:33 final size:32
Alignment explanation
Indices: 52366659--52366951 Score: 208
Period size: 33 Copynumber: 8.9 Consensus size: 32
52366649 CTCAGGAATT
* * *
52366659 TTTGGCAATTCAGGAGCTTTGGGCAATTCTGGC
1 TTTGGC-ACTCAGGAACTTTGGGCAATTCAGGC
* * *
52366692 TTAGGCACTTCAGGAACTTTAGGCAATTCTGGC
1 TTTGGCAC-TCAGGAACTTTGGGCAATTCAGGC
* * ** * *
52366725 TTTGGTAACTCAGGAACTTTTGGTGATTCAAGT
1 TTTGG-CACTCAGGAACTTTGGGCAATTCAGGC
* * *
52366758 TTTGGCAACTCGGGAGCTTTGGGTAATTCAGGC
1 TTTGGC-ACTCAGGAACTTTGGGCAATTCAGGC
* * * *
52366791 TTGGGCACTTCAGGAGCTTTGGGCAATTCCGAC
1 TTTGGCAC-TCAGGAACTTTGGGCAATTCAGGC
* * * *
52366824 TTAGGTACCTCAGGAACTTTAGGCAATTCTGGC
1 TTTGGCA-CTCAGGAACTTTGGGCAATTCAGGC
* * * *
52366857 TTTGGTAACTCAGGAACTTTTGGTAATTCAGGT
1 TTTGG-CACTCAGGAACTTTGGGCAATTCAGGC
* * *
52366890 TTTGGCAACTCGGGAGCTTTGGGTAATTCAGGC
1 TTTGGC-ACTCAGGAACTTTGGGCAATTCAGGC
* * *
52366923 TTGGGCACTTCAGGAACTTTAGGAAATTC
1 TTTGGCAC-TCAGGAACTTTGGGCAATTC
52366952 TAGATTTGGT
Statistics
Matches: 206, Mismatches: 46, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
32 5 0.02
33 197 0.96
34 4 0.02
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (32 bp):
TTTGGCACTCAGGAACTTTGGGCAATTCAGGC
Found at i:52366754 original size:84 final size:84
Alignment explanation
Indices: 52366574--52366747 Score: 242
Period size: 84 Copynumber: 2.1 Consensus size: 84
52366564 GTAATTCAGG
* * * * * *
52366574 TTTTGGCAACTCAGTCA-CTTTGGGCAATTCTGGTTTTGGTACCTCAGGAATTTTAGGCAATTCT
1 TTTTGGCAATTCAG-GAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCT
* * *
52366638 GGTTTTGTTAACTCAGGAAT
65 GGCTTTGGTAACTCAGGAAC
*
52366658 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACTTCAGGAACTTTAGGCAATTCTG
1 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
52366723 GCTTTGGTAACTCAGGAAC
66 GCTTTGGTAACTCAGGAAC
52366742 TTTTGG
1 TTTTGG
52366748 TGATTCAAGT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
83 1 0.01
84 78 0.99
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (84 bp):
TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
GCTTTGGTAACTCAGGAAC
Found at i:52366765 original size:132 final size:132
Alignment explanation
Indices: 52366662--52366951 Score: 463
Period size: 132 Copynumber: 2.2 Consensus size: 132
52366652 AGGAATTTTT
* * *
52366662 GGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACTTCAGGAACTTTAGGCAATTCTGGCTT
1 GGCAATTCAGGAGCTTTGGGCAATTCCGACTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTT
* *
52366727 TGGTAACTCAGGAACTTTTGGTGATTCAAGTTTTGGCAACTCGGGAGCTTTGGGTAATTCAGGCT
66 TGGTAACTCAGGAACTTTTGGTAATTCAAGTTTTGGCAACTCGGGAGCTTTGGGTAACTCAGGCT
52366792 TG
131 TG
* *
52366794 GGCACTTCAGGAGCTTTGGGCAATTCCGACTTAGGTACCTCAGGAACTTTAGGCAATTCTGGCTT
1 GGCAATTCAGGAGCTTTGGGCAATTCCGACTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTT
* *
52366859 TGGTAACTCAGGAACTTTTGGTAATTCAGGTTTTGGCAACTCGGGAGCTTTGGGTAATTCAGGCT
66 TGGTAACTCAGGAACTTTTGGTAATTCAAGTTTTGGCAACTCGGGAGCTTTGGGTAACTCAGGCT
52366924 TG
131 TG
* * * *
52366926 GGCACTTCAGGAACTTTAGGAAATTC
1 GGCAATTCAGGAGCTTTGGGCAATTC
52366952 TAGATTTGGT
Statistics
Matches: 148, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 148 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (132 bp):
GGCAATTCAGGAGCTTTGGGCAATTCCGACTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTT
TGGTAACTCAGGAACTTTTGGTAATTCAAGTTTTGGCAACTCGGGAGCTTTGGGTAACTCAGGCT
TG
Found at i:52366789 original size:84 final size:83
Alignment explanation
Indices: 52366617--52366771 Score: 197
Period size: 84 Copynumber: 1.9 Consensus size: 83
52366607 TTTTGGTACC
* * * *
52366617 TCAGGAATTTTAGGCAATTCTGGTTTTGTTAACTCAGGAATTTTTGGCAATTCAGGAGCTTTGGG
1 TCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGCAATTCA-GAGCTTTGGG
* * *
52366682 CAATTCTGGCTTAGGCACT
65 CAACTCGGGCTTAGGCAAT
** *
52366701 TCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGTGATTCA-AG-TTTTGGC
1 TCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGCAATTCAGAGCTTTGGGC
52366764 AACTCGGG
66 AACTCGGG
52366772 AGCTTTGGGT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 12 0.19
82 2 0.03
84 48 0.77
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (83 bp):
TCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGCAATTCAGAGCTTTGGGC
AACTCGGGCTTAGGCAAT
Found at i:52366804 original size:150 final size:150
Alignment explanation
Indices: 52366508--52366819 Score: 329
Period size: 150 Copynumber: 2.1 Consensus size: 150
52366498 GTAATTGAGG
* * * * *
52366508 TTTTGGTAATTCAGGAGCTTTTGGCAATTCTGGCTTAGGCACCTCTGGAACTTTTGGTAATTCAG
1 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAG
* ** ** * * * *
52366573 GTTTTGGCAACTCAGTCACTTTGGGCAATTCTGGTTTTGGTACCTCAGGAATTTTAGGCAATTCT
66 GCTTTGGCAACTCAGGAACTTTGGGCAATTCAAGTTTTGGCAACTCAGGAACTTTAGGCAATTCA
* ** *
52366638 GGTTTTGTTAACTCAGGAAT
131 GGTCTTGGGAACTCAGGAAC
* *
52366658 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACTTCAGGAACTTTAGGCAATTCTG
1 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAG
* * ** * * * *
52366723 GCTTTGGTAACTCAGGAACTTTTGGTGATTCAAGTTTTGGCAACTCGGGAGCTTTGGGTAATTCA
66 GCTTTGGCAACTCAGGAACTTTGGGCAATTCAAGTTTTGGCAACTCAGGAACTTTAGGCAATTCA
* *
52366788 GG-CTTGGGCACTTCAGGAGC
131 GGTCTTGGGAAC-TCAGGAAC
*
52366808 TTTGGGCAATTC
1 TTTTGGCAATTC
52366820 CGACTTAGGT
Statistics
Matches: 130, Mismatches: 31, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
149 5 0.04
150 125 0.96
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (150 bp):
TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAG
GCTTTGGCAACTCAGGAACTTTGGGCAATTCAAGTTTTGGCAACTCAGGAACTTTAGGCAATTCA
GGTCTTGGGAACTCAGGAAC
Found at i:52366836 original size:99 final size:99
Alignment explanation
Indices: 52366658--52366975 Score: 314
Period size: 99 Copynumber: 3.2 Consensus size: 99
52366648 ACTCAGGAAT
* * * * * *
52366658 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACTTCAGGAACTTTAGGCAATTCTG
1 TTTTGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTAGGCACTTCAGGAGCTTTGGGCAATTCAG
* * * **
52366723 GCTTTGGTAACTCAGGAACTTTTGGTGATTCAAG
66 GCTTAGGTACCTCAGGAACTTTAGGCAATTCAAG
* * *
52366757 TTTTGGCAACTCGGGAGCTTTGGGTAATTCAGGCTTGGGCACTTCAGGAGCTTTGGGCAATTCCG
1 TTTTGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTAGGCACTTCAGGAGCTTTGGGCAATTCAG
* **
52366822 ACTTAGGTACCTCAGGAACTTTAGGCAATTCTGG
66 GCTTAGGTACCTCAGGAACTTTAGGCAATTCAAG
* * * * * * * *
52366856 CTTTGGTAACTCAGGAACTTTTGGTAATTCAGGTTTTGGCAAC-TCGGGAGCTTTGGGTAATTCA
1 TTTTGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTAGGC-ACTTCAGGAGCTTTGGGCAATTCA
* * * * *
52366920 GGCTTGGGCACTTCAGGAACTTTAGGAAATTCTAG
65 GGCTTAGGTACCTCAGGAACTTTAGGCAATTCAAG
* * * *
52366955 ATTTGGTAACTCCGGAACTTT
1 TTTTGGCAACTCAGGAGCTTT
52366976 TGGTGCTTCA
Statistics
Matches: 184, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
99 182 0.99
100 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (99 bp):
TTTTGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTAGGCACTTCAGGAGCTTTGGGCAATTCAG
GCTTAGGTACCTCAGGAACTTTAGGCAATTCAAG
Found at i:52366972 original size:33 final size:32
Alignment explanation
Indices: 52366701--52366990 Score: 166
Period size: 33 Copynumber: 8.8 Consensus size: 32
52366691 CTTAGGCACT
* * *
52366701 TCAGGAACTTTAGGCAATTCTGGCTTTGGTAAC
1 TCAGGAACTTTAGGTAATTC-AGATTTGGTAAC
* * * *
52366734 TCAGGAACTTTTGGTGATTCAAGTTTTGGCAAC
1 TCAGGAACTTTAGGTAATTC-AGATTTGGTAAC
* * * ** **
52366767 TCGGGAGCTTTGGGTAATTCAGGCTTGGGCAC
1 TCAGGAACTTTAGGTAATTCAGATTTGGTAAC
* * * * * *
52366799 TTCAGGAGCTTTGGGCAATTCCGACTTAGGTACC
1 -TCAGGAACTTTAGGTAATTCAGA-TTTGGTAAC
* * *
52366833 TCAGGAACTTTAGGCAATTCTGGCTTTGGTAAC
1 TCAGGAACTTTAGGTAATTC-AGATTTGGTAAC
* * *
52366866 TCAGGAACTTTTGGTAATTCAGGTTTTGGCAAC
1 TCAGGAACTTTAGGTAATTCA-GATTTGGTAAC
* * * ** **
52366899 TCGGGAGCTTTGGGTAATTCAGGCTTGGGCAC
1 TCAGGAACTTTAGGTAATTCAGATTTGGTAAC
*
52366931 TTCAGGAACTTTAGGAAATTCTAGATTTGGTAAC
1 -TCAGGAACTTTAGGTAATTC-AGATTTGGTAAC
* * **
52366965 TCCGGAACTTTTGGTGCTTCAGATTT
1 TCAGGAACTTTAGGTAATTCAGATTT
52366991 TGACAATTTA
Statistics
Matches: 196, Mismatches: 55, Indels: 13
0.74 0.21 0.05
Matches are distributed among these distances:
32 21 0.11
33 162 0.83
34 13 0.07
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (32 bp):
TCAGGAACTTTAGGTAATTCAGATTTGGTAAC
Found at i:52366986 original size:66 final size:65
Alignment explanation
Indices: 52366734--52366975 Score: 234
Period size: 66 Copynumber: 3.7 Consensus size: 65
52366724 CTTTGGTAAC
* * *
52366734 TCAGGAACTTTTGGTGATTCAAGTTTTGGCAACTCGGGAGCTTTGGGTAATTCAGGCTTGGGCAC
1 TCAGGAACTTTTGGTAATTC-AGATTTGGCAACTCGGGAACTTTGGGTAATTCAGGCTTGGGCAC
52366799 T
65 T
* * * * * * * * * * * **
52366800 TCAGGAGCTTTGGGCAATTCCGACTTAGGTACCTCAGGAACTTTAGGCAATTCTGGCTTTGGTAA
1 TCAGGAACTTTTGGTAATTCAGA-TTTGGCAACTCGGGAACTTTGGGTAATTCAGGC-TTGGGCA
52366865 C-
64 CT
* *
52366866 TCAGGAACTTTTGGTAATTCAGGTTTTGGCAACTCGGGAGCTTTGGGTAATTCAGGCTTGGGCAC
1 TCAGGAACTTTTGGTAATTCA-GATTTGGCAACTCGGGAACTTTGGGTAATTCAGGCTTGGGCAC
52366931 T
65 T
* * * *
52366932 TCAGGAACTTTAGGAAATTCTAGATTTGGTAACTCCGGAACTTT
1 TCAGGAACTTTTGGTAATTC-AGATTTGGCAACTCGGGAACTTT
52366976 TGGTGCTTCA
Statistics
Matches: 134, Mismatches: 37, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
65 7 0.05
66 119 0.89
67 8 0.06
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (65 bp):
TCAGGAACTTTTGGTAATTCAGATTTGGCAACTCGGGAACTTTGGGTAATTCAGGCTTGGGCACT
Found at i:52367005 original size:99 final size:99
Alignment explanation
Indices: 52366701--52367013 Score: 268
Period size: 99 Copynumber: 3.2 Consensus size: 99
52366691 CTTAGGCACT
* * * * * * * * ** * * *
52366701 TCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGTGATTCAAGTTTTGGCAA
1 TCAGGAGCTTTGGGCAATTCAGACTTAGGCACCTCAGGAACTTTAGGAAATTCTAGATTTGGTAA
* * * ** * *
52366766 CTCGGGAGCTTTGGGTAATTCAGGCTTGGGC-AC
66 CTCAGGAACTTTTGGTAATTCAGATTTTGACAAC
* * * * *
52366799 TTCAGGAGCTTTGGGCAATTCCGACTTAGGTACCTCAGGAACTTTAGGCAATTCTGGCTTTGGTA
1 -TCAGGAGCTTTGGGCAATTCAGACTTAGGCACCTCAGGAACTTTAGGAAATTCTAGATTTGGTA
* *
52366864 ACTCAGGAACTTTTGGTAATTCAGGTTTTGGCAAC
65 ACTCAGGAACTTTTGGTAATTCAGATTTTGACAAC
* * * * *
52366899 TCGGGAGCTTTGGGTAATTCAGGCTTGGGCACTTCAGGAACTTTAGGAAATTCTAGATTTGGTAA
1 TCAGGAGCTTTGGGCAATTCAGACTTAGGCACCTCAGGAACTTTAGGAAATTCTAGATTTGGTAA
* ** *
52366964 CTCCGGAACTTTTGGTGCTTCAGATTTTGACAAT
66 CTCAGGAACTTTTGGTAATTCAGATTTTGACAAC
* *
52366998 TTAGGAGCATTGGGCA
1 TCAGGAGCTTTGGGCA
52367014 TCTCTGGAAC
Statistics
Matches: 175, Mismatches: 38, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
99 173 0.99
100 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (99 bp):
TCAGGAGCTTTGGGCAATTCAGACTTAGGCACCTCAGGAACTTTAGGAAATTCTAGATTTGGTAA
CTCAGGAACTTTTGGTAATTCAGATTTTGACAAC
Found at i:52367119 original size:51 final size:51
Alignment explanation
Indices: 52367046--52367194 Score: 217
Period size: 51 Copynumber: 2.9 Consensus size: 51
52367036 AGGTTTTTTC
* * *
52367046 AACTCGGGAATCTTAGGAAATTCAGGCTTTGGCAACTCTGGCACTTTCGGA
1 AACTCGGGAACCTTAGGAAATTCAGGCTTTGGCAACTCTGGAACTTTCGAA
* * * * *
52367097 AACTCAGGAACCTTGGGTAATTCCGGTTTTGGCAACTCTGGAACTTTCGAA
1 AACTCGGGAACCTTAGGAAATTCAGGCTTTGGCAACTCTGGAACTTTCGAA
*
52367148 AACTCGGGAACCTTAGGCAATTCAGGCTTTGGCAACTCTGGAACTTT
1 AACTCGGGAACCTTAGGAAATTCAGGCTTTGGCAACTCTGGAACTTT
52367195 AGGCAATTCA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 85 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (51 bp):
AACTCGGGAACCTTAGGAAATTCAGGCTTTGGCAACTCTGGAACTTTCGAA
Found at i:52367229 original size:33 final size:33
Alignment explanation
Indices: 52367148--52367245 Score: 124
Period size: 33 Copynumber: 3.0 Consensus size: 33
52367138 AACTTTCGAA
* * *
52367148 AACTCGGGAACCTTAGGCAATTCAGGCTTTGGC
1 AACTCAGGAACTTTAGGCAATTCAGGTTTTGGC
*
52367181 AACTCTGGAACTTTAGGCAATTCAGGTTTTGGC
1 AACTCAGGAACTTTAGGCAATTCAGGTTTTGGC
* * * *
52367214 AACTCAGGCATTTTAGGTATTTCAGGTTTTGG
1 AACTCAGGAACTTTAGGCAATTCAGGTTTTGG
52367246 GATTTCTGGC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (33 bp):
AACTCAGGAACTTTAGGCAATTCAGGTTTTGGC
Found at i:52369352 original size:50 final size:49
Alignment explanation
Indices: 52369241--52369357 Score: 121
Period size: 50 Copynumber: 2.3 Consensus size: 49
52369231 ATAAATGTTA
*
52369241 TGAGCTAAATTTATTGAATTAAGACTAAATTTAAAAAAATTATAAATAT
1 TGAGCTAAATTTATTAAATTAAGACTAAATTTAAAAAAATTATAAATAT
* * * * *
52369290 TGTGGGTCAAATTTATTAAATTAAGA-TCAATTTAACAAAATGTATAGACT-T
1 TG-AGCT-AAATTTATTAAATTAAGACTAAATTTAAAAAAAT-TATA-AATAT
52369341 TGAGACTAAATTTATTA
1 TGAG-CTAAATTTATTA
52369358 TTATACCAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
49 2 0.04
50 26 0.47
51 25 0.45
52 2 0.04
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (49 bp):
TGAGCTAAATTTATTAAATTAAGACTAAATTTAAAAAAATTATAAATAT
Found at i:52372294 original size:33 final size:33
Alignment explanation
Indices: 52372257--52372352 Score: 104
Period size: 33 Copynumber: 2.9 Consensus size: 33
52372247 CAACTCCTAT
*
52372257 CTGATTAACCTGGCTGGTCCGCGTTGGCTCCGG
1 CTGATTAACCTGGCTGGTCCGCGTAGGCTCCGG
* * *
52372290 CTGATTAAGCTGGCTCGAT-TGCGTAGGCTCCGG
1 CTGATTAACCTGGCT-GGTCCGCGTAGGCTCCGG
* * * *
52372323 CCGGTTAACCTGGCTTGTCCGTGTAGGCTC
1 CTGATTAACCTGGCTGGTCCGCGTAGGCTC
52372353 TGGCCGACTA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
32 1 0.02
33 47 0.94
34 2 0.04
ACGTcount: A:0.11, C:0.28, G:0.32, T:0.28
Consensus pattern (33 bp):
CTGATTAACCTGGCTGGTCCGCGTAGGCTCCGG
Found at i:52372685 original size:54 final size:54
Alignment explanation
Indices: 52372603--52372798 Score: 392
Period size: 54 Copynumber: 3.6 Consensus size: 54
52372593 CGGCGGCGAT
52372603 TGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGCGCCGGTGGC
1 TGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGCGCCGGTGGC
52372657 TGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGCGCCGGTGGC
1 TGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGCGCCGGTGGC
52372711 TGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGCGCCGGTGGC
1 TGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGCGCCGGTGGC
52372765 TGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCG
1 TGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCG
52372799 CTGTTGACCG
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 142 1.00
ACGTcount: A:0.13, C:0.22, G:0.35, T:0.30
Consensus pattern (54 bp):
TGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGCGCCGGTGGC
Found at i:52374501 original size:22 final size:21
Alignment explanation
Indices: 52374453--52374502 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
52374443 TGTTTGTTGT
* * *
52374453 TATTTTATTATTATTTTGCTA
1 TATTTTATTAATATATTACTA
52374474 TCATTTTATTAATATATTACTA
1 T-ATTTTATTAATATATTACTA
52374496 CTATTTT
1 -TATTTT
52374503 GTTGTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTTTATTAATATATTACTA
Found at i:52375433 original size:13 final size:14
Alignment explanation
Indices: 52375416--52375452 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
52375406 ACAAAAAGCA
52375416 AAAATTTAATTATC
1 AAAATTTAATTATC
*
52375430 -AAATTTAA-CATC
1 AAAATTTAATTATC
52375442 AAAATTTAATT
1 AAAATTTAATT
52375453 TAAAACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
12 3 0.16
13 16 0.84
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATTTAATTATC
Found at i:52384916 original size:20 final size:22
Alignment explanation
Indices: 52384891--52384933 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
52384881 TTTTATTTAA
52384891 TTTATAA-AT-AAATTTAAATT
1 TTTATAATATAAAATTTAAATT
*
52384911 TTTATAATATAAAATTTATATT
1 TTTATAATATAAAATTTAAATT
52384933 T
1 T
52384934 AAAGAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTATAATATAAAATTTAAATT
Found at i:52391429 original size:18 final size:19
Alignment explanation
Indices: 52391401--52391437 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
52391391 TAATGGCAAC
52391401 TTTCATTGCTTTTGGTGTT
1 TTTCATTGCTTTTGGTGTT
*
52391420 TTTC-TTGCTTTTTGTGTT
1 TTTCATTGCTTTTGGTGTT
52391438 GGGCACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.03, C:0.11, G:0.19, T:0.68
Consensus pattern (19 bp):
TTTCATTGCTTTTGGTGTT
Found at i:52399155 original size:23 final size:21
Alignment explanation
Indices: 52399129--52399175 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
52399119 AAAAGTGCCT
52399129 TAAAATTATTATATTTTAAGGAA
1 TAAAA-TATT-TATTTTAAGGAA
* *
52399152 TAAAATGTTTATTTTGAGGAA
1 TAAAATATTTATTTTAAGGAA
52399173 TAA
1 TAA
52399176 TATTTAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 3 0.14
23 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.43
Consensus pattern (21 bp):
TAAAATATTTATTTTAAGGAA
Found at i:52399289 original size:24 final size:23
Alignment explanation
Indices: 52399250--52399307 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
52399240 TTCATATTTT
* *
52399250 AATATATA-AAATATAAATTTTA
1 AATATTTATAAATATAAATATTA
*
52399272 AATATTTTTAAATAATAAATATTA
1 AATATTTATAAAT-ATAAATATTA
*
52399296 ATTATTTATAAA
1 AATATTTATAAA
52399308 AGTATTATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 6 0.21
23 4 0.14
24 19 0.66
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AATATTTATAAATATAAATATTA
Done.