Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 190 of 444
Found at i:53122733 original size:26 final size:26
Alignment explanation
Indices: 53122670--53122776 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
53122660 ATTCTATTAA
* *
53122670 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
53122697 GTGGGC-ATGCCACAA-ATTCTGTTCTG
1 GT-GGCTCTGCCACAATA-TCTGTTCTG
53122723 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
53122750 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
53122776 G
1 G
53122777 CACCCATGTT
Statistics
Matches: 70, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
25 3 0.04
26 26 0.37
27 38 0.54
28 3 0.04
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:53122764 original size:53 final size:53
Alignment explanation
Indices: 53122670--53122776 Score: 128
Period size: 53 Copynumber: 2.0 Consensus size: 53
53122660 ATTCTATTAA
* * * *
53122670 GTGGCTTTGCCACATTATCTGTTTCTGGTGGGCATGCCACAA-ATTCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGGACATGCCACAATA-TCTGTTCTG
* *
53122723 GTGGCTCTGCCACAATATCTGTATCTGGT-GACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGGAC-ATGCCACAATATCTGTTCTG
53122776 G
1 G
53122777 CACCCATGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.04
53 43 0.93
54 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGGTGGACATGCCACAATATCTGTTCTG
Found at i:53122903 original size:6 final size:6
Alignment explanation
Indices: 53122894--53122981 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
53122884 TTGCATTCAC
* * *
53122894 ATTCTG ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG GTTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
53122944 ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
53122982 AATGCTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 5 0.08
6 51 0.78
7 6 0.09
8 3 0.05
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:53122925 original size:25 final size:25
Alignment explanation
Indices: 53122897--53122960 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
53122887 CATTCACATT
*
53122897 CTGATTCTGATTCTATTACCTGATA
1 CTGATTCTGATTCTATCACCTGATA
* * *
53122922 CTGATTCTGGTTCTGTCACCTGATT
1 CTGATTCTGATTCTATCACCTGATA
53122947 CTGATTCTGATTCT
1 CTGATTCTGATTCT
53122961 CATTTTGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTATCACCTGATA
Found at i:53124677 original size:20 final size:20
Alignment explanation
Indices: 53124652--53124689 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53124642 GTTTATTCGC
*
53124652 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
53124672 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
53124690 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:53126341 original size:28 final size:28
Alignment explanation
Indices: 53126309--53126405 Score: 171
Period size: 28 Copynumber: 3.5 Consensus size: 28
53126299 ACGTAGAACA
53126309 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
53126337 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
53126365 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
53126393 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
53126406 GGGTTTAAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
26 3 0.04
27 8 0.12
28 57 0.84
ACGTcount: A:0.45, C:0.27, G:0.09, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:53127937 original size:53 final size:54
Alignment explanation
Indices: 53127871--53128038 Score: 162
Period size: 53 Copynumber: 3.1 Consensus size: 54
53127861 CAACTTACTG
* ** *
53127871 AAATACCCTTGGTTTACAAAATTACTGAATACCCTCGA-TTAGCAAAATTACCT
1 AAATACCCCTGGTTTGTAAAATTACTGAATACCCTCGAGTTAGCAAAATTACCA
** * * **
53127924 AAATACCCCTGGTTTGTAAAATTACCAAATACCC-CTAGTTTGTGAAATTACCA
1 AAATACCCCTGGTTTGTAAAATTACTGAATACCCTCGAGTTAGCAAAATTACCA
* * ** * *
53127977 AAATACCCCTGATTTGTGAAATTACTGAAATACCCTCGACCT-GTAAAATTACTA
1 AAATACCCCTGGTTTGTAAAATTACTG-AATACCCTCGAGTTAGCAAAATTACCA
53128031 AAATACCC
1 AAATACCC
53128039 TTACTTGTAA
Statistics
Matches: 93, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
52 2 0.02
53 63 0.68
54 25 0.27
55 3 0.03
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (54 bp):
AAATACCCCTGGTTTGTAAAATTACTGAATACCCTCGAGTTAGCAAAATTACCA
Found at i:53127992 original size:27 final size:27
Alignment explanation
Indices: 53127914--53128082 Score: 157
Period size: 27 Copynumber: 6.3 Consensus size: 27
53127904 CTCGATTAGC
* *
53127914 AAAATTACCTAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
53127941 AAAATTACC-AAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
*
53127967 GAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* ** **
53127994 GAAATTACTGAAATA-CCCTCGACCTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* * *
53128021 AAAATTACTAAAATA-CCCTTACTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
53128047 AAAATTACCAACATACCCCCGATTTAT
1 AAAATTACCAAAATACCCCTGATTTGT
*
53128074 AGAATTACC
1 AAAATTACC
53128083 GTTTTACCCT
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
26 45 0.38
27 74 0.62
28 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:53128080 original size:53 final size:53
Alignment explanation
Indices: 53127888--53128082 Score: 153
Period size: 53 Copynumber: 3.7 Consensus size: 53
53127878 CTTGGTTTAC
** * * * * * **
53127888 AAAATTACTGAATACCCTCGATTAGCAAAATTACCTAAATACCCCTGGTTTGT
1 AAAATTACCAAATACCCCCGATTTGTAGAATTACCAAAATACCCCTGACTTGT
* *
53127941 AAAATTACCAAATA-CCCCTAGTTTGT-GAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAATACCCCCGA-TTTGTAG-AATTACCAAAATACCCCTGACTTGT
* * * ** * * *
53127994 GAAATTACTGAAATACCCTCGACCTGTAAAATTACTAAAATA-CCCTTACTTGT
1 AAAATTAC-CAAATACCCCCGATTTGTAGAATTACCAAAATACCCCTGACTTGT
*
53128047 AAAATTACCAACATACCCCCGATTTATAGAATTACC
1 AAAATTACCAA-ATACCCCCGATTTGTAGAATTACC
53128083 GTTTTACCCT
Statistics
Matches: 109, Mismatches: 27, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
52 6 0.06
53 79 0.72
54 20 0.18
55 4 0.04
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAATACCCCCGATTTGTAGAATTACCAAAATACCCCTGACTTGT
Found at i:53128091 original size:80 final size:81
Alignment explanation
Indices: 53127938--53128121 Score: 194
Period size: 80 Copynumber: 2.3 Consensus size: 81
53127928 ACCCCTGGTT
* * * * *
53127938 TGTAAAATTAC-CAAATACCCCTAGTTTGTGAAATTACCAAAATACCCCTGATTTGTGAAATTAC
1 TGTAAAATTACTAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCCCGATTTATGAAATTAC
*
53128002 TGAAATACCCTCGACC
66 CGAAATACCCTCGACC
* *
53128018 TGTAAAATTACTAAAATACCCTTA-CTTGTAAAATTACCAACATACCCCCGATTTAT-AGAATTA
1 TGTAAAATTACTAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCCCGATTTATGA-AATTA
*** **
53128081 CCGTTTTACCCTCGATT
65 CCGAAATACCCTCGACC
* * *
53128098 TATAAAATTATTGAAATACCCCTA
1 TGTAAAATTACTAAAATACCCCTA
53128122 TAAGGTAGAA
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 1 0.01
80 74 0.87
81 10 0.12
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.32
Consensus pattern (81 bp):
TGTAAAATTACTAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCCCGATTTATGAAATTAC
CGAAATACCCTCGACC
Found at i:53128117 original size:27 final size:27
Alignment explanation
Indices: 53127865--53128118 Score: 155
Period size: 27 Copynumber: 9.5 Consensus size: 27
53127855 GTTTACCAAC
* * **
53127865 TTACTGAAATACCCTTGGTTTACAAAA
1 TTACTGAAATACCCTCGATTTGTAAAA
* *
53127892 TTACTG-AATACCCTCGATTAGCAAAA
1 TTACTGAAATACCCTCGATTTGTAAAA
*
53127918 TTACCT-AAATACCC-CTGGTTTGTAAAA
1 TTA-CTGAAATACCCTC-GATTTGTAAAA
* * *
53127945 TTAC-CAAATACCC-CTAGTTTGTGAAA
1 TTACTGAAATACCCTCGA-TTTGTAAAA
** *
53127971 TTACCAAAATACCC-CTGATTTGTGAAA
1 TTACTGAAATACCCTC-GATTTGTAAAA
**
53127998 TTACTGAAATACCCTCGACCTGTAAAA
1 TTACTGAAATACCCTCGATTTGTAAAA
* * *
53128025 TTACTAAAATACCCT-TACTTGTAAAA
1 TTACTGAAATACCCTCGATTTGTAAAA
* * * *
53128051 TTAC-CAACATACCCCCGATTTATAGAA
1 TTACTGAA-ATACCCTCGATTTGTAAAA
* *** *
53128078 TTACCGTTTTACCCTCGATTTATAAAA
1 TTACTGAAATACCCTCGATTTGTAAAA
*
53128105 TTATTGAAATACCC
1 TTACTGAAATACCC
53128119 CTATAAGGTA
Statistics
Matches: 179, Mismatches: 37, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
25 2 0.01
26 61 0.34
27 114 0.64
28 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.31
Consensus pattern (27 bp):
TTACTGAAATACCCTCGATTTGTAAAA
Found at i:53128133 original size:27 final size:27
Alignment explanation
Indices: 53128103--53128243 Score: 203
Period size: 27 Copynumber: 5.2 Consensus size: 27
53128093 CGATTTATAA
* * *
53128103 AATTATTGAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53128130 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
53128157 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
53128184 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
53128211 AATTACT-AAGATACCCTTGTGGGGTAA
1 AATTACTGAA-ATACCCCTGTAGGGTAG
53128238 AATTAC
1 AATTAC
53128244 CATTTTGCCC
Statistics
Matches: 107, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 2 0.02
27 105 0.98
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:53129062 original size:27 final size:26
Alignment explanation
Indices: 53128980--53129083 Score: 91
Period size: 27 Copynumber: 3.9 Consensus size: 26
53128970 ATTCTGTTAA
* *
53128980 GTGGCTTTGCCATATTATCTGTTTCTG
1 GTGGCTCTGCCATAATATCTGTTT-TG
* * * *
53129007 GTGGGTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCA-TAATATCTGTTTTG
*
53129034 GTGGCTCTGCCATAATATCTATATTTG
1 GTGGCTCTGCCATAATATCTGT-TTTG
* * *
53129061 GTGACTCTGTCACAATATCTGTT
1 GTGGCTCTGCCATAATATCTGTT
53129084 ATGGCAACCA
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
26 9 0.15
27 43 0.70
28 9 0.15
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (26 bp):
GTGGCTCTGCCATAATATCTGTTTTG
Found at i:53129233 original size:25 final size:26
Alignment explanation
Indices: 53129205--53129271 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 26
53129195 TTGCATTCAC
53129205 ATACTGATTCTGATTCTGTT-ACCTG
1 ATACTGATTCTGATTCTGTTCACCTG
* *
53129230 ATACTGATTCTGGTT-TTTTCACCTG
1 ATACTGATTCTGATTCTGTTCACCTG
*
53129255 ATTCTGATTCTGATTCT
1 ATACTGATTCTGATTCT
53129272 CATTTTGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 3 0.08
25 32 0.89
26 1 0.03
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (26 bp):
ATACTGATTCTGATTCTGTTCACCTG
Found at i:53131277 original size:27 final size:26
Alignment explanation
Indices: 53131246--53131299 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
53131236 TTAGAATACT
*
53131246 TTAGTTGACCAAATTACTGAAATACCC
1 TTAGTTGACAAAATTACTG-AATACCC
53131273 TTAGTTGACAAAATTACTGAATACCC
1 TTAGTTGACAAAATTACTGAATACCC
53131299 T
1 T
53131300 CGACTAGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (26 bp):
TTAGTTGACAAAATTACTGAATACCC
Found at i:53131338 original size:27 final size:26
Alignment explanation
Indices: 53131308--53131476 Score: 160
Period size: 27 Copynumber: 6.3 Consensus size: 26
53131298 CTCGACTAGC
*
53131308 AAAATTACCAAAATACCTCTGGTTTGT
1 AAAATTACCAAAATACC-CTGATTTGT
53131335 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATA-CCCTGA-TTTGT
*
53131362 GAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATA-CCCTGATTTGT
* ** **
53131389 GAAATTACTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCT-GATTTGT
* * *
53131416 AAAATTACTAAAATACCCTCACTTGT
1 AAAATTACCAAAATACCCTGATTTGT
* * *
53131442 AAAATTACCAACATACCCCGATTTAT
1 AAAATTACCAAAATACCCTGATTTGT
*
53131468 AGAATTACC
1 AAAATTACC
53131477 GTTTTACCCT
Statistics
Matches: 121, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
26 37 0.31
27 81 0.67
28 3 0.02
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGATTTGT
Found at i:53131489 original size:79 final size:81
Alignment explanation
Indices: 53131332--53131515 Score: 196
Period size: 79 Copynumber: 2.3 Consensus size: 81
53131322 ACCTCTGGTT
* * * *
53131332 TGTAAAATTACCAAAATACCCCTAGTTTGTGAAATTACCAAAATACCCCTGATTTGTGAAATTAC
1 TGTAAAATTACTAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCCTGATTTATGAAATTAC
*
53131397 TGAAATACCCTCGACC
66 CGAAATACCCTCGACC
*
53131413 TGTAAAATTACTAAAATA-CCCTCA-CTTGTAAAATTACCAACATACCCC-GATTTAT-AGAATT
1 TGTAAAATTACTAAAATACCCCT-AGCTTGTAAAATTACCAAAATACCCCTGATTTATGA-AATT
*** **
53131474 ACCGTTTTACCCTCGATT
64 ACCGAAATACCCTCGACC
* * *
53131492 TATAAAATTATTGAAATACCCCTA
1 TGTAAAATTACTAAAATACCCCTA
53131516 TAAGGTAGAA
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 38 0.44
80 29 0.34
81 18 0.21
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.31
Consensus pattern (81 bp):
TGTAAAATTACTAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCCTGATTTATGAAATTAC
CGAAATACCCTCGACC
Found at i:53131511 original size:27 final size:27
Alignment explanation
Indices: 53131256--53131512 Score: 152
Period size: 27 Copynumber: 9.6 Consensus size: 27
53131246 TTAGTTGACC
* * *
53131256 AAATTACTGAAATACCCT-TAGTTGACA
1 AAATTACTGAAATACCCTCGATTTG-TA
* * *
53131283 AAATTACTG-AATACCCTCGACTAGCA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
53131309 AAATTACCAAAATA-CCTCTGGTTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTA
** * *
53131336 AAATTACCAAAATACCC-CTAGTTTGTG
1 AAATTACTGAAATACCCTCGA-TTTGTA
** *
53131363 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACTGAAATACCCTC-GATTTGTA
**
53131390 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
53131417 AAATTACTAAAATACCCTC-ACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
53131443 AAATTAC-CAACATACCC-CGATTTATA
1 AAATTACTGAA-ATACCCTCGATTTGTA
* * *** *
53131469 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
*
53131496 AAATTATTGAAATACCC
1 AAATTACTGAAATACCC
53131513 CTATAAGGTA
Statistics
Matches: 185, Mismatches: 34, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
25 3 0.02
26 56 0.30
27 122 0.66
28 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:53131621 original size:54 final size:54
Alignment explanation
Indices: 53131497--53131624 Score: 202
Period size: 54 Copynumber: 2.4 Consensus size: 54
53131487 CGATTTATAA
* * * * *
53131497 AATTATTGAAATACCCCTATAAGGTAGAATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAAGGTAGAAATACTGAAATACCCCTGTAGGGTAG
53131551 AATTACTGAAATACCCTTGTAAGGTAGAAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAAGGTAGAAATACTGAAATACCCCTGTAGGGTAG
*
53131605 AATTACTGAGATACCCTTGT
1 AATTACTGAAATACCCTTGT
53131625 GGGGTAAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAAGGTAGAAATACTGAAATACCCCTGTAGGGTAG
Found at i:53131629 original size:27 final size:27
Alignment explanation
Indices: 53131497--53131637 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
53131487 CGATTTATAA
* * *
53131497 AATTATTGAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53131524 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53131551 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53131578 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
53131605 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
53131632 AATTAC
1 AATTAC
53131638 CATTTTGCCC
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:53132456 original size:27 final size:26
Alignment explanation
Indices: 53132422--53132480 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
53132412 ACAAATTCTA
*
53132422 TTCTGGTGGCTCTACCACAATATCTG
1 TTCTGGTGACTCTACCACAATATCTG
**
53132448 TATCTGGTGACTCTGTCACAATATCTG
1 T-TCTGGTGACTCTACCACAATATCTG
53132475 TTCTGG
1 TTCTGG
53132481 CACCCATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (26 bp):
TTCTGGTGACTCTACCACAATATCTG
Found at i:53132629 original size:25 final size:25
Alignment explanation
Indices: 53132601--53132664 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
53132591 CATTCACATT
53132601 CTGATTCTGATTCTGTCACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
* * *
53132626 CTGATTCTGGTTCTGTCACCTGGTT
1 CTGATTCTGATTCTGTCACCTGATA
53132651 CTGATTCTGATTCT
1 CTGATTCTGATTCT
53132665 AGTTCTGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:53134490 original size:46 final size:46
Alignment explanation
Indices: 53134344--53134552 Score: 203
Period size: 46 Copynumber: 4.5 Consensus size: 46
53134334 TTTGTGTGCT
* * *
53134344 AGTGTAAGACATGTCTGGGACATGCATTGGCCAC-ATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGAGAGCC
* * * *
53134390 AGCGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAGAGCC
* *
53134438 AGTGTAAGACATGTCTGGGACATGCATCGACCCCGAGATGTAG-GCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-AGAGCC
* * ** *
53134484 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGAT--CTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
53134528 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
53134553 ACGTCAACCT
Statistics
Matches: 137, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 56 0.41
47 33 0.24
48 22 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
Found at i:53136379 original size:43 final size:42
Alignment explanation
Indices: 53136273--53136407 Score: 159
Period size: 43 Copynumber: 3.2 Consensus size: 42
53136263 ATTACATGCC
*
53136273 ATCACATATTGATGCC-ACTGTCCCAGACA-GGTCTTACACGA
1 ATCACATATTGATGCCAAC-GTCCTAGACATGGTCTTACACGA
* * * * *
53136314 ATCAAATA-CGATGCCAATGTCCTAGACATGGCCTTACACATA
1 ATCACATATTGATGCCAACGTCCTAGACATGGTCTTACAC-GA
53136356 ATCACATATTGATGCCAACGTCCTAGACATGGTCTTACACGA
1 ATCACATATTGATGCCAACGTCCTAGACATGGTCTTACACGA
*
53136398 GAACACATAT
1 -ATCACATAT
53136408 CGGAAATCCT
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
40 15 0.19
41 17 0.22
42 9 0.12
43 36 0.47
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (42 bp):
ATCACATATTGATGCCAACGTCCTAGACATGGTCTTACACGA
Found at i:53139171 original size:15 final size:16
Alignment explanation
Indices: 53139142--53139171 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53139132 CAAACATGCT
53139142 TTAACACATTATCAAA
1 TTAACACATTATCAAA
53139158 TTAACACA-TATCAA
1 TTAACACATTATCAA
53139172 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:53142183 original size:43 final size:42
Alignment explanation
Indices: 53142091--53142211 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 42
53142081 AACTAAGAAG
* * * * *
53142091 TCCGAACTCGTTGAGTGGTCCAGGCTCGTGA-GGTATGTAGCA
1 TCCGAGCTCGTTGAGAGGTCCAAGTTCATGATGG-ATGTAGCA
* * * *
53142133 TCTGAGCTCGTTGAGAGGTTCGAGTTCATTATGGATGTGAGCA
1 TCCGAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGT-AGCA
*
53142176 TCCGAGCTCGTTGAGTGGTCCAAGTTCATGATGGAT
1 TCCGAGCTCGTTGAGAGGTCCAAGTTCATGATGGAT
53142212 CCGATTCATG
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 26 0.41
43 37 0.59
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (42 bp):
TCCGAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGTAGCA
Found at i:53145830 original size:27 final size:27
Alignment explanation
Indices: 53145757--53145843 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
53145747 TGACAGAGTT
*
53145757 ACCAGATATAGATAATTGTGGCA-GAGCC
1 ACCAGATA-AGATATTTGTGGCATG-GCC
*
53145785 ACTAGA-AAGATATTTGTGGCATGGCC
1 ACCAGATAAGATATTTGTGGCATGGCC
*
53145811 ACCAGATCAGATATTTGTGGCATGGCC
1 ACCAGATAAGATATTTGTGGCATGGCC
53145838 ACCAGA
1 ACCAGA
53145844 ATGCTTCCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
26 21 0.40
27 27 0.51
28 5 0.09
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (27 bp):
ACCAGATAAGATATTTGTGGCATGGCC
Found at i:53146837 original size:24 final size:25
Alignment explanation
Indices: 53146810--53146861 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
53146800 GCCTAGCCTC
53146810 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
** *
53146834 TTTTGGTAAACTGGGGCAAATCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
53146859 TTT
1 TTT
53146862 CGCACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:53147098 original size:27 final size:27
Alignment explanation
Indices: 53147068--53147183 Score: 130
Period size: 27 Copynumber: 4.3 Consensus size: 27
53147058 GGCAAAATGG
*
53147068 TAATTTTATCCC-ACAAGGGTATCTCGA
1 TAATTTTA-CCCTACAAGGGTATTTCGA
* * *
53147095 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTTTACCCTACAAGGGTATTTCGA
*
53147122 T-ATTTCTACCCTACAAGGGTATTTCGG
1 TAATTT-TACCCTACAAGGGTATTTCGA
* *
53147149 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTTTACCCTACAAGGGTATTTCGA
53147176 T-ATTTTAC
1 TAATTTTAC
53147184 AAATCGAGAG
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
26 12 0.16
27 59 0.80
28 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (27 bp):
TAATTTTACCCTACAAGGGTATTTCGA
Found at i:53147260 original size:54 final size:54
Alignment explanation
Indices: 53147162--53147369 Score: 210
Period size: 54 Copynumber: 3.9 Consensus size: 54
53147152 TTCTACCCTA
* * * * * *
53147162 CAGGGGTATTTCGAT-ATTTTACAAATC-GAGAGTATTTCGATAATTTCACAGAT
1 CAGGGGTATTTTGATAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACAGAT
* * *
53147215 CAGGGGTATTTTGATAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAGAT
* *
53147269 CAAGGGTATTTT-AGTAATTTTACAAACCAGGGGTATTTTGGT-ATTTTACTGAT
1 CAGGGGTATTTTGA-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAGAT
* ** * *
53147322 C-GAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 CAG-GGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTT
53147370 GTAAATCGAG
Statistics
Matches: 129, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
53 57 0.44
54 71 0.55
55 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAGAT
Found at i:53147374 original size:27 final size:27
Alignment explanation
Indices: 53147177--53147369 Score: 190
Period size: 27 Copynumber: 7.2 Consensus size: 27
53147167 GTATTTCGAT
* * * * *
53147177 ATTTTACAAATCGAGAGTATTTCGATA
1 ATTTTACAAACCAAGGGTATTTTGGTA
* * * * *
53147204 ATTTCACAGATCAGGGGTATTTTGATA
1 ATTTTACAAACCAAGGGTATTTTGGTA
* *
53147231 ATTTTACAAGCCAGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
*
53147258 ATTTTACAAACCAAGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
*
53147285 ATTTTACAAACCAGGGGTATTTTGGT-
1 ATTTTACAAACCAAGGGTATTTTGGTA
** * *
53147311 ATTTTACTGATCGAGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
** *
53147338 ATTTTGTAAACCAAGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
53147365 ATTTT
1 ATTTT
53147370 GTAAATCGAG
Statistics
Matches: 137, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 21 0.15
27 116 0.85
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
ATTTTACAAACCAAGGGTATTTTGGTA
Found at i:53147556 original size:54 final size:54
Alignment explanation
Indices: 53147362--53147545 Score: 278
Period size: 54 Copynumber: 3.4 Consensus size: 54
53147352 GGGTATTTTA
* * * * *
53147362 GTAATTTTGTAAATCGAGGGTAAAATAGTAGTTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATG
*
53147416 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATG
* * *
53147470 ATAATTCTGTAAATCGAGGATAAAACGGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATG
*
53147524 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
53147546 CTTTGGTAAT
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATG
Found at i:53147556 original size:81 final size:81
Alignment explanation
Indices: 53147362--53147545 Score: 298
Period size: 81 Copynumber: 2.3 Consensus size: 81
53147352 GGGTATTTTA
* * * * *
53147362 GTAATTTTGTAAATCGAGGGTAAAAT-AGTAGTTCTGTAAATCGAGGGTAAAACGGTAATTCTGT
1 GTAATTCTATAAATCGAGGGTAAAATGA-TAATTCTGTAAATCGAGGATAAAACGGTAATTCTAT
53147426 AAATCGAGGGTAAAATG
65 AAATCGAGGGTAAAATG
*
53147443 GTAATTCTATAAATTGAGGGTAAAATGATAATTCTGTAAATCGAGGATAAAACGGTAATTCTATA
1 GTAATTCTATAAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGATAAAACGGTAATTCTATA
53147508 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
53147524 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
53147546 CTTTGGTAAT
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
81 94 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGATAAAACGGTAATTCTATA
AATCGAGGGTAAAATG
Found at i:53147564 original size:27 final size:27
Alignment explanation
Indices: 53147245--53147569 Score: 179
Period size: 27 Copynumber: 12.1 Consensus size: 27
53147235 TACAAGCCAG
* * * *
53147245 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTAATTTGGTAATTTTATAAATCGA
* * * *
53147272 GGGTATTTTAGTAATTTTACAAA-CCA
1 GGGTAATTTGGTAATTTTATAAATCGA
* *
53147298 GGGGTATTTTGGT-ATTTTACT-GATCGA
1 -GGGTAATTTGGTAATTTTA-TAAATCGA
* * * *
53147325 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTAATTTGGTAATTTTATAAATCGA
* * *
53147352 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
** * * * *
53147379 GGGTAAAATAGTAGTTCTGTAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
*** * *
53147406 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
** * *
53147433 GGGTAAAATGGTAATTCTATAAATTGA
1 GGGTAATTTGGTAATTTTATAAATCGA
** * * *
53147460 GGGTAAAATGATAATTCTGTAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
* *** *
53147487 GGATAAAACGGTAATTCTATAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
** *
53147514 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
* * *
53147541 GGGTACTTTGGTAATTTTACAAATTGA
1 GGGTAATTTGGTAATTTTATAAATCGA
53147568 GG
1 GG
53147570 ACATTTCAGT
Statistics
Matches: 254, Mismatches: 39, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
26 22 0.09
27 232 0.91
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (27 bp):
GGGTAATTTGGTAATTTTATAAATCGA
Found at i:53147583 original size:81 final size:81
Alignment explanation
Indices: 53147362--53147572 Score: 226
Period size: 81 Copynumber: 2.6 Consensus size: 81
53147352 GGGTATTTTA
* * * ** ** * *
53147362 GTAATTTTGTAAATCGAGGGTAAAAT-AGTAGTTCTGTAAATCGAGGGTAAAACGGTAATTCTGT
1 GTAATTCTATAAATCGAGGGTAAAATGA-TAATTCTACAAATCGAGGACAAAACAGTAATTCTAT
53147426 AAATCGAGGGTAAAATG
65 AAATCGAGGGTAAAATG
* ** * *
53147443 GTAATTCTATAAATTGAGGGTAAAATGATAATTCTGTAAATCGAGGATAAAACGGTAATTCTATA
1 GTAATTCTATAAATCGAGGGTAAAATGATAATTCTACAAATCGAGGACAAAACAGTAATTCTATA
53147508 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
*** * * *
53147524 GTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAATTGAGGACA
1 GTAATTCTATAAATCGAGGGTAAAATGATAATTCTACAAATCGAGGACA
53147573 TTTCAGTAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 112 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAATGATAATTCTACAAATCGAGGACAAAACAGTAATTCTATA
AATCGAGGGTAAAATG
Found at i:53150602 original size:15 final size:15
Alignment explanation
Indices: 53150582--53150611 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53150572 TAAACATACG
*
53150582 TAATAATAATAAAAA
1 TAATAATAACAAAAA
53150597 TAATAATAACAAAAA
1 TAATAATAACAAAAA
53150612 CATTCAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (15 bp):
TAATAATAACAAAAA
Found at i:53154129 original size:201 final size:201
Alignment explanation
Indices: 53153778--53154180 Score: 603
Period size: 201 Copynumber: 2.0 Consensus size: 201
53153768 CAGTCTTCGA
*
53153778 TACATCTTGCTCTTTCACCTTTAACTGGTAGTATCCTGACCTCAAGTCAATCTTGGAAAATACAA
1 TACATCTTGCTCTTTCACCCTTAACTGGTAGTATCCTGACCTCAAGTCAATCTTGGAAAATACAA
* * *
53153843 TAGCTCCATTTAACTGATCAAACAGGCCATCAATCCTTGGCAAAGGATACTTTCTCTTCACTGTT
66 TAGCTCCATTTAACTGATCAAACAGGCCATCAATCATTGGCAAAAGATACTTTCTCTTCACTATT
53153908 ACATTATTGAGCTATCTATAGAT-GATACATAACCTCATCGACACATCTTTCTTTTTCACAAAGA
131 ACATTATTGAGCTATCTATAG-TCGATACATAACCTCATCGACACATCTTTCTTTTTCACAAAGA
53153972 GCACTGG
195 GCACTGG
** * *
53153979 TACATCTTGCTCTTTTGCCCTTAACTGGTAGTATCCTGACCTCAGGTTAATCTTGGAAAATACAA
1 TACATCTTGCTCTTTCACCCTTAACTGGTAGTATCCTGACCTCAAGTCAATCTTGGAAAATACAA
* * * * *
53154044 TGGTTCCCTTTACCTGATCAAACAGGTCATCAATCATTGGCAAAAGATACTTGT-TCTTCACTAT
66 TAGCTCCATTTAACTGATCAAACAGGCCATCAATCATTGGCAAAAGATACTT-TCTCTTCACTAT
* * * * **
53154108 TACATTATTGAGTTGTCTATAGTCGATACATAACCTCATTGACCCATCTTTCTTTTTTGCAAAGA
130 TACATTATTGAGCTATCTATAGTCGATACATAACCTCATCGACACATCTTTCTTTTTCACAAAGA
53154173 GCACTGG
195 GCACTGG
53154180 T
1 T
53154181 GTGTCCCATT
Statistics
Matches: 181, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
200 1 0.01
201 179 0.99
202 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (201 bp):
TACATCTTGCTCTTTCACCCTTAACTGGTAGTATCCTGACCTCAAGTCAATCTTGGAAAATACAA
TAGCTCCATTTAACTGATCAAACAGGCCATCAATCATTGGCAAAAGATACTTTCTCTTCACTATT
ACATTATTGAGCTATCTATAGTCGATACATAACCTCATCGACACATCTTTCTTTTTCACAAAGAG
CACTGG
Found at i:53157530 original size:30 final size:30
Alignment explanation
Indices: 53157496--53157556 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
53157486 TCCTTAACTC
53157496 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
53157526 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
53157556 A
1 A
53157557 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:53161409 original size:45 final size:44
Alignment explanation
Indices: 53161331--53161442 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 44
53161321 GTCAGTGCCG
* *
53161331 TGTCCCAGACATGGTCTCACACTAACACATCTCGTA-GCAAATGCA
1 TGTCCCAGACAT-GTCTTACACTAACACATCTCG-AGGCAAATACA
* **
53161376 TGTCCCAGACATGTCTTACACTGACTTAC-TCTCGAGGCCGATACA
1 TGTCCCAGACATGTCTTACACTAAC--ACATCTCGAGGCAAATACA
53161421 TGT-CCAGACATGTCTTACACTA
1 TGTCCCAGACATGTCTTACACTA
53161443 GCACTCGTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
44 30 0.52
45 26 0.45
46 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTAACACATCTCGAGGCAAATACA
Found at i:53163037 original size:24 final size:24
Alignment explanation
Indices: 53163010--53163092 Score: 114
Period size: 24 Copynumber: 3.5 Consensus size: 24
53163000 CTGTCAGGAG
53163010 AGGATTTAGGAGTCGATAAGGGAT
1 AGGATTTAGGAGTCGATAAGGGAT
* *
53163034 AGGATTTAGGAGTTGGTAAGGGAT
1 AGGATTTAGGAGTCGATAAGGGAT
*
53163058 AGGATTTAGGAG-CTGATAAGGGAG
1 AGGATTTAGGAGTC-GATAAGGGAT
*
53163082 AAGATTTAGGA
1 AGGATTTAGGA
53163093 ACTGATTAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.34, C:0.02, G:0.39, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTCGATAAGGGAT
Found at i:53163097 original size:24 final size:24
Alignment explanation
Indices: 53163006--53163106 Score: 105
Period size: 24 Copynumber: 4.2 Consensus size: 24
53162996 AAGTCTGTCA
*
53163006 GGAGAGGATTTAGG-AGTCGATAAG
1 GGAGAGGATTTAGGAACT-GATAAG
* ** *
53163030 GGATAGGATTTAGGAGTTGGTAAG
1 GGAGAGGATTTAGGAACTGATAAG
* *
53163054 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAACTGATAAG
* *
53163078 GGAGAAGATTTAGGAACTGATTAG
1 GGAGAGGATTTAGGAACTGATAAG
53163102 GGAGA
1 GGAGA
53163107 ACAGTGTTGG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
24 65 0.98
25 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.40, T:0.24
Consensus pattern (24 bp):
GGAGAGGATTTAGGAACTGATAAG
Found at i:53163104 original size:48 final size:48
Alignment explanation
Indices: 53163010--53163104 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
53163000 CTGTCAGGAG
* * ** *
53163010 AGGATTTAGGAGTCGATAAGGGATAGGATTTAGGAGTTGGTAAGGGAT
1 AGGATTTAGGAGTCGATAAGGGAGAAGATTTAGGAACTGATAAGGGAT
*
53163058 AGGATTTAGGAG-CTGATAAGGGAGAAGATTTAGGAACTGATTAGGGA
1 AGGATTTAGGAGTC-GATAAGGGAGAAGATTTAGGAACTGATAAGGGA
53163105 GAACAGTGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
47 1 0.03
48 39 0.98
ACGTcount: A:0.34, C:0.03, G:0.38, T:0.25
Consensus pattern (48 bp):
AGGATTTAGGAGTCGATAAGGGAGAAGATTTAGGAACTGATAAGGGAT
Found at i:53164548 original size:27 final size:27
Alignment explanation
Indices: 53164510--53164617 Score: 137
Period size: 27 Copynumber: 4.0 Consensus size: 27
53164500 AAGCGTCCGA
* *
53164510 GTGGCTATGCCACATTTATCTGATCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
* *
53164537 GTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTCTGCCACATTTATCTGTTCTG
* *
53164564 GTGGCTTTGCCACAATTATCTGTTCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
* *
53164591 GTGACTCTGTCACA-TTATCTGTTCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
53164617 G
1 G
53164618 CAGCAATGCT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
26 13 0.19
27 57 0.81
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACATTTATCTGTTCTG
Found at i:53164591 original size:54 final size:53
Alignment explanation
Indices: 53164509--53164615 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 53
53164499 GAAGCGTCCG
* *
53164509 AGTGGCTATGCCACATTTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCT
1 AGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTTCT
* * *
53164563 AGTGGCTTTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTTCT
1 AGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTTCT
53164616 GGCAGCAATG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 10 0.21
54 38 0.79
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (53 bp):
AGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTTCT
Found at i:53166511 original size:40 final size:39
Alignment explanation
Indices: 53166346--53166529 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
53166336 AAATTGAATG
* * *
53166346 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
53166386 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
53166426 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
53166466 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
53166505 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
53166530 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:53166554 original size:80 final size:81
Alignment explanation
Indices: 53166386--53166574 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
53166376 GCTGGAAATT
* * * *
53166386 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
53166451 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
53166467 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
53166530 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
53166546 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
53166575 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:53174632 original size:40 final size:39
Alignment explanation
Indices: 53174467--53174650 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
53174457 AAATTGAATG
* * *
53174467 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
53174507 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
53174547 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
53174587 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
53174626 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
53174651 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:53174675 original size:80 final size:81
Alignment explanation
Indices: 53174507--53174695 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
53174497 GCTGGAAATT
* * * *
53174507 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
53174572 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
53174588 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
53174651 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
53174667 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
53174696 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:53182750 original size:40 final size:39
Alignment explanation
Indices: 53182585--53182768 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
53182575 AAATTGAATG
* * *
53182585 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
53182625 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
53182665 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
53182705 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
53182744 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
53182769 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:53182793 original size:80 final size:81
Alignment explanation
Indices: 53182625--53182813 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
53182615 GCTGGAAATT
* * * *
53182625 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
53182690 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
53182706 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
53182769 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
53182785 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
53182814 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:53190055 original size:24 final size:24
Alignment explanation
Indices: 53189967--53190067 Score: 132
Period size: 24 Copynumber: 4.2 Consensus size: 24
53189957 AAGTCTGTCA
*
53189967 GGAGAGGAATTAGGAG-TCGATAAG
1 GGAGAGGATTTAGGAGCT-GATAAG
* * *
53189991 GGATAGGATTTAGGAGTTGGTAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
53190015 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
53190039 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
53190063 GGAGA
1 GGAGA
53190068 ATAGTGTTGG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 68 0.99
25 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.42, T:0.23
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:53191516 original size:27 final size:27
Alignment explanation
Indices: 53191476--53191562 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
53191466 AGGAAGCGTC
*
53191476 CTGGTGGCTATGCCATATTTATCTGAT
1 CTGGTGGCTCTGCCATATTTATCTGAT
* *
53191503 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCATATTTATCTGA-T
* * *
53191530 CTGGTGGCTCTACCATAATTATCTGTT
1 CTGGTGGCTCTGCCATATTTATCTGAT
53191557 CTGGTG
1 CTGGTG
53191563 ACTTTGTCAC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 49 0.98
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCATATTTATCTGAT
Found at i:53191560 original size:54 final size:53
Alignment explanation
Indices: 53191476--53191586 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 53
53191466 AGGAAGCGTC
* * *
53191476 CTGGTGGCTATGCCATATTTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATACCATAATTATCTGATCTGGTGACTCTGCCACAT-TATCTATT
* * * * *
53191530 CTGGTGGCTCTACCATAATTATCTGTTCTGGTGACTTTGTCACATTATCTGTT
1 CTGGTGGCTATACCATAATTATCTGATCTGGTGACTCTGCCACATTATCTATT
53191583 CTGG
1 CTGG
53191587 CAGCAATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 11 0.22
54 38 0.78
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.41
Consensus pattern (53 bp):
CTGGTGGCTATACCATAATTATCTGATCTGGTGACTCTGCCACATTATCTATT
Found at i:53193939 original size:32 final size:32
Alignment explanation
Indices: 53193903--53193973 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
53193893 TGAGTATGAG
* *
53193903 ATTGGTACGAGATGATACAGGTATCTATGGAA
1 ATTGGTACAAGATGATACAGGTATCTACGGAA
* * *
53193935 ATTGGTACAATATGGTACAGGTATGTACGGAA
1 ATTGGTACAAGATGATACAGGTATCTACGGAA
53193967 ATTGGTA
1 ATTGGTA
53193974 AAATATGGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (32 bp):
ATTGGTACAAGATGATACAGGTATCTACGGAA
Found at i:53193979 original size:32 final size:32
Alignment explanation
Indices: 53193918--53193994 Score: 118
Period size: 32 Copynumber: 2.4 Consensus size: 32
53193908 TACGAGATGA
* * *
53193918 TACAGGTATCTATGGAAATTGGTACAATATGG
1 TACAGGTATGTACGGAAATTGGTAAAATATGG
53193950 TACAGGTATGTACGGAAATTGGTAAAATATGG
1 TACAGGTATGTACGGAAATTGGTAAAATATGG
*
53193982 TACATGTATGTAC
1 TACAGGTATGTAC
53193995 AGAGATTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (32 bp):
TACAGGTATGTACGGAAATTGGTAAAATATGG
Found at i:53195590 original size:2 final size:2
Alignment explanation
Indices: 53195578--53195633 Score: 51
Period size: 2 Copynumber: 28.0 Consensus size: 2
53195568 GTTGATTAGC
* * * **
53195578 TA TA TA AA TA TA TA TA TG TA TA TA TA TA T- TCG GC TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
53195620 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
53195634 GATTTGATGT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:53196826 original size:39 final size:39
Alignment explanation
Indices: 53196779--53196871 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
53196769 TATATGAGAT
*
53196779 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTACATGC
* * *
53196818 TGGAAATATATCCGGACTTGAGGTTCGCAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTACATGC
*
53196857 TGGAAAAATATCCGG
1 TGGAAATATATCCGG
53196872 GTTAAAGACC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTACATGC
Found at i:53207392 original size:28 final size:28
Alignment explanation
Indices: 53207346--53207414 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
53207336 TTTAAAACCC
*
53207346 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53207373 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53207401 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
53207415 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:53208062 original size:27 final size:26
Alignment explanation
Indices: 53208032--53208092 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
53208022 GGGCAAAATG
53208032 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTA-CCCACAAGGGTATTTCA
* * *
53208059 GTAATTTTACCTACAGGGGTATTTTA
1 GTAATTTTACCCACAAGGGTATTTCA
53208085 GTAATTTT
1 GTAATTTT
53208093 TCAAACCATG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (26 bp):
GTAATTTTACCCACAAGGGTATTTCA
Found at i:53208089 original size:53 final size:55
Alignment explanation
Indices: 53208032--53208173 Score: 139
Period size: 54 Copynumber: 2.7 Consensus size: 55
53208022 GGGCAAAATG
** **
53208032 GTAATTTTACCCCA-CAAGGGTATTTCAGTAATTTTACCTAC-AGGGGTATTTTA
1 GTAATTTTACCAAACCAAGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTA
* * ** *
53208085 GTAATTTT-TCAAACCATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACCAAACCAAGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTA
*** *
53208139 GTAATTTTA-CAAATTGAGGGTATTTCTGTAATTTT
1 GTAATTTTACCAAACCAAGGGTATTTCAGTAATTTT
53208174 GTAAATCGAG
Statistics
Matches: 71, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
52 2 0.03
53 30 0.42
54 39 0.55
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.42
Consensus pattern (55 bp):
GTAATTTTACCAAACCAAGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTA
Found at i:53208093 original size:27 final size:26
Alignment explanation
Indices: 53208049--53208173 Score: 126
Period size: 27 Copynumber: 4.7 Consensus size: 26
53208039 TACCCCACAA
* **
53208049 GGGTATTTCAGTAATTTTACCTACAG
1 GGGTATTTTAGTAATTTTACAAACAG
* *
53208075 GGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTTAGTAATTTTACAAA-CAG
*
53208102 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTTACAAAC-AG
* **
53208129 GGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTAGTAATTTTACAAACAG
53208155 AGGGTATTTCT-GTAATTTT
1 -GGGTATTT-TAGTAATTTT
53208174 GTAAATCGAG
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.25
27 63 0.74
28 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTTACAAACAG
Found at i:53208145 original size:54 final size:53
Alignment explanation
Indices: 53208049--53208173 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 53
53208039 TACCCCACAA
** *
53208049 GGGTATTTCAGTAATTTTACCTACAGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTACAAACAGGGGTATTTTAGTAATTTTACAAACCAT
** * **
53208102 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGA-
1 GGGTATTTCAGTAATTTTACAAAC-AGGGGTATTTTAGTAATTTTACAAA-CCAT
*
53208156 GGGTATTTCTGTAATTTT
1 GGGTATTTCAGTAATTTT
53208174 GTAAATCGAG
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 20 0.33
54 39 0.65
55 1 0.02
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (53 bp):
GGGTATTTCAGTAATTTTACAAACAGGGGTATTTTAGTAATTTTACAAACCAT
Found at i:53208179 original size:27 final size:27
Alignment explanation
Indices: 53208075--53208187 Score: 115
Period size: 27 Copynumber: 4.2 Consensus size: 27
53208065 TTACCTACAG
* * *
53208075 GGGTATTTTAGTAATTTTTCAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
53208101 TGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTTGGTAATTTTACAAATCGA
*
53208128 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAATCGA
**
53208156 GGGTATTTCT-GTAATTTTGTAAATCGA
1 GGGTATTT-TGGTAATTTTACAAATCGA
53208183 GGGTA
1 GGGTA
53208188 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 73 0.97
28 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:53208196 original size:27 final size:27
Alignment explanation
Indices: 53208166--53208376 Score: 255
Period size: 27 Copynumber: 7.8 Consensus size: 27
53208156 GGGTATTTCT
* *
53208166 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * * *
53208193 GTAATTCTGTAAATCAAGAGAAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
53208220 GTAATTCTATAAATCGACGGTAAAA-T
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
53208246 GATAATTTTGTAAATCGAGGGTAAAACA
1 G-TAATTCTGTAAATCGAGGGTAAAACA
* *
53208274 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
53208301 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
53208328 GTAATTCTGTAAATCGAGGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
53208354 GATAATTCTGTAAATCGGGGGTA
1 G-TAATTCTGTAAATCGAGGGTA
53208377 CTTTGGTAAT
Statistics
Matches: 157, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.01
27 154 0.98
28 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:53208403 original size:27 final size:27
Alignment explanation
Indices: 53208382--53208471 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
53208372 GGGTACTTTG
*
53208382 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
53208409 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
53208436 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
53208463 GTAATTTTA
1 GTAATTTTA
53208472 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:53208411 original size:81 final size:81
Alignment explanation
Indices: 53208137--53208430 Score: 313
Period size: 81 Copynumber: 3.6 Consensus size: 81
53208127 AGGGGTATTT
* ** * *
53208137 TGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTG
1 TGGTAATTTTACAAATCGAGGGTAAATCAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTG
* *
53208202 TAAATCAAGAGAAAAA
66 TAAATCAAGGGTAAAA
* * * * *
53208218 TAGTAATTCTATAAATCGACGGTAAAATGA-TAATTTTGTAAATCGAGGGTAAAACAGTAATTCT
1 TGGTAATTTTACAAATCGAGGGT-AAATCAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCT
53208282 GTAAATCAAGGGTAAAA
65 GTAAATCAAGGGTAAAA
* * * *
53208299 CGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTCT
1 TGGTAATTTTACAAATCGAGGGTAAATCAGTAATTTTGTAAATCGAGGGTAAAACAG-TAATTCT
** ***
53208363 GTAAATCGGGGGTACTT
65 GTAAATCAAGGGTAAAA
* * ** **
53208380 TGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTA
1 TGGTAATTTTACAAATCGAGGGTAAATCAGTAATTTTGTAAATCGAGGGTA
53208431 TTTCAGTATT
Statistics
Matches: 176, Mismatches: 34, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
80 5 0.03
81 169 0.96
82 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (81 bp):
TGGTAATTTTACAAATCGAGGGTAAATCAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTG
TAAATCAAGGGTAAAA
Found at i:53208423 original size:54 final size:54
Alignment explanation
Indices: 53208365--53208471 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
53208355 ATAATTCTGT
* * *
53208365 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
53208419 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
53208472 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:53208485 original size:27 final size:27
Alignment explanation
Indices: 53208382--53208487 Score: 92
Period size: 27 Copynumber: 3.9 Consensus size: 27
53208372 GGGTACTTTG
* *
53208382 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
53208409 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
53208436 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
53208463 GTAATTTTAGTAAACTAA-AGTATTT
1 GTAATTTTA-CAAACTAAGAGTATTT
53208488 AAACATGGAT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 56 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:53211537 original size:27 final size:27
Alignment explanation
Indices: 53211507--53211569 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
53211497 TTTAAAACCC
53211507 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCGGTAATTTTGCTCTT
* *
53211534 TAGGGGTAATTTTGGTAATTTTGCTCTT
1 TAGGGGT-ATATCGGTAATTTTGCTCTT
53211562 TAGGGGTA
1 TAGGGGTA
53211570 ATTTCGTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 8 0.24
28 25 0.76
ACGTcount: A:0.19, C:0.08, G:0.29, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCGGTAATTTTGCTCTT
Found at i:53211554 original size:28 final size:28
Alignment explanation
Indices: 53211519--53211573 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
53211509 GGGGTATATC
53211519 GGTAATTTTGCTCTTTAGGGGTAATTTT
1 GGTAATTTTGCTCTTTAGGGGTAATTTT
53211547 GGTAATTTTGCTCTTTAGGGGTAATTT
1 GGTAATTTTGCTCTTTAGGGGTAATTT
53211574 CGTGATCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.07, G:0.25, T:0.49
Consensus pattern (28 bp):
GGTAATTTTGCTCTTTAGGGGTAATTTT
Found at i:53212225 original size:27 final size:27
Alignment explanation
Indices: 53212195--53212256 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
53212185 GGGCAAAATG
53212195 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
53212222 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
53212249 GTAATTTT
1 GTAATTTT
53212257 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:53212269 original size:27 final size:26
Alignment explanation
Indices: 53212239--53212336 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 26
53212229 TACCCTACAG
* *
53212239 GGGTATTTTAGTAATTTTTCAAACCA
1 GGGTATTTTGGTAATTTTACAAACCA
*
53212265 TGGGTATTTTGGTAATTTTACAAACTA
1 -GGGTATTTTGGTAATTTTACAAACCA
**
53212292 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAA-CCA
53212320 GGGTATTTT-GTAATTTT
1 GGGTATTTTGGTAATTTT
53212337 GTAAATCGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.12
27 55 0.86
28 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.46
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACCA
Found at i:53212270 original size:54 final size:54
Alignment explanation
Indices: 53212212--53212315 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
53212202 TACCCCACAA
** *
53212212 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAAACCAT
** *
53212266 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAA
53212316 TTGAGGGTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 3 0.07
54 40 0.93
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAT
Found at i:53212324 original size:54 final size:52
Alignment explanation
Indices: 53212211--53212336 Score: 137
Period size: 54 Copynumber: 2.3 Consensus size: 52
53212201 TTACCCCACA
* ** *
53212211 AGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTTTCAAACC
1 AGGGTATTT-TGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTACAAACC
* **
53212264 ATGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTT-GTAATTTTACCAAAC-AGGGGTATTTTAGTAATTTTACAAA-CC
53212319 AGGGTATTTTGTAATTTT
1 AGGGTATTTTGTAATTTT
53212337 GTAAATCGAG
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
53 12 0.19
54 49 0.79
55 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.44
Consensus pattern (52 bp):
AGGGTATTTTGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTACAAACC
Found at i:53212342 original size:26 final size:27
Alignment explanation
Indices: 53212239--53212350 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
53212229 TACCCTACAG
* * **
53212239 GGGTATTTTAGTAATTTTTCAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATTGA
*
53212265 TGGGTATTTTGGTAATTTTACAAACT-A
1 -GGGTATTTTGGTAATTTTACAAATTGA
53212292 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAATTGA
** *
53212320 GGGTATTTT-GTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATTGA
53212346 GGGTA
1 GGGTA
53212351 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 19 0.25
27 55 0.73
28 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATTGA
Found at i:53212367 original size:27 final size:27
Alignment explanation
Indices: 53212329--53212538 Score: 255
Period size: 27 Copynumber: 7.8 Consensus size: 27
53212319 AGGGTATTTT
* *
53212329 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * * *
53212356 GTAATTCTGTAAATCAAGAGAAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
53212383 GTAATTCTATAAATCGACGGTAAAA-T
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
53212409 GATAATTTTGTAAATCGAGGGTAAAACA
1 G-TAATTCTGTAAATCGAGGGTAAAACA
* *
53212437 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
53212464 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
53212491 GTAATTCTGTAAATCGAGGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
53212517 GATAATTCTGTAAATCG-GGGTA
1 G-TAATTCTGTAAATCGAGGGTA
53212539 CTTTGGTAAT
Statistics
Matches: 157, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.04
27 149 0.95
28 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:53212427 original size:81 final size:80
Alignment explanation
Indices: 53212329--53212532 Score: 284
Period size: 81 Copynumber: 2.5 Consensus size: 80
53212319 AGGGTATTTT
*
53212329 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGAGAAAAATAGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAA-AGTAATTCTGTAAATCAAGAGAAAAACAGTAATTCTATA
*
53212394 AATCGACGGTAAAA-T
65 AATCGACGGTAAAACA
* * * *
53212409 GATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTAT
1 G-TAATTTTGTAAATCGAGGGTAAAA-AGTAATTCTGTAAATCAAGAGAAAAACAGTAATTCTAT
*
53212474 AAATCGAGGGTAAAACA
64 AAATCGACGGTAAAACA
* *
53212491 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC
1 GTAATTTTGTAAATCGAGGGTAAAAAG-TAATTCTGTAAATC
53212533 GGGGTACTTT
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
80 2 0.02
81 108 0.97
82 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (80 bp):
GTAATTTTGTAAATCGAGGGTAAAAAGTAATTCTGTAAATCAAGAGAAAAACAGTAATTCTATAA
ATCGACGGTAAAACA
Found at i:53212574 original size:27 final size:26
Alignment explanation
Indices: 53212544--53212633 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
53212534 GGGTACTTTG
53212544 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAA-TCGAAGGTATTTCA
*
53212571 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAAGGTATTTCA
* * * *
53212598 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTTCA
53212625 GTAATTTTA
1 GTAATTTTA
53212634 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.07
27 48 0.89
28 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCA
Found at i:53212585 original size:53 final size:54
Alignment explanation
Indices: 53212528--53212633 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
53212518 ATAATTCTGT
* *
53212528 AAATCG-GGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
53212581 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
53212634 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 12 0.27
54 33 0.73
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:53212587 original size:80 final size:81
Alignment explanation
Indices: 53212329--53212592 Score: 282
Period size: 81 Copynumber: 3.3 Consensus size: 81
53212319 AGGGTATTTT
* * * ** * *
53212329 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGAGAAAAATAGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTACA
* *
53212394 AATCGACGGTAAAA-T
66 AATCGAAGGTAAAACA
*
53212409 GATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTAT
1 G-TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTAC
*
53212474 AAATCGAGGGTAAAACA
65 AAATCGAAGGTAAAACA
* * ****
53212491 GTAATTCTGTAAATCGAGGGTAAAAC-GATAATTCTGTAAATC-GGGGTACTTTGGTAATTTTAC
1 GTAATTTTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAATCAAGGGTAAAACGGTAATTTTAC
* ***
53212554 AAGTCGAAGGTATTTCA
65 AAATCGAAGGTAAAACA
**
53212571 GTAATTTTACAAATCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTA
53212593 TTTCAGTATT
Statistics
Matches: 158, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
80 48 0.30
81 109 0.69
82 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTACA
AATCGAAGGTAAAACA
Found at i:53212647 original size:27 final size:27
Alignment explanation
Indices: 53212544--53212648 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
53212534 GGGTACTTTG
* *
53212544 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
53212571 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
53212598 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
53212625 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
53212649 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:53214200 original size:20 final size:20
Alignment explanation
Indices: 53214163--53214201 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
53214153 TGGTATTTTA
***
53214163 TATGGTTGTTATTTTGATGC
1 TATGGTTGTTAAGATGATGC
53214183 TATGGTTGTTAAGATGATG
1 TATGGTTGTTAAGATGATG
53214202 GTAGGGAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.49
Consensus pattern (20 bp):
TATGGTTGTTAAGATGATGC
Found at i:53214596 original size:11 final size:11
Alignment explanation
Indices: 53214580--53214605 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
53214570 CATGATTACA
53214580 GTTGCAATTGG
1 GTTGCAATTGG
53214591 GTTGCAATTGG
1 GTTGCAATTGG
53214602 GTTG
1 GTTG
53214606 TGCAAGTGGC
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:0.15, C:0.08, G:0.38, T:0.38
Consensus pattern (11 bp):
GTTGCAATTGG
Found at i:53218969 original size:47 final size:47
Alignment explanation
Indices: 53218856--53219065 Score: 217
Period size: 47 Copynumber: 4.4 Consensus size: 47
53218846 TGAACATAGT
* * ** * *
53218856 CACATATCACACATCGAAGCCATAGCCTAGCCATGGTCTTACAC-GGAT
1 CACATATCACAC-T-GATGCCATAGCCCAGATATGGTCTTACACAGAAG
* *
53218904 CACATATCACACTAATGCCATATCCCAGATATGGTCTTACACAGAAG
1 CACATATCACACTGATGCCATAGCCCAGATATGGTCTTACACAGAAG
* * *
53218951 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACGGAAG
1 CACATATCACACTGATGCCATAGCCCAGATATGGTCTTACACAGAAG
* * * * * *
53218998 CTCATATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGAAAAT
1 CACATATCACACTGATGCCATAGCCCAGATATGGTCTTACAC-AGAAG
*
53219046 CACATATCACA-TGTTGCCAT
1 CACATATCACACTGATGCCAT
53219066 GGTCCAACCT
Statistics
Matches: 139, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
46 23 0.17
47 92 0.66
48 24 0.17
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (47 bp):
CACATATCACACTGATGCCATAGCCCAGATATGGTCTTACACAGAAG
Found at i:53227100 original size:46 final size:46
Alignment explanation
Indices: 53227047--53227222 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
53227037 TATTTGGGCA
53227047 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
53227093 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
53227140 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
53227186 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53227223 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:53227202 original size:93 final size:93
Alignment explanation
Indices: 53227043--53227214 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53227033 AGGATATTTG
* *
53227043 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53227108 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
53227136 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53227201 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
53227215 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:53230157 original size:15 final size:15
Alignment explanation
Indices: 53230137--53230205 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
53230127 GTATCTTGGG
53230137 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
53230152 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
53230167 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
53230182 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
53230197 TTTCTTTAT
1 TTTCTTTAT
53230206 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:53230206 original size:30 final size:30
Alignment explanation
Indices: 53230128--53230215 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
53230118 CATAGTATCG
* * * *
53230128 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
53230158 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
53230188 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
53230216 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:53232654 original size:46 final size:46
Alignment explanation
Indices: 53232601--53232776 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
53232591 TATTTGGGCA
53232601 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
53232647 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
53232694 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
53232740 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53232777 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:53232756 original size:93 final size:93
Alignment explanation
Indices: 53232597--53232768 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53232587 AGGATATTTG
* *
53232597 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53232662 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
53232690 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53232755 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
53232769 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:53236898 original size:25 final size:25
Alignment explanation
Indices: 53236853--53236914 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
53236843 ATGCCCATAA
* * * *
53236853 GAGCTGTA-AACGGTAAGCTCCTCC
1 GAGCTGAATAACGATAACCTCCACC
53236877 GAGCTGAATAACGATAACCTCCACC
1 GAGCTGAATAACGATAACCTCCACC
*
53236902 AAGCTGAATAACG
1 GAGCTGAATAACG
53236915 GTAAGATCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.34, C:0.27, G:0.21, T:0.18
Consensus pattern (25 bp):
GAGCTGAATAACGATAACCTCCACC
Found at i:53240649 original size:53 final size:53
Alignment explanation
Indices: 53240458--53240661 Score: 232
Period size: 55 Copynumber: 3.8 Consensus size: 53
53240448 GGGTTTAAGT
** *
53240458 ATACCATGTAAGACCATACCAAGACATGGCAATTGGTAAGGTTTC-TAAAGCAAGG
1 ATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-G-TTCATAAGGCAAGG
* * *
53240513 ATACCATGTAAGACCATGTCAAGACATGCCATTGATAAGTTACTATAAGGCAAAG
1 ATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGCAAGG
* * *
53240568 ATCCCATGTAAGACCATG-CTAAGGCATGGCATTGGTGAGTTCATAAGGCAAGG
1 ATACCATGTAAGACCATGTC-AAGACATGGCATTGGTAAGTTCATAAGGCAAGG
* * *
53240621 ATACCATGTAAGATCATGTCGAGACATGGCAATGGTAAGTT
1 ATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
53240662 TCAAAGTGAT
Statistics
Matches: 126, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 45 0.36
54 10 0.08
55 69 0.55
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.24
Consensus pattern (53 bp):
ATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAAGG
Found at i:53240660 original size:108 final size:110
Alignment explanation
Indices: 53240461--53240661 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
53240451 TTTAAGTATA
53240461 CCATGTAAGACCATACCAAGACATGGCAATTGGTAAGGTTTCTAAAGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATACCAAGACATGGCAATTGGTAAGGTTTCTAAAGCAAGGATACCATGTAAGA
*
53240526 CCATGTCAAGACATGCCATTGATAAGTTACTATAAGGCAAAGATC
66 CCATGTCAAGACATGCCAATGATAAGTTACTATAAGGCAAAGATC
* * * * *
53240571 CCATGTAAGACCATGCTAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATACCAAGACATGGCAATTGGTAAGGTTTC-TAAAGCAAGGATACCATGTAAG
* * * *
53240633 ATCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGCCAATGATAAGTT
53240662 TCAAAGTGAT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 24 0.30
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATACCAAGACATGGCAATTGGTAAGGTTTCTAAAGCAAGGATACCATGTAAGA
CCATGTCAAGACATGCCAATGATAAGTTACTATAAGGCAAAGATC
Found at i:53243231 original size:28 final size:28
Alignment explanation
Indices: 53243185--53243253 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
53243175 TTTAAAACCC
*
53243185 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53243212 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53243240 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
53243254 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:53244902 original size:20 final size:20
Alignment explanation
Indices: 53244879--53244916 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53244869 CACATCCAAA
*
53244879 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
53244899 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
53244917 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:53251235 original size:28 final size:28
Alignment explanation
Indices: 53251189--53251257 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
53251179 TTTAAAACCC
*
53251189 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53251216 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53251244 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
53251258 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:53253420 original size:29 final size:29
Alignment explanation
Indices: 53253387--53253518 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
53253377 GTGACGAGAT
*
53253387 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
53253416 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
53253445 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
53253474 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
53253503 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53253519 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:53261930 original size:39 final size:40
Alignment explanation
Indices: 53261753--53261934 Score: 172
Period size: 39 Copynumber: 4.6 Consensus size: 40
53261743 CCGCACCAAG
* * * * * * * *
53261753 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
53261793 GCCTTCGGGTCTTAGCCCGGAT-TTACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
53261832 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
53261872 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
53261911 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
53261935 CATTCAATTT
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 64 0.53
40 57 0.47
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:53269848 original size:40 final size:40
Alignment explanation
Indices: 53269789--53269919 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
53269779 CGGGACTTTA
* * *
53269789 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
53269829 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
53269869 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
53269909 CCCGGATATAA
1 CCCGGATATAA
53269920 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:53269952 original size:39 final size:40
Alignment explanation
Indices: 53269806--53269956 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
53269796 ATCACGATTT
* * * *
53269806 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
53269846 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
53269886 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
53269925 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
53269957 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:53272253 original size:27 final size:28
Alignment explanation
Indices: 53272196--53272263 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
53272186 CTATGCAACA
* *
53272196 ATTATCTG-ATCTGGTGGCTCGTCCATG
1 ATTATCTGTATCTGGTGACTCGTCCATC
53272223 ATTATCTGTATCTGGTGACTCTGT-CA-C
1 ATTATCTGTATCTGGTGACTC-GTCCATC
53272250 ATTATCTGT-TCTGG
1 ATTATCTGTATCTGG
53272264 CAGCCATGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
26 5 0.14
27 17 0.46
28 13 0.35
29 2 0.05
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.41
Consensus pattern (28 bp):
ATTATCTGTATCTGGTGACTCGTCCATC
Found at i:53275750 original size:29 final size:29
Alignment explanation
Indices: 53275718--53275818 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
53275708 ATAGTGAATC
*
53275718 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
53275747 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * * *
53275775 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
53275805 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53275819 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 21 0.34
30 17 0.28
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:53275811 original size:30 final size:29
Alignment explanation
Indices: 53275717--53275818 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
53275707 TATAGTGAAT
* * *
53275717 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
53275746 TCGCACACTTAGTGCTATATAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
53275774 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
53275804 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
53275819 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:53283677 original size:29 final size:29
Alignment explanation
Indices: 53283645--53283745 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
53283635 ATAGTGAATC
*
53283645 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
53283674 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * * *
53283702 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
53283732 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53283746 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 21 0.34
30 17 0.28
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:53283738 original size:30 final size:29
Alignment explanation
Indices: 53283644--53283745 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
53283634 TATAGTGAAT
* * *
53283644 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
53283673 TCGCACACTTAGTGCTATATAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
53283701 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
53283731 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
53283746 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:53290382 original size:54 final size:54
Alignment explanation
Indices: 53290304--53290418 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
53290294 TGGAGGAAGC
* * *
53290304 GTTCTGGTGGCTATGCTACAATTATCTG-ATCTGGTGGCTC-GTCCACATATTTCT
1 GTTCTGGTGGCTATGCCACAATTATCTGTATCTGGTGACTCTGT-CACAT-TATCT
* *
53290358 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACATTATCT
1 GTTCTGGTGGCTATGCCACAATTATCTGTATCTGGTGACTCTGTCACATTATCT
53290412 GTTCTGG
1 GTTCTGG
53290419 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
54 36 0.67
55 16 0.30
56 2 0.04
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAATTATCTGTATCTGGTGACTCTGTCACATTATCT
Found at i:53290399 original size:28 final size:26
Alignment explanation
Indices: 53290304--53290418 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
53290294 TGGAGGAAGC
* *
53290304 GTTCTGGTGGCTATGCTACAATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
53290331 GATCTGGTGGCTC-GTCCACATATTTCT
1 GTTCTGGTGGCTCTG-CCACAT-TATCT
53290358 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
53290385 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
53290412 GTTCTGG
1 GTTCTGG
53290419 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:53294597 original size:2 final size:2
Alignment explanation
Indices: 53294590--53294631 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
53294580 GCTTCGCCAC
53294590 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53294632 CTGTTCTGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53294680 original size:27 final size:26
Alignment explanation
Indices: 53294628--53294687 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
53294618 ATATATATAT
*
53294628 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
53294654 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
53294681 ATATCTG
1 ATATCTG
53294688 GCAGCCTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:53302672 original size:42 final size:42
Alignment explanation
Indices: 53302561--53302660 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
53302551 GCGCATATAG
*
53302561 GACAAATGACCCGTGTTCAAGCCCGTGTCAACCACACGGCTAA
1 GACAAACG-CCCGTGTTCAAGCCCGTGTCAACCACACGGCTAA
* * *
53302604 GACACACGCCCGTGTTCAAGCCCGTGTCAACCACATGGCTGA
1 GACAAACGCCCGTGTTCAAGCCCGTGTCAACCACACGGCTAA
53302646 GACAAACGCCCGTGT
1 GACAAACGCCCGTGT
53302661 CTCTGTCCGT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
42 46 0.88
43 6 0.12
ACGTcount: A:0.27, C:0.34, G:0.23, T:0.16
Consensus pattern (42 bp):
GACAAACGCCCGTGTTCAAGCCCGTGTCAACCACACGGCTAA
Found at i:53306463 original size:54 final size:54
Alignment explanation
Indices: 53306393--53306515 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 54
53306383 GTAGGCTAAT
* * * * **
53306393 ATTACTAAAATGCCCCT-GTAGGGTAGAA-TTACTGAAATACCCTTGGTTTATAAA
1 ATTACAAAAATACCCCTAGT-GGGTA-AACTTACCGAAATACCCTCGAATTATAAA
**
53306447 ATTACAAAAATACCCCTAGTTTGTAAACTTACCGAAATACCCTCGAATTATAAA
1 ATTACAAAAATACCCCTAGTGGGTAAACTTACCGAAATACCCTCGAATTATAAA
*
53306501 ATTACCAAAATACCC
1 ATTACAAAAATACCC
53306516 TTGATTTGTA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
53 2 0.03
54 54 0.93
55 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (54 bp):
ATTACAAAAATACCCCTAGTGGGTAAACTTACCGAAATACCCTCGAATTATAAA
Found at i:53306524 original size:54 final size:54
Alignment explanation
Indices: 53306419--53306679 Score: 235
Period size: 54 Copynumber: 4.8 Consensus size: 54
53306409 TGTAGGGTAG
* * * * *
53306419 AATTACTGAAATACCCTTGGTTTATAAAATTACAAAAATACCCCTAGTTTGTAA
1 AATTACAGAAATACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTGTAA
* * *
53306473 ACTTACCGAAATACCCTCGAATTATAAAATTACCAAAATACCCTT-GATTTGTAA
1 AATTACAGAAATACCCTCGATTTATAAAATTACCAAAATACCCTTAG-TTTGTAA
* * * *
53306527 AATTACAGAAATACCACT-GATTTGA-AAAATTACCGAAATGCCCTTAATTTGGAA
1 AATTACAGAAATACC-CTCGATTT-ATAAAATTACCAAAATACCCTTAGTTTGTAA
* * * *
53306581 AATTATAGAAATACCC-CTGATTTACAAAATTA-CAGAAATACCATTAGTTTGCAA
1 AATTACAGAAATACCCTC-GATTTATAAAATTACCA-AAATACCCTTAGTTTGTAA
* * * * * * *
53306635 AATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTT
1 AATTACAGAAATACCCTCGATTTATAAAATTACCAAAATACCCTT
53306680 GTAGGGTGAA
Statistics
Matches: 167, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
53 4 0.02
54 158 0.95
55 5 0.03
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
AATTACAGAAATACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTGTAA
Found at i:53306560 original size:81 final size:80
Alignment explanation
Indices: 53306419--53306651 Score: 265
Period size: 81 Copynumber: 2.9 Consensus size: 80
53306409 TGTAGGGTAG
* * * * * *
53306419 AATTACTGAAATACCCTTGGTTTATAAAATTACAAAAATACCCCTAGTTTGTAAACTTACCGAAA
1 AATTACAGAAATACCCTTGATTTATAAAATTACAGAAATACCACTAGTTTGAAAAATTACCGAAA
53306484 TACCCTCGAATTAT-AA
66 TACCCT-GAATT-TGAA
*
53306500 AATTACCA-AAATACCCTTGATTTGTAAAATTACAGAAATACCACT-GATTTGAAAAATTACCGA
1 AATTA-CAGAAATACCCTTGATTTATAAAATTACAGAAATACCACTAG-TTTGAAAAATTACCGA
* *
53306563 AATGCCCTTAATTTGGAA
64 AATACCCTGAATTT-GAA
* * * * * *
53306581 AATTATAGAAATACCCCTGATTTACAAAATTACAGAAATACCATTAGTTTGCAAAATTACTGAAA
1 AATTACAGAAATACCCTTGATTTATAAAATTACAGAAATACCACTAGTTTGAAAAATTACCGAAA
53306646 TACCCT
66 TACCCT
53306652 TGGTTTGTAG
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
79 1 0.01
80 6 0.05
81 120 0.93
82 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (80 bp):
AATTACAGAAATACCCTTGATTTATAAAATTACAGAAATACCACTAGTTTGAAAAATTACCGAAA
TACCCTGAATTTGAA
Found at i:53306657 original size:27 final size:27
Alignment explanation
Indices: 53306419--53306660 Score: 213
Period size: 27 Copynumber: 9.0 Consensus size: 27
53306409 TGTAGGGTAG
* * *
53306419 AATTACTGAAATACCCTTGGTTTATAA
1 AATTACAGAAATACCCTTGATTTGTAA
* *
53306446 AATTACAAAAATACCCCT-AGTTTGTAA
1 AATTACAGAAATACCCTTGA-TTTGTAA
* * * * *
53306473 ACTTACCGAAATACCCTCGAATTATAA
1 AATTACAGAAATACCCTTGATTTGTAA
53306500 AATTACCA-AAATACCCTTGATTTGTAA
1 AATTA-CAGAAATACCCTTGATTTGTAA
*
53306527 AATTACAGAAATACCAC-TGATTTGAAA
1 AATTACAGAAATACC-CTTGATTTGTAA
* * * *
53306554 AATTACCGAAATGCCCTTAATTTGGAA
1 AATTACAGAAATACCCTTGATTTGTAA
* * **
53306581 AATTATAGAAATACCCCTGATTTACAA
1 AATTACAGAAATACCCTTGATTTGTAA
* *
53306608 AATTACAGAAATACCATT-AGTTTGCAA
1 AATTACAGAAATACCCTTGA-TTTGTAA
* *
53306635 AATTACTGAAATACCCTTGGTTTGTA
1 AATTACAGAAATACCCTTGATTTGTA
53306661 GATTTACCAA
Statistics
Matches: 170, Mismatches: 37, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
26 4 0.02
27 163 0.96
28 3 0.02
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACAGAAATACCCTTGATTTGTAA
Found at i:53306992 original size:41 final size:40
Alignment explanation
Indices: 53306929--53307040 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 40
53306919 TTAAGAATCG
* * * * *
53306929 CATGGTCGCTTGACGACTGTGGATTCATCGATTCAGGATCA
1 CATGGTTGCTTGACGAC-GTGGATCCACCGATTAAGGACCA
* *
53306970 CATGGTTGCTTGACAATCGTGGATCCACCGATTAAGGACCG
1 CATGGTTGCTTGACGA-CGTGGATCCACCGATTAAGGACCA
53307011 CATGGTTGCTTGACGACCGTGGATCCACCG
1 CATGGTTGCTTGACGA-CGTGGATCCACCG
53307041 GTGGCTTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 60 0.98
42 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (40 bp):
CATGGTTGCTTGACGACGTGGATCCACCGATTAAGGACCA
Found at i:53307234 original size:22 final size:22
Alignment explanation
Indices: 53307182--53307243 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
53307172 GCCAATTATT
* * *
53307182 CTGATTATGGTTTTGGGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
53307204 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
53307226 CTGATTATGGCTGTGTGC
1 CTGATTATGGCTCTGTGC
53307244 AAAACGTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:53311680 original size:27 final size:27
Alignment explanation
Indices: 53311634--53311765 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 27
53311624 ATCACTTGCC
*
53311634 CTAC-AGGGTATTTCGATAATTTTACA
1 CTACAAGGGTATTTCGGTAATTTTACA
* *
53311660 CCACAAGGGTATTTCAGTAATTTTACA
1 CTACAAGGGTATTTCGGTAATTTTACA
*
53311687 CTACAAGGGTATTTTGGTAATTTTACA
1 CTACAAGGGTATTTCGGTAATTTTACA
*
53311714 CTATAAGGGTATTT-GGTAA-TTTACA
1 CTACAAGGGTATTTCGGTAATTTTACA
* **
53311739 -AATCGGGGGTATTTCGGTAATTTTACA
1 CTA-CAAGGGTATTTCGGTAATTTTACA
53311766 ATCTGAGGGT
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
24 1 0.01
25 14 0.15
26 13 0.14
27 63 0.69
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (27 bp):
CTACAAGGGTATTTCGGTAATTTTACA
Found at i:53315661 original size:25 final size:25
Alignment explanation
Indices: 53315602--53315689 Score: 74
Period size: 25 Copynumber: 3.5 Consensus size: 25
53315592 GTACATATAT
* *
53315602 GCTCATACGAGCT-ATGAATCGGTAT
1 GCTCATACGAGCTGA-GAATCAGTAA
* *
53315627 GTTC-TCACGAGCTGTA-AATCAGTTA
1 GCTCAT-ACGAGCTG-AGAATCAGTAA
*
53315652 GCTCATACGAGCTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCAGTAA
*
53315677 GCTCTTACGAGCT
1 GCTCATACGAGCT
53315690 AAAATTGATA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
24 2 0.04
25 46 0.92
26 1 0.02
27 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCAGTAA
Found at i:53317973 original size:33 final size:33
Alignment explanation
Indices: 53317931--53317997 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
53317921 TAATATCAAG
*
53317931 ATTAAGCCATTTTCGCATGGCTTATATATATAC
1 ATTAAGCCATTTTCGCATGACTTATATATATAC
53317964 ATTAAGCCATTTTCGCATGACTTATATATATAC
1 ATTAAGCCATTTTCGCATGACTTATATATATAC
53317997 A
1 A
53317998 CATACCAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (33 bp):
ATTAAGCCATTTTCGCATGACTTATATATATAC
Found at i:53319755 original size:28 final size:28
Alignment explanation
Indices: 53319690--53319790 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
53319680 ATAGTGAATC
*
53319690 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
53319719 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53319747 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
53319777 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53319791 CATACCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Done.