Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold30
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: 2650045
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.30
Warning! 144233 characters in sequence are not A, C, G, or T
File 4 of 17
Found at i:482735 original size:153 final size:153
Alignment explanation
Indices: 482457--482753 Score: 440
Period size: 153 Copynumber: 1.9 Consensus size: 153
482447 CCACGGAATG
* *
482457 GTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTA
1 GTGGACTTTAAAAGAGTGCCACGGAGTTATGGACTTAAAAAGGTGCCACGGAGTTGTAGACTTTA
* *
482522 AAAGGGTCCACGAAGTTGTGGACTTTAAAAGGATGCCATGGAGTTGTGGACTTAAAAGGATGCCA
66 AAAGGATCCACGAAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCA
482587 CGGAGTTGTGGACTCATGGAGTT
131 CGGAGTTGTGGACTCATGGAGTT
* * * **
482610 GTGGAC-TTAAAAG-GATGCCATGGAGTTATGGACTTTAGAAGGATGCCATTGAGTTGTAGAC-T
1 GTGGACTTTAAAAGAG-TGCCACGGAGTTATGGACTTAAAAAGG-TGCCACGGAGTTGTAGACTT
*
482672 TAAAAGGATGCCACAGAA-TTGTGGACTTTAAAAGGATGCTACGGAGTTGTGGACTTAAAAGGAT
64 TAAAAGGAT-CCAC-GAAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGAT
482736 GCCACGGAGTTGTGGACT
127 GCCACGGAGTTGTGGACT
482754 TTGAAAAGAG
Statistics
Matches: 130, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
151 1 0.01
152 39 0.30
153 87 0.67
154 3 0.02
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (153 bp):
GTGGACTTTAAAAGAGTGCCACGGAGTTATGGACTTAAAAAGGTGCCACGGAGTTGTAGACTTTA
AAAGGATCCACGAAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCA
CGGAGTTGTGGACTCATGGAGTT
Found at i:491129 original size:20 final size:20
Alignment explanation
Indices: 491106--491200 Score: 190
Period size: 20 Copynumber: 4.8 Consensus size: 20
491096 TACTTCGAAG
491106 AATGTATCGATACATTTAAA
1 AATGTATCGATACATTTAAA
491126 AATGTATCGATACATTTAAA
1 AATGTATCGATACATTTAAA
491146 AATGTATCGATACATTTAAA
1 AATGTATCGATACATTTAAA
491166 AATGTATCGATACATTTAAA
1 AATGTATCGATACATTTAAA
491186 AATGTATCGATACAT
1 AATGTATCGATACAT
491201 CTGGGTACTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTTAAA
Found at i:492090 original size:33 final size:33
Alignment explanation
Indices: 492053--492117 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
492043 TTTGAAGCAA
* * *
492053 TGTATCGAGACAATTTATCATGTATGGATACAT
1 TGTATCGAGACAATGTACCATGTATCGATACAT
* *
492086 TGTATCGATACAATGTGCCATGTATCGATACA
1 TGTATCGAGACAATGTACCATGTATCGATACA
492118 AACAGTGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (33 bp):
TGTATCGAGACAATGTACCATGTATCGATACAT
Found at i:492191 original size:19 final size:19
Alignment explanation
Indices: 492147--492202 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
492137 TTGCCAGTTT
* **
492147 CATGTATTGATACAATTGTG
1 CATGTATCGATACAA-TGAA
492167 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
492186 CATGTATCGATATAATG
1 CATGTATCGATACAATG
492203 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:500898 original size:51 final size:51
Alignment explanation
Indices: 500835--500931 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
500825 AATTAACCAG
* * *
500835 ATGTATCGATACATTAAAAAATGTATCAATACATCTGGGTAAAAAAATAAA
1 ATGTATCAATACATCAAAAAATGTATCAATACATCTAGGTAAAAAAATAAA
* *
500886 ATGTATCAATACATCGAAAAATGTATCGATACATCTAGGTAAAAAA
1 ATGTATCAATACATCAAAAAATGTATCAATACATCTAGGTAAAAAA
500932 TAGAATCTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.27
Consensus pattern (51 bp):
ATGTATCAATACATCAAAAAATGTATCAATACATCTAGGTAAAAAAATAAA
Found at i:500908 original size:20 final size:20
Alignment explanation
Indices: 500883--500920 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
500873 GTAAAAAAAT
500883 AAAATGTATCAATACATCGA
1 AAAATGTATCAATACATCGA
*
500903 AAAATGTATCGATACATC
1 AAAATGTATCAATACATC
500921 TAGGTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (20 bp):
AAAATGTATCAATACATCGA
Found at i:507407 original size:20 final size:20
Alignment explanation
Indices: 507382--507456 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 20
507372 ATTTGCTTGC
507382 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
507402 ATGTATCGATACATTTG-AGA
1 ATGTATCGATACA-TTGAAGA
*
507422 CATGTATCGATACATTCACAGA
1 -ATGTATCGATACATTGA-AGA
* *
507444 TTGTGTCGATACA
1 ATGTATCGATACA
507457 AATCATACAA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
20 18 0.38
21 27 0.56
22 3 0.06
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:507426 original size:21 final size:22
Alignment explanation
Indices: 507381--507437 Score: 93
Period size: 21 Copynumber: 2.7 Consensus size: 22
507371 AATTTGCTTG
507381 CATGTATCGATACA-TTGAAGA
1 CATGTATCGATACATTTGAAGA
507402 -ATGTATCGATACATTTG-AGA
1 CATGTATCGATACATTTGAAGA
507422 CATGTATCGATACATT
1 CATGTATCGATACATT
507438 CACAGATTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (22 bp):
CATGTATCGATACATTTGAAGA
Found at i:508051 original size:87 final size:87
Alignment explanation
Indices: 507949--508111 Score: 200
Period size: 87 Copynumber: 1.9 Consensus size: 87
507939 GGTTTTGGTT
* * * ** * **
507949 TTCTAAAGCTTAACCTCCTAAGATAGGTGCCAACTAATGTGGACTTGATTCGGACTTAGGTGCCA
1 TTCTAAAGCTAAACCTCCTAAGACAGGTGCCAACTAATATAAACTTGACTCAAACTTAGGTGCCA
508014 CCAACTCGTGTGGACTTTGACA
66 CCAACTCGTGTGGACTTTGACA
* * ** *
508036 TTCTAAGGCTAAACCTCTTTTGACAGGTGCTAACTAATATAAACTTGACTCAAACTTAGGTGCCA
1 TTCTAAAGCTAAACCTCCTAAGACAGGTGCCAACTAATATAAACTTGACTCAAACTTAGGTGCCA
*
508101 CCAACTTGTGT
66 CCAACTCGTGT
508112 CGGCTTTAAG
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
87 62 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (87 bp):
TTCTAAAGCTAAACCTCCTAAGACAGGTGCCAACTAATATAAACTTGACTCAAACTTAGGTGCCA
CCAACTCGTGTGGACTTTGACA
Found at i:508159 original size:31 final size:31
Alignment explanation
Indices: 508094--508245 Score: 205
Period size: 31 Copynumber: 4.9 Consensus size: 31
508084 CTCAAACTTA
* * * * *
508094 GGTGCCACCAACTTGTGTCGGCTTTAAGTTG
1 GGTGCCACCAACTCGTGTGGGCTTTGACTAG
* * * * *
508125 GGTGTCGCCAACTTGTGCGGGCTTTGACTGG
1 GGTGCCACCAACTCGTGTGGGCTTTGACTAG
508156 GGTGCCACCAACTCGTGTGGGCTTTGACTAG
1 GGTGCCACCAACTCGTGTGGGCTTTGACTAG
508187 GGTGCCACCAACTCGTGTGGGCTTTGACTAG
1 GGTGCCACCAACTCGTGTGGGCTTTGACTAG
*
508218 GGTGCCACCAACTCATGTGGGCTTTGAC
1 GGTGCCACCAACTCGTGTGGGCTTTGAC
508246 ATTCTAAGGC
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.15, C:0.25, G:0.32, T:0.28
Consensus pattern (31 bp):
GGTGCCACCAACTCGTGTGGGCTTTGACTAG
Found at i:508342 original size:31 final size:31
Alignment explanation
Indices: 508304--508393 Score: 162
Period size: 31 Copynumber: 2.9 Consensus size: 31
508294 CTTAAACTTA
*
508304 GGTGCCACCAAATCGTGTGGGCTTTGACTAG
1 GGTGCCACCAACTCGTGTGGGCTTTGACTAG
508335 GGTGCCACCAACTCGTGTGGGCTTTGACTAG
1 GGTGCCACCAACTCGTGTGGGCTTTGACTAG
*
508366 GGTGCCACCAACTCATGTGGGCTTTGAC
1 GGTGCCACCAACTCGTGTGGGCTTTGAC
508394 ATTCTAAGGC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.26
Consensus pattern (31 bp):
GGTGCCACCAACTCGTGTGGGCTTTGACTAG
Found at i:508424 original size:148 final size:149
Alignment explanation
Indices: 508156--508839 Score: 951
Period size: 148 Copynumber: 4.6 Consensus size: 149
508146 CTTTGACTGG
* *
508156 GGTGCCACCAACTCGTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTGACTAGGGT
1 GGTGCCACCAACTCGTGTGGGCTTTGACTAGGGTGCCGCCAACTTGTGTGGGCTTTGACTAGGGT
*
508221 GCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCTTTTTAGACAAG-GCCAACTAATG
66 GCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCTCTTTAGACAAGTGCCAACTAATG
508285 TGGACTTGACTTAAACTTA
131 TGGACTTGACTTAAACTTA
* * *
508304 GGTGCCACCAAATCGTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTTGACTAGGGT
1 GGTGCCACCAACTCGTGTGGGCTTTGACTAGGGTGCCGCCAACTTGTGTGGGCTTTGACTAGGGT
*
508369 GCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCTTTTTAGACAAG-GCCAACTAATG
66 GCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCTCTTTAGACAAGTGCCAACTAATG
508433 TGGACTTGACTTAAACTTA
131 TGGACTTGACTTAAACTTA
* * * * ** * * *
508452 GGTGCCACCAAATCGTGTGGGCTTTGACTCGGGTGCTGCCAACTTATGTATGCTTTAATTAAGGT
1 GGTGCCACCAACTCGTGTGGGCTTTGACTAGGGTGCCGCCAACTTGTGTGGGCTTTGACTAGGGT
* * *
508517 GCCACTAACTCCTGTGAGCTTTGACATTCTAAGGCTTAACCTCTTTAGACAAGTGCCAACTAATG
66 GCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCTCTTTAGACAAGTGCCAACTAATG
* *
508582 TGGACTTGACTCAAAATTA
131 TGGACTTGACTTAAACTTA
* * * * * *
508601 GGTGCAACCAACTTGTGTGAGCTTTGACTTGGGTGCTGCCAACTTGTGCGGGCTTTGACTAGGGT
1 GGTGCCACCAACTCGTGTGGGCTTTGACTAGGGTGCCGCCAACTTGTGTGGGCTTTGACTAGGGT
* * * * * *
508666 GCCACCAACTCGTGTAGACTTTGACATTCTAAGGCTCAACCTCCTTAGACAGGTGCCAACTAATG
66 GCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCTCTTTAGACAAGTGCCAACTAATG
508731 TGGACTTGACTTAAACTTA
131 TGGACTTGACTTAAACTTA
* * * *** * *
508750 GGTGCCACCAACTTGTGTGGGCATTGACTAGGGTGCCGCTAACTTGTGCAAGCTTT-AATTGGGT
1 GGTGCCACCAACTCGTGTGGGCTTTGACTAGGGTGCCGCCAACTTGTGTGGGCTTTGACTAGGG-
* *
508814 TGCCACCAACTCGTGTAGGCTTTGAC
65 TGCCACCAACTCATGTGGGCTTTGAC
508840 TAGGGTGCCA
Statistics
Matches: 484, Mismatches: 50, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
148 256 0.53
149 228 0.47
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (149 bp):
GGTGCCACCAACTCGTGTGGGCTTTGACTAGGGTGCCGCCAACTTGTGTGGGCTTTGACTAGGGT
GCCACCAACTCATGTGGGCTTTGACATTCTAAGGCTTAACCTCTTTAGACAAGTGCCAACTAATG
TGGACTTGACTTAAACTTA
Found at i:508643 original size:31 final size:31
Alignment explanation
Indices: 508601--508690 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 31
508591 CTCAAAATTA
* *
508601 GGTGCAACCAACTTGTGTGAGCTTTGACTTG
1 GGTGCCACCAACTTGTGTGAGCTTTGACTAG
** * *
508632 GGTGCTGCCAACTTGTGCGGGCTTTGACTAG
1 GGTGCCACCAACTTGTGTGAGCTTTGACTAG
*
508663 GGTGCCACCAACTCGTGT-AGACTTTGAC
1 GGTGCCACCAACTTGTGTGAG-CTTTGAC
508691 ATTCTAAGGC
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
30 1 0.02
31 47 0.98
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.29
Consensus pattern (31 bp):
GGTGCCACCAACTTGTGTGAGCTTTGACTAG
Found at i:508849 original size:31 final size:31
Alignment explanation
Indices: 508750--508867 Score: 112
Period size: 31 Copynumber: 3.8 Consensus size: 31
508740 CTTAAACTTA
* * *
508750 GGTGCCACCAACTTGTGTGGGCATTGACTAG
1 GGTGCCACCAACTCGTGTAGGCTTTGACTAG
* * * * * * *
508781 GGTGCCGCTAACTTGTGCAAGCTTT-AATTG
1 GGTGCCACCAACTCGTGTAGGCTTTGACTAG
508811 GGTTGCCACCAACTCGTGTAGGCTTTGACTAG
1 GG-TGCCACCAACTCGTGTAGGCTTTGACTAG
* *
508843 GGTGCCACCAACTCATGTGGGCTTT
1 GGTGCCACCAACTCGTGTAGGCTTT
508868 AAAAGGGGAA
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
30 5 0.07
31 58 0.85
32 5 0.07
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (31 bp):
GGTGCCACCAACTCGTGTAGGCTTTGACTAG
Found at i:508945 original size:42 final size:41
Alignment explanation
Indices: 508893--509280 Score: 285
Period size: 42 Copynumber: 9.4 Consensus size: 41
508883 ATGAGGGCAT
*
508893 GTCCTGCTCTTTGAGGGCAAAGGAAAAAGGATAATGAAATGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAGGA-AATGAAATGC
* * ** ** *
508935 ATCCTACTCTTTGAGGACAAATAAAAAAAAGGAAATGAGGTGG
1 GTCCTGCTCTTTGAGGAC-AA-AGGAAAAAGGAAATGAAATGC
* * * * * *
508978 GTCCTACTCCTTGAGGATAAAAGAAAAAGGGAAAAAGAAAAGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAA-GG-AAATGAAATGC
* * * *
509021 ATCCTACTCTTTGAGGACAAAGGGAAAAGG---T-ATAT--
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATGAAATGC
* * * *
509056 GTCCTGCCCTTCGAAGACAAAGGAAAAAGGAGAATAAAATGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAGGA-AATGAAATGC
* *
509098 ATCCTGCTCTTTAAGGACAAAGGAAAAAAGGAAATGAAATGC
1 GTCCTGCTCTTTGAGGACAAAGG-AAAAAGGAAATGAAATGC
* * * *
509140 GTCCTGCACTTTAAGGATAAAGGAGAAAAGGAAATAAAATAG-
1 GTCCTGCTCTTTGAGGACAAAGGA-AAAAGGAAATGAAAT-GC
509182 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATAG-
1 GTCCTGCTCTTTGAGGACAAAGG-AAAAAGG-AAATGAAAT-GC
** *
509225 GTCCTATTCCTTGAGGACAAAGGAAAAA-G-AA-GAAAATGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATG-AAATGC
* *
509264 ATCATGCTCTTTGAGGA
1 GTCCTGCTCTTTGAGGA
509281 TTAAAAGGTG
Statistics
Matches: 274, Mismatches: 54, Indels: 39
0.75 0.15 0.11
Matches are distributed among these distances:
35 24 0.09
37 2 0.01
38 2 0.01
39 19 0.07
40 3 0.01
41 9 0.03
42 113 0.41
43 93 0.34
44 9 0.03
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.20
Consensus pattern (41 bp):
GTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATGAAATGC
Found at i:517909 original size:20 final size:21
Alignment explanation
Indices: 517884--517940 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
517874 ATTTGCCTGC
517884 ATGTATCAATACATTG-AAGA
1 ATGTATCAATACATTGTAAGA
*
517904 ATGTATCAATACAATTGTAAGC
1 ATGTATCAATAC-ATTGTAAGA
*
517926 ATGTATCGATACATT
1 ATGTATCAATACATT
517941 TCCTTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 12 0.36
21 7 0.21
22 14 0.42
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (21 bp):
ATGTATCAATACATTGTAAGA
Found at i:518034 original size:21 final size:20
Alignment explanation
Indices: 517986--518039 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
517976 CATTTGAGAC
*
517986 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTA
*
518006 AGGTATCGATACATTCACTA
1 ATGTATCGATACATTCACTA
518026 ATTGTATCGATACA
1 A-TGTATCGATACA
518040 AATTTTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:521628 original size:13 final size:13
Alignment explanation
Indices: 521610--521635 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
521600 TACATTGAAC
521610 ATGTATCGATACA
1 ATGTATCGATACA
521623 ATGTATCGATACA
1 ATGTATCGATACA
521636 TCTGGCTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:526027 original size:13 final size:13
Alignment explanation
Indices: 526009--526033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
525999 ATTACTCAAA
526009 TGTATCGATACAT
1 TGTATCGATACAT
526022 TGTATCGATACA
1 TGTATCGATACA
526034 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:526170 original size:52 final size:52
Alignment explanation
Indices: 526042--526162 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
526032 CACTGATCTT
* *
526042 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
526094 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
526146 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
526163 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:534376 original size:32 final size:30
Alignment explanation
Indices: 534265--534594 Score: 219
Period size: 31 Copynumber: 10.8 Consensus size: 30
534255 ATACCTTTTT
* *
534265 AAAGTTCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTC
534296 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
*
534326 AAAGTCCACGACTTAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAT-CTTTTC-TC
* * *
534358 AAAGCCCATGAATCAGTGGCAT-TTTGTC-C
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
* *
534387 TAAAGTCCACGACTCCGTGGCACCTTTTCTTCTC
1 -AAAGTCCACGACTCAGTGGCA--TCTT-TTCTC
* * * *
534421 AAAGCCCGCGACTCAATGGTAT-TTTGTC-C
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
* * * *
534450 TAAAGTCCACAATTCAGTGGCATCTCCTTCTT
1 -AAAGTCCACGACTCAGTGGCATCT-TTTCTC
* *
534482 AAAGTCCACGACTCAGTGGTAATCTCTTCTC
1 AAAGTCCACGACTCAGTGG-CATCTTTTCTC
* * *
534513 AAAGCCCACAACTCAGTGGCAT-TTTGTCCTA
1 AAAGTCCACGACTCAGTGGCATCTTT-T-CTC
* * * * *
534544 AAATTCCACAATTCAATGGCATCCCTTT-T-
1 AAAGTCCACGACTCAGTGGCAT-CTTTTCTC
534573 -AAGTCCACGACTCAGTGGCATC
1 AAAGTCCACGACTCAGTGGCATC
534595 AAAGTCCACG
Statistics
Matches: 236, Mismatches: 42, Indels: 46
0.73 0.13 0.14
Matches are distributed among these distances:
27 1 0.00
28 17 0.07
29 7 0.03
30 71 0.30
31 86 0.36
32 30 0.13
33 22 0.09
34 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTC
Found at i:534382 original size:62 final size:62
Alignment explanation
Indices: 534264--534500 Score: 261
Period size: 63 Copynumber: 3.8 Consensus size: 62
534254 AATACCTTTT
* * *
534264 TAAAGTTCACGACTCAGTGGCAAT-CTCTTC-TCAAAGTCCACGACTCAGTGGCATTTTGT-C
1 TAAAGTCCACGACTCAGTGGC-ATCCTTTTCTTCAAAGCCCACGACTCAGTGGCATTTTGTCC
* * *
534324 TCAAAGTCCACGACTTAGTGGCATCCTTTTCTTCAAAGCCCATGAATCAGTGGCATTTTGTCC
1 T-AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGCCCACGACTCAGTGGCATTTTGTCC
* * * *
534387 TAAAGTCCACGACTCCGTGGCA-CCTTTTCTTCTCAAAGCCCGCGACTCAATGGTATTTTGTCC
1 TAAAGTCCACGACTCAGTGGCATCCTTTTC-T-TCAAAGCCCACGACTCAGTGGCATTTTGTCC
* * * *
534450 TAAAGTCCACAATTCAGTGGCAT-CTCCTTCTT-AAAGTCCACGACTCAGTGG
1 TAAAGTCCACGACTCAGTGGCATCCT-TTTCTTCAAAGCCCACGACTCAGTGG
534501 TAATCTCTTC
Statistics
Matches: 149, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
60 3 0.02
61 46 0.31
62 47 0.32
63 50 0.34
64 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (62 bp):
TAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGCCCACGACTCAGTGGCATTTTGTCC
Found at i:534532 original size:125 final size:125
Alignment explanation
Indices: 534289--534533 Score: 273
Period size: 125 Copynumber: 2.0 Consensus size: 125
534279 AGTGGCAATC
* * * *
534289 TCTTCTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTTAGTGGCATCCTTTT
1 TCTTCTCAAAGCCCACGACTCAATGGCATTTTGTCTCAAAGTCCACGAATTAGTGGCATCCTCTT
* * * * * * *
534354 CTTCAAAGCCCATGAATCAGTGGCATTTTGTCCTAAAGTCCACGACTCCGTGGCACCTTT
66 CTTCAAAGCCCACGAATCAGTGGCAATCTCTCCTAAAGCCCACAACTCAGTGGCACCTTT
* *
534414 TCTTCTCAAAGCCCGCGACTCAATGGTATTTTGTC-CTAAAGTCCAC-AATTCAGTGGCAT-CTC
1 TCTTCTCAAAGCCCACGACTCAATGGCATTTTGTCTC-AAAGTCCACGAATT-AGTGGCATCCT-
* * * *
534476 CTTCTT-AAAGTCCACGACTCAGTGGTAATCTCTTCTCAAAGCCCACAACTCAGTGGCA
63 CTTCTTCAAAGCCCACGAATCAGTGGCAATCTCTCCT-AAAGCCCACAACTCAGTGGCA
534534 TTTTGTCCTA
Statistics
Matches: 99, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
124 28 0.28
125 71 0.72
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (125 bp):
TCTTCTCAAAGCCCACGACTCAATGGCATTTTGTCTCAAAGTCCACGAATTAGTGGCATCCTCTT
CTTCAAAGCCCACGAATCAGTGGCAATCTCTCCTAAAGCCCACAACTCAGTGGCACCTTT
Found at i:534728 original size:27 final size:27
Alignment explanation
Indices: 534633--534996 Score: 197
Period size: 27 Copynumber: 11.9 Consensus size: 27
534623 CTTTCAAAGT
*
534633 CCACAACTCCGTCGCACCTCCTTTTCAAAGC
1 CCACAACTCCGTGGCA-C-CCTTTT--AAGC
*
534664 CCACAACTACGTGGCACTCTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCA--C----CCTTTTAAGC
*
534697 CCACAACTCCGTGGCACCCATTTAAGC
1 CCACAACTCCGTGGCACCCTTTTAAGC
*
534724 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCA--C-----CCTTTTAAGC
534758 CCACAACTCCGTGGCACCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACC--CTTTT--AAGC
*
534789 CCACAACTCCGTGGCACCCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCA--C-----CCTTTTAAGC
*
534823 CCACGACTCCGTGGCACTCCTTTTAAAGC
1 CCACAACTCCGTGGCAC-CCTTTT-AAGC
*
534852 CCACAACTCCGTGGCACCCTTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGC
* *
534879 CCACGACTTCGTGGCACCCTTTTTTCCTTTAAAGC
1 CCACAACTCCGTGGCACCC-----T--TTT-AAGC
* *
534914 CCACAACTACGTGGCACTCTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCA--C----CCTTTTAAGC
* *
534947 CCACAACTCTGTGGCACCATTTTAAGC
1 CCACAACTCCGTGGCACCCTTTTAAGC
* *
534974 CCACAACTACGTGGCACTCTTTT
1 CCACAACTCCGTGGCACCCTTTT
534997 CCTTTTAAGT
Statistics
Matches: 269, Mismatches: 27, Indels: 78
0.72 0.07 0.21
Matches are distributed among these distances:
27 73 0.27
28 13 0.05
29 24 0.09
31 36 0.13
32 4 0.01
33 37 0.14
34 48 0.18
35 24 0.09
36 6 0.02
37 1 0.00
38 1 0.00
41 2 0.01
ACGTcount: A:0.21, C:0.37, G:0.13, T:0.29
Consensus pattern (27 bp):
CCACAACTCCGTGGCACCCTTTTAAGC
Found at i:534762 original size:34 final size:33
Alignment explanation
Indices: 534600--535023 Score: 318
Period size: 33 Copynumber: 13.5 Consensus size: 33
534590 GCATCAAAGT
* * * *
534600 CCACGACTCCGTGGCAC-CTTTTTCTTTCAAAGT
1 CCACAACTCCGTGGCACTCTTTTCCTTT-TAAGC
*
534633 CCACAACTCCGTCGCAC-C---TCCTTTTCAAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTTTT--AAGC
*
534664 CCACAACTACGTGGCACTCTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTTTTAAGC
*
534697 CCACAACTCCGTGGCA--C----CCATTTAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTTTTAAGC
*
534724 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCACTC-TTTTCCTTTTAAGC
534758 CCACAACTCCGTGGCAC-C--TT-CTTTTCAAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTTTT--AAGC
* *
534789 CCACAACTCCGTGGCACCCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTC-TTTTCCTTTTAAGC
*
534823 CCACGACTCCGTGGCA--C---TCCTTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTTTT-AAGC
*
534852 CCACAACTCCGTGGCA--C----CCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTCCTTTTAAGC
* * * *
534879 CCACGACTTCGTGGCACCCTTTTTTCCTTTAAAGC
1 CCACAACTCCGTGGCA--CTCTTTTCCTTTTAAGC
* *
534914 CCACAACTACGTGGCACTCTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTCCTTTTAAGC
* *
534947 CCACAACTCTGTGGCA--C----CATTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTTTTAAGC
* *
534974 CCACAACTACGTGGCACTCTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTCCTTTTAAGC
* *
535007 CCACGACTCCATGGCAC
1 CCACAACTCCGTGGCAC
535024 CTTCTTCTAA
Statistics
Matches: 318, Mismatches: 38, Indels: 70
0.75 0.09 0.16
Matches are distributed among these distances:
27 64 0.20
28 13 0.04
29 25 0.08
30 7 0.02
31 41 0.13
32 3 0.01
33 86 0.27
34 43 0.14
35 31 0.10
36 5 0.02
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.29
Consensus pattern (33 bp):
CCACAACTCCGTGGCACTCTTTTCCTTTTAAGC
Found at i:534784 original size:125 final size:123
Alignment explanation
Indices: 534567--535029 Score: 525
Period size: 125 Copynumber: 3.7 Consensus size: 123
534557 CAATGGCATC
* * * * * *
534567 CCTTTTAAGTCCACGACTCAGTGGCA-TCA---AAGTCCACGACTCCGTGGCACCTTTTTCTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCACCCATTTAAGCCCACAACTCCGTGGCACC-TTTTCCTTC
* * *
534628 AAAGTCCACAACTCCGTCGCACCTCCTTTTCAAAGCCCACAACTACGTGGCACTCTTTT
65 TAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTACGTGGCACTCTTTT
*
534687 CCTTTTAAGCCCACAACTCCGTGGCACCCATTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCATTTAAGCCCACAACTCCGTGGCAC-C-TTTTCCTT
* * *
534752 CTAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTTT
64 CTAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTACGTGGCACTC-TTTT
* *
534813 CCTTTTAAGTCCACGACTCCGTGGCACTCCTTTTAAAGCCCACAACTCCGTGGCA-C----CCTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC-CCATTT-AAGCCCACAACTCCGTGGCACCTTTTCCTT
* * *
534873 TTAAGTCCACGACTTCGTGGCACCCTT-TTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTT
64 CTAAGTCCACAACTCCGTGGCA-CCTTCTTTT-C---AAAGCCCACAACTACGTGGCACTCTTTT
* *
534937 CCTTTTAAGTCCACAACTCTGTGGCA-CCATTTTAAGCCCACAACTACGTGGCACTCTTTTCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCA-TTTAAGCCCACAACTCCGTGGCAC-CTTTTCCTT
* * *
535001 TTAAGTCCACGACTCCATGGCACCTTCTT
64 CTAAGTCCACAACTCCGTGGCACCTTCTT
535030 CTAAAACCCA
Statistics
Matches: 294, Mismatches: 28, Indels: 34
0.83 0.08 0.10
Matches are distributed among these distances:
120 23 0.08
121 28 0.10
122 26 0.09
123 3 0.01
124 48 0.16
125 81 0.28
126 30 0.10
127 9 0.03
128 46 0.16
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.30
Consensus pattern (123 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCATTTAAGCCCACAACTCCGTGGCACCTTTTCCTTCT
AAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTACGTGGCACTCTTTT
Found at i:534861 original size:155 final size:156
Alignment explanation
Indices: 534686--534969 Score: 407
Period size: 155 Copynumber: 1.8 Consensus size: 156
534676 GGCACTCTTT
*
534686 TCCTTTTAAGCCCACAACTCCGTGGCACCCATTTAAGCCCACAACTCCGTGGCACTC-TTTTTCC
1 TCCTTTTAAGCCCACAACTCCGTGGCACCCATTTAAGCCCACAACTCCGTGGCACCCTTTTTTCC
* *
534750 TTCT-AAGCCCACAACTCCGTGGCAC-C-TT-CTTTTCAAAGCCCACAACTCCGTGGCACCCTTT
66 TT-TAAAGCCCACAACTACGTGGCACTCTTTCCTTTT--AAGCCCACAACTCCGTGGCACCATTT
534811 TTCCTTTTAAGTCCACGACTCCGTGGCAC
128 TTCCTTTTAAGTCCACGACTCCGTGGCAC
* * * *
534840 TCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTTCGTGGCACCCTTTTTTC
1 TCCTTTT-AAGCCCACAACTCCGTGGCACCCATTTAAGCCCACAACTCCGTGGCACCCTTTTTTC
* *
534905 CTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCATTTT
65 CTTTAAAGCCCACAACTACGTGGCACTC-TTTCCTTTTAAGCCCACAACTCCGTGGCACCATTTT
534970 AAGCCCACAA
Statistics
Matches: 114, Mismatches: 9, Indels: 10
0.86 0.07 0.08
Matches are distributed among these distances:
154 7 0.06
155 46 0.40
156 29 0.25
157 1 0.01
158 24 0.21
159 2 0.02
160 5 0.04
ACGTcount: A:0.20, C:0.36, G:0.13, T:0.30
Consensus pattern (156 bp):
TCCTTTTAAGCCCACAACTCCGTGGCACCCATTTAAGCCCACAACTCCGTGGCACCCTTTTTTCC
TTTAAAGCCCACAACTACGTGGCACTCTTTCCTTTTAAGCCCACAACTCCGTGGCACCATTTTTC
CTTTTAAGTCCACGACTCCGTGGCAC
Found at i:534961 original size:68 final size:61
Alignment explanation
Indices: 534567--535024 Score: 374
Period size: 60 Copynumber: 7.5 Consensus size: 61
534557 CAATGGCATC
* * * * *
534567 CCTTTTAAGTCCACGACTCAGTGGCA-TCA----AAGTCCACGACTCCGTGGCAC-CTTTT
1 CCTTTTAAGTCCACGACTCTGTGGCACCCATTTTAAGCCCACAACTACGTGGCACTCTTTT
* * * * * *
534622 TCTTTCAAAGTCCACAACTCCGTCGCACCTCCTTTTCAAAGCCCACAACTACGTGGCACTCTTTT
1 CCTTT-TAAGTCCACGACTCTGTGGCACC-CATTTT--AAGCCCACAACTACGTGGCACTCTTTT
* * * *
534687 CCTTTTAAGCCCACAACTCCGTGGCACCCA-TTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGTCCACGACTCTGTGGCACCCATTTTAAGCCCACAACTACGTGGCACTC-TTTT
* * * * * *
534748 CCTTCTAAGCCCACAACTCCGTGGCACCTTC-TTTTCAAAGCCCACAACTCCGTGGCACCCTTTT
1 CCTTTTAAGTCCACGACTCTGTGGCACC--CATTTT--AAGCCCACAACTACGTGGCACTC-TTT
534812 T
61 T
* *
534813 CCTTTTAAGTCCACGACTCCGTGGCACTCC-TTTTAAAGCCCACAACTCCGTGGCA--C----
1 CCTTTTAAGTCCACGACTCTGTGGCAC-CCATTTT-AAGCCCACAACTACGTGGCACTCTTTT
*
534869 CCTTTTAAGTCCACGACT-TCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTACGTGGCACTC
1 CCTTTTAAGTCCACGACTCT-GTGGCACCC----AT--TTT-AAGCCCACAACTACGTGGCACTC
534933 TTTT
58 TTTT
*
534937 CCTTTTAAGTCCACAACTCTGTGGCA-CCATTTTAAGCCCACAACTACGTGGCACTCTTTT
1 CCTTTTAAGTCCACGACTCTGTGGCACCCATTTTAAGCCCACAACTACGTGGCACTCTTTT
**
534997 CCTTTTAAGTCCACGACTCCATGGCACC
1 CCTTTTAAGTCCACGACTCTGTGGCACC
535025 TTCTTCTAAA
Statistics
Matches: 342, Mismatches: 28, Indels: 60
0.80 0.07 0.14
Matches are distributed among these distances:
55 6 0.02
56 42 0.12
58 1 0.00
60 73 0.21
61 36 0.11
62 26 0.08
63 27 0.08
64 44 0.13
65 60 0.18
66 1 0.00
67 2 0.01
68 23 0.07
69 1 0.00
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.29
Consensus pattern (61 bp):
CCTTTTAAGTCCACGACTCTGTGGCACCCATTTTAAGCCCACAACTACGTGGCACTCTTTT
Found at i:534987 original size:95 final size:95
Alignment explanation
Indices: 534720--535023 Score: 345
Period size: 95 Copynumber: 3.2 Consensus size: 95
534710 GCACCCATTT
*
534720 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCA
1 AAGCCCACAACTCCGTGGCACTC-TTTTCCTTTTAAGCCCACAACTCCGTGGCACC--CTTTT--
* *
534785 AAGCCCACAACTCCGTGGCACCC-TTTTTCCTTTT
61 AAGCCCACAACTACGTGGCACCCTTTTTTCCTTTA
* * *
534819 AAGTCCACGACTCCGTGGCA--C---TCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGT
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTTT-AAGCCCACAACTCCGTGGCACCCTTTTAAGC
* *
534879 CCACGACTTCGTGGCACCCTTTTTTCCTTTA
65 CCACAACTACGTGGCACCCTTTTTTCCTTTA
* * * *
534910 AAGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCATTTTAAGCC
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCC
* *
534975 CACAACTACGTGGCA--CTCTTTTCCTTTT
66 CACAACTACGTGGCACCCTTTTTTCCTTTA
* * *
535003 AAGTCCACGACTCCATGGCAC
1 AAGCCCACAACTCCGTGGCAC
535024 CTTCTTCTAA
Statistics
Matches: 176, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
90 20 0.11
91 27 0.15
92 5 0.03
93 35 0.20
94 22 0.12
95 41 0.23
96 7 0.04
97 1 0.01
99 18 0.10
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.30
Consensus pattern (95 bp):
AAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCC
CACAACTACGTGGCACCCTTTTTTCCTTTA
Found at i:535059 original size:33 final size:33
Alignment explanation
Indices: 535018--535135 Score: 147
Period size: 33 Copynumber: 3.7 Consensus size: 33
535008 CACGACTCCA
*
535018 TGGC-ACCTTCTTCTAAAACCCACACAAGTCGG
1 TGGCAACCTTCTTCTAAAGCCCACACAAGTCGG
* *
535050 TGGCAACCTTCTTCCAAAGCCCACACAAGACGG
1 TGGCAACCTTCTTCTAAAGCCCACACAAGTCGG
*
535083 TGGCAACC-ACTCTCTAAAGCCCACACAAGTCGG
1 TGGCAACCTTCT-TCTAAAGCCCACACAAGTCGG
*
535116 TCGCAACC--CTTCT-AAGCCCA
1 TGGCAACCTTCTTCTAAAGCCCA
535136 ATATAGCTGG
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
30 7 0.09
31 3 0.04
32 8 0.10
33 59 0.77
ACGTcount: A:0.29, C:0.37, G:0.16, T:0.18
Consensus pattern (33 bp):
TGGCAACCTTCTTCTAAAGCCCACACAAGTCGG
Found at i:535237 original size:43 final size:43
Alignment explanation
Indices: 535174--535539 Score: 437
Period size: 43 Copynumber: 8.1 Consensus size: 43
535164 GCACCTTCAT
535174 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
535217 CTTTAAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCC-AATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
535264 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCGGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
535309 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
535356 TTCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
535401 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
535448 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCTGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
535493 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
535536 CTTT
1 CTTT
535540 TCCATCTTTA
Statistics
Matches: 278, Mismatches: 25, Indels: 40
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.01
43 157 0.56
45 3 0.01
47 3 0.01
49 111 0.40
50 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:535285 original size:92 final size:91
Alignment explanation
Indices: 535123--535592 Score: 724
Period size: 92 Copynumber: 5.1 Consensus size: 91
535113 CGGTCGCAAC
* * *
535123 CCTTCTAAGCCCAATATAGCTGGCCCTGAATCAACATATTGGCACCTTCATCTTTAAGTCCAATA
1 CCTT-TAAG-CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
535188 TAGCTGGCCTTGAATCAGCACATTGGCA
64 TAGCTGGCCTTGAATCAGCACATTGGCA
*
535216 CCTTTAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGCC-AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
535281 AGCTGGCCTTGAATCGGCACATTGGCA
65 AGCTGGCCTTGAATCAGCACATTGGCA
* *
535308 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAG-CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
535373 AGCTGGCCTTGACTCAGCACATTGGCA
65 AGCTGGCCTTGAATCAGCACATTGGCA
* *
535400 CCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAG-CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
535465 AGCTGGCCTTGAATCTGCACATTGGCA
65 AGCTGGCCTTGAATCAGCACATTGGCA
*
535492 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAG-CCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAA
* *
535557 TGTAGCTGGCCTTGAATTAGCACATTGACA
62 TGTAGCTGGCCTTGAATCAGCACATTGGCA
535587 TCCTTT
1 -CCTTT
535593 TTCTCATCTT
Statistics
Matches: 349, Mismatches: 22, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
91 2 0.01
92 293 0.84
93 6 0.02
94 2 0.01
95 41 0.12
96 5 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (91 bp):
CCTTTAAGCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCA
Found at i:535571 original size:52 final size:53
Alignment explanation
Indices: 535493--535646 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 53
535483 ACATTGGCAC
535493 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * * *
535545 CTTTAAGTTCAATGTAGCTGGCCTTGAATTAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
535600 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
535647 ATCACTTTCC
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
52 37 0.45
53 5 0.06
54 6 0.07
55 35 0.42
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:536509 original size:13 final size:13
Alignment explanation
Indices: 536491--536515 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
536481 CATAAAGTGT
536491 TGTATCGATACAA
1 TGTATCGATACAA
536504 TGTATCGATACA
1 TGTATCGATACA
536516 TTTTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:536596 original size:13 final size:13
Alignment explanation
Indices: 536578--536602 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
536568 ATTACTCAAA
536578 TGTATCGATACAT
1 TGTATCGATACAT
536591 TGTATCGATACA
1 TGTATCGATACA
536603 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:542275 original size:16 final size:16
Alignment explanation
Indices: 542254--542284 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
542244 AGAGCACTTA
542254 AAAGCAGAAATTCATG
1 AAAGCAGAAATTCATG
*
542270 AAAGCATAAATTCAT
1 AAAGCAGAAATTCAT
542285 AAGCCATAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.13, G:0.13, T:0.23
Consensus pattern (16 bp):
AAAGCAGAAATTCATG
Found at i:546294 original size:3 final size:3
Alignment explanation
Indices: 546286--546317 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
546276 AACCTCTTGC
546286 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
546318 GCTTTGAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:546613 original size:23 final size:23
Alignment explanation
Indices: 546587--546635 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
546577 TTCATCTTAA
546587 ATAACTCATAATCAAGAGTGAGC
1 ATAACTCATAATCAAGAGTGAGC
*
546610 ATAACTCATAGTCAAGAGTGAGC
1 ATAACTCATAATCAAGAGTGAGC
546633 ATA
1 ATA
546636 CTTATCTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.22
Consensus pattern (23 bp):
ATAACTCATAATCAAGAGTGAGC
Found at i:547748 original size:21 final size:21
Alignment explanation
Indices: 547723--547778 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
547713 TTTTTGTCCA
*
547723 AATGTATCGATACACTCCAAC
1 AATGTATCGATACACTCAAAC
* *
547744 AATGTATCGATACATTCAAAT
1 AATGTATCGATACACTCAAAC
547765 AATGTATCGATACA
1 AATGTATCGATACA
547779 AGGTCCCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACACTCAAAC
Found at i:547871 original size:32 final size:33
Alignment explanation
Indices: 547816--547877 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
547806 TTCAACGATT
547816 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
547849 TGTATGGATACAT-AAGTGTTGTATCGATA
1 TGTATCGATACATAAAGTGTTGTATCGATA
547878 TATAAGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:547877 original size:19 final size:19
Alignment explanation
Indices: 547815--547898 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
547805 TTTCAACGAT
547815 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
547835 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
547849 -TGTATGGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
547867 TTGTATCGATATATAAGTG
1 TTGTATCGATACATAAGTG
547886 TTGTATCGATACA
1 TTGTATCGATACA
547899 ATGTATCGAT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
13 10 0.19
15 2 0.04
17 2 0.04
19 28 0.52
20 12 0.22
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:547892 original size:51 final size:52
Alignment explanation
Indices: 547815--547927 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 52
547805 TTTCAACGAT
*
547815 TTGTATCGATACATAAAGTGTTGTATCGATACAATGTATGGATACATAAGTG
1 TTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAGTG
* *
547867 TTGTATCGATATAT-AAGTGTTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAGTG
*
547918 TTATATCGAT
1 TTGTATCGAT
547928 CCAATGTAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 44 0.77
52 13 0.23
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.38
Consensus pattern (52 bp):
TTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAGTG
Found at i:547904 original size:32 final size:32
Alignment explanation
Indices: 547868--547935 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
547858 ACATAAGTGT
* *
547868 TGTATCGATATATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTATATCGATACAA
* *
547900 TGTATCGATACATAAGTTTTATATCGATCCAA
1 TGTATCGATACATAAGTGTTATATCGATACAA
547932 TGTA
1 TGTA
547936 AGCTACTGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTATATCGATACAA
Found at i:547905 original size:13 final size:13
Alignment explanation
Indices: 547887--547911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
547877 ATATAAGTGT
547887 TGTATCGATACAA
1 TGTATCGATACAA
547900 TGTATCGATACA
1 TGTATCGATACA
547912 TAAGTTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:547996 original size:20 final size:21
Alignment explanation
Indices: 547949--548006 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
547939 TACTGCCAAA
547949 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
547970 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
547991 -AATGTATCGATACATT
1 AAATGTATCGATACATT
548007 GTATCGATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 16 0.43
21 21 0.57
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.34
Consensus pattern (21 bp):
AAATGTATCGATACATTACTC
Found at i:548011 original size:13 final size:13
Alignment explanation
Indices: 547993--548017 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
547983 CATTACTCAA
547993 TGTATCGATACAT
1 TGTATCGATACAT
548006 TGTATCGATACA
1 TGTATCGATACA
548018 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:548082 original size:52 final size:52
Alignment explanation
Indices: 548026--548151 Score: 225
Period size: 52 Copynumber: 2.4 Consensus size: 52
548016 CACTGATCTT
*
548026 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
548078 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
548130 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
548152 ATTTCATATT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:554135 original size:15 final size:15
Alignment explanation
Indices: 554115--554145 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
554105 ATTTCGTTTG
*
554115 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
554130 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
554145 G
1 G
554146 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:555978 original size:21 final size:21
Alignment explanation
Indices: 555949--555993 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
555939 AAGTTTTCAT
*
555949 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
555969 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
555991 TTT
1 TTT
555994 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:561690 original size:34 final size:34
Alignment explanation
Indices: 561647--561914 Score: 281
Period size: 34 Copynumber: 8.1 Consensus size: 34
561637 GGAGGAGTTG
*
561647 ACAACTCCGTGGCACCTTTTTCTTTTTTAAGCCC
1 ACAACTCCGTGGCACCTTTTTCTTTTCTAAGCCC
* *
561681 ACAACTCCGTGGCACTCTTTTTC-CTTCTAAGTCC
1 ACAACTCCGTGGCAC-CTTTTTCTTTTCTAAGCCC
*
561715 ACAACTCCGTGGCACCTTTTTCTTTT-TAAAGCTC
1 ACAACTCCGTGGCACCTTTTTCTTTTCT-AAGCCC
* * * *
561749 ACAACTCCATGGCACGTTTTT-TCCTTCTAAGTCC
1 ACAACTCCGTGGCACCTTTTTCT-TTTCTAAGCCC
*
561783 ACAACTCCGTGGCACCTTTTTCTTTT-TAAAGCCT
1 ACAACTCCGTGGCACCTTTTTCTTTTCT-AAGCCC
561817 ACAACTCCGTGGCACC-----C-TTT-TAAGCCC
1 ACAACTCCGTGGCACCTTTTTCTTTTCTAAGCCC
* * *
561844 ACAACTCCCTGGCACTCTTTTTC-CTTCTAAGTCC
1 ACAACTCCGTGGCAC-CTTTTTCTTTTCTAAGCCC
* *
561878 ACAACTCCGTGGCACTTTTTTCTTTTCAAAGCCC
1 ACAACTCCGTGGCACCTTTTTCTTTTCTAAGCCC
561912 ACA
1 ACA
561915 CAAGTTGGTG
Statistics
Matches: 194, Mismatches: 25, Indels: 30
0.78 0.10 0.12
Matches are distributed among these distances:
27 19 0.10
28 5 0.03
29 1 0.01
33 19 0.10
34 141 0.73
35 9 0.05
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.35
Consensus pattern (34 bp):
ACAACTCCGTGGCACCTTTTTCTTTTCTAAGCCC
Found at i:561756 original size:68 final size:67
Alignment explanation
Indices: 561647--561899 Score: 326
Period size: 68 Copynumber: 3.8 Consensus size: 67
561637 GGAGGAGTTG
* *
561647 ACAACTCCGTGGCACCTTTTTCTTTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAG
1 ACAACTCCGTGGCACCTTTTTCTTTTTAAAGCTCACAACTCCGTGGCACT-TTTTTCCTTCTAAG
561712 TCC
65 TCC
*
561715 ACAACTCCGTGGCACCTTTTTCTTTTTAAAGCTCACAACTCCATGGCACGTTTTTTCCTTCTAAG
1 ACAACTCCGTGGCACCTTTTTCTTTTTAAAGCTCACAACTCCGTGGCAC-TTTTTTCCTTCTAAG
561780 TCC
65 TCC
*
561783 ACAACTCCGTGGCACCTTTTTCTTTTTAAAGC-CTACAACTCCGTGGCAC------CCTTTTAAG
1 ACAACTCCGTGGCACCTTTTTCTTTTTAAAGCTC-ACAACTCCGTGGCACTTTTTTCCTTCTAAG
*
561841 CCC
65 TCC
* * *
561844 ACAACTCCCTGGCACTCTTTTTCCTTCT-AAG-TCCACAACTCCGTGGCACTTTTTTC
1 ACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCT-CACAACTCCGTGGCACTTTTTTC
561900 TTTTCAAAGC
Statistics
Matches: 165, Mismatches: 9, Indels: 23
0.84 0.05 0.12
Matches are distributed among these distances:
61 42 0.25
62 11 0.07
67 2 0.01
68 109 0.66
69 1 0.01
ACGTcount: A:0.19, C:0.34, G:0.12, T:0.35
Consensus pattern (67 bp):
ACAACTCCGTGGCACCTTTTTCTTTTTAAAGCTCACAACTCCGTGGCACTTTTTTCCTTCTAAGT
CC
Found at i:561857 original size:61 final size:61
Alignment explanation
Indices: 561771--561892 Score: 167
Period size: 61 Copynumber: 2.0 Consensus size: 61
561761 CACGTTTTTT
* * * *
561771 CCTTCTAAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAG-CCTACAACTCCGTGGCAC
1 CCTTCTAAGCCCACAACTCCCTGGCACTCTTTTTCCTTCT-AAGTCC-ACAACTCCGTGGCAC
*
561832 CCTTTTAAGCCCACAACTCCCTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
1 CCTTCTAAGCCCACAACTCCCTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
561893 TTTTTTCTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
61 42 0.78
62 12 0.22
ACGTcount: A:0.20, C:0.37, G:0.12, T:0.30
Consensus pattern (61 bp):
CCTTCTAAGCCCACAACTCCCTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
Found at i:561865 original size:28 final size:29
Alignment explanation
Indices: 561803--561865 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 29
561793 GGCACCTTTT
* *
561803 TCTTTTTAAAGCCTACAACTCCGTGGCAC
1 TCTTTTTAAAGCCCACAACTCCCTGGCAC
*
561832 -CCTTTT-AAGCCCACAACTCCCTGGCAC
1 TCTTTTTAAAGCCCACAACTCCCTGGCAC
561859 TCTTTTT
1 TCTTTTT
561866 CCTTCTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.21, C:0.35, G:0.11, T:0.33
Consensus pattern (29 bp):
TCTTTTTAAAGCCCACAACTCCCTGGCAC
Found at i:562043 original size:33 final size:32
Alignment explanation
Indices: 561905--562121 Score: 292
Period size: 32 Copynumber: 6.7 Consensus size: 32
561895 TTTTCTTTTC
561905 AAAGCCCACACAAGTTGGTGGCAACCCT-TCT
1 AAAGCCCACACAAGTTGGTGGCAACCCTCTCT
* * *
561936 CAAAGCCCACACAAGTCGGTCGTAACCCTCTCT
1 -AAAGCCCACACAAGTTGGTGGCAACCCTCTCT
* *
561969 AAAGCCCACACAAGTCGGTAGCAACCCTCTCT
1 AAAGCCCACACAAGTTGGTGGCAACCCTCTCT
*
562001 AAAGCCCACACAAGTTGGTGGCAACCATTCTCT
1 AAAGCCCACACAAGTTGGTGGCAACC-CTCTCT
* * * *
562034 AAAGGCCACACAAGTCGGTGGCAACCTTTTTCT
1 AAAGCCCACACAAGTTGGTGGCAACC-CTCTCT
* *
562067 AAAGCCCACACAAGTTGGTGGCAACCCCCTCA
1 AAAGCCCACACAAGTTGGTGGCAACCCTCTCT
562099 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTTGGTGGCA
562122 TCTTCCTTTA
Statistics
Matches: 165, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
32 104 0.63
33 61 0.37
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (32 bp):
AAAGCCCACACAAGTTGGTGGCAACCCTCTCT
Found at i:562104 original size:98 final size:96
Alignment explanation
Indices: 561905--562121 Score: 326
Period size: 98 Copynumber: 2.2 Consensus size: 96
561895 TTTTCTTTTC
* *
561905 AAAGCCCACACAAGTTGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTCGTAACCCTCTCTA
1 AAAGCCCACACAAGTTGGTGGCAACCATTCTCAAAGCCCACACAAGTCGGTCGCAACCCTCTCTA
* *
561970 AAGCCCACACAAGTCGGTAGCAACCCTCTCT
66 AAGCCCACACAAGTCGGTAGCAACCCCCTCA
* * * *
562001 AAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGGCCACACAAGTCGGTGGCAACCTTTTTC
1 AAAGCCCACACAAGTTGGTGGCAACCATTCTC-AAAGCCCACACAAGTCGGTCGCAACC-CTCTC
* *
562066 TAAAGCCCACACAAGTTGGTGGCAACCCCCTCA
64 TAAAGCCCACACAAGTCGGTAGCAACCCCCTCA
562099 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTTGGTGGCA
562122 TCTTCCTTTA
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
96 31 0.28
97 23 0.21
98 55 0.50
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (96 bp):
AAAGCCCACACAAGTTGGTGGCAACCATTCTCAAAGCCCACACAAGTCGGTCGCAACCCTCTCTA
AAGCCCACACAAGTCGGTAGCAACCCCCTCA
Found at i:562297 original size:49 final size:47
Alignment explanation
Indices: 562127--562590 Score: 502
Period size: 49 Copynumber: 9.8 Consensus size: 47
562117 TGGCATCTTC
* * *
562127 CTTTAAGTCCGATATAGCTGGCCTTGAATCAACATATTGGCACCTTGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TCT
* * *
562175 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGTACATTGGCACCT-T
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCT
*
562221 C---AAGTCCAATATAGCTGGCCTTGAATCAGCATATTTGCACCATCGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TC-T
* * *
562267 CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCATCTTCT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTCT
* * *
562315 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCACCTTCAT
1 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TC-T
* * *
562365 CTTTAAGTCCAATGTAGCCGGCCTTGAATCAGCACATTGGCA---C-
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCT
*
562408 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTGCGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT-C-T
* * *
562457 CTTTAAGTCCAATGTAGCAGGCCTTGAATCAGCACATTGGCA---C-
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCT
562500 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC---T-C-T
* * * *
562552 CTTTAAGTTCAATGTAGCTGGCCTTAAATCAGCACATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
562591 ACATCCTTTT
Statistics
Matches: 353, Mismatches: 38, Indels: 46
0.81 0.09 0.11
Matches are distributed among these distances:
43 113 0.32
44 1 0.00
45 2 0.01
46 4 0.01
47 2 0.01
48 41 0.12
49 152 0.43
50 3 0.01
52 35 0.10
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (47 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCT
Found at i:562308 original size:92 final size:91
Alignment explanation
Indices: 562126--562599 Score: 633
Period size: 92 Copynumber: 5.1 Consensus size: 91
562116 GTGGCATCTT
* * *
562126 CCTTTAAGTCCGATATAGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGTCCAATGTA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCGTCTTTAAGTCCAATGTA
*
562191 GCTGGCCTTGAATCAGTACATTGGCA
66 GCTGGCCTTGAATCAGCACATTGGCA
* * *
562217 CCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCATATTTGCACCATCGTCTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TCGTCTTTAAGTCCAATGT
* * *
562282 CGCTGGCCTTAAATCAGCATATTGGCA
65 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
562309 TCTTCTCCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCACCTTCATCTTTAAGTC
1 ------CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TCGTCTTTAAGTC
*
562374 CAATGTAGCCGGCCTTGAATCAGCACATTGGCA
59 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
562407 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTGCGTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT-CGTCTTTAAGTCCAATGT
*
562472 AGCAGGCCTTGAATCAGCACATTGGCA
65 AGCTGGCCTTGAATCAGCACATTGGCA
* *
562499 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC---T-CGTCTTTAAGTCCAA
* *
562564 TGTAGCTGGCCTTAAATCAGCACATTGACA
62 TGTAGCTGGCCTTGAATCAGCACATTGGCA
562594 TCCTTT
1 -CCTTT
562600 TTCTCATCTT
Statistics
Matches: 339, Mismatches: 32, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
91 42 0.12
92 170 0.50
95 41 0.12
96 5 0.01
98 81 0.24
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (91 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCGTCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCA
Found at i:562546 original size:43 final size:43
Alignment explanation
Indices: 562315--562546 Score: 266
Period size: 43 Copynumber: 5.1 Consensus size: 43
562305 GGCATCTTCT
* * *
562315 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
562358 CCTTCATCTTTAAGTCCAATGTAGCCGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
*
562407 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
562450 CCTGCGTCTTTAAGTCCAATGTAGCAGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
562499 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
562542 CCTTT
1 CCTTT
562547 TCCATCTTTA
Statistics
Matches: 160, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
43 82 0.51
45 2 0.01
47 2 0.01
49 74 0.46
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
Found at i:562582 original size:52 final size:55
Alignment explanation
Indices: 562500--562621 Score: 160
Period size: 52 Copynumber: 2.3 Consensus size: 55
562490 ACATTGGCAC
* * *
562500 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
* *
562552 CTTTAAGTTCAATGTAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
**
562607 CTTTAAACCCAATAT
1 CTTTAAGTCCAATAT
562622 CGTTGGCCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 37 0.64
53 2 0.03
54 5 0.09
55 14 0.24
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:562637 original size:55 final size:52
Alignment explanation
Indices: 562508--562637 Score: 143
Period size: 52 Copynumber: 2.4 Consensus size: 52
562498 ACCTTTAAGT
* * **
562508 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCTTTAAAC
* * *
562560 TCAATGTAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTCTCATCTTTAAAC
1 CCAATATAGCTGGCCTTGAATCAGCACATTGACA-CC-TTTTC-CATCTTTAAAC
* * *
562615 CCAATATCGTTGGCCATGAATCA
1 CCAATATAGCTGGCCTTGAATCA
562638 ACATATTAGC
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
52 29 0.47
53 2 0.03
54 5 0.08
55 26 0.42
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (52 bp):
CCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCTTTAAAC
Found at i:562755 original size:120 final size:120
Alignment explanation
Indices: 562551--562834 Score: 330
Period size: 120 Copynumber: 2.3 Consensus size: 120
562541 ACCTTTTCCA
* * * **
562551 TCTTTAAGTTCAATGTAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTC-TCATCTTTAAAC
1 TCTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGTATCC----TCATCATCTTTAAAC
*
562615 CCAATATCGTTGGCCATGAATCAACATATTAG-CATCTTTATCACT-TTT-CTCAC-CTTCT
62 CCAATATCGTTGGCCATGAATCAACATATTAGTCAT-TTTATCACTCTTTAC-C-CTCATCT
*
562673 TCTTTAAGTACCATAT-T-GCTGACCTTGAATCAGCATATTGGTATCCTCATCATCTTTAAAACC
1 TCTTTAAGT-CCA-ATGTAGCTGACCTTGAATCAGCACATTGGTATCCTCATCATCTTT-AAACC
* * *
562736 CAATATCGTTGGCCGTGAATCAACATATTGGTCCTTTTATCACTCTTTACCCTCATCT
63 CAATATCGTTGGCCATGAATCAACATATTAGTCATTTTATCACTCTTTACCCTCATCT
*
562794 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 TCTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGG
562835 CACCTTTAAG
Statistics
Matches: 140, Mismatches: 12, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
118 2 0.01
119 10 0.07
120 48 0.34
121 41 0.29
122 34 0.24
123 3 0.02
124 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (120 bp):
TCTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGTATCCTCATCATCTTTAAACCCAA
TATCGTTGGCCATGAATCAACATATTAGTCATTTTATCACTCTTTACCCTCATCT
Found at i:562858 original size:43 final size:43
Alignment explanation
Indices: 562795--563066 Score: 337
Period size: 43 Copynumber: 6.0 Consensus size: 43
562785 CCCTCATCTT
*
562795 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
562838 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
562885 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
562930 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
562977 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
563022 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTAGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
563065 CT
1 CT
563067 GTTCCATCTT
Statistics
Matches: 199, Mismatches: 18, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
43 118 0.59
45 2 0.01
47 2 0.01
49 77 0.39
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:562910 original size:49 final size:44
Alignment explanation
Indices: 562886--563120 Score: 242
Period size: 43 Copynumber: 5.1 Consensus size: 44
562876 GGCACCTTCA
562886 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
562930 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCATCTTC
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
562977 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 -TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
563022 -CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTAGCACCTGTTCC
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C
* *
563072 ATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACA-
1 -TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
563116 TCTTT
1 TCTTT
563121 TTTCTCATCT
Statistics
Matches: 158, Mismatches: 18, Indels: 31
0.76 0.09 0.15
Matches are distributed among these distances:
43 81 0.51
45 1 0.01
47 1 0.01
49 38 0.24
50 1 0.01
52 36 0.23
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (44 bp):
TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:562951 original size:92 final size:92
Alignment explanation
Indices: 562794--563112 Score: 548
Period size: 92 Copynumber: 3.4 Consensus size: 92
562784 ACCCTCATCT
562794 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
562859 CCTTGAATCAGCATATTGGCACCTTCA
66 CCTTGAATCAGCATATTGGCACCTTCA
562886 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
* * *
562951 CCTTGAATCAGCATATTGCCATCTTCT
66 CCTTGAATCAGCATATTGGCACCTTCA
* *
562978 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGTTGG
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
*
563043 CCTTGAATCAGCATATTAGCACCTGTTCCA
66 CCTTGAATCAGCATATTGGCACC--TT-CA
*
563073 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
563113 ACATCTTTTT
Statistics
Matches: 214, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
92 172 0.80
94 2 0.01
95 40 0.19
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
CCTTGAATCAGCATATTGGCACCTTCA
Found at i:563822 original size:13 final size:13
Alignment explanation
Indices: 563804--563860 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
563794 CATAAAGTGT
563804 TGTATCGATACAA
1 TGTATCGATACAA
563817 TGTATCGATACATAA
1 TGTATCGATAC--AA
563832 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
563849 TGTATCGATACA
1 TGTATCGATACA
563861 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:563839 original size:32 final size:32
Alignment explanation
Indices: 563784--563884 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
563774 TTCAACGATT
563784 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
563817 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
563849 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
563881 TGTA
1 TGTA
563885 AGCTACTGCC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 54 0.81
33 13 0.19
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:563841 original size:19 final size:18
Alignment explanation
Indices: 563782--563879 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
563772 ATTTCAACGA
563782 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
563801 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
563817 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
563833 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
563849 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
563865 TTTTGTATCGATACA
1 -TTTGTATCGATACA
563880 ATGTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:563940 original size:13 final size:13
Alignment explanation
Indices: 563922--563946 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
563912 ATTACTCAAA
563922 TGTATCGATACAT
1 TGTATCGATACAT
563935 TGTATCGATACA
1 TGTATCGATACA
563947 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:563970 original size:86 final size:85
Alignment explanation
Indices: 563836--564019 Score: 223
Period size: 86 Copynumber: 2.2 Consensus size: 85
563826 ACATAAGTGT
* *
563836 TGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAATGTAAGC-TA-CTGCCAAAA
1 TGTATCGATACATTGTATCGATACATAAGTTTTGTATCGATACAATGTAAGCAAATCTGCC--AA
*
563899 AATGTATCGATACATTACTCAAA
64 AATGTATCGATACATTA-TAAAA
* * * *
563922 TGTATCGATACATTGTATCGATACACTGA-TCTTTGTATCGATAC-ATGTAGGCAAATTTGCCCA
1 TGTATCGATACATTGTATCGATACA-TAAGT-TTTGTATCGATACAATGTAAGCAAATCTGCCAA
*
563985 GATGTATCGATACATTATAAAA
64 AATGTATCGATACATTATAAAA
564007 TGTATCGATACAT
1 TGTATCGATACAT
564020 ACAGGCGAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
85 17 0.20
86 49 0.57
87 16 0.19
88 4 0.05
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (85 bp):
TGTATCGATACATTGTATCGATACATAAGTTTTGTATCGATACAATGTAAGCAAATCTGCCAAAA
TGTATCGATACATTATAAAA
Found at i:564011 original size:52 final size:52
Alignment explanation
Indices: 563955--564061 Score: 169
Period size: 52 Copynumber: 2.1 Consensus size: 52
563945 CACTGATCTT
** *
563955 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
564007 TGTATCGATACATACAGGCGAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
564059 TGT
1 TGT
564062 GTTAGGATCT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:574454 original size:42 final size:42
Alignment explanation
Indices: 574407--574525 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
574397 TTCTTCTTTC
* *
574407 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
574449 CTCCTCCTATCATCCCTCCTATCTCTACTATCTTTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* * *
574491 CTCCTCCTATCATCTCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
574526 TTGAGGGCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.08, C:0.45, G:0.03, T:0.45
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:574467 original size:24 final size:24
Alignment explanation
Indices: 574431--574516 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
574421 CCTCCTCTCT
*
574431 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCTCTCCTGTCTCTCCTC
* * *
574455 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCTCTCCTGTCTCTCCTC
574476 CTATC-T-T-TCCTGTCTCTCCTC
1 CTATCATCTCTCCTGTCTCTCCTC
*
574497 CTATCATCTCTCCTCTCTCT
1 CTATCATCTCTCCTGTCTCT
574517 TCTTTCTCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
18 3 0.06
20 5 0.10
21 14 0.29
22 5 0.10
23 1 0.02
24 20 0.42
ACGTcount: A:0.10, C:0.43, G:0.02, T:0.44
Consensus pattern (24 bp):
CTATCATCTCTCCTGTCTCTCCTC
Found at i:581880 original size:52 final size:52
Alignment explanation
Indices: 581802--581930 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
581792 CGAAATATGA
* *
581802 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
581854 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
581906 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
581931 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:581943 original size:52 final size:51
Alignment explanation
Indices: 581802--581950 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
581792 CGAAATATGA
*
581802 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
581854 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
581906 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
581951 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:581957 original size:13 final size:13
Alignment explanation
Indices: 581939--581963 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
581929 CAAAGATCAG
581939 TGTATCGATACAA
1 TGTATCGATACAA
581952 TGTATCGATACA
1 TGTATCGATACA
581964 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:582041 original size:33 final size:33
Alignment explanation
Indices: 582004--582070 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
581994 AGTAGCTTAA
582004 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
582037 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
582070 A
1 A
582071 AAGCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:582044 original size:13 final size:13
Alignment explanation
Indices: 582026--582050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
582016 CAAAAAAATA
582026 TGTATCGATACAT
1 TGTATCGATACAT
582039 TGTATCGATACA
1 TGTATCGATACA
582051 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:582523 original size:13 final size:14
Alignment explanation
Indices: 582507--582535 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
582497 AAATAAACAC
582507 AAAAACA-AGAAAA
1 AAAAACATAGAAAA
582520 AAAAACATAGAAAA
1 AAAAACATAGAAAA
582534 AA
1 AA
582536 GGTGCAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.83, C:0.07, G:0.07, T:0.03
Consensus pattern (14 bp):
AAAAACATAGAAAA
Found at i:583710 original size:16 final size:17
Alignment explanation
Indices: 583685--583722 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
583675 TTGTGCTATA
* *
583685 ATCATGACATC-ATGAC
1 ATCATAACATCAATAAC
583701 ATCATAACATCAATAAC
1 ATCATAACATCAATAAC
583718 ATCAT
1 ATCAT
583723 TATTTGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (17 bp):
ATCATAACATCAATAAC
Found at i:583896 original size:30 final size:29
Alignment explanation
Indices: 583820--584040 Score: 207
Period size: 30 Copynumber: 7.1 Consensus size: 29
583810 TCTTCAAATA
* *
583820 CTTTCTCAAAGTCCATGACTCAGTGGCAT
1 CTTTCTCAAAGTCCACGACTTAGTGGCAT
583849 CTTTCCTTCTTAAAGTCCACGACTTAGTGGCAT
1 CTTT-C-TC--AAAGTCCACGACTTAGTGGCAT
*
583882 CTTGTCTCAAAGTCCAC-AATTCAGTGGCATCT
1 CTT-TCTCAAAGTCCACGACTT-AGTGGCA--T
583914 CTTTCTCAAAGTCCACGACTTAGTGGCAT
1 CTTTCTCAAAGTCCACGACTTAGTGGCAT
583943 CTTTCCTTCTTAAAGTCCACGACTTAGTGGCAT
1 CTTT-C-TC--AAAGTCCACGACTTAGTGGCAT
*
583976 CTTGTCTCAAAGTCCAC-AATTCAGTGGCAT
1 CTT-TCTCAAAGTCCACGACTT-AGTGGCAT
*
584006 CTCTT-TCCAAAGTCCACAACTCT-GTGGCACT
1 CT-TTCT-CAAAGTCCACGACT-TAGTGGCA-T
584037 CTTT
1 CTTT
584041 TTCCCTTTCA
Statistics
Matches: 166, Mismatches: 6, Indels: 39
0.79 0.03 0.18
Matches are distributed among these distances:
29 16 0.10
30 56 0.34
31 30 0.18
32 12 0.07
33 50 0.30
34 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (29 bp):
CTTTCTCAAAGTCCACGACTTAGTGGCAT
Found at i:583981 original size:94 final size:94
Alignment explanation
Indices: 583820--584040 Score: 383
Period size: 94 Copynumber: 2.4 Consensus size: 94
583810 TCTTCAAATA
* *
583820 CTTTCTCAAAGTCCATGACTCAGTGGCATCTTTCCTTCTTAAAGTCCACGACTTAGTGGCATCTT
1 CTTTCTCAAAGTCCACGACTTAGTGGCATCTTTCCTTCTTAAAGTCCACGACTTAGTGGCATCTT
583885 GTCTCAAAGTCCACAATTCAGTGGCATCT
66 GTCTCAAAGTCCACAATTCAGTGGCATCT
583914 CTTTCTCAAAGTCCACGACTTAGTGGCATCTTTCCTTCTTAAAGTCCACGACTTAGTGGCATCTT
1 CTTTCTCAAAGTCCACGACTTAGTGGCATCTTTCCTTCTTAAAGTCCACGACTTAGTGGCATCTT
583979 GTCTCAAAGTCCACAATTCAGTGGCATCT
66 GTCTCAAAGTCCACAATTCAGTGGCATCT
*
584008 CTTTC-CAAAGTCCACAACTCT-GTGGCACTCTTT
1 CTTTCTCAAAGTCCACGACT-TAGTGGCA-TCTTT
584041 TTCCCTTTCA
Statistics
Matches: 122, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
93 19 0.16
94 103 0.84
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (94 bp):
CTTTCTCAAAGTCCACGACTTAGTGGCATCTTTCCTTCTTAAAGTCCACGACTTAGTGGCATCTT
GTCTCAAAGTCCACAATTCAGTGGCATCT
Found at i:584006 original size:63 final size:61
Alignment explanation
Indices: 583822--584040 Score: 193
Period size: 63 Copynumber: 3.5 Consensus size: 61
583812 TTCAAATACT
* *
583822 TTCTCAAAGTCCATGACTCAGTGGCATCTTTCCTTCTTAAAGTCCACGACTTAGTGGCATCTTGT
1 TTCT-AAAGTCCACGACTTAGTGGCATCTTT-C-TC--AAAGTCCACGACTTAGTGGCATCTTGT
583887 C
61 C
*
583888 -TC-AAAGTCCAC-AATTCAGTGGCATCTCTTTCTCAAAGTCCACGACTTAGTGGCATCTT-TCC
1 TTCTAAAGTCCACGACTT-AGTGGCA--TCTTTCTCAAAGTCCACGACTTAGTGGCATCTTGT-C
* *
583949 TTCTTAAAGTCCACGACTTAGTGGCATCTTGTCTCAAAGTCCAC-AATTCAGTGGCATC-TCT-
1 TTC-TAAAGTCCACGACTTAGTGGCATCTT-TCTCAAAGTCCACGACTT-AGTGGCATCTTGTC
* *
584010 TTCCAAAGTCCACAACTCT-GTGGCACTCTTT
1 TTCTAAAGTCCACGACT-TAGTGGCA-TCTTT
584041 TTCCCTTTCA
Statistics
Matches: 133, Mismatches: 7, Indels: 32
0.77 0.04 0.19
Matches are distributed among these distances:
60 20 0.15
61 34 0.26
62 12 0.09
63 40 0.30
64 17 0.13
65 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (61 bp):
TTCTAAAGTCCACGACTTAGTGGCATCTTTCTCAAAGTCCACGACTTAGTGGCATCTTGTC
Found at i:584084 original size:27 final size:27
Alignment explanation
Indices: 584043--584164 Score: 100
Period size: 27 Copynumber: 4.3 Consensus size: 27
584033 CACTCTTTTT
* * * *
584043 CCCTTTCAAGTCCACAATTTCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCA
584070 CCCTTTTAAGCCCACAACTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCA
* **
584097 CTCTTTTTCCTTCTAAGTACACAACTCCGTGGCA
1 --C-----CCTTTTAAGCCCACAACTCCGTGGCA
*
584131 CCCTTTTAAGCCCACAACTCCATGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCA
*
584158 CTCTTTT
1 CCCTTTT
584165 TCCTTCTAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
27 51 0.67
29 1 0.01
32 1 0.01
34 23 0.30
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.30
Consensus pattern (27 bp):
CCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:584125 original size:34 final size:34
Alignment explanation
Indices: 584071--584396 Score: 371
Period size: 34 Copynumber: 10.0 Consensus size: 34
584061 TTCGTGGCAC
* *
584071 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTCTAAGTCCACAACTCCGTGGCACTCTTTTT
*
584105 CCTTCTAAGTACACAACTCCGTGGCA--C-----
1 CCTTCTAAGTCCACAACTCCGTGGCACTCTTTTT
* * *
584132 CCTTTTAAGCCCACAACTCCATGGCACTCTTTTT
1 CCTTCTAAGTCCACAACTCCGTGGCACTCTTTTT
584166 CCTTCTAAGTCCACAACTCCGTGGCACT-TTTTT
1 CCTTCTAAGTCCACAACTCCGTGGCACTCTTTTT
* * *
584199 CTTTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 C-CTTCTAAGTCCACAACTCCGTGGCACTCTTTTT
584234 CCTTCTAAGTCCACAACTCCGTGGCAC-CTTTTT
1 CCTTCTAAGTCCACAACTCCGTGGCACTCTTTTT
* * * *
584267 CTTTTTAAAGCCCACAACTCCATGGCACTCTTTTT
1 CCTTCT-AAGTCCACAACTCCGTGGCACTCTTTTT
*
584302 CCTTCTAAGTCCACAACTCCGTGACAC-C---TT
1 CCTTCTAAGTCCACAACTCCGTGGCACTCTTTTT
* *
584332 --TT-TAAGCCCACAACTCCCTGGCACTCTTTTT
1 CCTTCTAAGTCCACAACTCCGTGGCACTCTTTTT
584363 CCTTCTAAGTCCACAACTCCGTGGCACT-TTTTT
1 CCTTCTAAGTCCACAACTCCGTGGCACTCTTTTT
584396 C
1 C
584397 TTTTCAAAGC
Statistics
Matches: 244, Mismatches: 30, Indels: 37
0.78 0.10 0.12
Matches are distributed among these distances:
27 41 0.17
28 3 0.01
29 1 0.00
30 2 0.01
31 2 0.01
32 1 0.00
33 25 0.10
34 153 0.63
35 16 0.07
ACGTcount: A:0.20, C:0.35, G:0.11, T:0.34
Consensus pattern (34 bp):
CCTTCTAAGTCCACAACTCCGTGGCACTCTTTTT
Found at i:584143 original size:61 final size:61
Alignment explanation
Indices: 584019--584389 Score: 501
Period size: 61 Copynumber: 5.8 Consensus size: 61
584009 TTTCCAAAGT
* * *
584019 CCACAACTCTGTGGCACTCTTTTTCCCTT-TCAAGTCCACAATTTCGTGGCACCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACAACTCCGTGGCACCCTTTTAAGC
*
584081 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTACACAACTCCGTGGCACCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
* *
584142 CCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTTCTTTTTTA
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC------C-CTTTTA
584207 AGC
59 AGC
584210 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAA
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC-----C-TTTT-A
584275 AGC
59 AGC
* * *
584278 CCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGACACCTTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
*
584339 CCACAACTCCCTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
584390 TTTTTTCTTT
Statistics
Matches: 281, Mismatches: 14, Indels: 29
0.87 0.04 0.09
Matches are distributed among these distances:
61 134 0.48
62 29 0.10
66 1 0.00
67 5 0.02
68 112 0.40
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (61 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
Found at i:584243 original size:68 final size:68
Alignment explanation
Indices: 584134--584411 Score: 444
Period size: 68 Copynumber: 4.2 Consensus size: 68
584124 CGTGGCACCC
584134 TTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTT
1 TTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTT
584199 CTT
66 CTT
* *
584202 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTT
1 TTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTT
584267 CTT
66 CTT
* *
584270 TTTAAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGACAC------
1 TTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTT
584329 C-T
66 CTT
*
584331 TTTTAAGCCCACAACTCCCTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTT
1 TTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTT
584396 CTT
66 CTT
**
584399 TTCAAAGCCCACA
1 TTTTAAGCCCACA
584412 CAAGTCGGTG
Statistics
Matches: 193, Mismatches: 10, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
61 57 0.30
62 1 0.01
67 1 0.01
68 134 0.69
ACGTcount: A:0.21, C:0.34, G:0.10, T:0.35
Consensus pattern (68 bp):
TTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTT
CTT
Found at i:584395 original size:129 final size:128
Alignment explanation
Indices: 584014--584411 Score: 549
Period size: 129 Copynumber: 3.1 Consensus size: 128
584004 ATCTCTTTCC
* ** * * *
584014 AAAGTCCACAACTCTGTGGCACTCTTTTTCCCTT-TCAAGTCCACAATTTCGTGGCACCCTTTTA
1 AAAGCCCACAACTCCATGGCACTCTTTTT-CCTTCT-AAGTCCACAACTCCGTGGCACCTTTTTA
* *
584078 AGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTACACAACTCCGTGGCAC-----CCTTTT
64 AGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTCTTTTT
584138 -AAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTTCTT
1 AAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC------C-T
584202 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTT
59 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCA-CTTTTT
584267 CTTTTT
123 CTTTTT
*
584273 AAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGACACCTTTTTAAG
1 AAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTAAG
* *
584338 CCCACAACTCCCTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTTCTTTTC
66 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC-TTTTTCTTTTT
584402 AAAGCCCACA
1 AAAGCCCACA
584412 CAAGTCGGTG
Statistics
Matches: 247, Mismatches: 11, Indels: 27
0.87 0.04 0.09
Matches are distributed among these distances:
122 23 0.09
123 26 0.11
128 2 0.01
129 135 0.55
130 2 0.01
135 5 0.02
136 54 0.22
ACGTcount: A:0.21, C:0.34, G:0.11, T:0.33
Consensus pattern (128 bp):
AAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTAAG
CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTTTCTTTTT
Found at i:584411 original size:34 final size:34
Alignment explanation
Indices: 584335--584411 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
584325 ACACCTTTTT
*
584335 AAGCCCACAACTCCCTGGCACTCTTTTTCCTTCT
1 AAGCCCACAACTCCCTGGCACTCTTTTTCCTTCA
* * *
584369 AAGTCCACAACTCCGTGGCACT-TTTTTCTTTTCA
1 AAGCCCACAACTCCCTGGCACTCTTTTTC-CTTCA
584403 AAGCCCACA
1 AAGCCCACA
584412 CAAGTCGGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 6 0.16
34 31 0.84
ACGTcount: A:0.22, C:0.36, G:0.10, T:0.31
Consensus pattern (34 bp):
AAGCCCACAACTCCCTGGCACTCTTTTTCCTTCA
Found at i:584614 original size:32 final size:32
Alignment explanation
Indices: 584402--584610 Score: 303
Period size: 32 Copynumber: 6.5 Consensus size: 32
584392 TTTTCTTTTC
584402 AAAGCCCACACAAGTCGGTGGCAACCCT-TCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTCTCT
584433 CAAAGCCCACACAAGTCGGTGGCAACCCTCTCT
1 -AAAGCCCACACAAGTCGGTGGCAACCCTCTCT
584466 AAAGCCCACACAAGTCGGTGGCAACCCTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTCTCT
* * *
584498 AAAGCCCAGACAAGTTGGTGGCAACCATTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACC-CTCTCT
* *
584531 AAAGCCCACACAAGTCGGTGGCAACCTTTTTCT
1 AAAGCCCACACAAGTCGGTGGCAACC-CTCTCT
* * *
584564 AAAGCCCACACAAGTTGGTGGCAACCCCCTCA
1 AAAGCCCACACAAGTCGGTGGCAACCCTCTCT
*
584596 AAAGCCCACATAAGT
1 AAAGCCCACACAAGT
584611 TGGTAGCATC
Statistics
Matches: 162, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
32 100 0.62
33 62 0.38
ACGTcount: A:0.30, C:0.34, G:0.19, T:0.17
Consensus pattern (32 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTCTCT
Found at i:584791 original size:49 final size:48
Alignment explanation
Indices: 584624--585087 Score: 503
Period size: 49 Copynumber: 9.8 Consensus size: 48
584614 TAGCATCTTC
* * *
584624 CTTTAAGTCCGATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCT
* *
584672 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-T-T
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCT
584718 C---AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATC-T
* * *
584764 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCT
* *
584812 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATC-T
* * * *
584862 CTTTAAGTCCAATGTAGCCGGCCTTGAATCAACACATTGG---CA-C-
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCT
*
584905 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TACGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCAT-C-T
* * *
584954 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTTG---CA-C-
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCT
* *
584997 CTTTAAGTCCAATATAGCTTGCCTTGAATCAACATATTGGCA-CATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCA---T-C-T
* * * *
585049 CTTTAAGTTCAATGTAGCTGGCCTTAAATCAGCACATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
585088 ACATCCTTTT
Statistics
Matches: 356, Mismatches: 35, Indels: 46
0.81 0.08 0.11
Matches are distributed among these distances:
43 108 0.30
44 1 0.00
45 4 0.01
46 7 0.02
47 2 0.01
48 42 0.12
49 157 0.44
50 2 0.01
52 33 0.09
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (48 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCT
Found at i:584805 original size:92 final size:91
Alignment explanation
Indices: 584623--585096 Score: 651
Period size: 92 Copynumber: 5.1 Consensus size: 91
584613 GTAGCATCTT
* **
584623 CCTTTAAGTCCGATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGTCCAATGTA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGTA
584688 GCTGGCCTTGAATCAGCACATTGGCA
66 GCTGGCCTTGAATCAGCACATTGGCA
* *
584714 CCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TCATCTTTAAGTCCAATGT
* *
584779 CGCTGGCCTTGAATCAGCATATTGGCA
65 AGCTGGCCTTGAATCAGCACATTGGCA
*
584806 TCTTCTCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
1 ------CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TCATCTTTAAGTC
* *
584871 CAATGTAGCCGGCCTTGAATCAACACATTGGCA
59 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* *
584904 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTACGTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT-CATCTTTAAGTCCAATGT
*
584969 AGCTGGCCTTGAATCAGCACATTTGCA
65 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
584996 CCTTTAAGTCCAATATAGCTTGCCTTGAATCAACATATTGGCACATTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC---CT-CATCTTTAAGTCCAA
* *
585061 TGTAGCTGGCCTTAAATCAGCACATTGACA
62 TGTAGCTGGCCTTGAATCAGCACATTGGCA
585091 TCCTTT
1 -CCTTT
585097 TTCTCATCTT
Statistics
Matches: 342, Mismatches: 29, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
91 44 0.13
92 168 0.49
95 41 0.12
96 5 0.01
98 84 0.25
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (91 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCA
Found at i:584909 original size:141 final size:138
Alignment explanation
Indices: 584623--585039 Score: 562
Period size: 141 Copynumber: 3.0 Consensus size: 138
584613 GTAGCATCTT
* * *
584623 CCTTTAAGTCCGATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGTCCAATGTA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTTTAAGTCCAATGTA
*
584688 GCTGGCCTTGAATCAGCACATTGGCACCT-TC---AAGTCCAATATAGCTGGCCTTGAATCAGCA
66 GCTGGCCTTGAATCAGCACATTGGCACCTCTCTTTAAGTCCAATATAGCTGGCCTTGAATCAACA
584749 TATTGGCACCA
131 TATTGG---CA
*
584760 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCTCCTTTAAGTCCAA
1 -C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCT-CTTTAAGTCCAA
* * * * *
584825 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCCGGCCTTGAA
62 TGTAGCTGGCCTTGAATCAGCACATTGGCACC-TC-TCTTTAAGTCCAATATAGCTGGCCTTGAA
*
584890 TCAACACATTGGCA
125 TCAACATATTGGCA
*
584904 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTACGTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCTTTAAGTCCAATGT
* *
584969 AGCTGGCCTTGAATCAGCACATTTGCA---C-CTTTAAGTCCAATATAGCTTGCCTTGAATCAAC
65 AGCTGGCCTTGAATCAGCACATTGGCACCTCTCTTTAAGTCCAATATAGCTGGCCTTGAATCAAC
585030 ATATTGGCA
130 ATATTGGCA
585039 C
1 C
585040 ATTTTCCATC
Statistics
Matches: 248, Mismatches: 21, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
135 39 0.16
137 1 0.00
138 1 0.00
140 44 0.18
141 124 0.50
142 2 0.01
143 1 0.00
144 4 0.02
147 32 0.13
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (138 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCACCTCTCTTTAAGTCCAATATAGCTGGCCTTGAATCAACA
TATTGGCA
Found at i:585272 original size:120 final size:119
Alignment explanation
Indices: 585048--585325 Score: 337
Period size: 120 Copynumber: 2.3 Consensus size: 119
585038 ACATTTTCCA
* * ** *
585048 TCTTTAAGTTCAATGTAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTC-TCATCTTTAAAC
1 TCTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATGTTGGCAT-C---TTCATCATCTTTAAAC
* *
585112 CCAATATCATTGGCCATGAATCAACATATTAGCATCTTTATCACTTTTCTCACCT-TCT
62 CCAATATCATTGGCCATGAATCAACATATTAGCATCTTTATCACTCTTCAC-CCTCTCT
* * *
585170 TCTTTATGTCCAATATTGCTGGCCTTGAATCAGCATGTTGGCATCTTCATCATCTTTAAAACCCA
1 TCTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATGTTGGCATCTTCATCATCTTT-AAACCCA
* * *
585235 ATATCATTGGCCGTGAATCAACATATT-GGACCTTTTATCACTCTTCACCCTCGTCT
65 ATATCATTGGCCATGAATCAACATATTAGCATC-TTTATCACTCTTCACCCTC-TCT
*
585291 TCTTTAAGTCCAATGTAGCTGGCCTTAAATCAGCA
1 TCTTTAAGTCCAATATAGCTGGCCTTAAATCAGCA
585326 CATTGGCACC
Statistics
Matches: 134, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.02
119 14 0.10
120 46 0.34
121 35 0.26
122 36 0.27
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.37
Consensus pattern (119 bp):
TCTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATGTTGGCATCTTCATCATCTTTAAACCCAA
TATCATTGGCCATGAATCAACATATTAGCATCTTTATCACTCTTCACCCTCTCT
Found at i:585355 original size:43 final size:43
Alignment explanation
Indices: 585292--585562 Score: 294
Period size: 43 Copynumber: 6.0 Consensus size: 43
585282 CCCTCGTCTT
* *
585292 CTTTAAGTCCAATGTAGCTGGCCTTAAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
585335 CTTTATGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
585382 ATCTTTAAGTGCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
585427 CTTTAAGTCCAATATCA-CTGGCCTTGAATTAGCATATTGGCATCTTC
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCA----C
* *
585474 TTCTTTAAGT-CAATGTAGTTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
585518 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
585561 CT
1 CT
585563 GTTCCATCTT
Statistics
Matches: 191, Mismatches: 22, Indels: 30
0.79 0.09 0.12
Matches are distributed among these distances:
42 8 0.04
43 105 0.55
44 2 0.01
45 1 0.01
47 3 0.02
48 27 0.14
49 45 0.24
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:585448 original size:92 final size:91
Alignment explanation
Indices: 585291--585608 Score: 510
Period size: 92 Copynumber: 3.4 Consensus size: 91
585281 ACCCTCGTCT
* *
585291 TCTTTAAGTCCAATGTAGCTGGCCTTAAATCAGCACATTGGCACCTTTATGTCCAATATCGCTGG
1 TCTTTAAGT-CAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
585356 CCTTGAATCAGCATATTGGCACCTTCA
65 CCTTGAATCAGCATATTGGCACCTTCA
*
585383 TCTTTAAGTGCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCACTGG
1 TCTTTAAGT-CAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
* * *
585448 CCTTGAATTAGCATATTGGCATCTTCT
65 CCTTGAATCAGCATATTGGCACCTTCA
* *
585475 TCTTTAAGTCAATGTAGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTGCTGGC
1 TCTTTAAGTCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGC
585540 CTTGAATCAGCATATTGGCACCTGTTCCA
66 CTTGAATCAGCATATTGGCACC--TT-CA
585569 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TCTTTAAG-TCAATGTAGCTGGCCTTGAATCAGCACATTG
585609 ACATCTTTTT
Statistics
Matches: 208, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
91 73 0.35
92 94 0.45
93 2 0.01
94 9 0.04
95 30 0.14
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (91 bp):
TCTTTAAGTCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGC
CTTGAATCAGCATATTGGCACCTTCA
Found at i:585705 original size:107 final size:107
Alignment explanation
Indices: 585526--585771 Score: 332
Period size: 107 Copynumber: 2.3 Consensus size: 107
585516 ACCTTTAAGT
* * *
585526 CCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTGTTCCATCTTTAAGTTCAATGTAGCTGG
1 CCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTGTTCCATCTTCAAGTTCAATGTAGCTGA
* * *
585591 CCTTGAATCAGCACATTGACATCTTTTTTCTCATGTTTAAAC
66 CCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAAC
* ** * * *
585633 CCAATATTGTTGGCCTTGAATCTGCATATTGGCATTTTTTTCATCTTCAAG-TCTAATGTCGCTG
1 CCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTGTTCCATCTTCAAGTTC-AATGTAGCTG
585697 ACCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAAC
65 ACCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAAC
* * * *
585740 CTAATATCGTTGGCCATGAATCAACATATTGG
1 CCAATATTGTTGGCCTTGAATCAGCATATTGG
585772 TCCTTTTATC
Statistics
Matches: 121, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
106 2 0.02
107 119 0.98
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (107 bp):
CCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTGTTCCATCTTCAAGTTCAATGTAGCTGA
CCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAAC
Found at i:585732 original size:55 final size:55
Alignment explanation
Indices: 585518--585737 Score: 193
Period size: 52 Copynumber: 4.1 Consensus size: 55
585508 ACATTGGCAC
* * * * * *
585518 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCA-CC-TGTTC-CAT
1 CTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
*
585570 CTTTAAGT-TCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGTCT-AATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* ** * * * * * * *
585625 GTTTAAACCCAATATTGTTGGCCTTGAATCTGCATATTGGCAT--TTTTT-TCAT
1 CTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* * * *
585677 CTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
585732 CTTTAA
1 CTTTAA
585738 ACCTAATATC
Statistics
Matches: 129, Mismatches: 31, Indels: 13
0.75 0.18 0.08
Matches are distributed among these distances:
52 70 0.54
53 6 0.05
54 9 0.07
55 44 0.34
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.39
Consensus pattern (55 bp):
CTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:585744 original size:55 final size:54
Alignment explanation
Indices: 585528--585762 Score: 192
Period size: 52 Copynumber: 4.4 Consensus size: 54
585518 CTTTAAGTCC
* * * * * **
585528 AATATTGCTGGCCTTGAATCAGCATATTGGCA-CCTGTTC-CATCTTT-AAGTT
1 AATATCGCTGGCCTTGAATCAGCACATTGACATCTTTTTCTCATCTTTAAACCT
* * * *
585579 CAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATGTTTAAACCC
1 -AATATCGCTGGCCTTGAATCAGCACATTGACATC-TTTTTCTCATCTTTAAACCT
* * * * * * **
585635 AATATTGTTGGCCTTGAATCTGCATATTGGCAT-TTTTT-TCATCTTCAAGTCT
1 AATATCGCTGGCCTTGAATCAGCACATTGACATCTTTTTCTCATCTTTAAACCT
* * *
585687 AATGTCGCTGACCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCT
1 AATATCGCTGGCCTTGAATCAGCACATTGACAT-CTTTTTCTCATCTTTAAACCT
* *
585742 AATATCGTTGGCCATGAATCA
1 AATATCGCTGGCCTTGAATCA
585763 ACATATTGGT
Statistics
Matches: 140, Mismatches: 36, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
52 62 0.44
53 6 0.04
54 9 0.06
55 61 0.44
56 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (54 bp):
AATATCGCTGGCCTTGAATCAGCACATTGACATCTTTTTCTCATCTTTAAACCT
Found at i:586412 original size:20 final size:20
Alignment explanation
Indices: 586387--586439 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
586377 TTTTAACGAT
*
586387 TTGTATCGATACGTAAAGTG
1 TTGTATCGATACATAAAGTG
586407 TTGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
586427 TTGTATCGATACA
1 TTGTATCGATACA
586440 ATGTATCGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGTATCGATACATAAAGTG
Found at i:586446 original size:13 final size:13
Alignment explanation
Indices: 586428--586452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
586418 CATAAAGTGT
586428 TGTATCGATACAA
1 TGTATCGATACAA
586441 TGTATCGATACA
1 TGTATCGATACA
586453 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:586468 original size:32 final size:33
Alignment explanation
Indices: 586408--586476 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
586398 CGTAAAGTGT
586408 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
586441 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
586473 TGTA
1 TGTA
586477 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:586532 original size:13 final size:12
Alignment explanation
Indices: 586492--586572 Score: 70
Period size: 13 Copynumber: 7.1 Consensus size: 12
586482 CTGCCAAAAA
586492 ATGTATCGATAC
1 ATGTATCGATAC
586504 AT-TACTC-A-A-
1 ATGTA-TCGATAC
586513 ATGTATCGATAC
1 ATGTATCGATAC
586525 ATTGTATCGATAC
1 A-TGTATCGATAC
586538 AT-TACTC-A-A-
1 ATGTA-TCGATAC
586547 ATGTATCGATAC
1 ATGTATCGATAC
586559 ATTGTATCGATAC
1 A-TGTATCGATAC
586572 A
1 A
586573 CTGATCTTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 23
0.71 0.00 0.29
Matches are distributed among these distances:
9 8 0.14
10 8 0.14
11 8 0.14
12 9 0.16
13 24 0.42
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:586536 original size:34 final size:34
Alignment explanation
Indices: 586493--586572 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
586483 TGCCAAAAAA
586493 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
586527 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
586561 TGTATCGATACA
1 TGTATCGATACA
586573 CTGATCTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (34 bp):
TGTATCGATACATTACTCAAATGTATCGATACAT
Found at i:586637 original size:52 final size:52
Alignment explanation
Indices: 586581--586709 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
586571 CACTGATCTT
*
586581 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
586633 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
586685 TGTATCAATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
586710 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:593120 original size:19 final size:21
Alignment explanation
Indices: 593075--593124 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
593065 AAAAGAGATG
593075 AAGAAAGAAAATAGAAAAAGCAA
1 AAGAAA-AAAATAGAAAAAGC-A
*
593098 AAGAAAAAAAT-GAAAAATC-
1 AAGAAAAAAATAGAAAAAGCA
593117 AAGAAAAA
1 AAGAAAAA
593125 GACAAAGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.31
21 7 0.27
22 5 0.19
23 6 0.23
ACGTcount: A:0.76, C:0.04, G:0.14, T:0.06
Consensus pattern (21 bp):
AAGAAAAAAATAGAAAAAGCA
Found at i:594927 original size:13 final size:13
Alignment explanation
Indices: 594909--594935 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
594899 CATAAAGTGT
594909 TGTATCGATACAA
1 TGTATCGATACAA
594922 TGTATCGATACAA
1 TGTATCGATACAA
594935 T
1 T
594936 TTAAGCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:594994 original size:13 final size:13
Alignment explanation
Indices: 594976--595000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
594966 ATTACTCAAA
594976 TGTATCGATACAT
1 TGTATCGATACAT
594989 TGTATCGATACA
1 TGTATCGATACA
595001 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:595051 original size:52 final size:52
Alignment explanation
Indices: 595009--595137 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
594999 CACTGATCTT
595009 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* * *
595061 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATGCACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
595113 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
595138 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:595621 original size:22 final size:22
Alignment explanation
Indices: 595593--595635 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
595583 GGAGCTCCTT
595593 TGCTTGGTCACTCCAAACCAGC
1 TGCTTGGTCACTCCAAACCAGC
595615 TGCTTGGTCACTCCAAACCAG
1 TGCTTGGTCACTCCAAACCAG
595636 TAAATCAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.23
Consensus pattern (22 bp):
TGCTTGGTCACTCCAAACCAGC
Found at i:598350 original size:48 final size:48
Alignment explanation
Indices: 598279--598661 Score: 383
Period size: 48 Copynumber: 8.0 Consensus size: 48
598269 TCTTTGATTG
* * *
598279 TATTGGTGTTAGGACTTGGTCAAACTCTTTTCATCCCTCGTTTGGCTA
1 TATTGGTGTTAGGACCTGGTCAAACTCTTTTCATCCCTCATTTGACTA
* *
598327 TATTGGGGTTAGAACCTGGTCAAACTCTTTTCATCCCTCATTTGACTA
1 TATTGGTGTTAGGACCTGGTCAAACTCTTTTCATCCCTCATTTGACTA
* * * *
598375 TATTGGTATTAGGACCTGGTCAAACTCTTTTCATCCCTCATTTAATTG
1 TATTGGTGTTAGGACCTGGTCAAACTCTTTTCATCCCTCATTTGACTA
* * * * * *
598423 TATTAGTGTTAGGACTTGGTCAAACTCTTTTCATCCATCGTTTGATTG
1 TATTGGTGTTAGGACCTGGTCAAACTCTTTTCATCCCTCATTTGACTA
* * * * *
598471 TATTGGTGTTAAGACCTGGTCAAACTCTTTTCATCCCTCTTTTTAATTG
1 TATTGGTGTTAGGACCTGGTCAAACTCTTTTCATCCCTC-ATTTGACTA
* ** * * ** * * *
598520 TATTGGTGTTAAGACCTAATGAAACTTTTTTTGTCCTTCGTTTGACTG
1 TATTGGTGTTAGGACCTGGTCAAACTCTTTTCATCCCTCATTTGACTA
* * * ** *
598568 TATTGGTGCTAAGG-CCTGGCCAAACTCTTTGCA-CCCTTGTTTGACTG
1 TATTGGTG-TTAGGACCTGGTCAAACTCTTTTCATCCCTCATTTGACTA
* * *
598615 TATTGGTGTTAGGACTTGGTCAAACTCTTTTCATTCATCATTTGACT
1 TATTGGTGTTAGGACCTGGTCAAACTCTTTTCATCCCTCATTTGACT
598662 GTATCTTTTA
Statistics
Matches: 278, Mismatches: 53, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
46 4 0.01
47 36 0.13
48 196 0.71
49 42 0.15
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (48 bp):
TATTGGTGTTAGGACCTGGTCAAACTCTTTTCATCCCTCATTTGACTA
Found at i:598443 original size:96 final size:96
Alignment explanation
Indices: 598271--598665 Score: 443
Period size: 96 Copynumber: 4.1 Consensus size: 96
598261 CAAATCTTTC
* * ** * *
598271 TTTGATTGTATTGGTGTTAGGACTTGGTCAAACTCTTTTCATCCCTCGTTTGGCTATATTGGGGT
1 TTTGACTGTATTGGTGTTAGGACCTGGTCAAACTCTTTTCATCCCTCGTTTAACTGTATTGGTGT
* *
598336 TAGAACCTGGTCAAACTCTTTTCATCCCTCA
66 TAGGACCTGGTCAAACTCTTTTCATCCATCA
* * * * *
598367 TTTGACTATATTGGTATTAGGACCTGGTCAAACTCTTTTCATCCCTCATTTAATTGTATTAGTGT
1 TTTGACTGTATTGGTGTTAGGACCTGGTCAAACTCTTTTCATCCCTCGTTTAACTGTATTGGTGT
* *
598432 TAGGACTTGGTCAAACTCTTTTCATCCATCG
66 TAGGACCTGGTCAAACTCTTTTCATCCATCA
* * * *
598463 TTTGATTGTATTGGTGTTAAGACCTGGTCAAACTCTTTTCATCCCTCTTTTTAATTGTATTGGTG
1 TTTGACTGTATTGGTGTTAGGACCTGGTCAAACTCTTTTCATCCCTC-GTTTAACTGTATTGGTG
* ** * * ** * *
598528 TTAAGACCTAATGAAACTTTTTTTGTCCTTCG
65 TTAGGACCTGGTCAAACTCTTTTCATCCATCA
* * * * *
598560 TTTGACTGTATTGGTGCTAAGG-CCTGGCCAAACTCTTTGCA-CCCTTGTTTGACTGTATTGGTG
1 TTTGACTGTATTGGTG-TTAGGACCTGGTCAAACTCTTTTCATCCCTCGTTTAACTGTATTGGTG
* *
598623 TTAGGACTTGGTCAAACTCTTTTCATTCATCA
65 TTAGGACCTGGTCAAACTCTTTTCATCCATCA
598655 TTTGACTGTAT
1 TTTGACTGTAT
598666 CTTTTATCCT
Statistics
Matches: 247, Mismatches: 50, Indels: 5
0.82 0.17 0.02
Matches are distributed among these distances:
95 46 0.19
96 128 0.52
97 70 0.28
98 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.42
Consensus pattern (96 bp):
TTTGACTGTATTGGTGTTAGGACCTGGTCAAACTCTTTTCATCCCTCGTTTAACTGTATTGGTGT
TAGGACCTGGTCAAACTCTTTTCATCCATCA
Found at i:598610 original size:144 final size:144
Alignment explanation
Indices: 598271--598657 Score: 447
Period size: 144 Copynumber: 2.7 Consensus size: 144
598261 CAAATCTTTC
* * *
598271 TTTGATTGTATTGGTGTTAGGACTTGGTCAAACTCTTTTCATCCCTCGTTTGGCTATATTGGGGT
1 TTTGATTGTATTGGTGTTAGGACTTGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGT
* * **
598336 T-AGAACCTGGTCAAACTCTTTTCATCCCTCATTTGACTATATTGGTATTAGGACCTGGTCAAAC
66 TAAG-ACCTGGTCAAACTCTTTTCATCCCTCATTTAACTATATTGGTATTAAGACCTAATCAAAC
598400 TCTTTTCATCCCTCA
130 TCTTTTCATCCCTCA
* * * *
598415 TTTAATTGTATTAGTGTTAGGACTTGGTCAAACTCTTTTCATCCATCGTTTGATTGTATTGGTGT
1 TTTGATTGTATTGGTGTTAGGACTTGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGT
* * * * *
598480 TAAGACCTGGTCAAACTCTTTTCATCCCTCTTTTTAATTGTATTGGTGTTAAGACCTAATGAAAC
66 TAAGACCTGGTCAAACTCTTTTCATCCCTC-ATTTAACTATATTGGTATTAAGACCTAATCAAAC
* ** * *
598545 TTTTTTTGTCCTTCG
130 TCTTTTCATCCCTCA
* * * * * *
598560 TTTGACTGTATTGGTGCTAAGG-CCTGGCCAAACTCTTTGCA-CCCTTGTTTGACTGTATTGGTG
1 TTTGATTGTATTGGTG-TTAGGACTTGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTG
* * * *
598623 TTAGGACTTGGTCAAACTCTTTTCATTCATCATTT
65 TTAAGACCTGGTCAAACTCTTTTCATCCCTCATTT
598658 GACTGTATCT
Statistics
Matches: 204, Mismatches: 36, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
143 3 0.01
144 131 0.64
145 66 0.32
146 4 0.02
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.42
Consensus pattern (144 bp):
TTTGATTGTATTGGTGTTAGGACTTGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGT
TAAGACCTGGTCAAACTCTTTTCATCCCTCATTTAACTATATTGGTATTAAGACCTAATCAAACT
CTTTTCATCCCTCA
Found at i:598954 original size:84 final size:84
Alignment explanation
Indices: 598763--598959 Score: 218
Period size: 84 Copynumber: 2.3 Consensus size: 84
598753 CTGTTTGTCA
* * * * * *
598763 ACTTATCGGTTCAGCCTTGGTCAACCTTTTATCCCTTGTTTACCTAGCGATTTAGTGCCCAGCAA
1 ACTTATCAGTTAAGCCTTGGTCAACCTTTCATCCATTATTTACCTAGCGATTTAGTGCCCAACAA
*
598828 ACTCCTTTACCCTTTGTTG
66 ACTCCTTTACCCTATGTTG
* * * * *
598847 ACTTATCAGTTAAGCCCTAGTCAACCTTTCATCCATTATTTACCTATCGGTTTAGTGCCCAATAA
1 ACTTATCAGTTAAGCCTTGGTCAACCTTTCATCCATTATTTACCTAGCGATTTAGTGCCCAACAA
598912 ACTCCTTTATCCC-ATGTTG
66 ACTCCTTTA-CCCTATGTTG
** * *
598931 GGTTGTCAGTTTAA-TCTTGGTCAACCTTT
1 ACTTATCAG-TTAAGCCTTGGTCAACCTTT
598960 TACCTTTTTT
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
84 86 0.92
85 7 0.08
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (84 bp):
ACTTATCAGTTAAGCCTTGGTCAACCTTTCATCCATTATTTACCTAGCGATTTAGTGCCCAACAA
ACTCCTTTACCCTATGTTG
Found at i:600311 original size:79 final size:78
Alignment explanation
Indices: 600199--600396 Score: 218
Period size: 79 Copynumber: 2.5 Consensus size: 78
600189 AATAACAGGG
* * * * * * *
600199 TTGGAGTGTCCCCTTGAAAATAACGGGGCTGGAGTATCCCCAGGTTGTGAGAAATCGATGA-TTA
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCA-ATTATGAGAAATCAAT-ATTTA
*
600263 GAAAAAAAATCGGGA
64 GAAAAAAAACCGGGA
* * *
600278 TTGGAGTATCTCCTCGGAAATAACGAGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTTAG
* * *
600343 AAATAAAGCCGGGG
65 AAAAAAAACCGGGA
**
600357 TTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCC
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCC
600397 TGACGAAATA
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
77 1 0.01
78 13 0.13
79 85 0.86
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (78 bp):
TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
AAAAAAACCGGGA
Found at i:600408 original size:28 final size:27
Alignment explanation
Indices: 600352--600423 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
600342 GAAATAAAGC
**
600352 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTAT-CCCTCGGAAATAA
600380 CGGGGTTGGAGTATCCCT-GACGAAATAA
1 CGGGGTTGGAGTATCCCTCG--GAAATAA
* *
600408 CGAGGTTGAAGTATCC
1 CGGGGTTGGAGTATCC
600424 TCAATTGTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 4 0.11
28 33 0.87
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTCGGAAATAA
Found at i:600570 original size:51 final size:51
Alignment explanation
Indices: 600446--600580 Score: 166
Period size: 51 Copynumber: 2.6 Consensus size: 51
600436 AATTGGTGTT
** * *
600446 TTTGGAAATAAAA-TTGGAGTTGGAGTATCCCCGATTAATGGAAAATTGGTG
1 TTTGGAAATAAAACCAGG-GTTGGAGTATCCCCGATTAATGGAAAATCGATG
* * *
600497 TTTTGAAAAAAAAGCCGGGGTTGGAGTATCCCCGATT-ATGGAAAATCGATG
1 TTTGGAAATAAAA-CCAGGGTTGGAGTATCCCCGATTAATGGAAAATCGATG
600548 ATTTGGAAATAAAACCAGGGTTGGAGTATCCCC
1 -TTTGGAAATAAAACCAGGGTTGGAGTATCCCC
600581 TCGGAGATAA
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
51 41 0.57
52 29 0.40
53 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (51 bp):
TTTGGAAATAAAACCAGGGTTGGAGTATCCCCGATTAATGGAAAATCGATG
Found at i:600724 original size:51 final size:49
Alignment explanation
Indices: 600634--600751 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 49
600624 AAAGCCGGGG
*
600634 GTTGGAGTATCCCCGA-TGAAAAATTGATGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTAGAAATAAAATCAGA
*
600682 GTTGGAGTATCCCCGATTATAGAAAATT-AGTGTTTT-GAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATT-GA-AAAATTGA-TGTTTTAG-AAATAAAATCAGA
600733 GTTGG-GATATCCCCGATTG
1 GTTGGAG-TATCCCCGATTG
600752 CGGAGAATTG
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
48 16 0.26
49 1 0.02
50 4 0.07
51 40 0.66
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (49 bp):
GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTAGAAATAAAATCAGA
Found at i:603910 original size:55 final size:55
Alignment explanation
Indices: 603826--604445 Score: 711
Period size: 55 Copynumber: 11.0 Consensus size: 55
603816 ATAAAGTGTA
* * *
603826 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
603881 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
603936 TCCTGCTCTTTAAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
603991 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
604046 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * *
604101 TCATGCTCTTTGTGGACAGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGG-G
1 TCCTGCTCTTTGAGGAC-TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* **
604155 ATCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 -TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
* * *
604217 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGGGTGGGCTTTAAAAAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----GAAAGGTG
* * *
604275 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAAGGTG
604334 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* * * *
604393 TCATGCTTTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
604446 AAAAGGCATC
Statistics
Matches: 509, Mismatches: 31, Indels: 50
0.86 0.05 0.08
Matches are distributed among these distances:
54 13 0.03
55 276 0.54
56 16 0.03
58 50 0.10
59 79 0.16
60 50 0.10
61 21 0.04
63 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:604115 original size:28 final size:28
Alignment explanation
Indices: 603973--604115 Score: 68
Period size: 28 Copynumber: 5.2 Consensus size: 28
603963 CACCAACTTG
*
603973 TGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TGTGGGCTTTGAAAGGTGTCATGCTCTT
* * *
604001 TG-GGGAC--TGAAAGGTGCCA-CCAACTT
1 TGTGGG-CTTTGAAAGGTGTCATGC-TCTT
*
604027 GTGTGGGCTTT-AAGAGGTGTCCTGCTCTT
1 -TGTGGGCTTTGAA-AGGTGTCATGCTCTT
* * * * * * *
604056 TGAGGAC-TGGAAA-ATGCCA-CCAACTT
1 TGTGGGCTTTGAAAGGTGTCATGC-TCTT
604082 GTGTGGGCTTTGAAAGGTGTCATGCTCTT
1 -TGTGGGCTTTGAAAGGTGTCATGCTCTT
604111 TGTGG
1 TGTGG
604116 ACAGGAAAAT
Statistics
Matches: 78, Mismatches: 23, Indels: 28
0.60 0.18 0.22
Matches are distributed among these distances:
25 2 0.03
26 19 0.24
27 13 0.17
28 25 0.32
29 17 0.22
30 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGTGTCATGCTCTT
Found at i:605460 original size:1 final size:1
Alignment explanation
Indices: 605456--605519 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
605446 CTTTTCTCTC
* * * * * ** *
605456 TTTTTCTTTGTTTTGTTTTTTTGTTTTGTTTTTTTTTTTTTTGCTTTTTTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
605520 GAAGAGAAAG
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Done.