Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 729 of 770
Found at i:230660069 original size:26 final size:26
Alignment explanation
Indices: 230660010--230660169 Score: 160
Period size: 26 Copynumber: 5.9 Consensus size: 26
230660000 GGGGAGAGAA
* *
230660010 AGAGAGAGAGGGAGAGAGGGAGGAGGG
1 AGAGGGAGAGGGAGAGAGAGA-GAGGG
* *
230660037 AGAGGGAGAGTGAGAGAAAGAGAGGG
1 AGAGGGAGAGGGAGAGAGAGAGAGGG
*
230660063 AGGGGGAGGAAGGGAGAGAGAGAG-GGAG
1 AGAGGGA-G-AGGGAGAGAGAGAGAGG-G
*
230660091 AGGGGGAGAGAGGGAGAGCTAGAGAGAGGG
1 A-GAGG-GAGAGGGAGAG--AGAGAGAGGG
* *
230660121 AGAGGGAGAGGGAGAGGGAGGGAGGG
1 AGAGGGAGAGGGAGAGAGAGAGAGGG
*
230660147 AGAGGGAGAGAGAGAGAGAGAGA
1 AGAGGGAGAGGGAGAGAGAGAGA
230660170 CAGAGAGTGT
Statistics
Matches: 112, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
26 39 0.35
27 20 0.18
28 33 0.29
29 8 0.07
30 10 0.09
31 2 0.02
ACGTcount: A:0.38, C:0.01, G:0.61, T:0.01
Consensus pattern (26 bp):
AGAGGGAGAGGGAGAGAGAGAGAGGG
Found at i:230660114 original size:14 final size:14
Alignment explanation
Indices: 230659979--230660169 Score: 124
Period size: 14 Copynumber: 13.4 Consensus size: 14
230659969 AAAGTAAACT
* *
230659979 GGAGAGAGAGAGAT
1 GGAGAGAGGGAGAG
* *
230659993 AGAGAG-GGGGGAG
1 GGAGAGAGGGAGAG
* * *
230660006 AGAAAGAGAGAGAG
1 GGAGAGAGGGAGAG
230660020 GGAGAGAGGGAGGAG
1 GGAGAGAGGGA-GAG
230660035 GGAGAGGGAGAGTGAGAG
1 GGAGA--GAG-G-GAGAG
** *
230660053 AAAGAGAGGGAGGG
1 GGAGAGAGGGAGAG
230660067 GGAG-GAAGGGAGA-
1 GGAGAG-AGGGAGAG
230660080 -GAGAGAGGGAGAGGG
1 GGAGAGAGGGAGA--G
230660095 GGAGAGAGGGAGAG
1 GGAGAGAGGGAGAG
*
230660109 CTAGAGAGAGGGAGA-
1 --GGAGAGAGGGAGAG
230660124 GG-GAGAGGGAGAG
1 GGAGAGAGGGAGAG
*
230660137 GGAGGGAGGGAGAG
1 GGAGAGAGGGAGAG
*
230660151 GGAGAGAGAGAGAG
1 GGAGAGAGGGAGAG
*
230660165 AGAGA
1 GGAGA
230660170 CAGAGAGTGT
Statistics
Matches: 139, Mismatches: 22, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
12 20 0.14
13 14 0.10
14 57 0.41
15 9 0.06
16 27 0.19
17 3 0.02
18 7 0.05
19 2 0.01
ACGTcount: A:0.38, C:0.01, G:0.60, T:0.02
Consensus pattern (14 bp):
GGAGAGAGGGAGAG
Found at i:230660538 original size:26 final size:26
Alignment explanation
Indices: 230660509--230660616 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
230660499 TGATACAAAT
230660509 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
230660535 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
230660561 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
230660587 TGATAATGGTTTAGTTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
230660613 TGAT
1 TGAT
230660617 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:230666018 original size:17 final size:17
Alignment explanation
Indices: 230665997--230666037 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
230665987 TCCAATTAGC
230665997 AGTTCATAACACATAAT
1 AGTTCATAACACATAAT
* *
230666014 GGTTCATATCACATAAT
1 AGTTCATAACACATAAT
230666031 AGTTCAT
1 AGTTCAT
230666038 GCAAAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (17 bp):
AGTTCATAACACATAAT
Found at i:230669449 original size:26 final size:26
Alignment explanation
Indices: 230669412--230669494 Score: 148
Period size: 26 Copynumber: 3.2 Consensus size: 26
230669402 TGATACAAAT
* *
230669412 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
230669438 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
230669464 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
230669490 TGATA
1 TGATA
230669495 GAATTTCATG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:230679510 original size:40 final size:40
Alignment explanation
Indices: 230679463--230679607 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
230679453 CTCGCCCAAG
* * *
230679463 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
230679503 GCCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
230679543 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
*
230679584 GCCTTCGGGACTTAGCTCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
230679608 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:230680682 original size:43 final size:43
Alignment explanation
Indices: 230680622--230680827 Score: 350
Period size: 43 Copynumber: 4.9 Consensus size: 43
230680612 TTTATTGGAA
*
230680622 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
230680665 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
230680708 AGAAA-CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGT-GG
1 A-AAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
230680750 AGAAGCG-CGCTAAAGGTC-AGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
230680791 -AAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTT
230680828 TTTTAAAACG
Statistics
Matches: 155, Mismatches: 3, Indels: 11
0.92 0.02 0.07
Matches are distributed among these distances:
40 25 0.16
41 26 0.17
42 23 0.15
43 78 0.50
44 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:230680843 original size:82 final size:84
Alignment explanation
Indices: 230680624--230680844 Score: 340
Period size: 82 Copynumber: 2.6 Consensus size: 84
230680614 TATTGGAAAA
*
230680624 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGC
1 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTT-TTGGAAAA-CGCCGCTAAAGGTCAAGGC
230680689 TTTTAGCGGCGTTTGTGGGAG
64 TTTTAGCGGCGTTTGTGGGAG
* *
230680710 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGAGAA-GCGCGCTAAAGGTC-AGGCT
1 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTTTGGAAAACGC-CGCTAAAGGTCAAGGCT
230680773 TTTAGCGGCGTTTGTGGGA-
65 TTTAGCGGCGTTTGTGGGAG
* **
230680792 AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTTTTTAAAACGCCGCTAA
1 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTTTGGAAAACGCCGCTAA
230680845 TTTTGGCAGA
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
82 45 0.36
83 28 0.22
84 11 0.09
85 5 0.04
86 36 0.29
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (84 bp):
AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTTTGGAAAACGCCGCTAAAGGTCAAGGCTT
TTAGCGGCGTTTGTGGGAG
Found at i:230680931 original size:30 final size:30
Alignment explanation
Indices: 230680897--230680961 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
230680887 CTTCCTGCAT
* *
230680897 TAAAATCCAACCAAATACAACAAAATAATA
1 TAAAATCCAACCAAAAACAACAAAATAACA
* * * *
230680927 TAAAATGCAGCCAAAAACAGCAAATTAACA
1 TAAAATCCAACCAAAAACAACAAAATAACA
230680957 TAAAA
1 TAAAA
230680962 AATACAACAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.62, C:0.18, G:0.05, T:0.15
Consensus pattern (30 bp):
TAAAATCCAACCAAAAACAACAAAATAACA
Found at i:230686912 original size:57 final size:57
Alignment explanation
Indices: 230686839--230686950 Score: 170
Period size: 57 Copynumber: 2.0 Consensus size: 57
230686829 TATTAGTTAG
** * *
230686839 GTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTGA
* *
230686896 GTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGT
1 GTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGT
230686951 AATTTATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.46
Consensus pattern (57 bp):
GTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTGA
Found at i:230686952 original size:9 final size:9
Alignment explanation
Indices: 230686851--230686963 Score: 118
Period size: 9 Copynumber: 12.2 Consensus size: 9
230686841 TATGTAAGTT
*
230686851 GTTATGTAC
1 GTTATGTAA
*
230686860 GTTATGTGA
1 GTTATGTAA
230686869 GTTATGTAA
1 GTTATGTAA
*
230686878 ATTATGTAA
1 GTTATGTAA
*
230686887 GTTATGTGA
1 GTTATGTAA
230686896 GTTATGTAA
1 GTTATGTAA
230686905 GTTGTTATGTAA
1 ---GTTATGTAA
*
230686917 ATTATGTAA
1 GTTATGTAA
* *
230686926 GTTATATGA
1 GTTATGTAA
230686935 GTTATGTAA
1 GTTATGTAA
230686944 GTTATGTAA
1 GTTATGTAA
* *
230686953 TTTATTTAA
1 GTTATGTAA
230686962 GT
1 GT
230686964 AATGATCAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
9 76 0.89
12 9 0.11
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
GTTATGTAA
Found at i:230686963 original size:57 final size:57
Alignment explanation
Indices: 230686839--230686963 Score: 169
Period size: 57 Copynumber: 2.2 Consensus size: 57
230686829 TATTAGTTAG
** * * *
230686839 GTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTAA
* *
230686896 GTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGTAA
1 GTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTAA
* *
230686953 TTTATTTAAGT
1 GTTATGTAAGT
230686964 AATGATCAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (57 bp):
GTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTAA
Found at i:230687648 original size:241 final size:240
Alignment explanation
Indices: 230687007--230687917 Score: 1723
Period size: 240 Copynumber: 3.8 Consensus size: 240
230686997 TAGTTATAAA
* *
230687007 TTTTAAGATTCATCATACGTGGTGTTGTTACACCTAGGGAGGATCCATTATATCTTATAGCTCGA
1 TTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGA
230687072 TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACT
66 TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACT
230687137 TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAATATTC
131 TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAATATTC
*
230687202 AATAGTAAATGAGTTGGATAGAATTTTTTCAAGTATTTTTGATTT
196 AATAGTAAATGAGTTGGATAGAATTTTTTCAAGTATTTTTGAATT
* *
230687247 TTTTAAGATTCATCATACGCGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTATAGCTCGA
1 TTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGA
230687312 TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACT
66 TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACT
230687377 TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAATATTC
131 TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAATATTC
230687442 AATAGTAAATGAGTTGGATAGAATTTTTTTCAAGTATTTTTGAATT
196 AATAGTAAATGAGTTGGATAGAA-TTTTTTCAAGTATTTTTGAATT
*
230687488 TTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACGGCTCGA
1 TTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGA
*
230687553 TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTACAATAAACT
66 TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACT
230687618 TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAATATTC
131 TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAATATTC
230687683 AATAGTAAATGAGTTGGATAGAATTTTTTCAAGTATTTTTGAATT
196 AATAGTAAATGAGTTGGATAGAATTTTTTCAAGTATTTTTGAATT
*
230687728 TTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACGGCTCGA
1 TTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGA
*
230687793 TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGCT
66 TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACT
*
230687858 TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
131 TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAA
230687918 ATTAATTCAT
Statistics
Matches: 660, Mismatches: 10, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
240 425 0.64
241 235 0.36
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (240 bp):
TTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGA
TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACT
TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAATATTC
AATAGTAAATGAGTTGGATAGAATTTTTTCAAGTATTTTTGAATT
Found at i:230687913 original size:481 final size:481
Alignment explanation
Indices: 230687007--230687917 Score: 1732
Period size: 481 Copynumber: 1.9 Consensus size: 481
230686997 TAGTTATAAA
* *
230687007 TTTTAAGATTCATCATACGTGGTGTTGTTACACCTAGGGAGGATCCATTATATCTTATAGCTCGA
1 TTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGA
230687072 TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACT
66 TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACT
230687137 TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAATATTC
131 TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAATATTC
*
230687202 AATAGTAAATGAGTTGGATAGAATTTTTTCAAGTATTTTTGATTTTTTTAAGATTCATCATACGC
196 AATAGTAAATGAGTTGGATAGAATTTTTTCAAGTATTTTTGAATTTTTTAAGATTCATCATACGC
*
230687267 GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTATAGCTCGATATAAGGCAACCCGTCAGGT
261 GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGT
230687332 TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACTTGGAGAGAAGGTCAGCTATT
326 TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACTTGGAGAGAAGGTCAGCTATT
*
230687397 GTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAATATTCAATAGTAAATGAGTTGGATA
391 GTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATATTCAATAGTAAATGAGTTGGATA
230687462 GAATTTTTTTCAAGTATTTTTGAATT
456 GAATTTTTTTCAAGTATTTTTGAATT
*
230687488 TTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACGGCTCGA
1 TTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGA
*
230687553 TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTACAATAAACT
66 TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACT
230687618 TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAATATTC
131 TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAATATTC
*
230687683 AATAGTAAATGAGTTGGATAGAATTTTTTCAAGTATTTTTGAATTTTTTAAGATTCATCATACGT
196 AATAGTAAATGAGTTGGATAGAATTTTTTCAAGTATTTTTGAATTTTTTAAGATTCATCATACGC
*
230687748 GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACGGCTCGATATAAGGCAACCCGTCAGGT
261 GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGT
*
230687813 TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGCTTGGAGAGAAGGTCAGCTATT
326 TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACTTGGAGAGAAGGTCAGCTATT
230687878 GTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
391 GTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
230687918 ATTAATTCAT
Statistics
Matches: 420, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
481 420 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (481 bp):
TTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGA
TATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACT
TGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAATATTC
AATAGTAAATGAGTTGGATAGAATTTTTTCAAGTATTTTTGAATTTTTTAAGATTCATCATACGC
GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGT
TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAACTTGGAGAGAAGGTCAGCTATT
GTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATATTCAATAGTAAATGAGTTGGATA
GAATTTTTTTCAAGTATTTTTGAATT
Found at i:230687977 original size:10 final size:10
Alignment explanation
Indices: 230687962--230688012 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
230687952 AAATATAAAA
230687962 ACTTATTCAT
1 ACTTATTCAT
230687972 ACTTATTC--
1 ACTTATTCAT
** *
230687980 A-TTATAAAA
1 ACTTATTCAT
230687989 ACTTATTCAT
1 ACTTATTCAT
230687999 ACTTATTCAT
1 ACTTATTCAT
230688009 ACTT
1 ACTT
230688013 CAAATAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
7 4 0.12
8 1 0.03
9 1 0.03
10 27 0.82
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (10 bp):
ACTTATTCAT
Found at i:230687986 original size:27 final size:27
Alignment explanation
Indices: 230687955--230688008 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
230687945 TTGAATCAAA
230687955 TATAAAAACTTATTCATACTTATTCAT
1 TATAAAAACTTATTCATACTTATTCAT
230687982 TATAAAAACTTATTCATACTTATTCAT
1 TATAAAAACTTATTCATACTTATTCAT
230688009 ACTTCAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (27 bp):
TATAAAAACTTATTCATACTTATTCAT
Found at i:230688082 original size:23 final size:23
Alignment explanation
Indices: 230688056--230688104 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
230688046 GTTCAAGTTT
230688056 ATTTAAAGGGCT-CAAATTCATAC
1 ATTTAAAGGGCTGC-AATTCATAC
230688079 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
230688102 ATT
1 ATT
230688105 AGATTAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:230691590 original size:19 final size:19
Alignment explanation
Indices: 230691563--230691616 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
230691553 CGTCCACTCA
*
230691563 GAGTCTTCAATGGCAGTCG
1 GAGTCTTCAACGGCAGTCG
*
230691582 GATTCTTCAACGGCAGTCG
1 GAGTCTTCAACGGCAGTCG
230691601 GAGTCTTCAACGGCAG
1 GAGTCTTCAACGGCAG
230691617 AAGGATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (19 bp):
GAGTCTTCAACGGCAGTCG
Found at i:230691673 original size:19 final size:20
Alignment explanation
Indices: 230691634--230691685 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
230691624 TTTCGATTTT
* *
230691634 GATTCGGGGAAATATTTAGG
1 GATTAGGGGAAATAGTTAGG
230691654 GATTAGGGGAAA-AGTTAGG
1 GATTAGGGGAAATAGTTAGG
*
230691673 GATTTGGGGAAAT
1 GATTAGGGGAAAT
230691686 TTGGGTGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.33, C:0.02, G:0.38, T:0.27
Consensus pattern (20 bp):
GATTAGGGGAAATAGTTAGG
Found at i:230692683 original size:15 final size:14
Alignment explanation
Indices: 230692642--230692685 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
230692632 GAAATTTATT
*
230692642 TTTAGGGTTTACAAA
1 TTTAGGGTTTA-TAA
230692657 TTTAGGGTTTATAA
1 TTTAGGGTTTATAA
230692671 TTTAGGGTATTATAA
1 TTTAGGGT-TTATAA
230692686 GGGTTTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTATAA
Found at i:230692894 original size:29 final size:29
Alignment explanation
Indices: 230692856--230692911 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
230692846 AGAGTTTAGA
*
230692856 TCATGGGTTATGATTTAGGGATTAGGCGG
1 TCATCGGTTATGATTTAGGGATTAGGCGG
*
230692885 TCATCGGTTATGATTTAGGGGTTAGGC
1 TCATCGGTTATGATTTAGGGATTAGGC
230692912 TTCATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.20, C:0.09, G:0.36, T:0.36
Consensus pattern (29 bp):
TCATCGGTTATGATTTAGGGATTAGGCGG
Found at i:230693581 original size:81 final size:81
Alignment explanation
Indices: 230693434--230693650 Score: 260
Period size: 81 Copynumber: 2.7 Consensus size: 81
230693424 ATAATAAATA
* * * * * * * *
230693434 TTAGCGGCGTTTTTACA-AAAACGCCACTATAGCTCAACCTTTTGTGGCGTTTGGACCTAAAGCG
1 TTAGCGGCGTTTTGA-ATAAAACGCCACTATTGCTCAGCTTTTTGTGGCGTTTTGAACAAAAACG
230693498 CCACTA-TATCTCAGCTTT
65 CCACTATTA-CTCAG-TTT
* * *
230693516 TT-GCGGCGTTTTGAATAAAACGCCACTATTTCTCAGTTTTTTGCGGCGTTTTGAACAAAAACGC
1 TTAGCGGCGTTTTGAATAAAACGCCACTATTGCTCAGCTTTTTGTGGCGTTTTGAACAAAAACGC
230693580 CACTATTACTCAGTTT
66 CACTATTACTCAGTTT
* *
230693596 TTAGCGGCGTTTTGAATGAAAATGCCACTATTGCTCAGCTTTTAGTGGCGTTTTG
1 TTAGCGGCGTTTTGAAT-AAAACGCCACTATTGCTCAGCTTTTTGTGGCGTTTTG
230693651 TTTCAAACGC
Statistics
Matches: 115, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
80 6 0.05
81 73 0.63
82 36 0.31
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (81 bp):
TTAGCGGCGTTTTGAATAAAACGCCACTATTGCTCAGCTTTTTGTGGCGTTTTGAACAAAAACGC
CACTATTACTCAGTTT
Found at i:230693633 original size:41 final size:39
Alignment explanation
Indices: 230693434--230693650 Score: 197
Period size: 41 Copynumber: 5.4 Consensus size: 39
230693424 ATAATAAATA
* * **
230693434 TTAGCGGCGTTTTTACA-AAAACGCCACTATAGCTCAACCTT
1 TTAGCGGCGTTTTGA-ATAAAACGCCACTAT-TCTC-AGTTT
* * * *
230693475 TT-GTGGCGTTTGGACCTAAAGCGCCACTATATCTCAGCTTT
1 TTAGCGGCGTTTTGA-ATAAAACGCCACTAT-TCTCAG-TTT
230693516 TT-GCGGCGTTTTGAATAAAACGCCACTATTTCTCAGTTT
1 TTAGCGGCGTTTTGAATAAAACGCCACTA-TTCTCAGTTT
* *
230693555 TTTGCGGCGTTTTGAACAAAAACGCCACTATTACTCAGTTT
1 TTAGCGGCGTTTTGAA-TAAAACGCCACTATT-CTCAGTTT
* *
230693596 TTAGCGGCGTTTTGAATGAAAATGCCACTATTGCTCAGCTT
1 TTAGCGGCGTTTTGAAT-AAAACGCCACTATT-CTCAGTTT
*
230693637 TTAGTGGCGTTTTG
1 TTAGCGGCGTTTTG
230693651 TTTCAAACGC
Statistics
Matches: 150, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.03
40 44 0.29
41 101 0.67
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (39 bp):
TTAGCGGCGTTTTGAATAAAACGCCACTATTCTCAGTTT
Found at i:230702928 original size:79 final size:79
Alignment explanation
Indices: 230702768--230702991 Score: 303
Period size: 79 Copynumber: 2.8 Consensus size: 79
230702758 TCGAATGATG
* * * *
230702768 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
230702832 TGTGCGAGTTACTAA
65 TGTGCGAGTTACTAA
*
230702847 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCAT
230702909 TTGTGCGAGTTACTAAA
64 TTGTGCGAGTTACT-AA
* * * *
230702926 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
230702991 G
66 G
230702992 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 26 0.20
79 80 0.62
80 23 0.18
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGTTACTAA
Found at i:230702998 original size:40 final size:39
Alignment explanation
Indices: 230702768--230702991 Score: 294
Period size: 40 Copynumber: 5.7 Consensus size: 39
230702758 TCGAATGATG
* *
230702768 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
230702808 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
230702847 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
230702886 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
230702926 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
230702966 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
230702992 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 8, Indels: 14
0.88 0.04 0.07
Matches are distributed among these distances:
39 75 0.44
40 86 0.51
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:230703013 original size:79 final size:78
Alignment explanation
Indices: 230702775--230703024 Score: 287
Period size: 79 Copynumber: 3.2 Consensus size: 78
230702765 ATGTCCGGGC
* * *
230702775 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
230702838 AGTTACTAATCCGGAC
64 AGTTACTAATCCGG-T
230702854 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
230702916 AGTTACTAAATCCGGGT
64 AGTTACT-AATCC-GGT
* * **
230702933 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
230702998 -TAGCTATATCCGGT
66 TTA-CTA-ATCCGGT
* *
230703012 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
230703025 TACGTGATTC
Statistics
Matches: 150, Mismatches: 10, Indels: 22
0.82 0.05 0.12
Matches are distributed among these distances:
78 26 0.17
79 89 0.59
80 35 0.23
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAATCCGGT
Found at i:230706858 original size:29 final size:29
Alignment explanation
Indices: 230706825--230706906 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
230706815 TGACGAGATA
*
230706825 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
230706854 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
230706883 GGCACTAAGTGTGCATGCTGGAAA
1 GGCACTAAGTGTGCATGCTGGAAA
230706907 AAAAATAATA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAATATAT
Found at i:230714723 original size:29 final size:29
Alignment explanation
Indices: 230714690--230714771 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
230714680 TGACGAGATA
*
230714690 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
230714719 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
230714748 GGCACTAAGTGTGCATGCTGGAAA
1 GGCACTAAGTGTGCATGCTGGAAA
230714772 AAAAAAAATA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAATATAT
Found at i:230717500 original size:21 final size:21
Alignment explanation
Indices: 230717475--230717515 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
230717465 TTCCTATGCT
230717475 CTGCCTCCCT-TCCTGCTGCCG
1 CTGCCTCCCTCT-CTGCTGCCG
230717496 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCTCTGCTGCC
230717516 TCCGCTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.00, C:0.54, G:0.17, T:0.29
Consensus pattern (21 bp):
CTGCCTCCCTCTCTGCTGCCG
Found at i:230717948 original size:13 final size:14
Alignment explanation
Indices: 230717923--230717951 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
230717913 TGATGAATTG
230717923 AATTAAACAATTAT
1 AATTAAACAATTAT
230717937 AATTAAAC-ATTAT
1 AATTAAACAATTAT
230717950 AA
1 AA
230717952 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:230718153 original size:16 final size:17
Alignment explanation
Indices: 230718116--230718154 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
230718106 AAAATATTAT
*
230718116 TTAATATTAGAAAGTTA
1 TTAATATTAGAAAGTAA
*
230718133 TTAATATTTGAAAG-AA
1 TTAATATTAGAAAGTAA
230718149 TTAATA
1 TTAATA
230718155 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (17 bp):
TTAATATTAGAAAGTAA
Found at i:230723141 original size:9 final size:9
Alignment explanation
Indices: 230723127--230723316 Score: 91
Period size: 9 Copynumber: 20.6 Consensus size: 9
230723117 TATTTAAGTA
230723127 TTATGTAAG
1 TTATGTAAG
230723136 TTATGTAAG
1 TTATGTAAG
*
230723145 TTATGATATG
1 TTATG-TAAG
* * *
230723155 ATATAT-AT
1 TTATGTAAG
*
230723163 TTATGTAAA
1 TTATGTAAG
* *
230723172 TTATAT-AT
1 TTATGTAAG
*
230723180 TTATCTAAG
1 TTATGTAAG
* *
230723189 TTATATAAA
1 TTATGTAAG
230723198 TTATGTAAG
1 TTATGTAAG
*
230723207 TTATGTAAA
1 TTATGTAAG
*
230723216 TTATGATATAAAA
1 TTATG---T-AAG
*
230723229 TATATTTAAG
1 T-TATGTAAG
230723239 TATTATGTAAG
1 --TTATGTAAG
230723250 TTATGTAAG
1 TTATGTAAG
* *
230723259 TTATAT-AT
1 TTATGTAAG
*
230723267 TTATCTAAG
1 TTATGTAAG
*
230723276 TTATATAAG
1 TTATGTAAG
*
230723285 TTATGTACG
1 TTATGTAAG
230723294 TT-TGGTAAG
1 TTAT-GTAAG
* *
230723303 TTATATAAA
1 TTATGTAAG
230723312 TTATG
1 TTATG
230723317 ATATCAAATA
Statistics
Matches: 137, Mismatches: 31, Indels: 26
0.71 0.16 0.13
Matches are distributed among these distances:
8 17 0.12
9 94 0.69
10 9 0.07
11 8 0.06
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:230723152 original size:43 final size:40
Alignment explanation
Indices: 230723114--230723266 Score: 130
Period size: 34 Copynumber: 4.0 Consensus size: 40
230723104 ATGATATGAT
230723114 ATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGA
1 ATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-A
* * * *
230723156 TATATATTTATGTAAATTATAT-ATTTATCTAAGTTATATA-A
1 -ATATATTTAAGT--ATTATGTAAGTTATGTAAGTTATATATA
* *
230723197 AT-TATGTAAG--TTATGTAAATTATG--A--TATA-A-A
1 ATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATA
230723228 ATATATTTAAGTATTATGTAAGTTATGTAAGTTATATAT
1 ATATATTTAAGTATTATGTAAGTTATGTAAGTTATATAT
230723267 TTATCTAAGT
Statistics
Matches: 87, Mismatches: 11, Indels: 27
0.70 0.09 0.22
Matches are distributed among these distances:
31 4 0.05
32 11 0.13
34 14 0.16
35 5 0.06
36 6 0.07
38 4 0.05
39 7 0.08
40 2 0.02
41 1 0.01
43 14 0.16
44 13 0.15
45 6 0.07
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.47
Consensus pattern (40 bp):
ATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATA
Found at i:230723208 original size:71 final size:69
Alignment explanation
Indices: 230723126--230723289 Score: 204
Period size: 71 Copynumber: 2.3 Consensus size: 69
230723116 ATATTTAAGT
* * * *
230723126 ATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGT
1 ATTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGT
230723190 TATATAA
64 TATAT-A
* * *
230723197 ATTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTA
1 ATTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTA
230723262 TATA
66 TATA
* * *
230723266 TTTATCTAAGTTATATAAGTTATG
1 ATTATGTAAGTTATGTAAGTTATG
230723290 TACGTTTGGT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
69 27 0.33
70 15 0.19
71 39 0.48
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (69 bp):
ATTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTA
TATA
Found at i:230723211 original size:44 final size:44
Alignment explanation
Indices: 230723163--230723309 Score: 153
Period size: 44 Copynumber: 3.4 Consensus size: 44
230723153 TGATATATAT
230723163 TTATGTAAATTATATATTTATCTAAGTTATATAAATTATGTAAG
1 TTATGTAAATTATATATTTATCTAAGTTATATAAATTATGTAAG
* *
230723207 TTATGTAAATTATGATA--TA---AAATATATTTAAGTATTATGTAAG
1 TTATGTAAATTAT-ATATTTATCTAAGT-TATATAA--ATTATGTAAG
* * *
230723250 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACG
1 TTATGTAAATTATATATTTATCTAAGTTATATAAATTATGTAAG
*
230723294 TT-TGGTAAGTTATATA
1 TTAT-GTAAATTATATA
230723310 AATTATGATA
Statistics
Matches: 86, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
40 3 0.03
41 6 0.07
42 3 0.03
43 25 0.29
44 37 0.43
45 3 0.03
46 6 0.07
47 3 0.03
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (44 bp):
TTATGTAAATTATATATTTATCTAAGTTATATAAATTATGTAAG
Found at i:230723265 original size:87 final size:91
Alignment explanation
Indices: 230723163--230723347 Score: 261
Period size: 96 Copynumber: 2.0 Consensus size: 91
230723153 TGATATATAT
*
230723163 TTATGTAAATTATATATTTATCTAAGTTATATAA-AT-TA-T-GTAAGTTATGTAAATTATGATA
1 TTATGTAAATTATATATTTATCTAAGTTATATAATATGTATTGGTAAGTTATATAAATTATGATA
230723224 TAAAATATATTTAAGTATTATGTAAG
66 TAAAATATATTTAAGTATTATGTAAG
*
230723250 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTGGTAAGTTATATAAATTA
1 TTATGTAAATTATATATTTATCTAAGTTATATAA--TATGTA---TTGGTAAGTTATATAAATTA
* *
230723315 TGATATCAAATATATTTATGTATTATGTAAG
61 TGATATAAAATATATTTAAGTATTATGTAAG
230723346 TT
1 TT
230723348 TTTTATTTCA
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
87 33 0.39
90 2 0.02
91 2 0.02
95 1 0.01
96 47 0.55
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (91 bp):
TTATGTAAATTATATATTTATCTAAGTTATATAATATGTATTGGTAAGTTATATAAATTATGATA
TAAAATATATTTAAGTATTATGTAAG
Found at i:230723303 original size:114 final size:114
Alignment explanation
Indices: 230723103--230723316 Score: 290
Period size: 114 Copynumber: 1.9 Consensus size: 114
230723093 ACTAGTTATG
* * * *
230723103 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATG
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
*
230723168 TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
66 TAAATTATATATTTAGCTAAGTTATATAAATTATGTAAGTTATGTAAAT
* *
230723217 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATAT-AGTTAT
* * *
230723280 ATAAGTTATGTACGTTT-GGTAAGTTATATAAATTATG
65 ATAAATTATATA--TTTAGCTAAGTTATATAAATTATG
230723317 ATATCAAATA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
112 4 0.05
113 18 0.21
114 62 0.71
115 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
TAAATTATATATTTAGCTAAGTTATATAAATTATGTAAGTTATGTAAAT
Found at i:230723441 original size:15 final size:15
Alignment explanation
Indices: 230723421--230723476 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
230723411 AAGTAGCGGG
230723421 ATTAAATAATATTTA
1 ATTAAATAATATTTA
230723436 ATTAAATAATATTT-
1 ATTAAATAATATTTA
230723450 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
230723465 ATTAAGTAATAT
1 ATTAAATAATAT
230723477 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:230724301 original size:273 final size:275
Alignment explanation
Indices: 230723686--230724361 Score: 1302
Period size: 273 Copynumber: 2.5 Consensus size: 275
230723676 ATAAAACGGA
230723686 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
*
230723751 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAGTATTTAAATA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
*
230723816 TTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGATTATAATAATATAAAAAAAGAATC
131 TTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATC
230723881 GTAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTT
196 GTAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTT
230723946 TTTTCAAGTCTTTTT
261 TTTTCAAGTCTTTTT
230723961 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
230724026 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
230724091 TTAAAATCAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAATAATAT-AAAAAAGAATC
131 TTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATC
230724154 GTAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTT
196 GTAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTT
230724219 TTTTCAAGTCTTTTT
261 TTTTCAAGTCTTTTT
*
230724234 GAATTTTTTAATATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
*
230724299 CTCGATATAAGGCAACTCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAA
230724362 ATAAGGTTGG
Statistics
Matches: 397, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
273 217 0.55
274 28 0.07
275 152 0.38
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (275 bp):
GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
TTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATC
GTAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTT
TTTTCAAGTCTTTTT
Found at i:230725152 original size:183 final size:183
Alignment explanation
Indices: 230724842--230725209 Score: 682
Period size: 183 Copynumber: 2.0 Consensus size: 183
230724832 CCTAGAACAG
230724842 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
230724907 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTAAACCAATAGCTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTAAACCAATAGCTGCAGGAGG
*
230724972 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
*
230725025 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
* *
230725090 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTAAACCAATAGCTGCAGGAGG
* *
230725155 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
230725208 AT
1 AT
230725210 AGAACTATAT
Statistics
Matches: 179, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 179 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTAAACCAATAGCTGCAGGAGG
AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
Found at i:230725300 original size:14 final size:13
Alignment explanation
Indices: 230725281--230725310 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
230725271 CAATATAATT
230725281 TTACTTCATATATA
1 TTACTTCATATA-A
230725295 TTACTTCATATAA
1 TTACTTCATATAA
230725308 TTA
1 TTA
230725311 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:230728086 original size:29 final size:28
Alignment explanation
Indices: 230728052--230728154 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
230728042 TACTCAATCA
*
230728052 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
230728081 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
230728110 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
230728139 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
230728155 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:230736103 original size:29 final size:28
Alignment explanation
Indices: 230736069--230736171 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
230736059 TACTCAATCA
*
230736069 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
230736098 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
230736127 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
230736156 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
230736172 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:230740386 original size:29 final size:29
Alignment explanation
Indices: 230740344--230740444 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
230740334 GACAAGATTG
* *
230740344 GCACTAAGTGTGCGGGTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTAAAATTATATA
* ** *
230740373 GCACTAAGTGTGCGAGTT-TGATTCTATA
1 GCACTAAGTGTGCGGGTTAAAATTATATA
* *
230740401 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCG-GGTTAAAATTATATA
230740430 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
230740445 ATTCACTATA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
28 21 0.36
29 37 0.63
30 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTAAAATTATATA
Found at i:230748205 original size:29 final size:29
Alignment explanation
Indices: 230748163--230748263 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
230748153 GACAAGATTG
* *
230748163 GCACTAAGTGTGCGGGTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTAAAATTATATA
* ** *
230748192 GCACTAAGTGTGCGAGTT-TGATTCTATA
1 GCACTAAGTGTGCGGGTTAAAATTATATA
* *
230748220 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCG-GGTTAAAATTATATA
230748249 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
230748264 ATTCACTATA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
28 21 0.36
29 37 0.63
30 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTAAAATTATATA
Found at i:230758723 original size:40 final size:38
Alignment explanation
Indices: 230758496--230758716 Score: 239
Period size: 38 Copynumber: 5.7 Consensus size: 38
230758486 TCGAATGATG
* *
230758496 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTA-A
* *
230758536 TCCGGACTAAGATCCGAAGGCATTTGTGCCAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACT-AA
* *
230758576 TCCGGACT-AGATCCGAAGGCATTTGTGTGAGTTACTAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
230758614 TTCGGGCTAAGCCCGAAGGCATTGGTACGAGTTACTAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
*
230758652 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-A
* *
230758691 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
230758717 AACGAGTAGC
Statistics
Matches: 156, Mismatches: 19, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
38 63 0.40
39 38 0.24
40 46 0.29
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:230762580 original size:80 final size:80
Alignment explanation
Indices: 230762496--230762644 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
230762486 TATGGTAACC
* * * *
230762496 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
230762560 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
230762576 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
230762641 CCGG
66 CCGG
230762645 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:230762586 original size:40 final size:38
Alignment explanation
Indices: 230762537--230762644 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
230762527 ATCACGATTT
*
230762537 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
230762577 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
230762617 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
230762645 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:230771132 original size:17 final size:18
Alignment explanation
Indices: 230771090--230771138 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
230771080 AGTTGAAAAG
230771090 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
230771109 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
230771126 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
230771139 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:230772026 original size:40 final size:40
Alignment explanation
Indices: 230771960--230772126 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
230771950 AAATTGAATG
* * *
230771960 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
230771999 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
230772039 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
230772079 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
230772119 ATATCCGG
1 ATATCCGG
230772127 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:230779138 original size:17 final size:18
Alignment explanation
Indices: 230779096--230779144 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
230779086 AGTTGAAAAG
230779096 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
230779115 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
230779132 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
230779145 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:230780032 original size:40 final size:40
Alignment explanation
Indices: 230779966--230780132 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
230779956 AAATTGAATG
* * *
230779966 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
230780005 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
230780045 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
230780085 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
230780125 ATATCCGG
1 ATATCCGG
230780133 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:230781522 original size:57 final size:57
Alignment explanation
Indices: 230781434--230781549 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
230781424 AAACATGTGA
230781434 ACTTGGTTTGTTAACCCTCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTT
1 ACTTGGTTTGTTAACCCTCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTT
230781491 ACTTGGTTTGTTAACCCTCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTT
1 ACTTGGTTTGTTAACCCTCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTT
230781548 AC
1 AC
230781550 ACTTACTCCT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.11, C:0.23, G:0.34, T:0.31
Consensus pattern (57 bp):
ACTTGGTTTGTTAACCCTCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTT
Found at i:230784850 original size:39 final size:39
Alignment explanation
Indices: 230784796--230784958 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
230784786 TGTGTATGAA
*
230784796 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
230784835 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
230784874 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
230784913 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
230784953 TGTGCG
1 TGTGCG
230784959 GTTACCATAA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:230784984 original size:39 final size:39
Alignment explanation
Indices: 230784796--230784988 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
230784786 TGTGTATGAA
* *
230784796 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
230784835 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
230784874 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
230784913 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
** * *
230784953 TGTGCG-GTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
230784989 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 121 0.88
40 17 0.12
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:230785009 original size:79 final size:78
Alignment explanation
Indices: 230784813--230785026 Score: 218
Period size: 78 Copynumber: 2.7 Consensus size: 78
230784803 ATTGTGATAT
** * *
230784813 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATGGTG
** *
230784878 CGAGCTATGATAT
66 CGAGCTACCATAA
** * * *
230784891 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATGGT
*
230784956 GCG-GTTACCATAA
65 GCGAGCTACCATAA
* ** *
230784969 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
230785027 TATGTGATTT
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
77 1 0.01
78 76 0.64
79 40 0.34
80 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATGGTG
CGAGCTACCATAA
Found at i:230802654 original size:93 final size:93
Alignment explanation
Indices: 230802542--230802713 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
230802532 CGCCCATAAG
* * *
230802542 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
230802607 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
230802635 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGGCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
230802700 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
230802714 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:230802710 original size:46 final size:46
Alignment explanation
Indices: 230802535--230802710 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
230802525 TGTAACCCGC
* * * *
230802535 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
230802581 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
230802631 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
230802674 CCATAAGTGAACTCGGGCTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
230802711 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:230802729 original size:46 final size:44
Alignment explanation
Indices: 230802586--230802729 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
230802576 CGTATCCATA
230802586 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
230802633 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
*
230802679 AGTGAACTCGGGCTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
230802725 AGTGA
1 AGTGA
230802730 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 32 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:230805423 original size:18 final size:18
Alignment explanation
Indices: 230805401--230805446 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
230805391 ATCTTAATGA
230805401 CGATGATTATGTTGATACT
1 CGATGATTATGTTGAT-CT
230805420 -GATG-TTGATGTTGATCT
1 CGATGATT-ATGTTGATCT
230805437 CGATGATTAT
1 CGATGATTAT
230805447 ACCCTGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 4 0.17
18 18 0.75
19 2 0.08
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (18 bp):
CGATGATTATGTTGATCT
Found at i:230807155 original size:29 final size:29
Alignment explanation
Indices: 230807123--230807195 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
230807113 CTTCGAGCTC
* *
230807123 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
230807152 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
230807181 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
230807196 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:230808395 original size:25 final size:24
Alignment explanation
Indices: 230808367--230808423 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
230808357 TTTTTTTCCT
230808367 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTGTTTTTCTTCAT-TTCTC
* * *
230808392 TTTCTTTTTTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCTTCATTTCTC
230808416 TATTCTTT
1 T-TTCTTT
230808424 CTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTGTTTTTCTTCATTTCTC
Found at i:230815051 original size:29 final size:29
Alignment explanation
Indices: 230815019--230815091 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
230815009 CTTCGAGCTC
* *
230815019 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
230815048 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
230815077 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
230815092 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:230817503 original size:23 final size:23
Alignment explanation
Indices: 230817477--230817523 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
230817467 GAGCTTGGTC
230817477 CTATTTCTCCTGTTAATGGTATA
1 CTATTTCTCCTGTTAATGGTATA
*
230817500 CTATTTCTCCTGTTAATGTTATA
1 CTATTTCTCCTGTTAATGGTATA
230817523 C
1 C
230817524 CAAATTACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (23 bp):
CTATTTCTCCTGTTAATGGTATA
Found at i:230819928 original size:21 final size:21
Alignment explanation
Indices: 230819899--230819938 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
230819889 GTTTTTATAT
*
230819899 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
230819920 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
230819939 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:230828269 original size:40 final size:40
Alignment explanation
Indices: 230828119--230828286 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
230828109 CGGAATACAA
* * *
230828119 CCGGATATAACCA-CATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAATCACCA-GCACAAATGCCTTCGGGTCTTAGC
* ** *
230828159 CCGGATAGAA-CGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
230828199 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
230828239 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
230828279 CCGGATAT
1 CCGGATAT
230828287 CATTCAATTG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:230829533 original size:17 final size:18
Alignment explanation
Indices: 230829513--230829549 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
230829503 ACTTTTCTTC
*
230829513 CTTTCTTT-TTTTTTTTT
1 CTTTCTTTGTTTTTGTTT
230829530 CTTTCTTTGTTTTTGTTT
1 CTTTCTTTGTTTTTGTTT
230829548 CT
1 CT
230829550 CTCATGTACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (18 bp):
CTTTCTTTGTTTTTGTTT
Found at i:230836299 original size:40 final size:40
Alignment explanation
Indices: 230836149--230836316 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
230836139 CGGAATACAA
* * *
230836149 CCGGATATAACCA-CATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAATCACCA-GCACAAATGCCTTCGGGTCTTAGC
* ** *
230836189 CCGGATAGAA-CGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
230836229 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
230836269 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
230836309 CCGGATAT
1 CCGGATAT
230836317 CATTCAATTG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:230838077 original size:27 final size:27
Alignment explanation
Indices: 230838020--230838128 Score: 125
Period size: 27 Copynumber: 4.0 Consensus size: 27
230838010 TAGGGATGTC
* * *
230838020 ACAGATAA-TGTGACAGAGTCACCAGAT
1 ACAGATAATTGTGGCAGAGCCACCAG-G
*
230838047 ACAGATAATCGTGGCAGAGCCACCAGG
1 ACAGATAATTGTGGCAGAGCCACCAGG
230838074 ACAGA-AATATGTGGCAGAGCCACCA-G
1 ACAGATAAT-TGTGGCAGAGCCACCAGG
*
230838100 ATCAGATAATTGTGGCATAGCCACCAGG
1 A-CAGATAATTGTGGCAGAGCCACCAGG
230838128 A
1 A
230838129 TGCTTCCTCC
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.07
27 47 0.66
28 19 0.27
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.16
Consensus pattern (27 bp):
ACAGATAATTGTGGCAGAGCCACCAGG
Found at i:230845379 original size:27 final size:26
Alignment explanation
Indices: 230845344--230845455 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
230845334 AGCATGGCTG
* *
230845344 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
230845370 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
230845398 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
230845425 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
230845452 CCAG
1 CCAG
230845456 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:230845436 original size:54 final size:54
Alignment explanation
Indices: 230845344--230845455 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
230845334 AGCATGGCTG
* *
230845344 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
230845398 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
230845452 CCAG
1 CCAG
230845456 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:230850346 original size:46 final size:46
Alignment explanation
Indices: 230850296--230850561 Score: 242
Period size: 46 Copynumber: 5.7 Consensus size: 46
230850286 TGGTTGAGCA
230850296 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
230850342 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
230850387 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCCAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
230850435 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
230850480 CATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
230850528 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
230850562 GGGGCGGGTT
Statistics
Matches: 177, Mismatches: 25, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
42 4 0.02
43 8 0.05
45 5 0.03
46 88 0.50
47 56 0.32
48 5 0.03
50 7 0.04
51 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:230850411 original size:47 final size:47
Alignment explanation
Indices: 230850342--230850510 Score: 215
Period size: 47 Copynumber: 3.6 Consensus size: 47
230850332 GATGCGAATG
230850342 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
* *
230850389 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTG-GATGCCAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C--GTGAAATG-TAACTAGGCA
230850435 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
* *
230850482 TCCGAACTCATTGAGTTGAGTCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
230850511 ACTTATGGAT
Statistics
Matches: 105, Mismatches: 6, Indels: 22
0.79 0.05 0.17
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 1 0.01
45 1 0.01
46 28 0.27
47 55 0.52
48 1 0.01
49 1 0.01
50 4 0.04
51 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
Found at i:230850452 original size:93 final size:93
Alignment explanation
Indices: 230850293--230850556 Score: 456
Period size: 93 Copynumber: 2.8 Consensus size: 93
230850283 GGATGGTTGA
230850293 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
230850358 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
230850386 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCCAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
230850451 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * * * *
230850479 GCATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
230850544 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
230850557 ACTTAGGGGC
Statistics
Matches: 161, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 161 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:230853509 original size:15 final size:15
Alignment explanation
Indices: 230853486--230853541 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
230853476 GTATCTTGGG
230853486 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
230853501 TTCCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
230853516 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
230853531 TTTCTTTATTC
1 TTTCTTTATTC
230853542 AGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.12, C:0.18, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:230854626 original size:41 final size:41
Alignment explanation
Indices: 230854559--230854862 Score: 416
Period size: 41 Copynumber: 7.4 Consensus size: 41
230854549 CGTTCCAAAA
* * * *
230854559 AAAACGCCGGTAAAAA-CATAGCATTAGCGGCGTTTTTTA-CT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG--CTTTAGGT
* * * *
230854600 AAAATGCCACTAAAAA-CAGAGTATTAGCAGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
230854640 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
230854681 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
* * ** *
230854722 AAAACGCCGCTAATAAGCAGAGCAGCAGTGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
*
230854763 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAAGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
* **
230854804 AAAACGCCGCTAATAAGTAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
230854845 AAAACGCCGCTAAAAACC
1 AAAACGCCGCTAAAAACC
230854863 CCATAACCCC
Statistics
Matches: 231, Mismatches: 30, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 4 0.02
40 15 0.06
41 212 0.92
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
Found at i:230855040 original size:14 final size:15
Alignment explanation
Indices: 230855023--230855056 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
230855013 ATCATTATAT
230855023 TTTAAGGAT-TATGG
1 TTTAAGGATATATGG
230855037 TTTAA-GATATATGG
1 TTTAAGGATATATGG
230855051 TTTAAG
1 TTTAAG
230855057 CAGGTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (15 bp):
TTTAAGGATATATGG
Found at i:230858843 original size:70 final size:70
Alignment explanation
Indices: 230858769--230858974 Score: 197
Period size: 70 Copynumber: 3.1 Consensus size: 70
230858759 TGTTATTTTG
230858769 GTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTGGACTTAGATTGATTTAAGAGTTTA
1 GTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTGGACTTAGATTGATTTAAGAGTTTA
230858834 TTGCT
66 TTGCT
* * ** * *
230858839 GTCTGTTGCTCACGTTT-TATATAA-TAAAT-TGTTATA-T-T----TT-GGTT-ATTT-AGATG
1 GTCTGTT-TTCATGTTTCTATCCAACT-TATGTGTT-TAGTGTGGACTTAGATTGATTTAAGA-G
*
230858892 TTCTTTTG--
62 TT-TATTGCT
230858900 GTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTGGACTTAGATTGATTTAAGAGTTT
1 GTCTG-TTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTGGACTTAGATTGATTTAAGAGTTT
230858965 ATTGCT
65 ATTGCT
230858971 GTCT
1 GTCT
230858975 TGTTGCTCAC
Statistics
Matches: 102, Mismatches: 14, Indels: 39
0.66 0.09 0.25
Matches are distributed among these distances:
61 15 0.15
62 18 0.18
63 13 0.13
64 3 0.03
68 3 0.03
69 13 0.13
70 23 0.23
71 14 0.14
ACGTcount: A:0.20, C:0.11, G:0.19, T:0.50
Consensus pattern (70 bp):
GTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTGGACTTAGATTGATTTAAGAGTTTA
TTGCT
Found at i:230858905 original size:131 final size:133
Alignment explanation
Indices: 230858743--230858993 Score: 479
Period size: 132 Copynumber: 1.9 Consensus size: 133
230858733 TGGTGATTCC
230858743 ATTTTGGTTATTTAGATGTTATTTTGGTCTG-TTTTCATGTTTCTATCCAACTTATGTGTTTAGT
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGT
230858807 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTC-TGTTGCTCACGTTTTATATAATAAATTGT
66 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAATTGT
230858871 TAT
131 TAT
*
230858874 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGT
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGT
230858939 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
66 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
230858994 TGTTGAATTC
Statistics
Matches: 117, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
131 30 0.26
132 68 0.58
133 19 0.16
ACGTcount: A:0.20, C:0.10, G:0.19, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGT
GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAATTGT
TAT
Found at i:230861013 original size:21 final size:21
Alignment explanation
Indices: 230860984--230861023 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
230860974 GTTTTTATAT
*
230860984 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
230861005 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
230861024 GAATTAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:230862707 original size:24 final size:24
Alignment explanation
Indices: 230862680--230862747 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
230862670 ATTATTATTG
*
230862680 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
230862704 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
230862728 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
230862748 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:230862968 original size:15 final size:15
Alignment explanation
Indices: 230862924--230862979 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
230862914 AACGACATGT
230862924 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
230862940 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
230862953 ATATTATTTAATTAA
1 ATATTATTTAATTAA
230862968 ATATTATTTAAT
1 ATATTATTTAAT
230862980 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:230863096 original size:9 final size:9
Alignment explanation
Indices: 230863084--230863309 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
230863074 TATTTGATAT
*
230863084 CATAATTTA
1 CATAACTTA
230863093 CATAACTTA
1 CATAACTTA
* *
230863102 TATAACATA
1 CATAACTTA
*
230863111 TATAACTTA
1 CATAACTTA
230863120 CATAACTTA
1 CATAACTTA
* *
230863129 TATAACATA
1 CATAACTTA
230863138 CATAACTTA
1 CATAACTTA
*
230863147 TATAACTTA
1 CATAACTTA
*
230863156 TATAACTTA
1 CATAACTTA
* *
230863165 GATAA-ATA
1 CATAACTTA
*
230863173 TATAACTTA
1 CATAACTTA
230863182 CATAACTTA
1 CATAACTTA
230863191 CATAATACTTA
1 CAT-A-ACTTA
* *
230863202 AATATATTTTATA
1 CATA-A--CT-TA
*
230863215 TCATAATTTA
1 -CATAACTTA
230863225 CATAACTTA
1 CATAACTTA
230863234 CATAACTTA
1 CATAACTTA
*
230863243 TATAACTTA
1 CATAACTTA
* *
230863252 GATAA-ATA
1 CATAACTTA
* *
230863260 TATAATTTA
1 CATAACTTA
*
230863269 CATAA-ATA
1 CATAACTTA
* * *
230863277 TATATCATA
1 CATAACTTA
*
230863286 TCATAAATTA
1 -CATAACTTA
230863296 CATAACTTA
1 CATAACTTA
230863305 CATAA
1 CATAA
230863310 TACTTAAATA
Statistics
Matches: 174, Mismatches: 33, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 130 0.75
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:230863106 original size:18 final size:18
Alignment explanation
Indices: 230863084--230863309 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
230863074 TATTTGATAT
* *
230863084 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
230863102 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
230863120 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
230863138 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
230863156 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
230863173 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
230863191 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
230863215 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
230863234 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
230863252 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
230863269 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
230863286 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
230863305 CATAA
1 CATAA
230863310 TACTTAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
17 38 0.23
18 92 0.56
19 11 0.07
20 5 0.03
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:230863297 original size:114 final size:114
Alignment explanation
Indices: 230863112--230863333 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
230863102 TATAACATAT
* * *
230863112 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
* * *
230863177 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
230863226 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
230863289 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
230863334 CATAACTAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 72 0.76
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:230868993 original size:21 final size:21
Alignment explanation
Indices: 230868960--230869010 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
230868950 ACAACTTAGA
*
230868960 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
230868981 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
230869002 GCAGAGGCA
1 GCAGAGGCA
230869011 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:230869306 original size:31 final size:31
Alignment explanation
Indices: 230869260--230869326 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
230869250 TGGTTGTATT
* *
230869260 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
230869291 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
230869322 TTTTA
1 TTTTA
230869327 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:230869422 original size:41 final size:40
Alignment explanation
Indices: 230869377--230869534 Score: 221
Period size: 41 Copynumber: 3.9 Consensus size: 40
230869367 ATCTGCCAAA
* *
230869377 TTTAGCGGCG-TTTGTAAAAAAGCGCCGCTAAAAGCCTTGA-C
1 TTTAGCGGCGCTTT-TCACAAA-CGCCGCT-AAAGCCTTGACC
*
230869418 TTTAGCGGCGCTTTCCACAAACGCCGCTAAAGCCTTGACC
1 TTTAGCGGCGCTTTTCACAAACGCCGCTAAAGCCTTGACC
230869458 TTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGCCTTGACC
1 TTTAGCGGCGCTTTT-CACAAACGCCGCTAAAGCCTTGACC
230869499 TTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGCC
1 TTTAGCGGCGCTTTT--CACAAACGCCGCTAAAGCC
230869535 NNNNNNNNNN
Statistics
Matches: 109, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
39 10 0.09
40 22 0.20
41 54 0.50
42 23 0.21
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (40 bp):
TTTAGCGGCGCTTTTCACAAACGCCGCTAAAGCCTTGACC
Found at i:230869448 original size:40 final size:41
Alignment explanation
Indices: 230869399--230869534 Score: 240
Period size: 41 Copynumber: 3.3 Consensus size: 41
230869389 TGTAAAAAAG
230869399 CGCCGCTAAAAGCCTTGA-CTTTAGCGGCGC-TTTCCACAAA
1 CGCCGCT-AAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAA
230869439 CGCCGCTAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAA
1 CGCCGCTAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAA
230869480 CGCCGCTAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAGCCTTGACCTTTAGCGGCGCTTTT-CCACAAA
230869522 CGCCGCTAAAGCC
1 CGCCGCTAAAGCC
230869535 NNNNNNNNNN
Statistics
Matches: 93, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
39 10 0.11
40 19 0.20
41 44 0.47
42 20 0.22
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.22
Consensus pattern (41 bp):
CGCCGCTAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAA
Found at i:230872710 original size:42 final size:43
Alignment explanation
Indices: 230872664--230872744 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
230872654 CTAGAACATC
* * **
230872664 GGCATC-ATATTTGATTTCATGTAAGACCTTGTCTGGGACAGT
1 GGCATCGATAATTGATTACATGTAAGACCACGTCTGGGACAGT
230872706 GGCATCGATAATTGATTACATGTAAGACCACGTCTGGGA
1 GGCATCGATAATTGATTACATGTAAGACCACGTCTGGGA
230872745 TGTTGGCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 6 0.18
43 28 0.82
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
GGCATCGATAATTGATTACATGTAAGACCACGTCTGGGACAGT
Found at i:230874530 original size:80 final size:80
Alignment explanation
Indices: 230874398--230874779 Score: 660
Period size: 80 Copynumber: 4.8 Consensus size: 80
230874388 AACCCAAGTA
* * * * *
230874398 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTC-GGATCTTAGTCCGGTTATA
230874461 GTAACTAGCACAAATG
65 GTAACTAGCACAAATG
*
230874477 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTAGGATCTTAGTCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTATAG
230874542 TAACTAGCACAAATG
66 TAACTAGCACAAATG
* *
230874557 CCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTAGAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTATAG
230874622 TAACTAGCACAAATG
66 TAACTAGCACAAATG
230874637 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTATAG
*
230874702 TAACTAGTACAAATG
66 TAACTAGCACAAATG
230874717 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTAT
230874780 CATCCGAATA
Statistics
Matches: 289, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
79 16 0.06
80 273 0.94
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTATAG
TAACTAGCACAAATG
Found at i:230874770 original size:40 final size:40
Alignment explanation
Indices: 230874398--230874763 Score: 560
Period size: 40 Copynumber: 9.2 Consensus size: 40
230874388 AACCCAAGTA
* * *
230874398 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
230874437 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
230874477 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
230874517 CCTT-AGGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
*
230874557 CCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
230874597 CCTTC-GGATCTTAGTCCGGTTAGAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
230874637 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
230874677 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGTACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
230874717 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
230874757 CCTTCGG
1 CCTTCGG
230874764 ATCTTAGTCC
Statistics
Matches: 300, Mismatches: 20, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
39 22 0.07
40 268 0.89
41 10 0.03
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:230878811 original size:27 final size:28
Alignment explanation
Indices: 230878750--230878848 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 28
230878740 AAATTTGTAC
* *
230878750 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
230878778 AGCACTAAGTGTGCGAG-CTGAATATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
* *
230878805 GGCACTAAGTGTGCGTGATC-GAATAT-T
1 AGCACTAAGTGTGCGAG-TCTGAATATAT
*
230878832 AAGCACTATGTGTGCGA
1 -AGCACTAAGTGTGCGA
230878849 ACTCTATATA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
27 24 0.39
28 36 0.59
29 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:230878858 original size:55 final size:55
Alignment explanation
Indices: 230878751--230878859 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 55
230878741 AATTTGTACA
* * * * *
230878751 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTGAATATATG
1 GCACTAAGTGTGCGAGATCGAATATATAGCACTAAGTGTGCGAACTCAATATATG
* * *
230878806 GCACTAAGTGTGCGTGATCGAATAT-TAAGCACTATGTGTGCGAACTCTATATAT
1 GCACTAAGTGTGCGAGATCGAATATAT-AGCACTAAGTGTGCGAACTCAATATAT
230878860 ATATTTCCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
54 1 0.02
55 44 0.98
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (55 bp):
GCACTAAGTGTGCGAGATCGAATATATAGCACTAAGTGTGCGAACTCAATATATG
Found at i:230881703 original size:40 final size:40
Alignment explanation
Indices: 230881658--230881824 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
230881648 CGGAATATAA
230881658 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
230881698 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
230881738 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
230881778 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
230881817 CCGGATAT
1 CCGGATAT
230881825 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:230889697 original size:40 final size:40
Alignment explanation
Indices: 230889652--230889819 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
230889642 CGGAATATAA
230889652 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
230889692 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
230889732 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
230889772 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
230889812 CCGGATAT
1 CCGGATAT
230889820 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:230898861 original size:80 final size:80
Alignment explanation
Indices: 230898777--230898925 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
230898767 TATGGTAACC
* * * *
230898777 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
230898841 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
230898857 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
230898922 CCGG
66 CCGG
230898926 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:230898867 original size:40 final size:38
Alignment explanation
Indices: 230898818--230898925 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
230898808 ATCACGATTT
*
230898818 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
230898858 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
230898898 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
230898926 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:230900791 original size:14 final size:14
Alignment explanation
Indices: 230900772--230900809 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
230900762 ATACTTGATT
230900772 TGTTCTTAATTATG
1 TGTTCTTAATTATG
230900786 TGTTCTTAATTATG
1 TGTTCTTAATTATG
230900800 TGTTCTTAAT
1 TGTTCTTAAT
230900810 GCTTGAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:230904190 original size:40 final size:40
Alignment explanation
Indices: 230904131--230904272 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
230904121 AAATTGAATG
* * *
230904131 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
230904171 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
230904211 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
230904251 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
230904273 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:230904273 original size:40 final size:39
Alignment explanation
Indices: 230904170--230904298 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
230904160 TGCTGGAAAT
* * *
230904170 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
230904210 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
230904250 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
230904290 TATATCCGG
1 TATATCCGG
230904299 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:230908029 original size:40 final size:40
Alignment explanation
Indices: 230907963--230908129 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
230907953 AAATTGAATG
* * *
230907963 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
230908002 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
230908042 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
230908082 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
230908122 ATATCCGG
1 ATATCCGG
230908130 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:230911842 original size:40 final size:40
Alignment explanation
Indices: 230911783--230911924 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
230911773 AAATTGAATG
* * *
230911783 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
230911823 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
230911863 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
230911903 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
230911925 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:230911925 original size:40 final size:39
Alignment explanation
Indices: 230911822--230911950 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
230911812 TGCTGGAAAT
* * *
230911822 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
230911862 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
230911902 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
230911942 TATATCCGG
1 TATATCCGG
230911951 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:230915613 original size:38 final size:35
Alignment explanation
Indices: 230915554--230915671 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
230915544 TCAATCATGC
*
230915554 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
230915593 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
230915624 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
230915655 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
230915672 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:230915615 original size:31 final size:31
Alignment explanation
Indices: 230915577--230915671 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
230915567 CCTTTTCATA
*
230915577 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
230915608 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
230915639 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
230915670 TT
1 TT
230915672 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:230915914 original size:24 final size:24
Alignment explanation
Indices: 230915863--230915981 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
230915853 GCTTTATCAT
*
230915863 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
230915888 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
230915912 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
230915935 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
230915959 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
230915982 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:230915942 original size:47 final size:48
Alignment explanation
Indices: 230915863--230915981 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
230915853 GCTTTATCAT
*
230915863 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
230915912 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
230915959 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
230915982 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:230916056 original size:19 final size:19
Alignment explanation
Indices: 230916032--230916069 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
230916022 TATGATTACC
230916032 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
230916051 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
230916070 ACCATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (19 bp):
TCATGTGCATATCATACAT
Found at i:230916145 original size:25 final size:25
Alignment explanation
Indices: 230916113--230916160 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
230916103 ATACATAAAC
* * *
230916113 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
230916138 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
230916161 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:230923736 original size:31 final size:31
Alignment explanation
Indices: 230923676--230923769 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
230923666 CCTTTTCATA
*
230923676 TTTCATATTTCATAATACTGGG-CGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
230923706 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
230923737 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
230923768 TT
1 TT
230923770 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 21 0.34
31 41 0.66
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:230924012 original size:24 final size:24
Alignment explanation
Indices: 230923961--230924079 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
230923951 GCTTTATCAT
*
230923961 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
230923986 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
230924010 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
230924033 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
230924057 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
230924080 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:230924040 original size:47 final size:48
Alignment explanation
Indices: 230923961--230924079 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
230923951 GCTTTATCAT
*
230923961 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
230924010 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
230924057 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
230924080 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:230924155 original size:20 final size:20
Alignment explanation
Indices: 230924130--230924189 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
230924120 TATGATTACC
230924130 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
230924150 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
230924170 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
230924190 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:230924160 original size:11 final size:11
Alignment explanation
Indices: 230924130--230924184 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
230924120 TATGATTACC
230924130 TCATGTGCATA
1 TCATGTGCATA
*
230924141 TCA--TACATA
1 TCATGTGCATA
230924150 TCATGTGCATA
1 TCATGTGCATA
* *
230924161 TCA--TACATT
1 TCATGTGCATA
230924170 TCATGTGCATA
1 TCATGTGCATA
230924181 TCAT
1 TCAT
230924185 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:230924264 original size:25 final size:25
Alignment explanation
Indices: 230924232--230924279 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
230924222 ATACATAAAC
* * *
230924232 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
230924257 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
230924280 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:230926560 original size:30 final size:30
Alignment explanation
Indices: 230926526--230926585 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
230926516 ATTTAATACG
230926526 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
230926556 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
230926586 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:230933286 original size:40 final size:40
Alignment explanation
Indices: 230933241--230933370 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
230933231 CGGAATATAA
230933241 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
230933281 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
230933321 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
230933361 CCGGATATAA
1 CCGGATATAA
230933371 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:230933391 original size:40 final size:40
Alignment explanation
Indices: 230933257--230933408 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
230933247 ATAAGCATGT
* * *
230933257 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAA-TGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCG-C-CA
* *
230933297 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACCGCCA
* ***
230933337 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCGCCA
* * *
230933377 GCATAATT-CTCTTCGGGGCTTAGCCTGGATAT
1 GCACAATTGC-CTTCGGGTCTTAGCCCGGATAT
230933409 CATTCAATTT
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
39 3 0.03
40 87 0.94
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCGCCA
Found at i:230938142 original size:39 final size:38
Alignment explanation
Indices: 230938099--230938224 Score: 130
Period size: 39 Copynumber: 3.2 Consensus size: 38
230938089 AAGTGACTAT
* *
230938099 ATCCGGACTAAGATCGAAGGCGTTCGTGCGAGTTAATAA
1 ATCCGGGCTAAG-TCGAAGGCATTCGTGCGAGTTAATAA
* * *
230938138 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCGAAGGCATTCGTGCGAGTTAATAA
* *
230938177 A-CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA
1 ATCCGGGCTAAGT--CGAAGGCATTCGTGCGAGTTAATA-A
230938217 A-CCGGGCT
1 ATCCGGGCT
230938225 TTGTCCCGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
38 9 0.12
39 57 0.77
40 8 0.11
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (38 bp):
ATCCGGGCTAAGTCGAAGGCATTCGTGCGAGTTAATAA
Done.