Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 143 of 145
Found at i:47285770 original size:35 final size:36
Alignment explanation
Indices: 47285730--47285821 Score: 109
Period size: 35 Copynumber: 2.6 Consensus size: 36
47285720 AACCCATAAC
*
47285730 ATTGAATCTTGAACCCTAAACCT-TAAA-TCTAAAAT
1 ATTGAATCTTGAACCCTAAACCTCTAAACCCT-AAAT
* * *
47285765 CTTGAACCTTAAACCCTAAA-CTCTAAACCCTAAAT
1 ATTGAATCTTGAACCCTAAACCTCTAAACCCTAAAT
*
47285800 ATAGAATCTTGAACCCTAAACC
1 ATTGAATCTTGAACCCTAAACC
47285822 CAAAACATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
34 2 0.04
35 41 0.89
36 3 0.07
ACGTcount: A:0.41, C:0.26, G:0.05, T:0.27
Consensus pattern (36 bp):
ATTGAATCTTGAACCCTAAACCTCTAAACCCTAAAT
Found at i:47285772 original size:21 final size:21
Alignment explanation
Indices: 47285748--47285819 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
47285738 TTGAACCCTA
*
47285748 AACCTTAAATCTAAAATCTTG
1 AACCCTAAATCTAAAATCTTG
* * * *
47285769 AACCTTAAACCCTAAACTC-TA
1 AACCCTAAA-TCTAAAATCTTG
* *
47285790 AACCCTAAATATAGAATCTTG
1 AACCCTAAATCTAAAATCTTG
47285811 AACCCTAAA
1 AACCCTAAA
47285820 CCCAAAACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 5 0.12
21 28 0.70
22 7 0.17
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.26
Consensus pattern (21 bp):
AACCCTAAATCTAAAATCTTG
Found at i:47285792 original size:42 final size:42
Alignment explanation
Indices: 47285745--47285827 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
47285735 ATCTTGAACC
* * * *
47285745 CTAAACCTTAAATCTAAAATCTTGAACCTTAAACCCTAAACT
1 CTAAACCCTAAATATAAAATCTTGAACCCTAAACCCAAAACT
*
47285787 CTAAACCCTAAATATAGAATCTTGAACCCTAAACCCAAAAC
1 CTAAACCCTAAATATAAAATCTTGAACCCTAAACCCAAAAC
47285828 ATAAAAGCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.45, C:0.28, G:0.04, T:0.24
Consensus pattern (42 bp):
CTAAACCCTAAATATAAAATCTTGAACCCTAAACCCAAAACT
Found at i:47285905 original size:14 final size:13
Alignment explanation
Indices: 47285886--47285930 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
47285876 CTAGAATCTC
47285886 AAACCCTAAACTAT
1 AAACCCTAAACT-T
47285900 AAACCCTAAACCTT
1 AAACCCTAAA-CTT
47285914 AAACCC-AAACTCT
1 AAACCCTAAACT-T
47285927 AAAC
1 AAAC
47285931 TCGTACCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.07
13 8 0.28
14 17 0.59
15 2 0.07
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (13 bp):
AAACCCTAAACTT
Found at i:47286041 original size:15 final size:13
Alignment explanation
Indices: 47286006--47286044 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
47285996 TAAACCCTTG
47286006 AACCTTAAACCAA
1 AACCTTAAACCAA
*
47286019 AACCTTAAAGCCCA
1 AACCTTAAA-CCAA
47286033 AACCGTTAAACC
1 AACC-TTAAACC
47286045 CTAAACATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 9 0.39
14 9 0.39
15 5 0.22
ACGTcount: A:0.46, C:0.33, G:0.05, T:0.15
Consensus pattern (13 bp):
AACCTTAAACCAA
Found at i:47286050 original size:15 final size:14
Alignment explanation
Indices: 47285991--47286050 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 14
47285981 CCAAACTCAT
* *
47285991 AACCCTAAACCCTTG
1 AACCTTAAACCC-TA
*
47286006 AACCTTAAA-CCAA
1 AACCTTAAACCCTA
47286019 AACCTTAAAGCCC-A
1 AACCTTAAA-CCCTA
47286033 AACCGTTAAACCCTA
1 AACC-TTAAACCCTA
47286048 AAC
1 AAC
47286051 ATAAGCATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 9 0.24
14 10 0.26
15 19 0.50
ACGTcount: A:0.43, C:0.35, G:0.05, T:0.17
Consensus pattern (14 bp):
AACCTTAAACCCTA
Found at i:47286142 original size:13 final size:13
Alignment explanation
Indices: 47286124--47286162 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
47286114 AAACCTCAGG
47286124 GTTTAAGGTTTGA
1 GTTTAAGGTTTGA
*
47286137 GTTTAAGATTTGA
1 GTTTAAGGTTTGA
*
47286150 GATTTTAGGTTTG
1 G-TTTAAGGTTTG
47286163 GGGTTCAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (13 bp):
GTTTAAGGTTTGA
Found at i:47287400 original size:22 final size:22
Alignment explanation
Indices: 47287358--47287401 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
47287348 AATTAGTTTG
* *
47287358 GATTATAGTAGAATATGTTAAA
1 GATTATAGTAGAAAATATTAAA
47287380 GATTATAGT-GAAAAGTATTAAA
1 GATTATAGTAGAAAA-TATTAAA
47287402 TTAAGCTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.34
Consensus pattern (22 bp):
GATTATAGTAGAAAATATTAAA
Found at i:47289228 original size:54 final size:54
Alignment explanation
Indices: 47289165--47289283 Score: 184
Period size: 54 Copynumber: 2.2 Consensus size: 54
47289155 GTTTTAATAA
47289165 CAATAATGCAGATCAAAATGAGTAATCCACCTTTCAACTTTCTTTTTCTAACAG
1 CAATAATGCAGATCAAAATGAGTAATCCACCTTTCAACTTTCTTTTTCTAACAG
* * * * * *
47289219 CTATAATGCAAATCAAAATTAGTAATCCATCTTTCAACTTTCTTTTTTTAACAT
1 CAATAATGCAGATCAAAATGAGTAATCCACCTTTCAACTTTCTTTTTCTAACAG
47289273 CAATAATGCAG
1 CAATAATGCAG
47289284 TTGAGAATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (54 bp):
CAATAATGCAGATCAAAATGAGTAATCCACCTTTCAACTTTCTTTTTCTAACAG
Found at i:47293820 original size:3 final size:3
Alignment explanation
Indices: 47293808--47293851 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
47293798 ATGAATGAAC
47293808 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
47293852 CTTAATTAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:47295470 original size:41 final size:41
Alignment explanation
Indices: 47295407--47295940 Score: 376
Period size: 41 Copynumber: 12.6 Consensus size: 41
47295397 TTTTAGTTTA
* * * * *
47295407 CTCCACTTCAACTTTAGGGAGATAAGACTGGATATGATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTGGTTTTGATCTG
* *
47295448 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTTAATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGA-C--TGG-TTTTGATCTG
* * * *
47295493 CTCCACTGCAACTTCAGGGAAATAGGATTGGTTTCTTCTG-TCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTGG--T-TT-TGATCTG
* * **
47295537 CTCCACTGCAACTTCAAAGAGATAAGACTGGATGCGATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTGGTTTTGATCTG
* * *
47295578 CTCTACTGCAACTTCAGAGAGATAAGATCCATGTTTTTAATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGA--C-TGGTTTTGATCTG
* * ** *
47295622 TTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGGTCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTGGTTTTGATCTG
* * * *
47295663 CTCTATTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCT-
1 CTCCACTGCAACTTCAGAGAGATAAGA-C--TGGTTTTGAT-CTG
** * * * * * *
47295707 CTTTACTACAACTTCAGGGAGATATGATTGACTTCTG-TCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTG-GTTTTGATCTG
* * ***
47295748 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCAATCAT-
1 CTCCACTGCAACTTCAGAGAGATAAGACTGGTTTTGATC-TG
* * *
47295789 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCG
1 CTCCACTGCAACTTCAGAGAGATAAGA-C--TGGTTTTGATCTG
* * *
47295833 CTCCACTGCAACTTCAGGGAGATAGGATTGGCTTTTG-TCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTGG-TTTTGATCTG
* *
47295874 CTCCACTGCAACTTCAGAGAGATAAGATCTTTGGTTTTAATCCG
1 CTCCACTGCAACTTCAGAGAGATAAGA-C--TGGTTTTGATCTG
*
47295918 CTCCACTGCAACTTCAGGGAGAT
1 CTCCACTGCAACTTCAGAGAGAT
47295941 GGAATTAGTA
Statistics
Matches: 384, Mismatches: 81, Indels: 53
0.74 0.16 0.10
Matches are distributed among these distances:
40 4 0.01
41 169 0.44
42 15 0.04
43 7 0.02
44 156 0.41
45 33 0.09
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (41 bp):
CTCCACTGCAACTTCAGAGAGATAAGACTGGTTTTGATCTG
Found at i:47295481 original size:85 final size:85
Alignment explanation
Indices: 47295371--47295940 Score: 455
Period size: 85 Copynumber: 6.7 Consensus size: 85
47295361 CCACTCTGCC
* * * * * * *
47295371 GCAACTTCAG-GGGATAAGATTTGTGGTTTTAGTTTACTCCACTTCAACTTTAGGGAGATAAGAC
1 GCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* * * *
47295435 TGGATATGATCTGCTCTACT
66 TGGTTTTAATCTGCTCCACT
* *
47295455 GCAACTTCAGAGAGATAAGATCTGTGGTTTTTAATCTGCTCCACTGCAACTTCAGGGAAATAGGA
1 GCAACTTCAGAGAGATAAGATCTGTGG-TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* **
47295520 TTGGTTTCTTCTGTCTGCTCCACT
65 CTGG-TT-TT-AATCTGCTCCACT
* * *** * *
47295544 GCAACTTCAAAGAGATAAGA-C--TGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 GCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-
* *
47295606 CCATGTTTTTAATCTGTTCCACT
65 -C-TGGTTTTAATCTGCTCCACT
* **** * * * *
47295629 GCAACTTCAGAGAGATAAGA-C--TGGATGCGGTCTGCTCTATTACAACTTCAGAGAGATAAGAT
1 GCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-
**
47295691 CTGTGGTTTTAATCCT-CTTTACT
65 C--TGGTTTTAAT-CTGCTCCACT
* * * ** * *
47295714 ACAACTTCAGGGAGATATGAT-TG-ACTTCT-GTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
1 GCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* ** *
47295776 TGGATGCAATCAT-CTCTACT
66 TGGTTTTAATC-TGCTCCACT
* * *
47295796 GCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
1 GCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAC
*
47295861 TGGCTTTT-GTCTGCTCCACT
66 TGG-TTTTAATCTGCTCCACT
* *
47295881 GCAACTTCAGAGAGATAAGATCTTTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
1 GCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
47295941 GGAATTAGTA
Statistics
Matches: 396, Mismatches: 71, Indels: 37
0.79 0.14 0.07
Matches are distributed among these distances:
81 1 0.00
82 32 0.08
83 2 0.01
84 16 0.04
85 267 0.67
86 42 0.11
87 3 0.01
88 4 0.01
89 29 0.07
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (85 bp):
GCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAC
TGGTTTTAATCTGCTCCACT
Found at i:47295753 original size:126 final size:126
Alignment explanation
Indices: 47295618--47295900 Score: 433
Period size: 126 Copynumber: 2.2 Consensus size: 126
47295608 ATGTTTTTAA
* ** *
47295618 TCTGTTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGGTC-TGCTCTATTACAACTTCAGAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCAATCAT-CTCTACTACAACTTCAGAG
* ** *
47295682 AGATAAGATCTGTGGTTTTAATCCTCTTTACTACAACTTCAGGGAGATATGATTGACTTCTG
65 AGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGACTTCTG
* *
47295744 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCAATCATCTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCAATCATCTCTACTACAACTTCAGAGA
* * *
47295809 GATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTTTG
66 GATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGACTTCTG
47295870 TCTGCTCCACTGCAACTTCAGAGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA
47295901 TCTTTGGTTT
Statistics
Matches: 142, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
126 141 0.99
127 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (126 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCAATCATCTCTACTACAACTTCAGAGA
GATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGACTTCTG
Found at i:47295807 original size:211 final size:213
Alignment explanation
Indices: 47295407--47295940 Score: 734
Period size: 211 Copynumber: 2.5 Consensus size: 213
47295397 TTTTAGTTTA
* * *
47295407 CTCCACTTCAACTTTAGGGAGATAAGACTGGATATGATCTGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATATGGTCTGCTCTACTGCAACTTCAGAGAGATA
* *
47295472 AGATCTGTGGTTTTTAAT-CTGCTCCACTGCAACTTCAGGGAAATAGGATTGGTTTCTTCTGTCT
66 AGATCTGTGG-TTTTAATCCT-CTCCACTGCAACTTCAGGGAGATAGGATTGG-TACTTCTGTCT
*
47295536 GCTCCACTGCAACTTCAAAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGAT
128 GCTCCACTGCAACTTCAAAGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGAT
* *
47295601 AAGATCCATGTTTTTAATCTG
193 AAGATCCATGGTTTTAATCCG
* * ** * *
47295622 TTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGGTCTGCTCTATTACAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATATGGTCTGCTCTACTGCAACTTCAGAGAGATA
** * *
47295687 AGATCTGTGGTTTTAATCCTCTTTACTACAACTTCAGGGAGATATGATT-G-ACTTCTGTCTGCT
66 AGATCTGTGGTTTTAATCCTCTCCACTGCAACTTCAGGGAGATAGGATTGGTACTTCTGTCTGCT
**
47295750 CCACTGCAACTTCAGGGAGATAAGACTGGATGCAATCAT-CTCTACTGCAACTTCAGAGAGATAA
131 CCACTGCAACTTCAAAGAGATAAGACTGGATGCAATC-TGCTCTACTGCAACTTCAGAGAGATAA
**
47295814 GATCTGTGGTTTTAATCCG
195 GATCCATGGTTTTAATCCG
* * * * * *
47295833 CTCCACTGCAACTTCAGGGAGATAGGATTGGCTTTTGTCTGCTCCACTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATATGGTCTGCTCTACTGCAACTTCAGAGAGATA
* *
47295898 AGATCTTTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
66 AGATCTGTGGTTTTAATCCTCTCCACTGCAACTTCAGGGAGAT
47295941 GGAATTAGTA
Statistics
Matches: 279, Mismatches: 38, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
211 178 0.64
212 1 0.00
213 1 0.00
214 31 0.11
215 68 0.24
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (213 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTGGATATGGTCTGCTCTACTGCAACTTCAGAGAGATA
AGATCTGTGGTTTTAATCCTCTCCACTGCAACTTCAGGGAGATAGGATTGGTACTTCTGTCTGCT
CCACTGCAACTTCAAAGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAG
ATCCATGGTTTTAATCCG
Found at i:47296068 original size:43 final size:42
Alignment explanation
Indices: 47296000--47296249 Score: 148
Period size: 43 Copynumber: 5.8 Consensus size: 42
47295990 TAGTGGTTTA
*
47296000 AATCTGCTTCC-CTACTACCTT-GGGAGAATAAGATTCGCTATTT
1 AATCTGC-TCCACTACT-GCTTAGGGAG-ATAAGATTCGCTATTT
* * * *
47296043 AATCTGCTCCACTACTGCTTAGGGAGACAGGATTTGCGATCTTT
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGA-TT-CGCTATTT
* * * * * * * *
47296087 AACCTACTCCACTGCTGCTCAAGGAGATAAGGCTGGCGCT-TTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAA-GAT-TCGCTATTT
* * * *
47296130 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATCTTT
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-T-CGCTATTT
* * * ** *
47296174 AACCTACTCCACTGCTGCTTAGGGAGATAAGGCTGGC-ACTTT
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCTA-TTT
* *
47296216 CGATCTGCTCTACTACTGCTTAGGGAGATAAGAT
1 -AATCTGCTCCACTACTGCTTAGGGAGATAAGAT
47296250 CTGTAATCTT
Statistics
Matches: 153, Mismatches: 44, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
42 16 0.10
43 74 0.48
44 62 0.41
45 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (42 bp):
AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCTATTT
Found at i:47296135 original size:87 final size:87
Alignment explanation
Indices: 47296044--47296296 Score: 407
Period size: 87 Copynumber: 2.9 Consensus size: 87
47296034 TCGCTATTTA
* * * * *
47296044 ATCTGCTCCACTACTGCTTAGGGAGACAGGATTTGCGATCTTTAACCTACTCCACTGCTGCTCAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATCTTTAACCTACTCCACTGCTGCTCAG
*
47296109 GGAGATAAGGCTGGCGCTTTCG
66 GGAGATAAGGCTGGCACTTTCG
*
47296131 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATCTTTAACCTACTCCACTGCTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATCTTTAACCTACTCCACTGCTGCTCAG
47296196 GGAGATAAGGCTGGCACTTTCG
66 GGAGATAAGGCTGGCACTTTCG
* * **
47296218 ATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTACTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATCTTTAACCTACTCCACTGCTGCTCAG
47296283 GGAGATAAGGCTGG
66 GGAGATAAGGCTGG
47296297 TGGCTTAAAT
Statistics
Matches: 154, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 154 1.00
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (87 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATCTTTAACCTACTCCACTGCTGCTCAG
GGAGATAAGGCTGGCACTTTCG
Found at i:47296384 original size:132 final size:132
Alignment explanation
Indices: 47296214--47296846 Score: 948
Period size: 132 Copynumber: 4.8 Consensus size: 132
47296204 GGCTGGCACT
*
47296214 TTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTACTCCACTGCTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTACTCCACTGCTGC
* * **
47296279 TCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCTTCG
66 TCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAAATAAGATTCGCCG
47296344 TC
131 TC
* * * *
47296346 -TCTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATATTCAACCTACTCCACTGCAG
1 TTC-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTACTCCACTGCTG
* *
47296410 CTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTTGCC
65 CTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAAATAAGATTCGCC
*
47296475 ATC
130 GTC
* * * * ** *
47296478 TTCGATCTACTCCACTACTGCTTAGGGGGATAGGATCTGCAATCTTTAACCTACTCCACTGCTAC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTACTCCACTGCTGC
*
47296543 TCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACTACATTGGGAAAATAAGATTCGCC
66 TCAGGGAGATAAGG-CTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAAATAAGATTCGCC
47296607 GTC
130 GTC
*
47296610 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTGACCTACTCCACTGCTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTACTCCACTGCTGC
* *
47296675 TCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAAAATAAGATTCGTC
66 TCAGGGAGATAAGG-CTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAAATAAGATTCGCC
47296739 GTC
130 GTC
* * * *
47296742 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATTTGTAATCTTCGACCTACTCAACTGCTGA
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTACTCCACTGCTGC
* * *
47296807 TCAGGGAGATAAAGCTGGTGGCTTAAATTTGTTTCCCTAC
66 TCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCCTAC
47296847 CGGTACAGGA
Statistics
Matches: 459, Mismatches: 38, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
131 5 0.01
132 450 0.98
133 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTACTCCACTGCTGC
TCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAAATAAGATTCGCCG
TC
Found at i:47296775 original size:44 final size:44
Alignment explanation
Indices: 47296044--47296818 Score: 234
Period size: 44 Copynumber: 17.7 Consensus size: 44
47296034 TCGCTATTTA
* * * * * **
47296044 ATCTGCTCCACTACTGCTTAGGGAGACAGGATTTG-CGATCTTTA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGACTCGTCG-TCTTCG
* * * * * *
47296088 ACCTACTCCACTGCTGCTCAAGGAGATAAGGCT-GGCG-CTTTCG
1 ATCTACTCCACTACTGCTTAGGGAGATAAGACTCGTCGTC-TTCG
* **
47296131 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-TCTGT-GATCTTTA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGACTC-GTCG-TCTTCG
* * * * *
47296175 ACCTACTCCACTGCTGCTTAGGGAGATAAGGCT-GGC-ACTTTCG
1 ATCTACTCCACTACTGCTTAGGGAGATAAGACTCGTCGTC-TTCG
* * **
47296218 ATCTGCTCTACTACTGCTTAGGGAGATAAGA-TCTGTAATCTTCG
1 ATCTACTCCACTACTGCTTAGGGAGATAAGACTC-GTCGTCTTCG
* * * * * * **
47296262 ACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGT-GGCTTAA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGACTCGTCGTCTTCG
* * * * *
47296305 ATCTGCTTCC-CTACTACCTT-GAGAAGATAAGATTCTTCGTC-TCTG
1 ATCTAC-TCCACTACT-GCTTAG-GGAGATAAGACTCGTCGTCTTC-G
* * * *
47296350 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-TC-TGCAATATTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGACTCGT-C-GTCTTCG
* * * * * * * **
47296394 ACCTACTCCACTGCAGCTCAGGGAGATAAGGCTGGT-GGCTTAA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGACTCGTCGTCTTCG
* * * * * *
47296437 ATCTGCTTCC-CTACTACCTT-GGGAAGATAAGATTTGCCATCTTCG
1 ATCTAC-TCCACTACT-GCTTAGGG-AGATAAGACTCGTCGTCTTCG
* * * **
47296482 ATCTACTCCACTACTGCTTAGGGGGATAGGA-TC-TGCAATCTTTA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGACTCGT-C-GTCTTCG
* * * * * * * **
47296526 ACCTACTCCACTGCTACTCAGGGAGATAGGACTGGT-GGCTTAA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGACTCGTCGTCTTCG
* * * * *
47296569 ATCTGCTTCC-CTACTACATT-GGGAAAATAAGATTCGCCGTCTTCG
1 ATCTAC-TCCACTACTGC-TTAGGG-AGATAAGACTCGTCGTCTTCG
* ** *
47296614 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-TCTGTAATCTTTG
1 ATCTACTCCACTACTGCTTAGGGAGATAAGACTC-GTCGTCTTCG
* * * * * * **
47296658 ACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGT-GGCTTAA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGACTCGTCGTCTTCG
* * * * *
47296701 ATCTGCTTCC-CTACTACCTT-GGAAAAATAAGATTCGTCGTCTTCG
1 ATCTAC-TCCACTACT-GCTTAGG-GAGATAAGACTCGTCGTCTTCG
* * **
47296746 ATCTACTCCACTACTGCTTAGGGAGATAAGATTTGTAATCTTCG
1 ATCTACTCCACTACTGCTTAGGGAGATAAGACTCGTCGTCTTCG
* * * * *
47296790 ACCTACTCAACTGCTGATCAGGGAGATAA
1 ATCTACTCCACTACTGCTTAGGGAGATAA
47296819 AGCTGGTGGC
Statistics
Matches: 522, Mismatches: 160, Indels: 98
0.67 0.21 0.13
Matches are distributed among these distances:
42 5 0.01
43 120 0.23
44 321 0.61
45 74 0.14
46 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTTAGGGAGATAAGACTCGTCGTCTTCG
Found at i:47297810 original size:5 final size:5
Alignment explanation
Indices: 47297800--47297851 Score: 59
Period size: 5 Copynumber: 10.0 Consensus size: 5
47297790 TTCACCTTGG
* * *
47297800 CTTTT CTTTT CTTTTT GTTCTT CTTTT CTTTT TTTTT CTTTT CGTTT CTTTT
1 CTTTT CTTTT C-TTTT CTT-TT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
47297852 TTCCAAGTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 31 0.79
6 8 0.21
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:47297825 original size:17 final size:15
Alignment explanation
Indices: 47297801--47297854 Score: 72
Period size: 17 Copynumber: 3.3 Consensus size: 15
47297791 TCACCTTGGC
47297801 TTTTCTTTTCTTTTT
1 TTTTCTTTTCTTTTT
47297816 GTTCTTCTTTTCTTTTT
1 -TT-TTCTTTTCTTTTT
47297833 TTTTCTTTTCGTTTCTT
1 TTTTCTTTTC-TTT-TT
47297850 TTTTC
1 TTTTC
47297855 CAAGTGAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.23
16 7 0.20
17 20 0.57
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTCTTTTT
Found at i:47297830 original size:27 final size:27
Alignment explanation
Indices: 47297800--47297854 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
47297790 TTCACCTTGG
*
47297800 CTTTTCTTTTCTTTTTG-TTCTTCTTTT
1 CTTTTCTTTTCTTTTCGTTTCTT-TTTT
*
47297827 CTTTTTTTTTCTTTTCGTTTCTTTTTT
1 CTTTTCTTTTCTTTTCGTTTCTTTTTT
47297854 C
1 C
47297855 CAAGTGAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (27 bp):
CTTTTCTTTTCTTTTCGTTTCTTTTTT
Found at i:47301063 original size:19 final size:20
Alignment explanation
Indices: 47301039--47301085 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
47301029 TGTGAAAATC
*
47301039 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGCAATG
*
47301058 TAATGCAAATGCATGGAATG
1 TAATGCAAATGCATGCAATG
47301078 -AATGCAAA
1 TAATGCAAA
47301086 AAGAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGCAATG
Found at i:47303361 original size:3 final size:3
Alignment explanation
Indices: 47303347--47303387 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
47303337 NNNNNNNNNN
* *
47303347 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
47303388 CTTAATTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:47312334 original size:174 final size:174
Alignment explanation
Indices: 47312044--47312383 Score: 538
Period size: 174 Copynumber: 2.0 Consensus size: 174
47312034 TAGCAGTTCT
* *
47312044 AAATTCAATTACAAAGGCCTTAAAGCTTGAGTTTAAAAGAACATTGTTACTTGATATATCTGAAT
1 AAATTCAATTACAAAGGCCTTAAAGATCGAGTTTAAAAGAACATTGTTACTTGATATATCTGAAT
*
47312109 GAACTATTTAACAACTACAATCATAGTGCAAGTACAACAAAGCATGTGTTATGCCTTTGATGATC
66 GAACTATTGAACAACTACAATCATAGTGCAAGTACAACAAAGCATGTGTTATGCCTTTGATGATC
*
47312174 TCCACTCTTTTCATCCAATTCATTTCAACTGCTTGAACAGCTCC
131 TCCACTCTTTTCATCCAATTCATTTCAACAGCTTGAACAGCTCC
* * *
47312218 AAATTCAGTTACAAAGGTCTTAAAGATCGAGTTTAAAATAACATTGTTACTTGATATATCTCG-A
1 AAATTCAATTACAAAGGCCTTAAAGATCGAGTTTAAAAGAACATTGTTACTTGATATATCT-GAA
* * *
47312282 TGAACTATTGGACGACTACAATCATAGTGCAAGTACGACAAAGCATGTGTTATGCCTTTGATGAT
65 TGAACTATTGAACAACTACAATCATAGTGCAAGTACAACAAAGCATGTGTTATGCCTTTGATGAT
* ** *
47312347 CTCCACTCTTTTCGTCTGATTCATTTCCACAGCTTGA
130 CTCCACTCTTTTCATCCAATTCATTTCAACAGCTTGA
47312384 GCTTGTACGA
Statistics
Matches: 151, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
174 150 0.99
175 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (174 bp):
AAATTCAATTACAAAGGCCTTAAAGATCGAGTTTAAAAGAACATTGTTACTTGATATATCTGAAT
GAACTATTGAACAACTACAATCATAGTGCAAGTACAACAAAGCATGTGTTATGCCTTTGATGATC
TCCACTCTTTTCATCCAATTCATTTCAACAGCTTGAACAGCTCC
Found at i:47322024 original size:25 final size:23
Alignment explanation
Indices: 47321969--47322024 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
47321959 TTCATAGTTG
*
47321969 ATTTGAAATGGATTGATTTGTAT
1 ATTTGAAATGGATTGATTTGTAA
*
47321992 ATTATGAAATGTATTGATTATGTAA
1 ATT-TGAAATGGATTGATT-TGTAA
47322017 ATATTGAA
1 AT-TTGAA
47322025 TTGACTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 3 0.11
24 14 0.50
25 10 0.36
26 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.45
Consensus pattern (23 bp):
ATTTGAAATGGATTGATTTGTAA
Found at i:47324275 original size:2 final size:2
Alignment explanation
Indices: 47324268--47324302 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
47324258 CGCTAATTCG
* *
47324268 TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47324303 TGTAATTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47328462 original size:3 final size:3
Alignment explanation
Indices: 47328456--47328487 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
47328446 CATCAATGTA
47328456 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
47328488 ACATAATATT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:47328500 original size:12 final size:12
Alignment explanation
Indices: 47328456--47328501 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
47328446 CATCAATGTA
47328456 AATAATAATA-AT
1 AATAATAA-ACAT
47328468 AATAATAATA-AT
1 AATAATAA-ACAT
47328480 AATAATAAACAT
1 AATAATAAACAT
*
47328492 AATATTAAAC
1 AATAATAAAC
47328502 TGGTTTTCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 1 0.03
12 31 0.97
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAATAAACAT
Found at i:47334579 original size:125 final size:125
Alignment explanation
Indices: 47334258--47334696 Score: 709
Period size: 125 Copynumber: 3.5 Consensus size: 125
47334248 AGTCCGAGAA
*** * ** *
47334258 GAAATAATTTTGAGTTGACGTTTCTAATCAAATAGTATAAAATCGCTTCTAGCAAGATGCTATTT
1 GAAATAATTTTTTTTTGACATTTCTAAGAAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
* * * * ** *
47334323 GAGAAGAATTTGTGAAATCGCGTCCTCATGGACGTGCTTTTGCTATAGTAGGTCATGGAT
66 GAGAATAATTTGTAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCATGGAT
* * *
47334383 GAAATAA-TTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
1 GAAATAATTTTTTTTTGACATTTCTAAGAAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
*
47334447 AAGAATAATTTGTAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCATGGAT
66 GAGAATAATTTGTAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCATGGAT
47334507 GAAATAATTTTTTTTTGACATTTCTAAGAAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
1 GAAATAATTTTTTTTTGACATTTCTAAGAAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
47334572 GAGAATAATTTGTAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCATGGAT
66 GAGAATAATTTGTAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCATGGAT
47334632 GAAATAATTTTTTTTTGACATTTCTAAGAAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
1 GAAATAATTTTTTTTTGACATTTCTAAGAAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
47334697 NNNNNNNNNN
Statistics
Matches: 295, Mismatches: 18, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
124 110 0.37
125 185 0.63
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.35
Consensus pattern (125 bp):
GAAATAATTTTTTTTTGACATTTCTAAGAAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
GAGAATAATTTGTAAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCATGGAT
Found at i:47337731 original size:28 final size:29
Alignment explanation
Indices: 47337703--47337822 Score: 103
Period size: 28 Copynumber: 4.4 Consensus size: 29
47337693 GGTTTAATTA
47337703 GGTTAGGGTTTTTAATTTAATTAGGTTAG
1 GGTTAGGGTTTTTAATTTAATTAGGTTAG
***
47337732 GGTT-TTCTTTTTAATTT-A--A--TTA-
1 GGTTAGGGTTTTTAATTTAATTAGGTTAG
*
47337754 GGTTAGGGTTTTGAATTTAATTAGGTTAG
1 GGTTAGGGTTTTTAATTTAATTAGGTTAG
*** *
47337783 GGTT-TTCTTTTCAATTTAATTAGGTTAG
1 GGTTAGGGTTTTTAATTTAATTAGGTTAG
47337811 GGTTTAGGGTTT
1 GG-TTAGGGTTT
47337823 AATTAGATTA
Statistics
Matches: 68, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
22 4 0.06
23 12 0.18
24 1 0.01
25 1 0.01
26 1 0.01
27 1 0.01
28 35 0.51
29 10 0.15
30 3 0.04
ACGTcount: A:0.22, C:0.03, G:0.24, T:0.52
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTTAATTAGGTTAG
Found at i:47337757 original size:51 final size:51
Alignment explanation
Indices: 47337695--47338035 Score: 259
Period size: 51 Copynumber: 6.8 Consensus size: 51
47337685 AGGGTTAGGG
47337695 TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCTTTTTAA
1 TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCTTTTTAA
* *
47337746 TTTAATTAGGTTAGGGTTTTGAATTTAATTAGGTTAGGGTTTTCTTTTCAA
1 TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCTTTTTAA
**** *
47337797 TTTAATTAGGTTAGGGTTTAGGGTTTAATTAGATTAGGG------TTTT--
1 TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCTTTTTAA
47337840 TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTC-----AA
1 TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCTTTTTAA
* **
47337886 TTTAATTGGGTTAGGGTTTTCT--TTTCAAATTCA--TTAAGGGTTTAGGGTTTTTAA
1 TTTAATTAGGTTAGGGTTTT-TAATTT--AATT-AGGTT-AGGGTTT--TCTTTTTAA
* * * * * *
47337940 TTAAATTAGGCTAGGGTTTTTAATTAAATTTGGTTATGGTTTTGGGTTTTTAA
1 TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTT--CTTTTTAA
* * **** *
47337993 -TTATTTTAAGTTAGGGTTTAGGGTTAAATTAGGTTAGGGTTTT
1 TTTA-ATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTT
47338036 TATTACATAA
Statistics
Matches: 232, Mismatches: 32, Indels: 50
0.74 0.10 0.16
Matches are distributed among these distances:
43 34 0.15
45 6 0.03
46 21 0.09
47 12 0.05
48 1 0.00
51 84 0.36
52 2 0.01
53 49 0.21
54 21 0.09
55 2 0.01
ACGTcount: A:0.24, C:0.02, G:0.23, T:0.51
Consensus pattern (51 bp):
TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTCTTTTTAA
Found at i:47337826 original size:28 final size:29
Alignment explanation
Indices: 47337756--47337834 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 29
47337746 TTTAATTAGG
*
47337756 TTAGGGTTTTGAATTTAATTAGGTTAGGGT
1 TTAGGG-TTTCAATTTAATTAGGTTAGGGT
***
47337786 TT-TCTTTTCAATTTAATTAGGTTAGGGT
1 TTAGGGTTTCAATTTAATTAGGTTAGGGT
47337814 TTAGGGTTT-AA-TTAGATTAGG
1 TTAGGGTTTCAATTTA-ATTAGG
47337835 GTTTTTTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
27 3 0.08
28 32 0.80
29 3 0.08
30 2 0.05
ACGTcount: A:0.24, C:0.03, G:0.25, T:0.48
Consensus pattern (29 bp):
TTAGGGTTTCAATTTAATTAGGTTAGGGT
Found at i:47337958 original size:23 final size:23
Alignment explanation
Indices: 47337612--47337982 Score: 291
Period size: 23 Copynumber: 15.5 Consensus size: 23
47337602 TTAGGGTTAG
*
47337612 GGTTAGGGTTTTCAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
****
47337635 GGTTAGGGTTTAGGGTTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
****
47337658 GGTTAGGGTTTAGGGTTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
****
47337681 GGTTAGGG-TTAGGGTTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
47337703 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
47337726 GGTTAGGGTTTTCTTTTTAATTTAATTA
1 GGTTAGGG-----TTTTTAATTTAATTA
*
47337754 GGTTAGGGTTTTGAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
47337777 GGTTAGGGTTTTCTTTTCAATTTAATTA
1 GGTTAGGG---T-TTTT-AATTTAATTA
****
47337805 GGTTAGGGTTTAGGGTTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
*
47337828 GATTAGGG-TTTT--TTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
47337848 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
* *
47337871 GGTTAGGGTTTTCAATTTAATTG
1 GGTTAGGGTTTTTAATTTAATTA
* *
47337894 GGTTAGGGTTTTCTTTTCAAATTCATTAA
1 GGTTAGGG---T-TTTT-AATTTAATT-A
* *
47337923 GGGTTTAGGGTTTTTAATTAAATTA
1 -GGTTA-GGGTTTTTAATTTAATTA
* * *
47337948 GGCTAGGGTTTTTAATTAAATTT
1 GGTTAGGGTTTTTAATTTAATTA
*
47337971 GGTTATGGTTTT
1 GGTTAGGGTTTT
47337983 GGGTTTTTAA
Statistics
Matches: 293, Mismatches: 33, Indels: 44
0.79 0.09 0.12
Matches are distributed among these distances:
20 15 0.05
21 4 0.01
22 24 0.08
23 169 0.58
24 5 0.02
25 2 0.01
26 8 0.03
27 10 0.03
28 49 0.17
30 4 0.01
31 3 0.01
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.49
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTTAATTA
Found at i:47338011 original size:30 final size:30
Alignment explanation
Indices: 47337951--47338017 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
47337941 TAAATTAGGC
* *
47337951 TAGGGTTTTTAATTAAATTTGGTTATGGTT
1 TAGGGTTTTTAATTAAATTTAGTTAGGGTT
* *
47337981 TTGGGTTTTTAATT-ATTTTAAGTTAGGGTT
1 TAGGGTTTTTAATTAAATTT-AGTTAGGGTT
47338011 TAGGGTT
1 TAGGGTT
47338018 AAATTAGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (30 bp):
TAGGGTTTTTAATTAAATTTAGTTAGGGTT
Found at i:47338113 original size:71 final size:70
Alignment explanation
Indices: 47338032--47338164 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 70
47338022 TAGGTTAGGG
*
47338032 TTTTTATTACATAAAATAAACTTTTATTTTATTACATCAAATAATA-TCAAAATAACTCAAAAAA
1 TTTTTATTACATAAAATAAACTTCTATTTTATTACATCAAATAA-ACTCAAAAT-ACTCAAAAAA
47338096 ATTTCTA
64 ATTTCTA
*
47338103 TTTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAAACTTCAAAATACTCAAAA
1 TTTTTATTACATAAAATAAACTTCTATTTTATTACATCAAATAAAC-TCAAAATACTCAAAA
47338165 TATTTGTACA
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
70 1 0.02
71 50 0.86
72 7 0.12
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (70 bp):
TTTTTATTACATAAAATAAACTTCTATTTTATTACATCAAATAAACTCAAAATACTCAAAAAAAT
TTCTA
Found at i:47338151 original size:25 final size:25
Alignment explanation
Indices: 47338033--47338151 Score: 115
Period size: 25 Copynumber: 4.9 Consensus size: 25
47338023 AGGTTAGGGT
* *
47338033 TTTTATTACATAAAATAAACTTTTA
1 TTTTATTACATCAAATAAACTTCTA
47338058 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * * *
47338081 --AAATAAC-TCAAAAAAATTTCTA
1 TTTTATTACATCAAATAAACTTCTA
47338103 TTTTTATTACATCAAATAAACTTCTA
1 -TTTTATTACATCAAATAAACTTCTA
47338129 TTTTATTACATCAAATAAACTTC
1 TTTTATTACATCAAATAAACTTC
47338152 AAAATACTCA
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
20 5 0.07
21 8 0.11
22 2 0.03
23 2 0.03
24 3 0.04
25 42 0.56
26 13 0.17
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:47338599 original size:18 final size:18
Alignment explanation
Indices: 47338576--47338615 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
47338566 GACTCGGAAA
*
47338576 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
47338594 AGGATATATATAAGGGCT
1 AGGATACATATAAGGGCT
47338612 AGGA
1 AGGA
47338616 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.25
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:47339487 original size:21 final size:20
Alignment explanation
Indices: 47339454--47339492 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
47339444 TTTATTTTTA
*
47339454 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
*
47339474 AAAATCTAATATAAAAATT
1 AAAATCT-ACATAAAAATT
47339493 ACCTCGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:47340478 original size:11 final size:11
Alignment explanation
Indices: 47340464--47340499 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
47340454 GAATTTTGGA
47340464 AGGAAATTGAG
1 AGGAAATTGAG
47340475 AGGAAATTGAG
1 AGGAAATTGAG
*
47340486 AGAAAATATGAG
1 AGGAAAT-TGAG
47340498 AG
1 AG
47340500 AGGATTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:47341380 original size:22 final size:22
Alignment explanation
Indices: 47341355--47341397 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
47341345 TATCTAAACA
47341355 ATAACAACAAAAT-AGTAGCAAT
1 ATAACAACAAAATGA-TAGCAAT
*
47341377 ATAATAACAAAATGATAGCAA
1 ATAACAACAAAATGATAGCAA
47341398 AATAGCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATGATAGCAAT
Found at i:47343400 original size:11 final size:11
Alignment explanation
Indices: 47343378--47343410 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
47343368 ATTTCTTTTT
47343378 TTTTTCTT-TC
1 TTTTTCTTCTC
47343388 TTTTTCTTCTC
1 TTTTTCTTCTC
*
47343399 TTCTTCTTCTC
1 TTTTTCTTCTC
47343410 T
1 T
47343411 CCTTCTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTCTTCTC
Found at i:47346550 original size:23 final size:26
Alignment explanation
Indices: 47346491--47346584 Score: 101
Period size: 26 Copynumber: 3.8 Consensus size: 26
47346481 CTCACCACAT
47346491 CTCG-TATGAGCTTACCGATATATCAG
1 CTCGATATGAGCTTACCGATAT-TCAG
*
47346517 CTC-TTATGAGCTTACCG-T-TTCAG
1 CTCGATATGAGCTTACCGATATTCAG
* *
47346540 CTCGATA-GAGCTTACCGTTCTTCAG
1 CTCGATATGAGCTTACCGATATTCAG
47346565 CTCAGA-ATGAGCTTACCGAT
1 CTC-GATATGAGCTTACCGAT
47346585 CATGGCTCGA
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
23 17 0.28
24 4 0.07
25 10 0.17
26 29 0.48
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (26 bp):
CTCGATATGAGCTTACCGATATTCAG
Found at i:47348402 original size:21 final size:20
Alignment explanation
Indices: 47348374--47348417 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
47348364 TTCAATAATT
* *
47348374 ATTATATCACCTTACACTTC
1 ATTATATCACATAACACTTC
47348394 ATTACTATCACATAACACTTC
1 ATTA-TATCACATAACACTTC
47348415 ATT
1 ATT
47348418 TACGTCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.34, C:0.27, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTATATCACATAACACTTC
Found at i:47350859 original size:3 final size:3
Alignment explanation
Indices: 47350851--47350915 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
47350841 GGGTTTTAAA
* * * * *
47350851 AAT AAT AAT ACT AAT AAT AAT GAG AAT AAT -AT GAAT GAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
47350896 AAT AAT AAAT AAT GAAT AAT
1 AAT AAT -AAT AAT -AAT AAT
47350916 CTAAGGTTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.04
3 38 0.79
4 8 0.17
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:47351103 original size:15 final size:14
Alignment explanation
Indices: 47351067--47351116 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
47351057 ATATGATGAT
*
47351067 AATAATAACAAGTA
1 AATAATAAAAAGTA
47351081 AATAAATAAAAAGGTA
1 AAT-AATAAAAA-GTA
*
47351097 AATAAT-AATAGT-
1 AATAATAAAAAGTA
47351109 AATAATAA
1 AATAATAA
47351117 TATTAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 6 0.19
13 3 0.10
14 6 0.19
15 10 0.32
16 6 0.19
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (14 bp):
AATAATAAAAAGTA
Found at i:47359959 original size:45 final size:45
Alignment explanation
Indices: 47359889--47360004 Score: 146
Period size: 45 Copynumber: 2.6 Consensus size: 45
47359879 TAACCTAAAC
* *
47359889 CAGAAGGCAAAGATACAGTCAGTGATGGAACAACAGATTCTGAA-
1 CAGAAGGCAAAGATACAATCAGTGATGGAACAACAGATCCTGAAT
* *
47359933 CTAGAAGGCAAAGATACAATCGGTGATGGAACAGCAGATCCTGAAT
1 C-AGAAGGCAAAGATACAATCAGTGATGGAACAACAGATCCTGAAT
* * *
47359979 CAGAAGGTAAAAATACAGT-AGTGATG
1 CAGAAGGCAAAGATACAATCAGTGATG
47360005 AGACAGTATT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 7 0.11
45 54 0.87
46 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.26, T:0.17
Consensus pattern (45 bp):
CAGAAGGCAAAGATACAATCAGTGATGGAACAACAGATCCTGAAT
Found at i:47365266 original size:28 final size:27
Alignment explanation
Indices: 47365234--47365316 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
47365224 AAAGTATTTG
*
47365234 TTACACTTTTATAATTATAAATTATGTA
1 TTACATTTTTATAATTATAAA-TATGTA
*
47365262 TTACATTTTTATAATT-TAAAAATGTTA
1 TTACATTTTTATAATTATAAATATG-TA
* * *
47365289 TTTCGTTTTTATAATTAAAAATATGTA
1 TTACATTTTTATAATTATAAATATGTA
47365316 T
1 T
47365317 GTCAAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
26 3 0.06
27 23 0.49
28 21 0.45
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (27 bp):
TTACATTTTTATAATTATAAATATGTA
Found at i:47365888 original size:14 final size:14
Alignment explanation
Indices: 47365854--47365895 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
47365844 ATAAGTTAAC
47365854 AAAAATATTTTATATT
1 AAAAATA-TTT-TATT
47365870 AAAAATATATTTA-T
1 AAAAATAT-TTTATT
47365884 AAAAATATTTTA
1 AAAAATATTTTA
47365896 ATTTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.16
14 9 0.36
15 3 0.12
16 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAAAATATTTTATT
Found at i:47370193 original size:22 final size:23
Alignment explanation
Indices: 47370168--47370215 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
47370158 TTAAAAGATT
47370168 ATTTTTTAAATT-TTTTA-ATATA
1 ATTTTTTAAATTATTTTAGATA-A
*
47370190 ATTTTTTATATTATTTTAGATAA
1 ATTTTTTAAATTATTTTAGATAA
47370213 ATT
1 ATT
47370216 ATAAATATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 9 0.39
24 3 0.13
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTTTTTAAATTATTTTAGATAA
Found at i:47382994 original size:14 final size:14
Alignment explanation
Indices: 47382971--47383009 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
47382961 AATACTAACA
47382971 TTAAATAAATAAAT
1 TTAAATAAATAAAT
*
47382985 TTAAACAAATAAAT
1 TTAAATAAATAAAT
47382999 TGTAAATAAAT
1 T-TAAATAAAT
47383010 TTTTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (14 bp):
TTAAATAAATAAAT
Found at i:47385233 original size:21 final size:21
Alignment explanation
Indices: 47385194--47385254 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
47385184 GCTCATGTGA
*
47385194 AGGCCACACACGCCTGTGTAG
1 AGGCCACACACGCCCGTGTAG
* *
47385215 AGGCCACGCATGCCCGTGT-G
1 AGGCCACACACGCCCGTGTAG
**
47385235 AAGGGGACACACGCCCGTGT
1 -AGGCCACACACGCCCGTGT
47385255 GAGCAGCCCT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.21, C:0.33, G:0.33, T:0.13
Consensus pattern (21 bp):
AGGCCACACACGCCCGTGTAG
Found at i:47394699 original size:168 final size:170
Alignment explanation
Indices: 47394419--47394756 Score: 662
Period size: 168 Copynumber: 2.0 Consensus size: 170
47394409 ATTTATTTAA
47394419 ATAAAATTATTAATATTTATTGATAAAATTTTCCTTATTTTTTATTTTATTTGATGATGAAGAAT
1 ATAAAATTATTAATATTTATTGATAAAATTTTCCTTATTTTTTATTTTATTTGATGATGAAGAAT
47394484 TATATTATTATTTACTGATGATGTTTAAAAATTATATATATTTTTTATATAAGCTTAAAAATGGT
66 TATATTATTATTTACTGATGATGTTTAAAAATTATATATATTTTTTATATAAGCTTAAAAATGGT
47394549 ACATTACTTGTATGGAATAGGAATTTGATTTTTAAAAGAT
131 ACATTACTTGTATGGAATAGGAATTTGATTTTTAAAAGAT
47394589 ATAAAATTA-T-ATATTTATTGATAAAATTTTCCTTATTTTTTATTTTATTTGATGATGAAGAAT
1 ATAAAATTATTAATATTTATTGATAAAATTTTCCTTATTTTTTATTTTATTTGATGATGAAGAAT
47394652 TATATTATTATTTACTGATGATGTTTAAAAATTATATATATTTTTTATATAAGCTTAAAAATGGT
66 TATATTATTATTTACTGATGATGTTTAAAAATTATATATATTTTTTATATAAGCTTAAAAATGGT
47394717 ACATTACTTGTATGGAATAGGAATTTGATTTTTAAAAGAT
131 ACATTACTTGTATGGAATAGGAATTTGATTTTTAAAAGAT
47394757 GAAAATGCTG
Statistics
Matches: 168, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
168 158 0.94
169 1 0.01
170 9 0.05
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.48
Consensus pattern (170 bp):
ATAAAATTATTAATATTTATTGATAAAATTTTCCTTATTTTTTATTTTATTTGATGATGAAGAAT
TATATTATTATTTACTGATGATGTTTAAAAATTATATATATTTTTTATATAAGCTTAAAAATGGT
ACATTACTTGTATGGAATAGGAATTTGATTTTTAAAAGAT
Found at i:47400585 original size:17 final size:17
Alignment explanation
Indices: 47400563--47400604 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
47400553 ATTTTTATTT
*
47400563 TTTATTTTTTTCTTTAC
1 TTTATTTTTTGCTTTAC
* *
47400580 TTTATTTATTGCTTTAT
1 TTTATTTTTTGCTTTAC
47400597 TTTATTTT
1 TTTATTTT
47400605 ATTTTACTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTATTTTTTGCTTTAC
Found at i:47401634 original size:16 final size:14
Alignment explanation
Indices: 47401613--47401650 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
47401603 CCTAAAGCAT
47401613 AAAAAAAAGAGAGAA
1 AAAAAAAAGA-AGAA
47401628 AAAAAAAAGAAGAA
1 AAAAAAAAGAAGAA
47401642 AAGAAAAAA
1 AA-AAAAAA
47401651 ATAATTTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAGAA
Found at i:47406533 original size:40 final size:40
Alignment explanation
Indices: 47406474--47406577 Score: 95
Period size: 40 Copynumber: 2.6 Consensus size: 40
47406464 AATCATTAAT
* * * *
47406474 ATATCTAAGTAATTT-TCAAAATTTATAATGTTTTACCAAA
1 ATATTTAAG-AATTTATCAAAATTTATAAGGCTATACCAAA
* * *
47406514 ATATTTAAGAATTTATCAAATTTTCTAAGGCTATATCAAA
1 ATATTTAAGAATTTATCAAAATTTATAAGGCTATACCAAA
* *
47406554 ATATATAAAGATTTTAT-AAAATTT
1 ATAT-TTAAGAATTTATCAAAATTT
47406578 CTCCCTGATC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
39 5 0.10
40 37 0.71
41 10 0.19
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (40 bp):
ATATTTAAGAATTTATCAAAATTTATAAGGCTATACCAAA
Found at i:47406816 original size:20 final size:18
Alignment explanation
Indices: 47406786--47406885 Score: 67
Period size: 20 Copynumber: 4.9 Consensus size: 18
47406776 TAGCATATCA
*
47406786 AAATATCTAAGTATTTACC
1 AAATTTCTAAG-ATTTACC
47406805 AGAATTTCTAAGATTATACC
1 A-AATTTCTAAGATT-TACC
47406825 AAAATTT-TCAAGACTTTACC
1 -AAATTTCT-AAGA-TTTACC
47406845 AATATTTCTAAGAGTTTTAACC
1 AA-ATTTCTAAGA--TTT-ACC
*
47406867 AAAATTTCGAAAGATTTAC
1 -AAATTTC-TAAGATTTAC
47406886 TTAGTTGACT
Statistics
Matches: 67, Mismatches: 3, Indels: 21
0.74 0.03 0.23
Matches are distributed among these distances:
19 7 0.10
20 36 0.54
21 10 0.15
22 8 0.12
23 6 0.09
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (18 bp):
AAATTTCTAAGATTTACC
Found at i:47406873 original size:22 final size:20
Alignment explanation
Indices: 47406784--47406874 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
47406774 TTTAGCATAT
*
47406784 CAAAATATCTAAG-TATTTAC
1 CAAAATTTCTAAGAT-TTTAC
* *
47406804 CAGAATTTCTAAGATTATAC
1 CAAAATTTCTAAGATTTTAC
*
47406824 CAAAATTT-TCAAGACTTTAC
1 CAAAATTTCT-AAGATTTTAC
*
47406844 CAATATTTCTAAGAGTTTTAAC
1 CAAAATTTCTAAGA-TTTT-AC
47406866 CAAAATTTC
1 CAAAATTTC
47406875 GAAAGATTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
19 1 0.02
20 41 0.72
21 5 0.09
22 10 0.18
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (20 bp):
CAAAATTTCTAAGATTTTAC
Found at i:47407054 original size:20 final size:18
Alignment explanation
Indices: 47407031--47407099 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 18
47407021 GATTTGCCAG
47407031 TATTTCTAAGTGTTTATCAA
1 TATTTCTAAG-GTTTA-CAA
* *
47407051 TATTTCTACGCATTTACTAA
1 TATTTCTAAG-GTTTAC-AA
*
47407071 AATTTCTAAGGATTTAACAA
1 TATTTCTAAGG-TTT-ACAA
47407091 TATTTCTAA
1 TATTTCTAA
47407100 AGGTAGTTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
19 1 0.03
20 36 0.92
21 2 0.05
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (18 bp):
TATTTCTAAGGTTTACAA
Found at i:47407080 original size:60 final size:60
Alignment explanation
Indices: 47406987--47407099 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
47406977 TTATCAAAAT
** *
47406987 TCAATATTTCTAAAGATTTACCAAAACATCTAAGGATTTGCCAGTATTTCTAAGTGTTTA
1 TCAATATTTCTAAAGATTTACCAAAACATCTAAGGATTTAACAATATTTCTAAGTGTTTA
* * **
47407047 TCAATATTTCT-ACGCATTTACTAAAATTTCTAAGGATTTAACAATATTTCTAA
1 TCAATATTTCTAAAG-ATTTACCAAAACATCTAAGGATTTAACAATATTTCTAA
47407100 AGGTAGTTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 2 0.04
60 43 0.96
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (60 bp):
TCAATATTTCTAAAGATTTACCAAAACATCTAAGGATTTAACAATATTTCTAAGTGTTTA
Found at i:47407307 original size:40 final size:40
Alignment explanation
Indices: 47407214--47407307 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 40
47407204 AGAACCTTAA
* * *
47407214 AAATGTTGATAAATCCATAGATGTTTTAGTGGAACTTCAG
1 AAATTTTGATAAATCCATAGATATTTTAGTAGAACTTCAG
* * * *
47407254 AAATTTTGGTAAATCCATAGATATTTTGGTATAACTTTAG
1 AAATTTTGATAAATCCATAGATATTTTAGTAGAACTTCAG
*
47407294 GAATTCTT-ATAAAT
1 AAATT-TTGATAAAT
47407308 TTTGATAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 42 0.95
41 2 0.05
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (40 bp):
AAATTTTGATAAATCCATAGATATTTTAGTAGAACTTCAG
Found at i:47407327 original size:20 final size:20
Alignment explanation
Indices: 47407299--47407338 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47407289 TTTAGGAATT
* *
47407299 CTTATAAATTTTGATAAATC
1 CTTAAAAATATTGATAAATC
*
47407319 CTTAAAAATATTGGTAAATC
1 CTTAAAAATATTGATAAATC
47407339 AGTAGAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (20 bp):
CTTAAAAATATTGATAAATC
Found at i:47407416 original size:20 final size:21
Alignment explanation
Indices: 47407392--47407440 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
47407382 GGACACCAAG
*
47407392 AAAATCTTTACAAATTTTGGT
1 AAAATCTTTACAAATTTTGAT
* * *
47407413 -AAATATTTAGATATTTTGAT
1 AAAATCTTTACAAATTTTGAT
47407433 AAAATCTT
1 AAAATCTT
47407441 AGTAAAATAC
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (21 bp):
AAAATCTTTACAAATTTTGAT
Found at i:47417036 original size:14 final size:13
Alignment explanation
Indices: 47417004--47417041 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
47416994 TTTCCAAAAC
47417004 ATAAATT-ATTTA
1 ATAAATTAATTTA
*
47417016 TTAAATTAATTTAA
1 ATAAATTAATTT-A
47417030 ATAAATTAATTT
1 ATAAATTAATTT
47417042 TCCAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATAAATTAATTTA
Found at i:47417063 original size:17 final size:17
Alignment explanation
Indices: 47417015--47417060 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 17
47417005 TAAATTATTT
47417015 ATTAAATTAA-TTT--A
1 ATTAAATTAATTTTCCA
*
47417029 AATAAATTAATTTTCCA
1 ATTAAATTAATTTTCCA
47417046 ATTAAA-TAATTTTCC
1 ATTAAATTAATTTTCC
47417061 CAACTCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 9 0.33
15 3 0.11
16 9 0.33
17 6 0.22
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTAAATTAATTTTCCA
Found at i:47418275 original size:22 final size:22
Alignment explanation
Indices: 47418231--47418275 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
47418221 TTCCCGCAAC
* **
47418231 CTTGGATGTCACGACGCTGAAG
1 CTTGGATGTCACGACACCAAAG
*
47418253 CTTGGGTGTCACGACACCAAAG
1 CTTGGATGTCACGACACCAAAG
47418275 C
1 C
47418276 CTGATGGGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (22 bp):
CTTGGATGTCACGACACCAAAG
Found at i:47420033 original size:11 final size:11
Alignment explanation
Indices: 47420017--47420055 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
47420007 CTAAAAACAT
47420017 CAAAATAATAA
1 CAAAATAATAA
*
47420028 CAAAATAGTAA
1 CAAAATAATAA
*
47420039 CAATATAATAA
1 CAAAATAATAA
*
47420050 TAAAAT
1 CAAAAT
47420056 GGTAGTAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.23
Consensus pattern (11 bp):
CAAAATAATAA
Found at i:47423287 original size:98 final size:96
Alignment explanation
Indices: 47423109--47423288 Score: 272
Period size: 98 Copynumber: 1.9 Consensus size: 96
47423099 GCACCAAGTA
* * *
47423109 CAATTTTCGGCTCCCAATGCATTTTTTTACTTTGGAACACTGATGGCTGGCACCAGTGTATTTTT
1 CAATTTTCGGCTCCCAATGAATTTTTTTACTTTGGAACACTGATGGCTGGCACCAATATATTTTT
**
47423174 TATTAAAAATTTTTTTTTGGGTGCCGGAGTT
66 TATTAAAAAAATTTTTTTGGGTGCCGGAGTT
*
47423205 CAATTTTCGGCTCCCAATGAATTTTTTTTTACTTTGGAACACTGATGG-TCGGCATCAATATATT
1 CAATTTTCGGCTCCCAATGAA--TTTTTTTACTTTGGAACACTGATGGCT-GGCACCAATATATT
47423269 TTTTATTAAAAAAATTTTTT
63 TTTTATTAAAAAAATTTTTT
47423289 GGTACATGGC
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
96 20 0.27
97 1 0.01
98 54 0.72
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (96 bp):
CAATTTTCGGCTCCCAATGAATTTTTTTACTTTGGAACACTGATGGCTGGCACCAATATATTTTT
TATTAAAAAAATTTTTTTGGGTGCCGGAGTT
Found at i:47423347 original size:106 final size:97
Alignment explanation
Indices: 47423099--47423358 Score: 290
Period size: 106 Copynumber: 2.6 Consensus size: 97
47423089 GTAATGGTTG
47423099 GCACCAAGTACAATTTTCGGCTCCCAATGCATTTTTTTACTTTGGAACACTGATGGCTGGCACCA
1 GCACCAAGTACAATTTTCGGCTCCCAATGCATTTTTTTACTTTGGAACACTGATGGCTGGCACCA
* * * **
47423164 GTGTATTTTTTATTAAAAATTTTTTTTTGGGT
66 ATATATTTTTTATTAAAAATTTTTTTATGGCA
** * *
47423196 GC-CGGAGTTCAATTTTCGGCTCCCAATGAATTTTTTTTTACTTTGGAACACTGATGG-TCGGCA
1 GCACCAAGTACAATTTTCGGCTCCCAATGCA--TTTTTTTACTTTGGAACACTGATGGCT-GGCA
*
47423259 TCAATATATTTTTTATTAAAAAAATTTTTTGGTACATGGCCA
63 CCAATATATTTTTTATT--AAAAATTTTTT--T--ATGG-CA
* *
47423301 GCACCAAGTACAATTTTTGGCTCCCAATGCATCCTCTTTTACTTTGGAACACTGATGG
1 GCACCAAGTACAATTTTCGGCTCCCAATGCAT--TTTTTTACTTTGGAACACTGATGG
47423359 GCAAACCAGT
Statistics
Matches: 134, Mismatches: 16, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
96 24 0.18
97 3 0.02
98 43 0.32
100 11 0.08
102 1 0.01
104 4 0.03
105 2 0.01
106 46 0.34
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (97 bp):
GCACCAAGTACAATTTTCGGCTCCCAATGCATTTTTTTACTTTGGAACACTGATGGCTGGCACCA
ATATATTTTTTATTAAAAATTTTTTTATGGCA
Found at i:47423395 original size:106 final size:106
Alignment explanation
Indices: 47423205--47423395 Score: 222
Period size: 106 Copynumber: 1.8 Consensus size: 106
47423195 TGCCGGAGTT
** * * ** *
47423205 CAATTTTCGGCTCCCAATGAATTTTTTTTTACTTTGGAACACTGATGGTCGGCATCAATATATTT
1 CAATTTTCGGCTCCCAATGAATCCTCTTTTACTTTGGAACACTGATGGGCGAAACCAATATATTT
* ** **
47423270 TTTATTAAAAAAATTTTTTGGTACATGGCCAGCACCAAGTA
66 TTAAAAAAAAAAAAATTTTGGTACATGGCCAGCACCAAGTA
* * * *
47423311 CAATTTTTGGCTCCCAATGCATCCTCTTTTACTTTGGAACACTGATGGGC-AAACCAGTGTATTT
1 CAATTTTCGGCTCCCAATGAATCCTCTTTTACTTTGGAACACTGATGGGCGAAACCAATATATTT
47423375 TTAAAAAAAAAAAAAATTTTG
66 TT-AAAAAAAAAAAAATTTTG
47423396 AGTGCTGGCC
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
105 11 0.16
106 57 0.84
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (106 bp):
CAATTTTCGGCTCCCAATGAATCCTCTTTTACTTTGGAACACTGATGGGCGAAACCAATATATTT
TTAAAAAAAAAAAAATTTTGGTACATGGCCAGCACCAAGTA
Found at i:47426921 original size:36 final size:36
Alignment explanation
Indices: 47426874--47426945 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
47426864 AAAGGGGGAC
*
47426874 AAAAAAATCGAATAGAAAATAGAAAAATTTTATACA
1 AAAAAAATCGAATAGAAAATAGAAAAAGTTTATACA
47426910 AAAAAAATCGAATAGAAAATAGAAAAAGTTTATACA
1 AAAAAAATCGAATAGAAAATAGAAAAAGTTTATACA
47426946 GATTCAAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.64, C:0.06, G:0.10, T:0.21
Consensus pattern (36 bp):
AAAAAAATCGAATAGAAAATAGAAAAAGTTTATACA
Found at i:47427000 original size:19 final size:20
Alignment explanation
Indices: 47426961--47427011 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
47426951 AAAAGGTGTT
47426961 TTTTTTTCTTCTACTCTTTTA
1 TTTTTTT-TTCTACTCTTTTA
*
47426982 TTTTTTTTTCTGCTC-TTTA
1 TTTTTTTTTCTACTCTTTTA
*
47427001 CTTTTTTTTCT
1 TTTTTTTTTCT
47427012 TTCTTGCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.50
20 7 0.25
21 7 0.25
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTTTTTTCTACTCTTTTA
Found at i:47427887 original size:3 final size:3
Alignment explanation
Indices: 47427879--47427904 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47427869 TCTTTTAACC
47427879 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
47427905 TTGTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:47428164 original size:45 final size:45
Alignment explanation
Indices: 47428078--47428164 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
47428068 ATGCACATAT
* * * * * *
47428078 ATTTTATAATTTATATATATACATATATTTTTGTTATATTTTATA
1 ATTTTAAAATGTATATATAAACACACATATTTGTTATATTTTATA
47428123 ATTTTAAAATGTATATATAAACACACATATTT-TTATAATTTT
1 ATTTTAAAATGTATATATAAACACACATATTTGTTAT-ATTTT
47428165 TTTATAGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 4 0.11
45 31 0.89
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (45 bp):
ATTTTAAAATGTATATATAAACACACATATTTGTTATATTTTATA
Found at i:47429385 original size:27 final size:25
Alignment explanation
Indices: 47429355--47429588 Score: 117
Period size: 27 Copynumber: 9.6 Consensus size: 25
47429345 TGAGAAAAAA
47429355 TTAAATCTAAATGGAAAAAAAGATAGT
1 TTAAAT-TAAATGGAAAAAAAGATA-T
* *
47429382 TTAAATGAAATGAGAAAAAAA-ACA-
1 TTAAATTAAATG-GAAAAAAAGATAT
47429406 TTAAATTTAAATGGAAAAAAAG--A-
1 TTAAA-TTAAATGGAAAAAAAGATAT
*
47429429 -TAATTTAAATGGAAAAAAAGATAAT
1 TTAAATTAAATGGAAAAAAAGAT-AT
* *
47429454 TTAAATGAAAT-GAGAAAAA-A-A-
1 TTAAATTAAATGGAAAAAAAGATAT
*
47429475 -TAAATTAAAATGGAAAGAAAGATAAT
1 TTAAATT-AAATGGAAAAAAAGAT-AT
* * * * *
47429501 TTAAATGAAAAGAAAAAGAAATTAAAT
1 TTAAATTAAATGGAAAA-AAA-GATAT
*
47429528 TTAAATGAAAT-GAGAAAAAA-A-A-
1 TTAAATTAAATGGA-AAAAAAGATAT
*
47429550 TTAAATGAAA---AAAAAAAGATAAT
1 TTAAATTAAATGGAAAAAAAGAT-AT
*
47429573 TTAAATGAAATGGAAA
1 TTAAATTAAATGGAAA
47429589 TGAAAATGGA
Statistics
Matches: 164, Mismatches: 18, Indels: 51
0.70 0.08 0.22
Matches are distributed among these distances:
19 6 0.04
20 7 0.04
21 20 0.12
22 21 0.13
23 13 0.08
24 16 0.10
25 14 0.09
26 29 0.18
27 37 0.23
28 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (25 bp):
TTAAATTAAATGGAAAAAAAGATAT
Found at i:47429424 original size:51 final size:47
Alignment explanation
Indices: 47429336--47429588 Score: 167
Period size: 47 Copynumber: 5.3 Consensus size: 47
47429326 TATATTCAAC
*
47429336 TAAATGAAATGAGAAAAAATTAAATCTAAATGGAAAAAAAGATAGTT
1 TAAATGAAATGAGAAAAAATTAAATCTAAATGGAAAAAAAGATAATT
*
47429383 TAAATGAAATGAGAAAAAAAACATTAAATTTAAATGGAAAAAAAGATAATT
1 TAAATGAAATGAG---AAAAA-ATTAAATCTAAATGGAAAAAAAGATAATT
* *
47429434 TAAATGGAAA--A-AAAGATAATTTAAAT-GAAATGAGAAAAAAATA-AATT
1 TAAAT-GAAATGAGAAA-A-AA-TTAAATCTAAATG-GAAAAAAAGATAATT
* * * *
47429481 AAAATGGAAA-GA-AAGATAATTTAAAT-GAAA-AGAAAAAGAA-ATTAAATT
1 TAAAT-GAAATGAGAA-A-AAATTAAATCTAAATGGAAAAA-AAGA-T-AATT
*
47429529 TAAATGAAATGAG-AAAAA--AAAT-TAAATGAAAAAAAAAAGATAATT
1 TAAATGAAATGAGAAAAAATTAAATCTAAATG--GAAAAAAAGATAATT
47429574 TAAATGAAATG-GAAA
1 TAAATGAAATGAGAAA
47429589 TGAAAATGGA
Statistics
Matches: 171, Mismatches: 13, Indels: 46
0.74 0.06 0.20
Matches are distributed among these distances:
44 8 0.05
45 24 0.14
46 10 0.06
47 54 0.32
48 31 0.18
49 2 0.01
50 6 0.04
51 32 0.19
52 4 0.02
ACGTcount: A:0.64, C:0.01, G:0.13, T:0.22
Consensus pattern (47 bp):
TAAATGAAATGAGAAAAAATTAAATCTAAATGGAAAAAAAGATAATT
Found at i:47429438 original size:72 final size:70
Alignment explanation
Indices: 47429362--47429579 Score: 277
Period size: 72 Copynumber: 3.1 Consensus size: 70
47429352 AAATTAAATC
* *
47429362 TAAATGGAAAAAAAGATAGTTTAAATGAAATGAGAAAAAAAACATTAAATTTAAATGGAAAAAAA
1 TAAATGGAAAAAAAGATAATTTAAATGAAATGAG-AAAAAAA-ATTAAATTAAAATGGAAAAAAA
47429427 GATAATT
64 GATAATT
*
47429434 TAAATGGAAAAAAAGATAATTTAAATGAAATGAG-AAAAAAA-TAAATTAAAATGGAAAGAAAGA
1 TAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGAAAAAAAGA
47429497 TAATT
66 TAATT
* *
47429502 TAAATGAAAAGAAAAAGAAATTAAATTTAAATGAAATGAGAAAAAAAATTAAA-TGAAA---AAA
1 TAAATG-GAA-AAAAAG--A-T-AATTTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGAAA
47429563 AAAAGATAATT
60 AAAAGATAATT
47429574 TAAATG
1 TAAATG
47429580 AAATGGAAAT
Statistics
Matches: 132, Mismatches: 6, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
68 31 0.23
69 3 0.02
70 12 0.09
72 53 0.40
73 1 0.01
74 17 0.13
75 11 0.08
76 4 0.03
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.22
Consensus pattern (70 bp):
TAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGAAAAAAAGA
TAATT
Found at i:47429479 original size:119 final size:117
Alignment explanation
Indices: 47429336--47429588 Score: 336
Period size: 119 Copynumber: 2.1 Consensus size: 117
47429326 TATATTCAAC
* *
47429336 TAAATGAAATGAGAAAAAATTAAATCT-AAATGGAAAAAAAGATAGTTTAAATGAAATGAGAAAA
1 TAAATGAAATGAGAAAAAAATAAAT-TAAAATGGAAAAAAAGATAATTTAAATGAAA--AGAAAA
* * *
47429400 AAAACATTAAATTTAAATGGAAA-A-AAAGATAATTTAAATG-GAAAAAAAGATAATT
63 AAAA-ATTAAATTTAAAT-GAAAGAGAAA-AAAAATTAAATGAAAAAAAAAGATAATT
* *
47429455 TAAATGAAATGAGAAAAAAATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAAAGAAAAAGA
1 TAAATGAAATGAGAAAAAAATAAATTAAAATGGAAAAAAAGATAATTTAAATGAAAAGAAAAAAA
47429520 AATTAAATTTAAATGAAATGAGAAAAAAAATTAAATGAAAAAAAAAAGATAATT
66 AATTAAATTTAAATGAAA-GAGAAAAAAAATTAAATG-AAAAAAAAAGATAATT
47429574 TAAATGAAATG-GAAA
1 TAAATGAAATGAGAAA
47429589 TGAAAATGGA
Statistics
Matches: 121, Mismatches: 7, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
115 4 0.03
116 13 0.11
117 20 0.17
118 8 0.07
119 76 0.63
ACGTcount: A:0.64, C:0.01, G:0.13, T:0.22
Consensus pattern (117 bp):
TAAATGAAATGAGAAAAAAATAAATTAAAATGGAAAAAAAGATAATTTAAATGAAAAGAAAAAAA
AATTAAATTTAAATGAAAGAGAAAAAAAATTAAATGAAAAAAAAAGATAATT
Found at i:47429512 original size:21 final size:21
Alignment explanation
Indices: 47429409--47429582 Score: 120
Period size: 21 Copynumber: 7.6 Consensus size: 21
47429399 AAAAACATTA
47429409 AATTTAAATGGAAAA-AAAGAT
1 AATTTAAAT-GAAAAGAAAGAT
47429430 AATTTAAATGGAAAA-AAAGAT
1 AATTTAAAT-GAAAAGAAAGAT
*
47429451 AATTTAAATGAAATGAGAAAAAAAT
1 AATTTAAATGAAA--AG--AAAGAT
* *
47429476 AAATTAAAATGGAAAGAAAGAT
1 -AATTTAAATGAAAAGAAAGAT
47429498 AATTTAAATGAAAAGAAAAAGAAATT
1 AATTTAAATGAAAAG--AAAG--A-T
*
47429524 AAATTTAAATGAAATGAGAAA-AA
1 -AATTTAAATGAAA--AGAAAGAT
* *
47429547 AAATTAAATGAAAAAAAAAAGAT
1 AATTTAAATG--AAAAGAAAGAT
47429570 AATTTAAATGAAA
1 AATTTAAATGAAA
47429583 TGGAAATGAA
Statistics
Matches: 125, Mismatches: 11, Indels: 34
0.74 0.06 0.20
Matches are distributed among these distances:
20 4 0.03
21 46 0.37
22 19 0.15
23 14 0.11
24 6 0.05
25 6 0.05
26 12 0.10
27 16 0.13
29 2 0.02
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.22
Consensus pattern (21 bp):
AATTTAAATGAAAAGAAAGAT
Found at i:47429555 original size:17 final size:16
Alignment explanation
Indices: 47429503--47429565 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
47429493 AAGATAATTT
47429503 AAATGAAAAGAAAAA-G
1 AAATGAAAA-AAAAATG
* ***
47429519 AAATTAAATTTAAATG
1 AAATGAAAAAAAAATG
*
47429535 AAATGAGAAAAAAAATT
1 AAATGA-AAAAAAAATG
47429552 AAATGAAAAAAAAA
1 AAATGAAAAAAAAA
47429566 AGATAATTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
15 3 0.08
16 21 0.58
17 12 0.33
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (16 bp):
AAATGAAAAAAAAATG
Found at i:47429566 original size:17 final size:17
Alignment explanation
Indices: 47429530--47429566 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
47429520 AATTAAATTT
*
47429530 AAATGAAATGAGAAAAA
1 AAATGAAATGAAAAAAA
*
47429547 AAATTAAATGAAAAAAA
1 AAATGAAATGAAAAAAA
47429564 AAA
1 AAA
47429567 GATAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.14
Consensus pattern (17 bp):
AAATGAAATGAAAAAAA
Found at i:47429580 original size:72 final size:72
Alignment explanation
Indices: 47429381--47429616 Score: 240
Period size: 72 Copynumber: 3.2 Consensus size: 72
47429371 AAAAAGATAG
*
47429381 TTTAAATGAAATGAGAAAAAAAACATTAAATTTAAATGGAAAAAAAGATAATTTAAATG-GAA-A
1 TTTAAATGAAATGAG-AAAAAAA-ATTAAA-TTAAA---AAAAAAAGATAATTTAAATGAAAAGA
47429444 AAAAG--A-T-AA
60 AAAAGAAATTAAA
47429453 TTTAAATGAAATGAG-AAAAAAA-TAAATTAAAATGGAAAGAAAGATAATTTAAATGAAAAGAAA
1 TTTAAATGAAATGAGAAAAAAAATTAAATTAAAA---AAA-AAAGATAATTTAAATGAAAAGAAA
47429516 AAGAAATTAAA
62 AAGAAATTAAA
* * * *
47429527 TTTAAATGAAATGAGAAAAAAAATTAAATGAAAAAAAAAAGATAATTTAAATGAAATGGAAATGA
1 TTTAAATGAAATGAGAAAAAAAATTAAATTAAAAAAAAAAGATAATTTAAATGAAAAGAAAAAG-
*
47429592 AAATGGAAA
65 AAAT-TAAA
47429601 -TTAAATGAAATG-GAAA
1 TTTAAATGAAATGAGAAA
47429617 TACAAATGGA
Statistics
Matches: 144, Mismatches: 6, Indels: 28
0.81 0.03 0.16
Matches are distributed among these distances:
64 1 0.01
67 8 0.06
68 20 0.14
69 3 0.02
70 12 0.08
72 44 0.31
73 20 0.14
74 20 0.14
75 7 0.05
76 9 0.06
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.22
Consensus pattern (72 bp):
TTTAAATGAAATGAGAAAAAAAATTAAATTAAAAAAAAAAGATAATTTAAATGAAAAGAAAAAGA
AATTAAA
Found at i:47429583 original size:5 final size:5
Alignment explanation
Indices: 47429575--47429651 Score: 66
Period size: 5 Copynumber: 14.6 Consensus size: 5
47429565 AAGATAATTT
* *
47429575 AAATG AAATGG AAATG AAAATGG AAATT AAATG AAATGG AAATAC AAATG
1 AAATG AAAT-G AAATG -AAAT-G AAATG AAATG AAAT-G AAAT-G AAATG
* *
47429625 GAATG AAATG GAA-G AAATG AAATG AAA
1 AAATG AAATG AAATG AAATG AAATG AAA
47429652 AAAAGAAGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
4 3 0.05
5 32 0.55
6 22 0.38
7 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.22, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:47429590 original size:6 final size:6
Alignment explanation
Indices: 47429575--47429637 Score: 55
Period size: 6 Copynumber: 11.3 Consensus size: 6
47429565 AAGATAATTT
* * **
47429575 AAAT-G AAATGG AAATGA AAATGG AAAT-T AAAT-G AAATGG AAATAC
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
47429620 AAATGG -AAT-G AAATGG AA
1 AAATGG AAATGG AAATGG AA
47429638 GAAATGAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
4 1 0.02
5 18 0.39
6 27 0.59
ACGTcount: A:0.57, C:0.02, G:0.22, T:0.19
Consensus pattern (6 bp):
AAATGG
Found at i:47429594 original size:28 final size:27
Alignment explanation
Indices: 47429503--47429617 Score: 84
Period size: 28 Copynumber: 4.4 Consensus size: 27
47429493 AAGATAATTT
* * *
47429503 AAAT-GAAAAGAAAAAGAAATTAAATTT
1 AAATGGAAATGAAAAGGAAATTAAA-TG
**
47429530 AAAT-GAAATGAGAAAAAAAATTAAATG
1 AAATGGAAATGA-AAAGGAAATTAAATG
47429557 AAA---AAA--AAAA-GATAATTTAAATG
1 AAATGGAAATGAAAAGGA-AA-TTAAATG
47429580 AAATGGAAATGAAAATGGAAATTAAATG
1 AAATGGAAATGAAAA-GGAAATTAAATG
47429608 AAATGGAAAT
1 AAATGGAAAT
47429618 ACAAATGGAA
Statistics
Matches: 74, Mismatches: 4, Indels: 19
0.76 0.04 0.20
Matches are distributed among these distances:
21 1 0.01
22 5 0.07
23 11 0.15
25 3 0.04
26 3 0.04
27 14 0.19
28 33 0.45
29 2 0.03
30 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (27 bp):
AAATGGAAATGAAAAGGAAATTAAATG
Found at i:47429613 original size:16 final size:17
Alignment explanation
Indices: 47429586--47429617 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47429576 AATGAAATGG
47429586 AAATGAAAATGGAAATT
1 AAATGAAAATGGAAATT
47429603 AAATG-AAATGGAAAT
1 AAATGAAAATGGAAAT
47429618 ACAAATGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (17 bp):
AAATGAAAATGGAAATT
Found at i:47429617 original size:22 final size:22
Alignment explanation
Indices: 47429575--47429637 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
47429565 AAGATAATTT
* **
47429575 AAATGAAATGGAAATGAAAATGG
1 AAATGAAAT-GAAATGGAAATAC
*
47429598 AAATTAAATGAAATGGAAATAC
1 AAATGAAATGAAATGGAAATAC
*
47429620 AAATGGAATGAAATGGAA
1 AAATGAAATGAAATGGAA
47429638 GAAATGAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 26 0.76
23 8 0.24
ACGTcount: A:0.57, C:0.02, G:0.22, T:0.19
Consensus pattern (22 bp):
AAATGAAATGAAATGGAAATAC
Found at i:47429623 original size:17 final size:16
Alignment explanation
Indices: 47429586--47429633 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
47429576 AATGAAATGG
*
47429586 AAATGAAAATGGAAATT
1 AAATG-AAATGGAAATC
47429603 AAATGAAATGGAAATAC
1 AAATGAAATGGAAAT-C
*
47429620 AAATGGAAT-GAAAT
1 AAATGAAATGGAAAT
47429634 GGAAGAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.58, C:0.02, G:0.19, T:0.21
Consensus pattern (16 bp):
AAATGAAATGGAAATC
Found at i:47429623 original size:28 final size:28
Alignment explanation
Indices: 47429573--47429627 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
47429563 AAAAGATAAT
47429573 TTAAATGAAATGGAAATGAAAATGGAAA
1 TTAAATGAAATGGAAATGAAAATGGAAA
47429601 TTAAATGAAATGGAAAT-ACAAATGGAA
1 TTAAATGAAATGGAAATGA-AAATGGAA
47429628 TGAAATGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.56, C:0.02, G:0.20, T:0.22
Consensus pattern (28 bp):
TTAAATGAAATGGAAATGAAAATGGAAA
Found at i:47430111 original size:21 final size:22
Alignment explanation
Indices: 47430077--47430125 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
47430067 AAAAACGTAA
*
47430077 ATTAAAATGGAAAGAAAGATAAT
1 ATTAAAATGAAAAGAAA-ATAAT
*
47430100 -TTAAAA-GAAAAGAGAATAAT
1 ATTAAAATGAAAAGAAAATAAT
47430120 ATTAAA
1 ATTAAA
47430126 TTTAAATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.22
21 12 0.52
22 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.22
Consensus pattern (22 bp):
ATTAAAATGAAAAGAAAATAAT
Found at i:47430176 original size:47 final size:45
Alignment explanation
Indices: 47430124--47430326 Score: 273
Period size: 47 Copynumber: 4.4 Consensus size: 45
47430114 AATAATATTA
* *
47430124 AATTTAAATGAAATAAGAAAAAAATATATTAAAATGGAAAGAAAGAT
1 AATTTAAATGAAATGAGAAAAAAATAAATTAAAATGGAAA-AAA-AT
47430171 AATTTAAATGAAATGAGAAAAAAATAAAATT-AAATGGAAAAAAAAT
1 AATTTAAATGAAATGAGAAAAAAAT-AAATTAAAATGG-AAAAAAAT
* *
47430217 AATTTAAATGAAATGAGAAAAAAATTAATTAAAATGGGAAGAAATAT
1 AATTTAAATGAAATGAGAAAAAAATAAATTAAAAT-GGAA-AAAAAT
*
47430264 AATTTAAATGAAATGAGAAAAAAACTAAATTTAAATGGGAAAAAAAT
1 AATTTAAATGAAATGAGAAAAAAA-TAAATTAAAAT-GGAAAAAAAT
*
47430311 AATTTAAATAAAATGA
1 AATTTAAATGAAATGA
47430327 AAATGGAAAT
Statistics
Matches: 142, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
45 4 0.03
46 33 0.23
47 84 0.59
48 21 0.15
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.24
Consensus pattern (45 bp):
AATTTAAATGAAATGAGAAAAAAATAAATTAAAATGGAAAAAAAT
Found at i:47430200 original size:21 final size:21
Alignment explanation
Indices: 47430176--47430312 Score: 87
Period size: 21 Copynumber: 6.0 Consensus size: 21
47430166 AAGATAATTT
47430176 AAATGAAATGAGAAAAAAATA
1 AAATGAAATGAGAAAAAAATA
*
47430197 AAATTAAATG-GAAAAAAAATAA
1 AAATGAAATGAG-AAAAAAAT-A
*
47430219 TTTAAATGAAATGAGAAAAAAATT
1 ---AAATGAAATGAGAAAAAAATA
* * * *
47430243 AATTAAAATGGGAAGAAATATAATTT
1 AAATGAAAT--G-AGAAA-A-AAATA
47430269 AAATGAAATGAGAAAAAAACTA
1 AAATGAAATGAGAAAAAAA-TA
* * *
47430291 AATTTAAATGGGAAAAAAATA
1 AAATGAAATGAGAAAAAAATA
47430312 A
1 A
47430313 TTTAAATAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
20 1 0.01
21 29 0.32
22 19 0.21
23 6 0.07
24 6 0.07
25 18 0.20
26 12 0.13
ACGTcount: A:0.64, C:0.01, G:0.13, T:0.22
Consensus pattern (21 bp):
AAATGAAATGAGAAAAAAATA
Found at i:47430236 original size:93 final size:94
Alignment explanation
Indices: 47430124--47430326 Score: 329
Period size: 93 Copynumber: 2.2 Consensus size: 94
47430114 AATAATATTA
*
47430124 AATTTAAATGAAATAAGAAAAAAA-TATATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAG
1 AATTTAAATGAAATGAGAAAAAAATTA-ATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAG
47430188 AAAAAAA-TAAAATTAAATGGAAAAAAAAT
65 AAAAAAACTAAAATTAAATGGAAAAAAAAT
* *
47430217 AATTTAAATGAAATGAGAAAAAAATTAATTAAAATGGGAAGAAATATAATTTAAATGAAATGAGA
1 AATTTAAATGAAATGAGAAAAAAATTAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGA
* *
47430282 AAAAAACTAAATTTAAATGGGAAAAAAAT
66 AAAAAACTAAAATTAAATGGAAAAAAAAT
*
47430311 AATTTAAATAAAATGA
1 AATTTAAATGAAATGA
47430327 AAATGGAAAT
Statistics
Matches: 102, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
93 65 0.64
94 37 0.36
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.24
Consensus pattern (94 bp):
AATTTAAATGAAATGAGAAAAAAATTAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGA
AAAAAACTAAAATTAAATGGAAAAAAAAT
Found at i:47430336 original size:17 final size:16
Alignment explanation
Indices: 47430316--47430415 Score: 73
Period size: 17 Copynumber: 6.2 Consensus size: 16
47430306 AAAATAATTT
47430316 AAATAAAATGAAAATGG
1 AAATAAAATG-AAATGG
47430333 AAATGAAAATGAAAT-G
1 AAAT-AAAATGAAATGG
** * *
47430349 AAACGGAAATACAAATAG
1 AAA-TAAAAT-GAAATGG
* *
47430367 -AATGAAATGGAA--G
1 AAATAAAATGAAATGG
47430380 AAATAAAATGAAATGG
1 AAATAAAATGAAATGG
47430396 AAATAAAAATGAAATGG
1 AAAT-AAAATGAAATGG
47430413 AAA
1 AAA
47430416 AAAGAAAGAA
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
13 1 0.01
14 10 0.15
15 2 0.03
16 18 0.27
17 29 0.43
18 7 0.10
ACGTcount: A:0.63, C:0.02, G:0.19, T:0.16
Consensus pattern (16 bp):
AAATAAAATGAAATGG
Found at i:47430389 original size:19 final size:18
Alignment explanation
Indices: 47430361--47430417 Score: 80
Period size: 19 Copynumber: 3.2 Consensus size: 18
47430351 ACGGAAATAC
*
47430361 AAATAGAATGAAATGGAA
1 AAATAAAATGAAATGGAA
47430379 GAAATAAAATGAAATGGAA
1 -AAATAAAATGAAATGGAA
*
47430398 ATA-AAAATGAAATGGAA
1 AAATAAAATGAAATGGAA
47430415 AAA
1 AAA
47430418 AGAAAGAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
17 16 0.46
18 2 0.06
19 17 0.49
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (18 bp):
AAATAAAATGAAATGGAA
Found at i:47430398 original size:41 final size:45
Alignment explanation
Indices: 47430316--47430416 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 45
47430306 AAAATAATTT
* *
47430316 AAATAAAATGAAAATGGAAATGAAAATGAAATGAAACGGAAATAC
1 AAATAAAATGAAAATGGAAATGAAAATAAAATGAAACGGAAATAA
* *
47430361 AAATAGAATG-AAATGG-AA-G-AAATAAAATGAAATGGAAATAA
1 AAATAAAATGAAAATGGAAATGAAAATAAAATGAAACGGAAATAA
*
47430402 AAATGAAATGGAAAA
1 AAATAAAAT-GAAAA
47430417 AAGAAAGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 26 0.54
42 2 0.04
43 5 0.10
44 6 0.12
45 9 0.19
ACGTcount: A:0.63, C:0.02, G:0.19, T:0.16
Consensus pattern (45 bp):
AAATAAAATGAAAATGGAAATGAAAATAAAATGAAACGGAAATAA
Found at i:47430415 original size:6 final size:5
Alignment explanation
Indices: 47430316--47430411 Score: 52
Period size: 5 Copynumber: 18.0 Consensus size: 5
47430306 AAAATAATTT
* * *
47430316 AAATA AAATG AAAATGG AAATG AAAATG AAATG AAACGG AAATAC AAAT-
1 AAATG AAATG -AAAT-G AAATG -AAATG AAATG AAA-TG AAAT-G AAATG
* * *
47430365 AGAATG AAATG GAA-G AAATA AAATG AAATGG AAATAA AAATG AAATG
1 A-AATG AAATG AAATG AAATG AAATG AAAT-G AAAT-G AAATG AAATG
47430412 GAAAAAAGAA
Statistics
Matches: 71, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
4 4 0.06
5 35 0.49
6 31 0.44
7 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.19, T:0.17
Consensus pattern (5 bp):
AAATG
Found at i:47430426 original size:17 final size:16
Alignment explanation
Indices: 47430370--47430426 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 16
47430360 CAAATAGAAT
47430370 GAAATGGAAGAAATAAAA
1 GAAATGGAA-AAA-AAAA
*
47430388 TGAAATGGAAATAAAAAT
1 -GAAATGGAAA-AAAAAA
47430406 GAAATGGAAAAAAGAAA
1 GAAATGGAAAAAA-AAA
47430423 GAAA
1 GAAA
47430427 GATGAAAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 3 0.09
17 16 0.47
18 4 0.12
19 11 0.32
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (16 bp):
GAAATGGAAAAAAAAA
Found at i:47430507 original size:29 final size:29
Alignment explanation
Indices: 47430444--47430509 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
47430434 GGACATTGCG
*
47430444 GCAGGCCTGGGAATAAGTTGTCAGCACAA
1 GCAGGCCTGGGAATAAGTGGTCAGCACAA
* *
47430473 GTAGGCCTGGGAATCAA-TGGTCGGCACCAA
1 GCAGGCCTGGGAAT-AAGTGGTCAGCA-CAA
47430503 -CAGGCCT
1 GCAGGCCT
47430510 AGTACCTAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.27, C:0.24, G:0.32, T:0.17
Consensus pattern (29 bp):
GCAGGCCTGGGAATAAGTGGTCAGCACAA
Found at i:47430879 original size:19 final size:19
Alignment explanation
Indices: 47430852--47430890 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
47430842 TAAATGTTAA
47430852 ATGAATATGAAATGAAATG
1 ATGAATATGAAATGAAATG
* *
47430871 ATGATTATGAAATGGAATG
1 ATGAATATGAAATGAAATG
47430890 A
1 A
47430891 AAGTTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (19 bp):
ATGAATATGAAATGAAATG
Found at i:47430939 original size:18 final size:18
Alignment explanation
Indices: 47430918--47431034 Score: 71
Period size: 18 Copynumber: 6.3 Consensus size: 18
47430908 AATTATAAAT
*
47430918 TGAAATGAAAACAAAAAC
1 TGAAATGAAAAAAAAAAC
*
47430936 TGAAATGAAAAAAAAAAT
1 TGAAATGAAAAAAAAAAC
47430954 TGAAATGAGAAATAATTAAATA-
1 TGAAATGA-AAA-AA--AAA-AC
47430976 T-AAATGGAAAAAAATTAAA-
1 TGAAAT-GAAAAAAA--AAAC
* ***
47430995 TGAAATGGAAATGTAAA-
1 TGAAATGAAAAAAAAAAC
*
47431012 TGAAATGAAAAAAAAAAT
1 TGAAATGAAAAAAAAAAC
47431030 TGAAA
1 TGAAA
47431035 GGGGTATTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 20
0.72 0.09 0.18
Matches are distributed among these distances:
17 16 0.20
18 30 0.38
19 9 0.11
20 10 0.13
21 7 0.09
22 6 0.08
23 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.14, T:0.20
Consensus pattern (18 bp):
TGAAATGAAAAAAAAAAC
Found at i:47430980 original size:21 final size:21
Alignment explanation
Indices: 47430967--47431005 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
47430957 AATGAGAAAT
47430967 AATTAAATATAAATGGAAAAA
1 AATTAAATATAAATGGAAAAA
*
47430988 AATTAAAT-GAAATGGAAA
1 AATTAAATATAAATGGAAA
47431006 TGTAAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (21 bp):
AATTAAATATAAATGGAAAAA
Found at i:47431013 original size:17 final size:16
Alignment explanation
Indices: 47430987--47431018 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
47430977 AAATGGAAAA
47430987 AAATTAAATGAAATGG
1 AAATTAAATGAAATGG
47431003 AAATGTAAATGAAATG
1 AAAT-TAAATGAAATG
47431019 AAAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (16 bp):
AAATTAAATGAAATGG
Found at i:47444784 original size:38 final size:39
Alignment explanation
Indices: 47444740--47444824 Score: 136
Period size: 38 Copynumber: 2.2 Consensus size: 39
47444730 AAAATTTATA
*
47444740 TTTAATACAATAAAATATTTATTATATTTAT-TTGTGTT
1 TTTAATACAATAAAATATTTATTATATTTATATAGTGTT
*
47444778 TTTAATATAATAAAATATTTATTATATTTATGATAGTGTT
1 TTTAATACAATAAAATATTTATTATATTTAT-ATAGTGTT
47444818 TTTAATA
1 TTTAATA
47444825 TAAATACTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
38 30 0.70
40 13 0.30
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (39 bp):
TTTAATACAATAAAATATTTATTATATTTATATAGTGTT
Found at i:47463548 original size:100 final size:100
Alignment explanation
Indices: 47463317--47464133 Score: 895
Period size: 100 Copynumber: 8.2 Consensus size: 100
47463307 AAGTAATGCA
* * * *
47463317 GCTTCAATCTTTTAAATTGCAATGTTGGGGAA-ACGAGATTCATCGTCGTAGCTTCAATCTATTC
1 GCTTCAATCTTTGAAATTGCAATGTCGGGGAAGA-GAGATTCACCGTCGTAGCTTCAATCTGTTC
*
47463381 CG-TCGCATCGCCTGGG-AGTAAGATTCGTCGTTGTG
65 CGCT-GCATCGCCTGGGAAGTAAGATTCGCCGTTGTG
* * * * *
47463416 GCCTCAATCTTTTAAATTGCAATGTTGGGGAAGCAG-GATTCGCCGTTGTAGCTTCAATCTGTTC
1 GCTTCAATCTTTGAAATTGCAATGTCGGGGAAG-AGAGATTCACCGTCGTAGCTTCAATCTGTTC
* * *
47463480 CGCTGCATCGTCT-GAAAGGTAAGATTCGCCGTTGTA
65 CGCTGCATCGCCTGGGAA-GTAAGATTCGCCGTTGTG
* * * * *
47463516 GCTTCAATCTTTGAAACTGCAATGTCGAGGAAGCA-AGATTCACCGTCGTAGCTTTAATCTATTT
1 GCTTCAATCTTTGAAATTGCAATGTCGGGGAAG-AGAGATTCACCGTCGTAGCTTCAATCTGTTC
* * *
47463580 CGTTGCATCGTCT-GGAAGTAGGATTCGCCGTTGTG
65 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTG
* * * *
47463615 GCTTCAATCTTT-TAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTGC
1 GCTTCAATCTTTGAAATTGCAATGTCGGGGAAGAGAGATTCACCGTCGTAGCTTCAATCTGTTCC
* * *
47463679 GCTGTATCGCTTGGGAAGTAAGATTCACCGTTGTG
66 GCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTG
* * * * *
47463714 GCTTCGATCTTTTG-AATTGCAATGTCGAGGAAGGGAGATTCACTGTCGTAGCTTCAATCTATTC
1 GCTTCAATC-TTTGAAATTGCAATGTCGGGGAAGAGAGATTCACCGTCGTAGCTTCAATCTGTTC
* *
47463778 CACTGCATCGCCTGGGAAGTAAGATTTGCCGTTGTG
65 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTG
* * * * *
47463814 GCTTCGATCTTTTG-AATTGCAATGTCGGGGAAGTGAGATTCGCTGTCGTAGCTTTAATCTGTTC
1 GCTTCAATC-TTTGAAATTGCAATGTCGGGGAAGAGAGATTCACCGTCGTAGCTTCAATCTGTTC
* * *
47463878 CGCTGCATCTCCTGGGAAGTAAAATTCGCCGTTGTA
65 CGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTG
* * * ** *
47463914 GCCTCAATCTTTTAAATTGTAATGTCGGGGAAGCAG-GATTCGTCGTTGTAGCTTCAATCTGTTC
1 GCTTCAATCTTTGAAATTGCAATGTCGGGGAAG-AGAGATTCACCGTCGTAGCTTCAATCTGTTC
* * * ** *
47463978 CGTTACATCGCCT-GAAAGGTAAGATTCGCTATTGTA
65 CGCTGCATCGCCTGGGAA-GTAAGATTCGCCGTTGTG
* * * *
47464014 GCTTCAATCTTTGAAACTGCAATGTCGAGGAAGTGAGATTCACCGTCGTAGCTTCAATCTGTTTC
1 GCTTCAATCTTTGAAATTGCAATGTCGGGGAAGAGAGATTCACCGTCGTAGCTTCAATCTGTTCC
* *
47464079 GCTGCACCGCCTGGGAAGTAAGATTCGCTGTTGTG
66 GCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTG
*
47464114 GCTTCGATCTTTTG-AATTGC
1 GCTTCAATC-TTTGAAATTGC
47464134 CAGGGAAGCA
Statistics
Matches: 609, Mismatches: 93, Indels: 31
0.83 0.13 0.04
Matches are distributed among these distances:
98 52 0.09
99 129 0.21
100 419 0.69
101 9 0.01
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (100 bp):
GCTTCAATCTTTGAAATTGCAATGTCGGGGAAGAGAGATTCACCGTCGTAGCTTCAATCTGTTCC
GCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTG
Found at i:47463912 original size:200 final size:200
Alignment explanation
Indices: 47463127--47464133 Score: 1025
Period size: 200 Copynumber: 5.1 Consensus size: 200
47463117 GGATTGGCTT
* ** * *
47463127 CTTCAATATGTTT-AATTGCAATGTCGAGGAAGTAAGATTCGCT-GTCATAGCTTCAATCTATTC
1 CTTCAATCT-TTTGAATTGCAATGTCGAGGAAGCGAGATTCACTCGTCGTAGCTTCAATCTATTC
** * * * * * **** *
47463190 CACTACACCGCCAGGGAAAGTAAGATTCGTCGTTGTGGCCTCAATCTATTT-AACCATAATGTCA
65 CGTTGCATCGCC-TGG-AAGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTGAATTGCAATGTCG
*** ** * * * *
47463254 GGGAAACAAGATTCGCCGTTTTAGCTTCAATCTGTTCCGTTGCACCGCTTGGAAAGT-A-A-T-G
127 GGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCG
47463315 -C-----AG
192 CCGTTGTAG
* * * *
47463318 CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTCA-TCGTCGTAGCTTCAATCTATTCC
1 CTTCAATCTTTTGAATTGCAATGTCGAGGAAGCGAGATTCACTCGTCGTAGCTTCAATCTATTCC
* * * * * *
47463382 GTCGCATCGCCTGGGAGTAAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATGTTGGGGA
66 GTTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGA
* * * *
47463447 AG-CAGGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGTCT-GAAAGGTAAGATTCGCC
131 AGTGA-GATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA-GTAAGATTCGCC
47463510 GTTGTAG
194 GTTGTAG
* * * *
47463517 CTTCAATC-TTTGAAACTGCAATGTCGAGGAAGCAAGATTCAC-CGTCGTAGCTTTAATCTATTT
1 CTTCAATCTTTTG-AATTGCAATGTCGAGGAAGCGAGATTCACTCGTCGTAGCTTCAATCTATTC
* *
47463580 CGTTGCATCGTCTGGAAGTAGGATTCGCCGTTGTGGCTTCAATCTTTT-AATTGCAATGTCGGGG
65 CGTTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGG
* * * *
47463644 AAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTGCGCTGTATCGCTTGGGAAGTAAGATTCACCG
130 AAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCG
*
47463709 TTGTGG
195 TTGTAG
* *
47463715 CTTCGATCTTTTGAATTGCAATGTCGAGGAAGGGAGATTCACT-GTCGTAGCTTCAATCTATTCC
1 CTTCAATCTTTTGAATTGCAATGTCGAGGAAGCGAGATTCACTCGTCGTAGCTTCAATCTATTCC
** * *
47463779 ACTGCATCGCCTGGGAAGTAAGATTTGCCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGG
66 GTTGCATCGCCT-GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGG
* * * *
47463844 AAGTGAGATTCGCTGTCGTAGCTTTAATCTGTTCCGCTGCATCTCCTGGGAAGTAAAATTCGCCG
130 AAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCG
47463909 TTGTAG
195 TTGTAG
* * * * * * *
47463915 CCTCAATCTTTTAAATTGTAATGTCGGGGAAGC-AGGATTC-GTCGTTGTAGCTTCAATCTGTTC
1 CTTCAATCTTTTGAATTGCAATGTCGAGGAAGCGA-GATTCACTCGTCGTAGCTTCAATCTATTC
* * ** * * *
47463978 CGTTACATCGCCTGAAAGGTAAGATTCGCTATTGTAGCTTCAATC-TTTGAAACTGCAATGTCGA
65 CGTTGCATCGCCTGGAA-GTAAGATTCGCCGTTGTGGCTTCAATCTTTTG-AATTGCAATGTCGG
* * *
47464042 GGAAGTGAGATTCACCGTCGTAGCTTCAATCTGTTTCGCTGCACCGCCTGGGAAGTAAGATTCGC
128 GGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGC
* *
47464107 TGTTGTGG
193 CGTTGTAG
*
47464115 CTTCGATCTTTTGAATTGC
1 CTTCAATCTTTTGAATTGC
47464134 CAGGGAAGCA
Statistics
Matches: 683, Mismatches: 106, Indels: 45
0.82 0.13 0.05
Matches are distributed among these distances:
188 8 0.01
189 79 0.12
190 7 0.01
191 57 0.08
192 1 0.00
193 1 0.00
194 1 0.00
198 135 0.20
199 143 0.21
200 251 0.37
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (200 bp):
CTTCAATCTTTTGAATTGCAATGTCGAGGAAGCGAGATTCACTCGTCGTAGCTTCAATCTATTCC
GTTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGA
AGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGT
TGTAG
Found at i:47464084 original size:50 final size:49
Alignment explanation
Indices: 47463397--47464126 Score: 342
Period size: 50 Copynumber: 14.7 Consensus size: 49
47463387 ATCGCCTGGG
* * * *** * *
47463397 AGTAAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATGTTGGGGA
1 AGTAAGATTCGCCGTTGTAGCTTCAATCTTTT-CGCTGCAATGTCGAGGA
* * *
47463447 AGCAGGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGC-ATCGTCTGA--A
1 AGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCGCTGCAAT-GTC-GAGGA
***
47463496 AGGTAAGATTCGCCGTTGTAGCTTCAATCTTTGAAACTGCAATGTCGAGGA
1 A-GTAAGATTCGCCGTTGTAGCTTCAATCTTT-TCGCTGCAATGTCGAGGA
* * * * * *
47463547 AGCAAGATTCACCGTCGTAGCTTTAATCTATTTCGTTGC-ATCGTC-TGGA
1 AGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCGCTGCAAT-GTCGAGGA
* * *** *
47463596 AGTAGGATTCGCCGTTGTGGCTTCAATCTTTTAATTGCAATGTCGGGGA
1 AGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCGCTGCAATGTCGAGGA
* * * * *
47463645 AGTGAGATTCGCCGTCGTAGCTTCAATCTGTTGCGCTG-TATCGCTTG-GGA
1 AGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCGCTGCAAT-G-TCGAGGA
* * * *
47463695 AGTAAGATTCACCGTTGTGGCTTCGATCTTTT-GAATTGCAATGTCGAGGA
1 AGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCG--CTGCAATGTCGAGGA
** * * * * * *
47463745 AGGGAGATTCACTGTCGTAGCTTCAATCTATTCCACTGC-ATCGCCTG-GGA
1 AGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCGCTGCAAT-GTC-GAGGA
* * * * *
47463795 AGTAAGATTTGCCGTTGTGGCTTCGATCTTTT-GAATTGCAATGTCGGGGA
1 AGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCG--CTGCAATGTCGAGGA
* * * * * *
47463845 AGTGAGATTCGCTGTCGTAGCTTTAATCTGTTCCGCTGC-ATCTCCTG-GGA
1 AGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCGCTGCAATGT-C-GAGGA
* * *** * *
47463895 AGTAAAATTCGCCGTTGTAGCCTCAATCTTTTAAATTGTAATGTCGGGGA
1 AGTAAGATTCGCCGTTGTAGCTTCAATCTTTT-CGCTGCAATGTCGAGGA
* * * * * * *
47463945 AGCAGGATTCGTCGTTGTAGCTTCAATCTGTTCCGTTAC-ATCGCCTGA--A
1 AGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCGCTGCAAT-GTC-GAGGA
** ***
47463994 AGGTAAGATTCGCTATTGTAGCTTCAATCTTTGAAACTGCAATGTCGAGGA
1 A-GTAAGATTCGCCGTTGTAGCTTCAATCTTT-TCGCTGCAATGTCGAGGA
* * * ** *
47464045 AGTGAGATTCACCGTCGTAGCTTCAATCTGTTTCGCTGCACCGCCTG-GGA
1 AGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCGCTGCAATGTC-GAGGA
* * *
47464095 AGTAAGATTCGCTGTTGTGGCTTCGATCTTTT
1 AGTAAGATTCGCCGTTGTAGCTTCAATCTTTT
47464127 GAATTGCCAG
Statistics
Matches: 499, Mismatches: 137, Indels: 89
0.69 0.19 0.12
Matches are distributed among these distances:
48 11 0.02
49 94 0.19
50 359 0.72
51 34 0.07
52 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (49 bp):
AGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCGCTGCAATGTCGAGGA
Found at i:47482697 original size:31 final size:30
Alignment explanation
Indices: 47482644--47482702 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
47482634 ATATTTAATT
* *
47482644 ACATTGAATCAAAGTTTATGTATTAAATTGC
1 ACATTGAATCAAAATTCATGTA-TAAATTGC
* *
47482675 ACATTGGATCAAAATTCGTGTATAAATT
1 ACATTGAATCAAAATTCATGTATAAATT
47482703 TGAAATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (30 bp):
ACATTGAATCAAAATTCATGTATAAATTGC
Found at i:47483124 original size:21 final size:21
Alignment explanation
Indices: 47483100--47483153 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
47483090 CACCATTGTT
47483100 TCTAATCTCACCGATACAGTA
1 TCTAATCTCACCGATACAGTA
* *
47483121 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACCGATACAGTA
*
47483142 ACTAATCTCACC
1 TCTAATCTCACC
47483154 ACCACCACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.30
Consensus pattern (21 bp):
TCTAATCTCACCGATACAGTA
Found at i:47484501 original size:21 final size:21
Alignment explanation
Indices: 47484477--47484529 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
47484467 CATTGTTTCT
*
47484477 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
47484498 AATCTCACTGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
47484519 AATCTCACCGC
1 AATCTCACCGC
47484530 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:47493981 original size:24 final size:25
Alignment explanation
Indices: 47493935--47493981 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
47493925 ACTATGTCAA
*
47493935 TTAAAAATAAAACTTACATAATATT
1 TTAAAAATAAAACTTACAAAATATT
47493960 TTAAAATATAAAA-TT-CAAAATA
1 TTAAAA-ATAAAACTTACAAAATA
47493982 GTTAAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 6 0.30
25 8 0.40
26 6 0.30
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (25 bp):
TTAAAAATAAAACTTACAAAATATT
Found at i:47512665 original size:23 final size:23
Alignment explanation
Indices: 47512630--47512684 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
47512620 CAGCCCGTAT
47512630 TATT-TTTTAAAAATATA-TATTTA
1 TATTATTTT-AAAAT-TAGTATTTA
47512653 TATTATTTTAAAATTAGTATTTA
1 TATTATTTTAAAATTAGTATTTA
*
47512676 -ATAATTTTA
1 TATTATTTTA
47512685 TATATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 10 0.34
23 15 0.52
24 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TATTATTTTAAAATTAGTATTTA
Found at i:47513638 original size:11 final size:11
Alignment explanation
Indices: 47513619--47513671 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
47513609 AAAATTGTTA
*
47513619 TTTTTTTACTG
1 TTTTCTTACTG
* *
47513630 TTTTGTTACTA
1 TTTTCTTACTG
*
47513641 TTTTCTTATTG
1 TTTTCTTACTG
47513652 TTTTCTTACTG
1 TTTTCTTACTG
*
47513663 TTTTGTTAC
1 TTTTCTTAC
47513672 CATTTTATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.68
Consensus pattern (11 bp):
TTTTCTTACTG
Found at i:47513662 original size:33 final size:33
Alignment explanation
Indices: 47513619--47513683 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
47513609 AAAATTGTTA
* * *
47513619 TTTTTTTACTGTTTTGTTACTATTTTCTTATTG
1 TTTTCTTACTGTTTTGTTACCATTTTATTATTG
47513652 TTTTCTTACTGTTTTGTTACCATTTTATTATT
1 TTTTCTTACTGTTTTGTTACCATTTTATTATT
47513684 ATGTTACTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.14, C:0.11, G:0.08, T:0.68
Consensus pattern (33 bp):
TTTTCTTACTGTTTTGTTACCATTTTATTATTG
Found at i:47519778 original size:7 final size:7
Alignment explanation
Indices: 47519766--47519834 Score: 92
Period size: 7 Copynumber: 10.3 Consensus size: 7
47519756 AAAACCATAT
47519766 ATATAAA
1 ATATAAA
47519773 ATATAAA
1 ATATAAA
47519780 ATATAAA
1 ATATAAA
47519787 ATATAAA
1 ATATAAA
47519794 ATATAAAA
1 ATAT-AAA
*
47519802 AAATAAA
1 ATATAAA
47519809 A-ATAAA
1 ATATAAA
47519815 A-ATAAA
1 ATATAAA
47519821 A-ATAAA
1 ATATAAA
47519827 A-ATAAA
1 ATATAAA
47519833 AT
1 AT
47519835 TGGGTTGCCT
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
6 24 0.41
7 29 0.49
8 6 0.10
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
ATATAAA
Found at i:47519783 original size:14 final size:13
Alignment explanation
Indices: 47519766--47519834 Score: 88
Period size: 12 Copynumber: 5.2 Consensus size: 13
47519756 AAAACCATAT
47519766 ATATAAAATATAAA
1 ATATAAAA-ATAAA
47519780 ATATAAAATATAAA
1 ATATAAAA-ATAAA
47519794 ATATAAAAAAATAAA
1 ATAT--AAAAATAAA
47519809 A-ATAAAAATAAA
1 ATATAAAAATAAA
47519821 A-ATAAAAATAAA
1 ATATAAAAATAAA
47519833 AT
1 AT
47519835 TGGGTTGCCT
Statistics
Matches: 52, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
12 22 0.42
14 20 0.38
15 6 0.12
16 4 0.08
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
ATATAAAAATAAA
Found at i:47519811 original size:6 final size:6
Alignment explanation
Indices: 47519768--47519833 Score: 78
Period size: 6 Copynumber: 10.0 Consensus size: 6
47519758 AACCATATAT
47519768 ATAAAA TATAAAA TATAAAA TATAAAA TATAAAAAA ATAAAA ATAAAA
1 ATAAAA -ATAAAA -ATAAAA -ATAAAA -AT--AAAA ATAAAA ATAAAA
47519816 ATAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA
47519834 TTGGGTTGCC
Statistics
Matches: 57, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
6 28 0.49
7 23 0.40
8 2 0.04
9 4 0.07
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:47532011 original size:15 final size:15
Alignment explanation
Indices: 47531987--47532016 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47531977 GGGTTAACTT
47531987 CCTTTCTATAAACCA
1 CCTTTCTATAAACCA
*
47532002 CCTTTGTATAAACCA
1 CCTTTCTATAAACCA
47532017 ATCACAATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.33
Consensus pattern (15 bp):
CCTTTCTATAAACCA
Found at i:47537094 original size:2 final size:2
Alignment explanation
Indices: 47537087--47537114 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47537077 TTCAAATGCC
47537087 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47537115 CAGGTGGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47544937 original size:15 final size:15
Alignment explanation
Indices: 47544917--47544947 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47544907 ATCAATCGAA
*
47544917 GGCTTCGAATTTAGC
1 GGCTTCGAATTAAGC
47544932 GGCTTCGAATTAAGC
1 GGCTTCGAATTAAGC
47544947 G
1 G
47544948 ATGATCGCAG
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:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (15 bp):
GGCTTCGAATTAAGC
Found at i:47546736 original size:29 final size:31
Alignment explanation
Indices: 47546689--47546749 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
47546679 TTATAAATTT
47546689 AGAATTTAGTCTATATA-TTTTT-ATTTTTA
1 AGAATTTAGTCTATATATTTTTTAATTTTTA
* * *
47546718 AGAATTTAGTTTCTTTATTTTTTAATTTTTA
1 AGAATTTAGTCTATATATTTTTTAATTTTTA
47546749 A
1 A
47546750 ATTTCAGGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 14 0.52
30 5 0.19
31 8 0.30
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.61
Consensus pattern (31 bp):
AGAATTTAGTCTATATATTTTTTAATTTTTA
Done.