Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 306 of 433
Found at i:95514104 original size:40 final size:39
Alignment explanation
Indices: 95514036--95514299 Score: 379
Period size: 40 Copynumber: 6.7 Consensus size: 39
95514026 CCAGCATGAT
** *
95514036 TGCTCTTCGGGGTTAG-CCGGATATATCACTAGCACGAA
1 TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAA
*
95514074 TACTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAA
* * *
95514114 TGCCCTTCGGGGCTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
95514154 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAA
* *
95514194 TGCCCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
*
95514234 TGCTCTTCGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAA
*
95514273 TGCTCTTCGGACTTAACCCGGAT-CATC
1 TGCTCTTCGGACTTAGCCCGGATACATC
95514300 GTCGAGACCT
Statistics
Matches: 205, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
38 13 0.06
39 58 0.28
40 130 0.63
41 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.23
Consensus pattern (39 bp):
TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:95514136 original size:80 final size:80
Alignment explanation
Indices: 95514040--95514295 Score: 430
Period size: 80 Copynumber: 3.2 Consensus size: 80
95514030 CATGATTGCT
*
95514040 CTTCGGGG-TTAG-CCGGATATATCACTAGCACGAATACTCTTCGGAACTTAGCCCGGATACATC
1 CTTCGGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATC
95514103 ACTAGCACGAATGCC
66 ACTAGCACGAATGCC
95514118 CTTCGGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATC
1 CTTCGGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATC
95514183 ACTAGCACGAATGCC
66 ACTAGCACGAATGCC
* *
95514198 CTTCGGGGCTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG-GCTTAGCCCGGATACATC
1 CTTCGGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATC
*
95514262 ACTAGCACGAATGCT
66 ACTAGCACGAATGCC
* *
95514277 CTTC-GGACTTAACCCGGAT
1 CTTCGGGGCTTAGCCCGGAT
95514296 CATCGTCGAG
Statistics
Matches: 170, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
78 21 0.12
79 39 0.23
80 110 0.65
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (80 bp):
CTTCGGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATC
ACTAGCACGAATGCC
Found at i:95514422 original size:38 final size:38
Alignment explanation
Indices: 95514353--95514427 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
95514343 GAATTTTAAT
*
95514353 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
95514391 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
95514428 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:95516917 original size:47 final size:47
Alignment explanation
Indices: 95516847--95517187 Score: 576
Period size: 47 Copynumber: 7.3 Consensus size: 47
95516837 CCCTTCGGGA
* * * *
95516847 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
95516894 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
95516941 CGTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
95516988 CTTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
95517035 CTTATCACATATATACACATTCACATTCATCACATTGGCCATT-GGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
95517081 CTTATCACATATATACATATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
95517128 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
95517175 TTTACCACATATA
1 CTTATCACATATA
95517188 CATATCTTAT
Statistics
Matches: 279, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
46 44 0.16
47 235 0.84
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
Found at i:95517163 original size:187 final size:188
Alignment explanation
Indices: 95516847--95517187 Score: 594
Period size: 187 Copynumber: 1.8 Consensus size: 188
95516837 CCCTTCGGGA
* *
95516847 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGCCTTATCACATATATACAC
1 CTTATCACATATATACACATTCACATCCATCACATTGGCCATTTGGCCTTATCACATATATACAC
*
95516912 ATTCACATTCATCACATTGGCCATTCGGCCGTATCACATATATACACATTCACATTCGTCACATT
66 ATTCACATTCATCACATTGGCCATTCGGCCGTATCACATATATACACATTCACATTCATCACATT
*
95516977 GGCCATTCGGCCTTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
131 GGCCATTCGGCCTTACCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
* *
95517035 CTTATCACATATATACACATTCACATTCATCACATTGGCCA-TTGGCCTTATCACATATATACAT
1 CTTATCACATATATACACATTCACATCCATCACATTGGCCATTTGGCCTTATCACATATATACAC
* *
95517099 ATTCACATTCGTCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATT
66 ATTCACATTCATCACATTGGCCATTCGGCCGTATCACATATATACACATTCACATTCATCACATT
*
95517164 GGCCATTCGGCTTTACCACATATA
131 GGCCATTCGGCCTTACCACATATA
95517188 CATATCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
187 106 0.74
188 38 0.26
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (188 bp):
CTTATCACATATATACACATTCACATCCATCACATTGGCCATTTGGCCTTATCACATATATACAC
ATTCACATTCATCACATTGGCCATTCGGCCGTATCACATATATACACATTCACATTCATCACATT
GGCCATTCGGCCTTACCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
Found at i:95520895 original size:38 final size:39
Alignment explanation
Indices: 95520820--95521080 Score: 359
Period size: 39 Copynumber: 6.7 Consensus size: 39
95520810 CCAGCATGAT
** * *
95520820 TGCTCTTCGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAA
*
95520859 TACTCTTCGGAAC-TAGCCCGGAT-CATCACTAGCACGAA
1 TGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAA
* * *
95520897 TGCCCTTCGGGCTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAA
95520936 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAA
* * *
95520976 TGCCCTTGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAA
95521015 TGCTCTTCGG-CTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAA
*
95521053 TGCTCTTCGGGACTTAACCCGGAT-CATC
1 TGCTCTTC-GGACTTAGCCCGGATACATC
95521081 GTCGAGACCT
Statistics
Matches: 198, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.01
38 68 0.34
39 83 0.42
40 46 0.23
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (39 bp):
TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:95520919 original size:77 final size:79
Alignment explanation
Indices: 95520824--95521076 Score: 406
Period size: 77 Copynumber: 3.2 Consensus size: 79
95520814 CATGATTGCT
* * *
95520824 CTTCGGGTTTAGCACGGATATATCACTAGCACGAATACTCTTCGGAAC-TAGCCCGGAT-CATCA
1 CTTCGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCA
95520887 CTAGCACGAATGCC
66 CTAGCACGAATGCC
95520901 CTTCGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCA
1 CTTCGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCA
95520966 CTAGCACGAATGCC
66 CTAGCACGAATGCC
* *
95520980 CTTGGGGCTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG--CTTAGCCCGGATACATCA
1 CTTCGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCA
*
95521043 CTAGCACGAATGCT
66 CTAGCACGAATGCC
*
95521057 CTTCGGGACTTAACCCGGAT
1 CTTCGGG-CTTAGCCCGGAT
95521077 CATCGTCGAG
Statistics
Matches: 165, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
77 82 0.50
78 21 0.13
79 62 0.38
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (79 bp):
CTTCGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCA
CTAGCACGAATGCC
Found at i:95521203 original size:38 final size:38
Alignment explanation
Indices: 95521134--95521208 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
95521124 GAATTTTAAT
*
95521134 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
95521172 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
95521209 AATCGGATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:95523728 original size:47 final size:47
Alignment explanation
Indices: 95523612--95523948 Score: 540
Period size: 47 Copynumber: 7.3 Consensus size: 47
95523602 CCCTTCGGGA
* * * *
95523612 CTTATCACATTTA-ACACTTTCACATCCATCACATTGGCCATTTGG-
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
95523657 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
95523704 CGTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
95523751 CTTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
95523798 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTC--C
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
95523843 CTTATCACATATATACATATTCACATTCGTCACATTGGCCATTC-GC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
95523889 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
95523936 TTTACCACATATA
1 CTTATCACATATA
95523949 CATATCTTAT
Statistics
Matches: 274, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
45 55 0.20
46 72 0.26
47 147 0.54
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
Found at i:95523758 original size:22 final size:22
Alignment explanation
Indices: 95523733--95523807 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
95523723 TTCACATTCG
95523733 TCACATTGGCCATTCGGCCTTA
1 TCACATTGGCCATTCGGCCTTA
** * * *
95523755 TCACATATATACACATTC-ACATTCG
1 TCACAT-T-GGC-CATTCGGCCTT-A
95523780 TCACATTGGCCATTCGGCCTTA
1 TCACATTGGCCATTCGGCCTTA
95523802 TCACAT
1 TCACAT
95523808 ATATACACAT
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 17 0.45
23 5 0.13
24 5 0.13
25 11 0.29
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.32
Consensus pattern (22 bp):
TCACATTGGCCATTCGGCCTTA
Found at i:95527165 original size:40 final size:40
Alignment explanation
Indices: 95527039--95527167 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
95527029 TTGCTGGAAA
* * *
95527039 TTATATCCGGGTTAAGA-CCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
95527078 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
95527118 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
95527158 TTATATCCGG
1 TTATATCCGG
95527168 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.24
40 58 0.76
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:95530659 original size:48 final size:48
Alignment explanation
Indices: 95530605--95530790 Score: 241
Period size: 48 Copynumber: 3.9 Consensus size: 48
95530595 TAGGGTGATG
** * **
95530605 TGTGATCTGATGTAAAACCATGTCTTGGATATGTAATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTTGGATATGGCATTGGCATCGATA
*
95530653 TGTGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTTGGATATGGCATTGGCATCGATA
* *
95530701 TGTGATCCCATGTAAGACCATGTC-TGGTACATGGCATTGGCATCGAAA
1 TGTGATCCCATGTAAGACCATGTCTTGG-ATATGGCATTGGCATCGATA
* * *
95530749 TGTGATCCCGTGTAAGACTATATC-TGGAATATGGCATTGGCA
1 TGTGATCCCATGTAAGACCATGTCTTGG-ATATGGCATTGGCA
95530791 CCTTACTATG
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
47 2 0.02
48 121 0.98
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTTGGATATGGCATTGGCATCGATA
Found at i:95536404 original size:40 final size:40
Alignment explanation
Indices: 95536347--95536469 Score: 149
Period size: 40 Copynumber: 3.1 Consensus size: 40
95536337 GTGCTAAGTG
* * *
95536347 ACTAAATCCAGAATAAGATCCGATGGCATACGTGCGAGTT
1 ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
* * * *
95536387 ACTAAATCCGGACTAAGATCCGAAGGCTTTCGAGCGAGCT
1 ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
**
95536427 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTT
1 ACTAAATCCGGAATAAGAT-CCGAAGGCATTCGTGCGAGTT
95536467 ACT
1 ACT
95536470 GTAACCAGGC
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 69 0.99
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
Found at i:95545281 original size:9 final size:9
Alignment explanation
Indices: 95545267--95545292 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
95545257 ATGAATAGAT
95545267 GCTCAAAAG
1 GCTCAAAAG
95545276 GCTCAAAAG
1 GCTCAAAAG
95545285 GCTCAAAA
1 GCTCAAAA
95545293 ATCTCACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (9 bp):
GCTCAAAAG
Found at i:95545576 original size:58 final size:58
Alignment explanation
Indices: 95545506--95545621 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
95545496 CAATTAAAAT
*
95545506 TTATCCTAAATATGATATGAGAGTTTTTCATGAGAACAAGGTGATTGTTAATGAATAC
1 TTATCCTAAATATGATATGAGAGTTTTTCATGAGAACAAGGTGATTATTAATGAATAC
95545564 TTATCCTAAATATGATATGAGAGTTTTTCATGAGAACAAGGTGATTATTAATGAATAC
1 TTATCCTAAATATGATATGAGAGTTTTTCATGAGAACAAGGTGATTATTAATGAATAC
95545622 CCCCCACACT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (58 bp):
TTATCCTAAATATGATATGAGAGTTTTTCATGAGAACAAGGTGATTATTAATGAATAC
Found at i:95551128 original size:24 final size:24
Alignment explanation
Indices: 95551096--95551142 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
95551086 TTATAACATG
* * *
95551096 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
95551120 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
95551143 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:95551209 original size:20 final size:18
Alignment explanation
Indices: 95551186--95551247 Score: 88
Period size: 18 Copynumber: 3.3 Consensus size: 18
95551176 TAAACATGGT
95551186 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
95551204 ACATGTATGATATGCACATG
1 --ATGTATGATATGCACATG
* *
95551224 ATATATGATATGCACATA
1 ATGTATGATATGCACATG
95551242 ATGTAT
1 ATGTAT
95551248 TCATAAATGC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
18 21 0.54
20 18 0.46
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (18 bp):
ATGTATGATATGCACATG
Found at i:95551319 original size:24 final size:24
Alignment explanation
Indices: 95551292--95551462 Score: 227
Period size: 24 Copynumber: 7.0 Consensus size: 24
95551282 GGAGGAAGTG
95551292 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
95551316 CAAAAGGGCTTATGCCCCAGTTATT
1 CAAAAGGGCTTATGCCCCAGTTA-T
*
95551341 AAAAAAGGGCTTATGCCCCAGTTAT
1 -CAAAAGGGCTTATGCCCCAGTTAT
*
95551366 CAAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
95551390 TAAAAGGGCTTATGCCTCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
95551414 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
95551438 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
95551463 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
24 98 0.74
25 13 0.10
26 22 0.17
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:95551368 original size:50 final size:50
Alignment explanation
Indices: 95551293--95551442 Score: 250
Period size: 50 Copynumber: 3.0 Consensus size: 50
95551283 GAGGAAGTGC
95551293 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAA
*
95551343 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAATTATT--
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAA
* * *
95551391 AAAAGGGCTTATGCCTCAGTTATTAAAAGGGCTTTTGCCCCAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAA
95551441 AA
1 AA
95551443 GAGGCTAGGC
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
48 44 0.47
50 49 0.53
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAA
Found at i:95551413 original size:74 final size:72
Alignment explanation
Indices: 95551292--95551448 Score: 242
Period size: 74 Copynumber: 2.1 Consensus size: 72
95551282 GGAGGAAGTG
*
95551292 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAAAAGGGCTTATGC
1 CAAAAGGGCTTATGCCCCAATTATCAAAAGGGCTTATGCCCCAGTTATT--AAAAGGGCTTATGC
95551357 CCCAGTTAT
64 CCCAGTTAT
* * *
95551366 CAAAAGGGCTTATGCCCCAATTATTAAAAGGGCTTATGCCTCAGTTATTAAAAGGGCTTTTGCCC
1 CAAAAGGGCTTATGCCCCAATTATCAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCC
95551431 CAGTTAT
66 CAGTTAT
*
95551438 TAAAAGAGGCT
1 CAAAAG-GGCT
95551449 AGGCCTCCAG
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
72 27 0.35
73 4 0.05
74 46 0.60
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (72 bp):
CAAAAGGGCTTATGCCCCAATTATCAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCC
CAGTTAT
Found at i:95551419 original size:48 final size:48
Alignment explanation
Indices: 95551293--95551462 Score: 252
Period size: 48 Copynumber: 3.5 Consensus size: 48
95551283 GAGGAAGTGC
95551293 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
95551341 AAAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAATTATT
1 --AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* * *
95551391 AAAAGGGCTTATGCCTCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
95551439 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
95551463 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
48 54 0.49
49 10 0.09
50 47 0.42
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:95557920 original size:25 final size:25
Alignment explanation
Indices: 95557891--95557939 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
95557881 TTATAACATG
*
95557891 AAAATGACCGTT-TTGCCCCTAGGTA
1 AAAATGACCATTATT-CCCCTAGGTA
95557916 AAAATGACCATTATTCCCCTAGGT
1 AAAATGACCATTATTCCCCTAGGT
95557940 TTATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTATTCCCCTAGGTA
Found at i:95557991 original size:24 final size:24
Alignment explanation
Indices: 95557964--95558156 Score: 264
Period size: 24 Copynumber: 8.0 Consensus size: 24
95557954 GGAGGAAGTG
95557964 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
95557988 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
95558012 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
95558036 AAAAAGGGCTTATGCCTCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
95558060 TAAAAGAGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
95558084 TAAAAGGGCTTATGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
95558107 CTAATAGGGCTTTTGCCCCAGTTAT
1 C-AAAAGGGCTTATGCCCCAGTTAT
* *
95558132 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
95558157 ATGATAAAGC
Statistics
Matches: 152, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
24 141 0.93
25 11 0.07
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:95563430 original size:19 final size:19
Alignment explanation
Indices: 95563406--95563445 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
95563396 AAAAGCCGAA
95563406 CTCATCCTTCTTTTCATTG
1 CTCATCCTTCTTTTCATTG
95563425 CTCATCCTTCTTTTCATTG
1 CTCATCCTTCTTTTCATTG
95563444 CT
1 CT
95563446 AATCGAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.10, C:0.33, G:0.05, T:0.53
Consensus pattern (19 bp):
CTCATCCTTCTTTTCATTG
Found at i:95564736 original size:20 final size:20
Alignment explanation
Indices: 95564713--95564751 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
95564703 TAAACATGGT
95564713 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
95564733 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
95564752 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:95564828 original size:24 final size:24
Alignment explanation
Indices: 95564802--95564969 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
95564792 GAGGAAGTGC
*
95564802 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
95564826 AAAAGGGCTTATGTCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
95564850 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
95564874 AAAAAGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
95564898 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
95564922 AAAAGGGCTTTTTCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
95564946 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
95564970 ATAATGAAGC
Statistics
Matches: 128, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
24 118 0.92
25 10 0.08
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:95582359 original size:48 final size:48
Alignment explanation
Indices: 95582299--95582393 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
95582289 GACATTAGGG
* *
95582299 TTATGTGTGATCCGATGTAAGACCATGCCTGGGACATGGCATTGGCAT
1 TTATATGTGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCAT
**
95582347 TTATATGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA
1 TTATATGTGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCA
95582394 CCTTACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (48 bp):
TTATATGTGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCAT
Found at i:95589016 original size:43 final size:42
Alignment explanation
Indices: 95588941--95589072 Score: 140
Period size: 43 Copynumber: 3.1 Consensus size: 42
95588931 ACATAGTAAT
* * **
95588941 ATACCAATGCCATATCCCAGATATGG-CTTTACATGGGATCTC
1 ATACCGATGCCATATCCCAGATATGGTC-TTACACGAAATCTC
** * *
95588983 ATATTGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTC
1 ATACCGATGCC-ATATCCCAGATATGGTCTTACACGAAATCTC
*
95589026 ATACCGATGTCATATCCCAGATATGGTCTTACACGTAAACTCTC
1 ATACCGATGCCATATCCCAGATATGGTCTTACACG-AAA-TCTC
95589070 ATA
1 ATA
95589073 ACCCTTATGT
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 30 0.41
43 35 0.48
44 8 0.11
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (42 bp):
ATACCGATGCCATATCCCAGATATGGTCTTACACGAAATCTC
Found at i:95592496 original size:37 final size:37
Alignment explanation
Indices: 95592446--95592558 Score: 167
Period size: 37 Copynumber: 3.1 Consensus size: 37
95592436 CTTTAGCTCA
* *
95592446 GACAAAATCTCCACACGGAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
95592483 GACAAAATCTCCACACGTAGTCATCGGGTCTTA-CCT
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
95592519 GA-AATATATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAA-A-ATCTCCACACGTAGTCATCGGGTCTTACCCG
95592557 GA
1 GA
95592559 ATATATTTCC
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
35 2 0.03
36 5 0.07
37 58 0.84
38 4 0.06
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:95592810 original size:98 final size:98
Alignment explanation
Indices: 95592708--95592889 Score: 267
Period size: 98 Copynumber: 1.9 Consensus size: 98
95592698 CATCGCCTAC
* * *
95592708 ATATTTCACACTAG-CCATTTGGTTTTACCACATATACATATCTCATACATAGTTCACACTAGCC
1 ATATTTCACA-TAGACCATTCGGCTTTACCACATATACATATATCATACATAGTTCACACTAGCC
*
95592772 ATTCGGCTTTACCACATATACATATCTCATATAT
65 ATTCGGCCTTACCACATATACATATCTCATATAT
* * * *
95592806 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATATCATACATATTTCACATTAGCCA
1 ATATTTCACATAGACCATTCGGCTTTACCACATATACATATATCATACATAGTTCACACTAGCCA
*
95592871 TTCGGCCTTATCACATATA
66 TTCGGCCTTACCACATATA
95592890 TGGATGTTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
97 2 0.03
98 72 0.97
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (98 bp):
ATATTTCACATAGACCATTCGGCTTTACCACATATACATATATCATACATAGTTCACACTAGCCA
TTCGGCCTTACCACATATACATATCTCATATAT
Found at i:95592835 original size:50 final size:48
Alignment explanation
Indices: 95592705--95592889 Score: 246
Period size: 48 Copynumber: 3.8 Consensus size: 48
95592695 GCACATCGCC
* *
95592705 TACATATTTCACACTAGCCATTTGGTTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
95592753 TACATAGTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
95592803 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATATCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
* * *
95592851 TACATATTTCACATTAGCCATTCGGCCTTATCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
95592890 TGGATGTTCA
Statistics
Matches: 120, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
48 76 0.63
49 4 0.03
50 40 0.33
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:95592956 original size:25 final size:25
Alignment explanation
Indices: 95592927--95593004 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
95592917 ATTCGGCCTT
95592927 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
95592952 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
95592974 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
95592999 ATCACA
1 ATCACA
95593005 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:95592979 original size:22 final size:22
Alignment explanation
Indices: 95592905--95593026 Score: 58
Period size: 23 Copynumber: 5.3 Consensus size: 22
95592895 GTTCATATTC
95592905 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
95592927 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
95592951 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* *
95592974 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
95592998 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
95593021 ATCACA
1 ATCACA
95593027 CATATGCATG
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 18 0.24
23 22 0.30
24 22 0.30
25 12 0.16
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:95593089 original size:47 final size:47
Alignment explanation
Indices: 95592811--95593070 Score: 382
Period size: 47 Copynumber: 5.5 Consensus size: 47
95592801 TATATATATT
* * * *
95592811 TCACATTGACCATTCGGCTTTA-C-CACATATGCATATATCATACATAT-T
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGT-TC--ACAT-TCA
* * * *
95592859 TCACATTAGCCATTCGGCCTTATCACATATATGGATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
95592906 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
95592953 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
95593000 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACAATCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
95593047 TCACATTGGCCATTCGGCCTTATC
1 TCACATTGGCCATTCGGCCTTATC
95593071 TCATATACAC
Statistics
Matches: 196, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.01
47 163 0.83
48 19 0.10
49 3 0.02
50 10 0.05
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:95598155 original size:40 final size:39
Alignment explanation
Indices: 95598005--95598157 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
95597995 AAATGTTCGA
* *
95598005 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
95598044 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
95598083 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
95598122 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
95598158 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:95598173 original size:40 final size:39
Alignment explanation
Indices: 95598006--95598188 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
95597996 AATGTTCGAG
* * *
95598006 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
95598045 TGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
95598084 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
95598123 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
95598163 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
95598189 GTTTGACGAG
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:95603847 original size:68 final size:70
Alignment explanation
Indices: 95603775--95603972 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
95603765 ACACCCTGTA
* * * *
95603775 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
95603837 ATAAAT
65 ATAAAT
*
95603843 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
95603908 ATAAAT
65 ATAAAT
*
95603914 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
95603973 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:95603886 original size:41 final size:41
Alignment explanation
Indices: 95603841--95603958 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
95603831 TGAAAGATAA
95603841 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
95603882 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
95603912 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
95603953 ATGTAG
1 ATGTAG
95603959 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:95603898 original size:71 final size:71
Alignment explanation
Indices: 95603809--95603972 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
95603799 GAGATGTATC
95603809 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
95603874 AGGACA
66 AGGACA
95603880 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
95603945 AGGACA
66 AGGACA
95603951 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
95603973 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:95607278 original size:40 final size:41
Alignment explanation
Indices: 95607233--95607399 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
95607223 CGGAATATAA
*
95607233 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
95607273 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
95607313 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
95607353 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
95607392 CCGGATAT
1 CCGGATAT
95607400 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:95608248 original size:17 final size:19
Alignment explanation
Indices: 95608225--95608270 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
95608215 AAGAAGCATG
95608225 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
95608243 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
95608261 AATCATGCTC
1 AATCATGCTC
95608271 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:95612165 original size:40 final size:39
Alignment explanation
Indices: 95612015--95612167 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
95612005 AAATGTTCGA
* *
95612015 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
95612054 GTGACATCCGGGCTAAGCCCGAAGGTAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
95612093 ATGATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
95612132 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
95612168 GGTTACCATA
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 84 0.83
40 17 0.17
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:95612183 original size:40 final size:39
Alignment explanation
Indices: 95612016--95612198 Score: 222
Period size: 39 Copynumber: 4.6 Consensus size: 39
95612006 AATGTTCGAG
* * *
95612016 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
95612055 TGACATCCGGGCTAAGCCCGAAGGTAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
95612094 TGATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
95612133 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
95612173 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
95612199 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 83 0.67
40 41 0.33
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:95617125 original size:40 final size:40
Alignment explanation
Indices: 95617070--95617149 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
95617060 TATAGAGAAA
* *
95617070 GGCTTTCCTGCCTCCTTCTCTTTGACTAACCGTAGGGGGT
1 GGCTTTCCTGCCTCCTTCTCCTTGACTAACCATAGGGGGT
*
95617110 GGCTTTTCTGCCTCCTTCTCCTTGACTAACCATAGGGGGT
1 GGCTTTCCTGCCTCCTTCTCCTTGACTAACCATAGGGGGT
95617150 CTACTATCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.11, C:0.30, G:0.24, T:0.35
Consensus pattern (40 bp):
GGCTTTCCTGCCTCCTTCTCCTTGACTAACCATAGGGGGT
Found at i:95629898 original size:40 final size:40
Alignment explanation
Indices: 95629843--95630010 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 40
95629833 TGAATGACAC
* *
95629843 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-TTATAT
*
95629883 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* * ** * *** *
95629923 CCGAGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* * * * * ** *
95629963 CCGGGTTAAGTCCCGAATGCATTTGTGCGAATTACTATAA
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
95630003 CCGGGCTA
1 CCGGGCTA
95630011 TGTCCTGAAG
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 106 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
Found at i:95637511 original size:40 final size:40
Alignment explanation
Indices: 95637456--95637567 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 40
95637446 GAATGATACT
*
95637456 CGGGCTAAGCCCCGAAGGCATTTATGCT-AG-TGATTATATC
1 CGGGCTAAGACCCGAAGGCATTTATG-TGAGTTG-TTATATC
*
95637496 CGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTTATGTGAGTTGTTATATC
* * ** * *
95637536 CAGGTTAATTCCCGAAGGCATTTGTGCGAGTT
1 CGGGCTAAGACCCGAAGGCATTTATGTGAGTT
95637568 ACCAAATCCG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.02
40 60 0.95
41 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTATGTGAGTTGTTATATC
Found at i:95637619 original size:40 final size:40
Alignment explanation
Indices: 95637493--95637632 Score: 120
Period size: 40 Copynumber: 3.5 Consensus size: 40
95637483 TAGTGATTAT
* * * * *** *
95637493 ATCCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTTAT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACCAA
* * *
95637533 ATCCAGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACCAA
* * *
95637573 ATCCGGGTTAAGTCTCGAAGGTATTTGTGCGAATTACTATA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACCA-A
* *
95637614 A-CCGGGCTATGTCCCGAAG
1 ATCCGGGTTAAGTCCCGAAG
95637633 ACAATCGAGC
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 79 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACCAA
Found at i:95639146 original size:2 final size:2
Alignment explanation
Indices: 95639139--95639166 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
95639129 CAACTCAATG
95639139 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95639167 TCAACTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95642257 original size:43 final size:42
Alignment explanation
Indices: 95642195--95642306 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 42
95642185 TAATATACCA
**
95642195 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATA-TCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATACT-G
* *
95642237 ATGCCAATAGCCCAGCTATGGTCTTACATGAAATCTCATACTG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATACTG
* *
95642280 ATGTCATATCCTAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
95642307 CGTAAACTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 24 0.40
43 35 0.58
44 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATACTG
Found at i:95644508 original size:12 final size:12
Alignment explanation
Indices: 95644491--95644515 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95644481 AATTAGATCC
95644491 TAAAGGTATATA
1 TAAAGGTATATA
95644503 TAAAGGTATATA
1 TAAAGGTATATA
95644515 T
1 T
95644516 TCAACTCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (12 bp):
TAAAGGTATATA
Found at i:95645858 original size:20 final size:20
Alignment explanation
Indices: 95645833--95645890 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
95645823 AAAAAAATAA
* *
95645833 AGAATAATTAAAATGATACC
1 AGAATAATGAAAATAATACC
95645853 AGAATAATGAAAATAATACC
1 AGAATAATGAAAATAATACC
**
95645873 TTAATAAT-AATAATAATA
1 AGAATAATGAA-AATAATA
95645891 ATAGAGAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (20 bp):
AGAATAATGAAAATAATACC
Found at i:95645880 original size:3 final size:3
Alignment explanation
Indices: 95645874--95646329 Score: 240
Period size: 3 Copynumber: 153.3 Consensus size: 3
95645864 AATAATACCT
* * *
95645874 TAA TAA TAA TAA TAA TAA TAGA GAA TAA CAA TACA TTGA TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A -TAA TAA TAA TA-A
** * *
95645923 TGT TAA TAA CAA TAA TAA TAA T-A TGCAA -AA -AA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T--AA TAA TAA TAA TAA TAA TAA
* * ** * * * *
95645967 T-A TAG TAA AAA TAA TAA TAA T-A TGT TAA TAA GAA TAA TAG TAG TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * *
95646013 TAA TAA TAA TAA TACA TTA -AA TTA CGA TAG TAA -AT TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
95646057 TAG TGA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
95646104 TAT TAA -AA CTAA TAA TAA TAG TAA TAG TGA TAA TAA TAA TAA AAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** *
95646149 TAA -AA TAA TAA TAA TAA TAG T-A TGT TAAA TAA TAA TAG TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * * * * * *
95646192 AAA TAG TAG TAA TAA TAA TTA TAA AAA TGA TAA TGAA -CA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* * ** * * * * *
95646236 TGA TAA TAA TAC TAA TGT TAA TAG TAA TAA AAA AAA TAA GAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
95646284 TAA TAG TAA TAG TAA TAA TAA TAA -ATA TAA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
95646329 T
1 T
95646330 GTGATAAAAC
Statistics
Matches: 337, Mismatches: 91, Indels: 50
0.71 0.19 0.10
Matches are distributed among these distances:
2 25 0.07
3 296 0.88
4 14 0.04
5 2 0.01
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:95645959 original size:23 final size:23
Alignment explanation
Indices: 95645933--95645988 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
95645923 TGTTAATAAC
95645933 AATAATAATAATAT-GCAAAAAAA
1 AATAATAATAATATAG-AAAAAAA
* *
95645956 AATAATAATAATATAGTAAAAAT
1 AATAATAATAATATAGAAAAAAA
95645979 AATAATAATA
1 AATAATAATA
95645989 TGTTAATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 29 0.97
24 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (23 bp):
AATAATAATAATATAGAAAAAAA
Found at i:95647101 original size:18 final size:17
Alignment explanation
Indices: 95647074--95647107 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
95647064 TATTTTGGTT
95647074 TCCTGATTTGGGCTATTC
1 TCCTGATTTGGG-TATTC
*
95647092 TCCTGCTTTGGGTATT
1 TCCTGATTTGGGTATT
95647108 ACTAGAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.09, C:0.21, G:0.24, T:0.47
Consensus pattern (17 bp):
TCCTGATTTGGGTATTC
Found at i:95647392 original size:14 final size:15
Alignment explanation
Indices: 95647365--95647393 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
95647355 ACACCTAGGG
95647365 TTTTCTTTTGTTGTT
1 TTTTCTTTTGTTGTT
95647380 TTTTCTTTT-TTGTT
1 TTTTCTTTTGTTGTT
95647394 AGTTGGGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTGTTGTT
Found at i:95668384 original size:53 final size:52
Alignment explanation
Indices: 95668209--95668462 Score: 232
Period size: 53 Copynumber: 4.8 Consensus size: 52
95668199 ATTAGGGTTT
* *
95668209 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCTAAGGC
* * * * *
95668264 AAGGAAATCATGTAAG-CCATGTCAAGACATGCCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C--TAAGGC
* *
95668318 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTC-TAAGGC
* * *
95668371 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGTTAAGTT-TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCT-AAGGC
* * ** *
95668420 AAGGATACCACGTAAGACCATGACAACTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
95668463 GTACCCATGT
Statistics
Matches: 168, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
49 38 0.23
51 3 0.02
52 8 0.05
53 49 0.29
54 28 0.17
55 42 0.25
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTAAGGC
Found at i:95668414 original size:108 final size:109
Alignment explanation
Indices: 95668216--95668415 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 109
95668206 TTTAAGGATA
*
95668216 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGC
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGC
*
95668281 CATGTCAAGACATGCCATTGATAAGTTACTATAAGGCAAAGGTC
66 CATGTCAAGACATGCCAATGATAAGTTACTATAAGGCAAAGGTC
* *
95668325 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTAA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
95668387 ACCATGTCAAGACATGGCAATGTTAAGTT
65 -CCATGTCAAGACATGCCAATGATAAGTT
95668416 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
106 3 0.04
107 21 0.25
108 33 0.40
109 26 0.31
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGC
CATGTCAAGACATGCCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:95668675 original size:16 final size:16
Alignment explanation
Indices: 95668654--95668684 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95668644 ATAAATTTGA
95668654 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
95668670 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
95668685 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:95674934 original size:39 final size:39
Alignment explanation
Indices: 95674889--95675157 Score: 412
Period size: 39 Copynumber: 6.9 Consensus size: 39
95674879 ATGCAAGACA
* *
95674889 CTGGAAATGTATCCAGGCTAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
95674928 CTGGAAATATATCCGGGCCAAAGTCCCGCAAGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
95674967 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
95675006 CTGAAAATGTATCCGGGCCAAAGTCCTGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
95675045 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
95675084 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * * * *
95675123 CGGGAAATCTATCCAGGTTAAAGTACCGCAGGCTT
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTT
95675158 TGTACTGGTA
Statistics
Matches: 209, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 209 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:95679384 original size:40 final size:39
Alignment explanation
Indices: 95679273--95679423 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
95679263 ATAAGCATGT
* ** *
95679273 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
*
95679313 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *** *
95679353 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *
95679393 GCATAATTGTCTTCGGGT-TTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
95679424 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 14 0.15
40 81 0.85
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:95679407 original size:80 final size:79
Alignment explanation
Indices: 95679273--95679423 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
95679263 ATAAGCATGT
*
95679273 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGT-TTAGCC
95679338 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
95679353 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGTTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTTTAGC
95679416 CCGGATAT
64 CCGGATAT
95679424 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 16 0.26
80 46 0.74
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGTTTAGCCC
GGATATAGCCACTA
Found at i:95687378 original size:40 final size:40
Alignment explanation
Indices: 95687250--95687400 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
95687240 TATAACATGT
* * *
95687250 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** *
95687290 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
95687330 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
95687370 GCATAATTGTCTTCGGG-GTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
95687401 CATTCAATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 14 0.15
40 77 0.83
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:95695096 original size:40 final size:40
Alignment explanation
Indices: 95695051--95695214 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
95695041 CGGAATATAA
95695051 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
95695091 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
95695131 CCGG--ATAGCCACTAGCACAATTGCCTTC-GGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
95695168 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
95695207 CCGGATAT
1 CCGGATAT
95695215 CATTCAATTT
Statistics
Matches: 101, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
37 12 0.12
38 17 0.17
39 31 0.31
40 41 0.41
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:95698790 original size:40 final size:40
Alignment explanation
Indices: 95698723--95698874 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
95698713 AAATTGAATG
* * *
95698723 ATATCCGGGCTAA-ATCCTGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCTGGAAATT
* * ****
95698763 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
95698803 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
95698843 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
95698875 ACGTGATTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 3 0.03
40 83 0.93
41 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:95698888 original size:40 final size:40
Alignment explanation
Indices: 95698760--95698890 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
95698750 TATGCTGGAA
* * *
95698760 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
95698800 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
95698840 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
95698880 ATTATATCCGG
1 ATTATATCCGG
95698891 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:95713369 original size:37 final size:37
Alignment explanation
Indices: 95713258--95713371 Score: 176
Period size: 37 Copynumber: 3.1 Consensus size: 37
95713248 CGAATAGTCC
* * *
95713258 CCACACGTAGTTATCGGGTCTCACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
95713295 CCACACGTAGTCATCGGGACTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
95713332 CCACACGTAGTCATCGGGTCTTACCCGGA-ATATATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATA-ATCT
95713369 CCA
1 CCA
95713372 AGTTTCATGT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 3 0.04
37 68 0.96
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:95713572 original size:48 final size:48
Alignment explanation
Indices: 95713514--95714244 Score: 1049
Period size: 48 Copynumber: 15.5 Consensus size: 48
95713504 TCCTACATAT
* *
95713514 TTCGACTTTACCAAATATACATATCTCATACATATTTCACATTAGCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* * * **
95713562 TTCGGATTTACCACATATATATATCTCATATATATTTCATGTTAGCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
95713610 TTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
95713658 TTTGGCTTTACCACATATATATATCTCATACATATTTCACATTAGCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* * *
95713706 TTCAGCTTTACCACATATACATATCGCATATATATTTCACATTAGCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
95713754 TTCGGCTTTACCACATATATATATCTCATACATATTTCATATTAGCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
95713802 TTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
95713850 TTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* * *
95713898 -----C-ATA-TACATAT-C---TCAT-AT--ATATTCCACATTAGCCA
1 TTCGGCTTTACCACATATACATATC-TCATACATATTTCACATTAGCCA
*
95713933 TTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
95713981 TTCGGCTTTACCACATATATATATCTCATACATATTTCATATTAGCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
95714029 TTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
95714077 TTCGGCTTTACCACATATACATATCTCATACATATTTCACAGTACCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* **
95714125 TTCGGCTTTACCACATATATATATCTCATACATATTTCATGTTAGCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
95714173 TTCGGCTTTACCACGTATACATATCTCATACATATTTCACACTAGCCA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
95714221 TTCGGCTTTACCACACATATATAT
1 TTCGGCTTTACCACATATACATAT
95714245 ATTTATCTTG
Statistics
Matches: 612, Mismatches: 56, Indels: 30
0.88 0.08 0.04
Matches are distributed among these distances:
35 16 0.03
37 4 0.01
38 1 0.00
40 2 0.00
41 8 0.01
42 8 0.01
43 2 0.00
45 1 0.00
46 4 0.01
48 566 0.92
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
Found at i:95713899 original size:35 final size:35
Alignment explanation
Indices: 95713860--95713932 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
95713850 TTCGGCTTTA
*
95713860 CCACATATACATATCTCATATATATTTCACATTAG
1 CCACATATACATATCTCATATATATTCCACATTAG
95713895 CCACATATACATATCTCATATATATTCCACATTAG
1 CCACATATACATATCTCATATATATTCCACATTAG
95713930 CCA
1 CCA
95713933 TTCGGCTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (35 bp):
CCACATATACATATCTCATATATATTCCACATTAG
Found at i:95713902 original size:83 final size:83
Alignment explanation
Indices: 95713812--95713980 Score: 329
Period size: 83 Copynumber: 2.0 Consensus size: 83
95713802 TTCGGCTTTA
*
95713812 CCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATATATATTCCACATTAGCCATTCGGCTTTACCACATATACATATCTC
95713877 ATATATATTTCACATTAG
66 ATATATATTTCACATTAG
95713895 CCACATATACATATCTCATATATATTCCACATTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATATATATTCCACATTAGCCATTCGGCTTTACCACATATACATATCTC
95713960 ATATATATTTCACATTAG
66 ATATATATTTCACATTAG
95713978 CCA
1 CCA
95713981 TTCGGCTTTA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 85 1.00
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (83 bp):
CCACATATACATATCTCATATATATTCCACATTAGCCATTCGGCTTTACCACATATACATATCTC
ATATATATTTCACATTAG
Found at i:95724587 original size:29 final size:28
Alignment explanation
Indices: 95724545--95724603 Score: 109
Period size: 29 Copynumber: 2.1 Consensus size: 28
95724535 AGGGGAAAGA
95724545 ATGTGTGTGATGGCTTCTCCCCCCTCCCC
1 ATGTGTGTGATGGCTTCT-CCCCCTCCCC
95724574 ATGTGTGTGATGGCTTCTCCCCCTCCCC
1 ATGTGTGTGATGGCTTCTCCCCCTCCCC
95724602 AT
1 AT
95724604 TGCCGTGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.08, C:0.39, G:0.20, T:0.32
Consensus pattern (28 bp):
ATGTGTGTGATGGCTTCTCCCCCTCCCC
Found at i:95724611 original size:28 final size:29
Alignment explanation
Indices: 95724545--95724611 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
95724535 AGGGGAAAGA
*
95724545 ATGTGTGTGATGGCTTCTCCCCCCTCCCC
1 ATGTGCGTGATGGCTTCTCCCCCCTCCCC
*
95724574 ATGTGTGTGATGGCTTCT-CCCCCTCCCC
1 ATGTGCGTGATGGCTTCTCCCCCCTCCCC
95724602 AT-TGCCGTGA
1 ATGTG-CGTGA
95724612 AGGTAAGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 2 0.06
28 16 0.44
29 18 0.50
ACGTcount: A:0.09, C:0.37, G:0.22, T:0.31
Consensus pattern (29 bp):
ATGTGCGTGATGGCTTCTCCCCCCTCCCC
Found at i:95725976 original size:40 final size:40
Alignment explanation
Indices: 95725921--95726138 Score: 249
Period size: 40 Copynumber: 5.5 Consensus size: 40
95725911 TGAATGATAC
* * *
95725921 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
95725961 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
95726001 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *** *
95726041 CCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * ** *
95726081 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
95726121 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGACCCGAAG
95726139 ACAATCGAGC
Statistics
Matches: 158, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 156 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:95726151 original size:120 final size:120
Alignment explanation
Indices: 95725932--95726178 Score: 273
Period size: 120 Copynumber: 2.1 Consensus size: 120
95725922 CGGGCTAAGC
* ** * * **
95725932 CCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 CCCGAAGGCATTTATGCGAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTACT
* * * * * * * *
95725997 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGTT-AATT
66 ATAACCGGGCTAAGACCCGAAGACAATCGAGCGAGTCGCTATATCC-AGTTAAATT
* * * * *
95726052 CCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT
1 CCCGAAGGCATTTATGCGAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTACT
* *
95726117 ATAACCGGGCTATGTCCCGAAGACAATCGAGCGAGTCGCTATATCCAGTTAAATT
66 ATAACCGGGCTAAGACCCGAAGACAATCGAGCGAGTCGCTATATCCAGTTAAATT
95726172 -CCGAAGG
1 CCCGAAGG
95726179 TACGTGATTC
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
119 10 0.10
120 94 0.90
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (120 bp):
CCCGAAGGCATTTATGCGAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTACT
ATAACCGGGCTAAGACCCGAAGACAATCGAGCGAGTCGCTATATCCAGTTAAATT
Found at i:95734930 original size:21 final size:20
Alignment explanation
Indices: 95734884--95734937 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
95734874 GATAATTACG
95734884 TTTATTTTCTTTAAATTAAGA
1 TTTATTTT-TTTAAATTAAGA
* * *
95734905 GTTATTTTTTTAACTTCATGA
1 TTTATTTTTTTAAATT-AAGA
*
95734926 TTTATTTATTTA
1 TTTATTTTTTTA
95734938 TTTTATTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (20 bp):
TTTATTTTTTTAAATTAAGA
Found at i:95736782 original size:20 final size:20
Alignment explanation
Indices: 95736728--95736784 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
95736718 ATTATTATAA
95736728 TATTTTTTATTTTAATT-ATAT
1 TATTTTTTATTTT--TTAATAT
* * * *
95736749 CATTATTAAATTTTTAATAT
1 TATTTTTTATTTTTTAATAT
95736769 TATTTTTTATTTTTTA
1 TATTTTTTATTTTTTA
95736785 TCTTTATATA
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.07
20 16 0.59
21 9 0.33
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTTTTTATTTTTTAATAT
Found at i:95738701 original size:3 final size:3
Alignment explanation
Indices: 95738693--95738736 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
95738683 AGGCGATGGC
*
95738693 GAT GAT GAT GAT GAT AAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
95738737 GCCGAAACCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:95743843 original size:83 final size:83
Alignment explanation
Indices: 95743699--95743871 Score: 292
Period size: 83 Copynumber: 2.1 Consensus size: 83
95743689 TCTCTCCTGT
* * * *
95743699 CATTCTCTTTACCAATATTCATCATCATCACCATCGATGAGTTATAACAAACATACTCAATCGTA
1 CATTGTCTTTACCAATATCCATCATCACCACCATCGATGAGTTATAACAAACACACTCAATCGTA
95743764 TAGATCAACAATAATACC
66 TAGATCAACAATAATACC
*
95743782 CATTGTCTTTACCAATATCCATCATCACCACCATCGATGAGTTATAACAAACACATTCAATCGTA
1 CATTGTCTTTACCAATATCCATCATCACCACCATCGATGAGTTATAACAAACACACTCAATCGTA
*
95743847 TAGATCAACAATAGTACC
66 TAGATCAACAATAATACC
95743865 CATTGTC
1 CATTGTC
95743872 GAATGCCTTA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (83 bp):
CATTGTCTTTACCAATATCCATCATCACCACCATCGATGAGTTATAACAAACACACTCAATCGTA
TAGATCAACAATAATACC
Found at i:95751740 original size:21 final size:21
Alignment explanation
Indices: 95751699--95751738 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
95751689 AAAAAAAAAC
95751699 TTATATATTAATTAAAATTTA
1 TTATATATTAATTAAAATTTA
* *
95751720 TTATAT-TTATTTAATATTT
1 TTATATATTAATTAAAATTT
95751739 TACCATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATATATTAATTAAAATTTA
Found at i:95753407 original size:20 final size:20
Alignment explanation
Indices: 95753362--95753417 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
95753352 TTAATTACTT
95753362 TTATTTTAAATTTTT-TATAA
1 TTATTTT-AATTTTTATATAA
**
95753382 AAATTTTAACTTTTTATAT-A
1 TTATTTTAA-TTTTTATATAA
95753402 TTATTTTGAATTTTTA
1 TTATTTT-AATTTTTA
95753418 AAATTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
19 2 0.07
20 22 0.76
21 5 0.17
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TTATTTTAATTTTTATATAA
Found at i:95757260 original size:26 final size:26
Alignment explanation
Indices: 95757224--95757307 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
95757214 TGATACAAAT
95757224 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
95757250 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
95757276 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
95757302 TGATAA
1 TGATAA
95757308 GAATTTCATG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 53 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:95758967 original size:27 final size:27
Alignment explanation
Indices: 95758924--95759090 Score: 219
Period size: 27 Copynumber: 6.2 Consensus size: 27
95758914 GAGGAAGCGT
*
95758924 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
95758951 TCTGGTGGCTCTACCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
95758978 TCTGGTGGCTCTGCCATAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
95759005 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
95759032 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
95759060 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
95759086 TCTGG
1 TCTGG
95759091 CAGCCATGCT
Statistics
Matches: 125, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 5 0.04
27 105 0.84
28 15 0.12
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:95763261 original size:40 final size:40
Alignment explanation
Indices: 95763216--95763345 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
95763206 CGGAATACAA
95763216 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
95763256 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
95763296 CCGGATGTAGCCACTAACAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
95763336 CCGGATATAA
1 CCGGATATAA
95763346 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:95766311 original size:26 final size:26
Alignment explanation
Indices: 95766249--95766357 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
95766239 TGATACAAAT
95766249 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
95766274 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
95766300 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
95766326 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
95766352 TGATAA
1 TGATAA
95766358 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:95767858 original size:26 final size:26
Alignment explanation
Indices: 95767795--95767870 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
95767785 AAAAGTAGCT
* * * *
95767795 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-GTGCA
95767823 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGGTGCA
95767849 AAATTACTGTTATACCCCTAGG
1 AAATTACTGTTATACCCCTAGG
95767871 GTTAATTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 25 0.57
27 1 0.02
28 18 0.41
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGTGCA
Found at i:95768016 original size:27 final size:27
Alignment explanation
Indices: 95767973--95768139 Score: 228
Period size: 27 Copynumber: 6.2 Consensus size: 27
95767963 GAGGAAGCGT
*
95767973 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
95768000 TCTGGTGGCTCTACCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
95768027 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
95768054 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
95768081 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
95768109 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
95768135 TCTGG
1 TCTGG
95768140 CAGCCATGCT
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
26 5 0.04
27 107 0.84
28 15 0.12
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:95770401 original size:20 final size:20
Alignment explanation
Indices: 95770376--95770426 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
95770366 GTATCAATCT
*
95770376 GGTATCGATACT-TTTCTTAA
1 GGTATCGATA-TATTTCCTAA
95770396 GGTATCGATATATTTCCTAA
1 GGTATCGATATATTTCCTAA
95770416 GGTATCGATAT
1 GGTATCGATAT
95770427 TCCTGCTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (20 bp):
GGTATCGATATATTTCCTAA
Found at i:95774935 original size:41 final size:42
Alignment explanation
Indices: 95774843--95774989 Score: 179
Period size: 43 Copynumber: 3.5 Consensus size: 42
95774833 CAATGCTAAC
* * *
95774843 GTCCCAGACATGGTCTTACATGCCATCACATAACGATGCCACT
1 GTCCCAGACATGGTCTTACACGCAATCACAT-ACGATGCCAAT
* * *
95774886 GTCTCAGACAGGGTCTTACACG-AATCAAATACGATGCCAAT
1 GTCCCAGACATGGTCTTACACGCAATCACATACGATGCCAAT
* * *
95774927 GTCCCAGACATGGTGTTACACGTAATCACATATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACGCAATCACATA-CGATGCCAAT
*
95774970 ATCCCAGACATGGTCTTACA
1 GTCCCAGACATGGTCTTACA
95774990 TGAGAACACA
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 29 0.33
42 14 0.16
43 46 0.52
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGCAATCACATACGATGCCAAT
Found at i:95779108 original size:16 final size:16
Alignment explanation
Indices: 95779087--95779117 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95779077 TTTACTATTA
*
95779087 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
95779103 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
95779118 GCATGCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:95780309 original size:24 final size:25
Alignment explanation
Indices: 95780264--95780314 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
95780254 ATTTTTGAAA
*
95780264 AAATTAATTTTAATCAAGTAAAATT
1 AAATTAATTTAAATCAAGTAAAATT
*
95780289 AAATTAA-TTAAATCAATTAAAATT
1 AAATTAATTTAAATCAAGTAAAATT
95780313 AA
1 AA
95780315 TATAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATTAATTTAAATCAAGTAAAATT
Found at i:95780479 original size:8 final size:8
Alignment explanation
Indices: 95780466--95780495 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
95780456 AATATGAAAC
95780466 CGGGCCGA
1 CGGGCCGA
95780474 CGGGCCGA
1 CGGGCCGA
95780482 CGGGCCGA
1 CGGGCCGA
95780490 CGGGCC
1 CGGGCC
95780496 AACTGGTGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.10, C:0.40, G:0.50, T:0.00
Consensus pattern (8 bp):
CGGGCCGA
Found at i:95780930 original size:20 final size:20
Alignment explanation
Indices: 95780893--95780934 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
95780883 TAAGATTTAA
*
95780893 TATTAAATTTAATCTAATAT
1 TATTAAATTAAATCTAATAT
* *
95780913 TATTAGATTAAATTTAATAT
1 TATTAAATTAAATCTAATAT
95780933 TA
1 TA
95780935 AAGTGATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
TATTAAATTAAATCTAATAT
Found at i:95783449 original size:40 final size:39
Alignment explanation
Indices: 95783401--95783571 Score: 220
Period size: 39 Copynumber: 4.3 Consensus size: 39
95783391 ACGACTAGCT
*
95783401 CAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAA-CCCGGATT-TAGTAACTCGCA
* *
95783441 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAACCCGGATTTAGTAACTCGCA
* *
95783481 CAAATGCCTTCGGGCTTAACCCGGATTTATTAACTTGCA
1 CAAATGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCA
*
95783520 CAAATGCCTTCGGGCTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCA
* *
95783559 CGAACGCCTTCGG
1 CAAATGCCTTCGG
95783572 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
39 71 0.59
40 45 0.38
41 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCA
Found at i:95783515 original size:39 final size:40
Alignment explanation
Indices: 95783401--95783624 Score: 226
Period size: 40 Copynumber: 5.7 Consensus size: 40
95783391 ACGACTAGCT
*
95783401 CAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCA
* *
95783441 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
95783481 CAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
95783520 CAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * ** * * * **
95783559 CGAACGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAACA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
95783600 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
95783625 CATCATTCAA
Statistics
Matches: 159, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 69 0.43
40 75 0.47
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:95786619 original size:48 final size:48
Alignment explanation
Indices: 95786506--95786641 Score: 148
Period size: 48 Copynumber: 2.8 Consensus size: 48
95786496 ACCACGATTT
* *
95786506 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAG
1 ATGAG-GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCTGAG
* * * *
95786555 ATGAGGCTAGTATAAGACCATGTTTGGGACATGGCATCGGCGT-TGAT
1 ATGAGGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCTGAG
* * * * *
95786602 ATGTATGCCAGTGTAAGACTATATTTGGGATATGACATCG
1 ATG-AGGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
95786642 ACCTCGGTAT
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
47 6 0.08
48 62 0.85
49 5 0.07
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (48 bp):
ATGAGGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCTGAG
Found at i:95786713 original size:42 final size:42
Alignment explanation
Indices: 95786649--95786826 Score: 167
Period size: 42 Copynumber: 4.1 Consensus size: 42
95786639 TCGACCTCGG
* * * * *
95786649 TATGTGATTTCATGTAAGACCATATCTGGGATATGGCGTTGA
1 TATGAGATTTCGTATAAGACCATATCTGGGATATGGCATCGA
* * *
95786691 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCGA
1 TATGAGATTTCGTATAAGACCATATCTGGGATATGGCATCGA
* ** * *
95786733 TATGAGGTCCCGTATAAGACCATGTCTGGGACATAGCATCGGCACCGA
1 TATGAGATTTCGTATAAGACCATATCTGGG--AT---AT-GGCATCGA
* *
95786781 CATGAGACTTCGTATAAGACCATATCTGGGATATGGCATCGA
1 TATGAGATTTCGTATAAGACCATATCTGGGATATGGCATCGA
95786823 TATG
1 TATG
95786827 TAGACCCATG
Statistics
Matches: 110, Mismatches: 20, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
42 72 0.65
43 2 0.02
44 1 0.01
46 2 0.02
47 2 0.02
48 31 0.28
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (42 bp):
TATGAGATTTCGTATAAGACCATATCTGGGATATGGCATCGA
Found at i:95786786 original size:90 final size:90
Alignment explanation
Indices: 95786692--95786856 Score: 235
Period size: 90 Copynumber: 1.8 Consensus size: 90
95786682 TGGCGTTGAT
* * * * *
95786692 ATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCGATATG-AGGTCCCGTATAAGACCAT
1 ATGAGACTTCGTATAAGACCATATCTGGGACATGGCATCGATATGTA-GACCCATATAAGACCAT
95786756 GTCT-GGGACATAGCATCGGCACCGAC
65 GT-TGGGGACATAGCATCGGCACCGAC
* *
95786782 ATGAGACTTCGTATAAGACCATATCTGGGATATGGCATCGATATGTAGACCCATGTAAGACCATG
1 ATGAGACTTCGTATAAGACCATATCTGGGACATGGCATCGATATGTAGACCCATATAAGACCATG
95786847 TTGGGGACAT
66 TTGGGGACAT
95786857 GGCTTTGGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
89 1 0.02
90 64 0.97
91 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (90 bp):
ATGAGACTTCGTATAAGACCATATCTGGGACATGGCATCGATATGTAGACCCATATAAGACCATG
TTGGGGACATAGCATCGGCACCGAC
Found at i:95786859 original size:42 final size:41
Alignment explanation
Indices: 95786663--95786859 Score: 153
Period size: 42 Copynumber: 4.6 Consensus size: 41
95786653 TGATTTCATG
* * * * ** *
95786663 TAAGACCATATCTGGGATATGGCGTTGATATGAGATTTCGTG
1 TAAGACCATGTCTGGGACATGGCATCGATATGAGA-CCCGTA
*
95786705 TAAGACCATGTCTGGGACATGGCATCGATATGAGGTCCCGTA
1 TAAGACCATGTCTGGGACATGGCATCGATATGA-GACCCGTA
* * *
95786747 TAAGACCATGTCTGGGACATAGCATCGGCACCGACATGAGACTTCGTA
1 TAAGACCATGTCTGGG----A-CAT-GGCATCGATATGAGAC-CCGTA
* * * *
95786795 TAAGACCATATCTGGGATATGGCATCGATATGTAGACCCATG
1 TAAGACCATGTCTGGGACATGGCATCGATATG-AGACCCGTA
95786837 TAAGACCATGT-TGGGGACATGGC
1 TAAGACCATGTCT-GGGACATGGC
95786860 TTTGGCATTT
Statistics
Matches: 124, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 79 0.64
43 7 0.06
44 1 0.01
46 1 0.01
47 5 0.04
48 30 0.24
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (41 bp):
TAAGACCATGTCTGGGACATGGCATCGATATGAGACCCGTA
Found at i:95791507 original size:46 final size:46
Alignment explanation
Indices: 95791440--95791608 Score: 248
Period size: 46 Copynumber: 3.6 Consensus size: 46
95791430 TATGTGTGCT
95791440 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAAAGCC
*
95791486 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAAAGCC
** * * *
95791532 AGTGTAAGACATGTCTGGGACATATATCGGCCTCGAGATACGCAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAG--ACGAAAGCC
*
95791580 AGTGTAAGACCTGTCTGGGACATGGCATC
1 AGTGTAAGACATGTCTGGGACAT-GCATC
95791609 AGCTTGACAT
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
46 78 0.71
48 29 0.26
49 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAAAGCC
Found at i:95791628 original size:92 final size:92
Alignment explanation
Indices: 95791431--95791704 Score: 272
Period size: 92 Copynumber: 2.9 Consensus size: 92
95791421 TTTGGGTGAT
* *
95791431 ATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAG-ACGAAAGCCAGTGTAAGA
1 ATGTGT-CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAACG-AAGCCAGTGTAAGA
* * *
95791495 CATGTCTGGGACAT-GCATCGGCATTGAG
64 CCTGTCTGGGACATGGCATCAGCATTGAC
* * **
95791523 ACGAAAG-CTAGTGTAAGACATGTCTGGGACATATATCGGCCTCGAGATACGCAAGCCAGTGTAA
1 ATG--TGTCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-ACG-AAGCCAGTGTAA
95791587 GACCTGTCTGGGACATGGCATCAGC-TTGAC
62 GACCTGTCTGGGACATGGCATCAGCATTGAC
* ** * * *
95791617 ATGTGTC-AGTGTAAGACTTGTCTAAGACATGGCATCGACAC-CGATAGATGAGAGCCAGTGTAA
1 ATGTGTCTAGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTCGAGA-ACGA-AGCCAGTGTAA
*
95791680 GACCTATCTGGGACATGGCATCAGC
62 GACCTGTCTGGGACATGGCATCAGC
95791705 CTCGATATAT
Statistics
Matches: 151, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
92 59 0.39
93 47 0.31
94 38 0.25
95 7 0.05
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (92 bp):
ATGTGTCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAACGAAGCCAGTGTAAGACC
TGTCTGGGACATGGCATCAGCATTGAC
Found at i:95791751 original size:49 final size:48
Alignment explanation
Indices: 95791527--95791779 Score: 180
Period size: 49 Copynumber: 5.3 Consensus size: 48
95791517 ATTGAGACGA
* * * ** * * *
95791527 AAGCTAGTGTAAGACATGTCTGGGACAT-ATATCGGCCTCGAGATACG
1 AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATATATG
* * *
95791574 CAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAG-CTTG--ACATG
1 -AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATATATG
* * * * *
95791620 -TGTCAGTGTAAGACTTGTCTAAGACATGGCATC-GACAC-CGATAGATG
1 AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCAG-C-CTCGATATATG
* *
95791667 AGAGCCAGTGTAAGACCTATCTGGGACATGGCATCAGCCTCGATATATGG
1 A-AGCCAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATATAT-G
* * * * * * *
95791717 AAGTCAGTTTAAGACCTGTCTAGGACATGGCATCAACTTAGATGTGTG
1 AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATATATG
95791765 -AGCCAGTGTAAGACC
1 AAGCCAGTGTAAGACC
95791780 ATATTTGGAA
Statistics
Matches: 161, Mismatches: 33, Indels: 23
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 28 0.17
45 1 0.01
46 4 0.02
47 17 0.11
48 31 0.19
49 76 0.47
50 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (48 bp):
AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATATATG
Found at i:95798936 original size:19 final size:20
Alignment explanation
Indices: 95798914--95798952 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
95798904 AACCACTGTC
*
95798914 ATCCATCGTAAT-AAAATTT
1 ATCCACCGTAATCAAAATTT
*
95798933 ATCCACCTTAATCAAAATTT
1 ATCCACCGTAATCAAAATTT
95798953 TTATTAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.36
Consensus pattern (20 bp):
ATCCACCGTAATCAAAATTT
Found at i:95799510 original size:9 final size:9
Alignment explanation
Indices: 95799496--95799523 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
95799486 TATAGTTTGA
95799496 TATTCGAAT
1 TATTCGAAT
95799505 TATTCGAAT
1 TATTCGAAT
95799514 TATTCGAAT
1 TATTCGAAT
95799523 T
1 T
95799524 CAAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:95811400 original size:20 final size:20
Alignment explanation
Indices: 95811375--95811419 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
95811365 AGGGATGAAA
* *
95811375 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
95811395 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
95811415 ATGAA
1 ATGAA
95811420 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:95814709 original size:17 final size:18
Alignment explanation
Indices: 95814687--95814720 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
95814677 AGCCAAATTG
95814687 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
95814704 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
95814721 ATGGGACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:95815445 original size:10 final size:10
Alignment explanation
Indices: 95815426--95815485 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
95815416 TTAAATTCTA
95815426 AAAGATAAAT
1 AAAGATAAAT
95815436 ACAA-ATAAAT
1 A-AAGATAAAT
*
95815446 AAAGATAACT
1 AAAGATAAAT
95815456 AAAGATAAAT
1 AAAGATAAAT
95815466 AAAGATAAAT
1 AAAGATAAAT
95815476 GAAA-ATAAAT
1 -AAAGATAAAT
95815486 CTTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:95819779 original size:47 final size:47
Alignment explanation
Indices: 95819710--95819806 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
95819700 CAACTAAGCA
*
95819710 TTTCTTAGCCTAAAATCACAAACATAAACATTCTCAATTTTTCAACC
1 TTTCTTAGCCTAAAATCACAAACACAAACATTCTCAATTTTTCAACC
95819757 TTTCTTAGCCTAAAATCACAAACACAAACATTCTCAATTTTTCAACC
1 TTTCTTAGCCTAAAATCACAAACACAAACATTCTCAATTTTTCAACC
95819804 TTT
1 TTT
95819807 AGCTACCATG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (47 bp):
TTTCTTAGCCTAAAATCACAAACACAAACATTCTCAATTTTTCAACC
Found at i:95821521 original size:25 final size:25
Alignment explanation
Indices: 95821492--95821545 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
95821482 ACATATAAAT
95821492 CACTTAATGCTTGTCCATATTTGTC
1 CACTTAATGCTTGTCCATATTTGTC
95821517 CACTTAATGCTTGTCCATATTTGTC
1 CACTTAATGCTTGTCCATATTTGTC
95821542 CACT
1 CACT
95821546 CACAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.20, C:0.26, G:0.11, T:0.43
Consensus pattern (25 bp):
CACTTAATGCTTGTCCATATTTGTC
Found at i:95831101 original size:27 final size:29
Alignment explanation
Indices: 95831071--95831129 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
95831061 ATACAAGAGC
*
95831071 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
95831098 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
95831127 ATA
1 ATA
95831130 GAATCAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 3 0.12
29 18 0.69
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:95831261 original size:144 final size:145
Alignment explanation
Indices: 95831000--95831293 Score: 581
Period size: 144 Copynumber: 2.0 Consensus size: 145
95830990 AGCTCGAGGT
95831000 ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
1 ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
95831065 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
66 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
95831130 GAATCAAACTCGCAC
131 GAATCAAACTCGCAC
95831145 ACTTACCCGATTCGCTGTCC-GGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
1 ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
95831209 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
66 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
95831274 GAATCAAACTCGCAC
131 GAATCAAACTCGCAC
95831289 ACTTA
1 ACTTA
95831294 GTGCTGTACA
Statistics
Matches: 149, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
144 129 0.87
145 20 0.13
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (145 bp):
ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
GAATCAAACTCGCAC
Found at i:95831320 original size:30 final size:29
Alignment explanation
Indices: 95831226--95831327 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
95831216 TATAGTGAAT
* * *
95831226 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
95831255 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
95831283 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
95831313 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
95831328 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:95839095 original size:27 final size:29
Alignment explanation
Indices: 95839065--95839123 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
95839055 ATACAAGAGC
*
95839065 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
95839092 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
95839121 ATA
1 ATA
95839124 GAATCAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 3 0.12
29 18 0.69
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:95839257 original size:145 final size:145
Alignment explanation
Indices: 95838994--95839288 Score: 590
Period size: 145 Copynumber: 2.0 Consensus size: 145
95838984 AGCTCGAGGT
95838994 ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
1 ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
95839059 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
66 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
95839124 GAATCAAACTCGCAC
131 GAATCAAACTCGCAC
95839139 ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
1 ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
95839204 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
66 AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
95839269 GAATCAAACTCGCAC
131 GAATCAAACTCGCAC
95839284 ACTTA
1 ACTTA
95839289 GTGCTGTACA
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 150 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (145 bp):
ACTTACCCGATTCGCTGTCCGGGATTAACTCGATAATGTCGCACACTCAGTGCCAATTGTAATAC
AAGAGCATATAGTGAATCCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA
GAATCAAACTCGCAC
Found at i:95839315 original size:30 final size:29
Alignment explanation
Indices: 95839221--95839322 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
95839211 TATAGTGAAT
* * *
95839221 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
95839250 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
95839278 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
95839308 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
95839323 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:95844895 original size:19 final size:19
Alignment explanation
Indices: 95844861--95844911 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
95844851 GCAACCCAAT
95844861 TTTTATT-TTT-TTTATTA
1 TTTTATTATTTATTTATTA
95844878 TTTTATTATTTATTTATTA
1 TTTTATTATTTATTTATTA
*
95844897 CTTT-TTACTTTATTT
1 TTTTATTA-TTTATTT
95844912 GGATATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 7 0.23
18 6 0.20
19 17 0.57
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTATTATTTATTTATTA
Found at i:95847382 original size:47 final size:46
Alignment explanation
Indices: 95847329--95847544 Score: 279
Period size: 47 Copynumber: 4.6 Consensus size: 46
95847319 TCGGCTTCGC
* * *
95847329 CACATATATACACTTTCACGTTCATCACATTGGCCATTCTGCCTTAT
1 CACATATATGCA-TTTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
95847376 CTCATATATGCACATTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATGCA-TTTCACATTCATCACATTGGCCATTCGGCCTTAT
** * *
95847423 CACACGTATGCATGCTCACATTCATCACATTGGACATTCGGCCTTAT
1 CACATATATGCAT-TTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
95847470 CTCATATATGCATGTTCATATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATGCAT-TTCACATTCATCACATTGGCCATTCGGCCTTAT
*
95847517 CACATATATGCAGGTTCACATTCATCAC
1 CACATATATGCA-TTTCACATTCATCAC
95847545 CTTAAATCCT
Statistics
Matches: 147, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
47 147 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.34
Consensus pattern (46 bp):
CACATATATGCATTTCACATTCATCACATTGGCCATTCGGCCTTAT
Found at i:95847414 original size:22 final size:22
Alignment explanation
Indices: 95847343--95847414 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 22
95847333 TATATACACT
*
95847343 TTCACGTTCATCACATTGGCCA
1 TTCACATTCATCACATTGGCCA
* * * *
95847365 TTCTGCCTT-ATCTCATATATGCACA
1 TTC-ACATTCATCACAT-T-GGC-CA
95847390 TTCACATTCATCACATTGGCCA
1 TTCACATTCATCACATTGGCCA
95847412 TTC
1 TTC
95847415 GGCCTTATCA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
22 14 0.38
23 6 0.16
24 6 0.16
25 11 0.30
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.36
Consensus pattern (22 bp):
TTCACATTCATCACATTGGCCA
Found at i:95847424 original size:22 final size:21
Alignment explanation
Indices: 95847352--95847426 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 21
95847342 TTTCACGTTC
95847352 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTC-GCCTT
* * * *
95847374 ATCTCATATATGCACATTCACATT
1 ATCACAT-T-GGC-CATTCGCCTT
95847398 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTC-GCCTT
95847421 ATCACA
1 ATCACA
95847427 CGTATGCATG
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (21 bp):
ATCACATTGGCCATTCGCCTT
Found at i:95847450 original size:94 final size:94
Alignment explanation
Indices: 95847344--95847544 Score: 312
Period size: 94 Copynumber: 2.1 Consensus size: 94
95847334 ATATACACTT
* * *
95847344 TCACGTTCATCACATTGGCCATTCTGCCTTATCTCATATATGCACATTCACATTCATCACATTGG
1 TCACATTCATCACATTGGACATTCGGCCTTATCTCATATATGCACATTCACATTCATCACATTGG
* *
95847409 CCATTCGGCCTTATCACACGTATGCATGC
66 CCATTCGGCCTTATCACACATATGCAGGC
** *
95847438 TCACATTCATCACATTGGACATTCGGCCTTATCTCATATATGCATGTTCATATTCATCACATTGG
1 TCACATTCATCACATTGGACATTCGGCCTTATCTCATATATGCACATTCACATTCATCACATTGG
* *
95847503 CCATTCGGCCTTATCACATATATGCAGGT
66 CCATTCGGCCTTATCACACATATGCAGGC
95847532 TCACATTCATCAC
1 TCACATTCATCAC
95847545 CTTAAATCCT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 97 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (94 bp):
TCACATTCATCACATTGGACATTCGGCCTTATCTCATATATGCACATTCACATTCATCACATTGG
CCATTCGGCCTTATCACACATATGCAGGC
Found at i:95851328 original size:79 final size:78
Alignment explanation
Indices: 95851228--95851569 Score: 288
Period size: 79 Copynumber: 4.3 Consensus size: 78
95851218 CACCGGCACG
*
95851228 AATGCCCTTCGGGACTTAGCCCGGAT-ATAACATCGGCACAAATACCCTTCGGGATTTAG-CCGG
1 AATG-CCTTCGGGACTTAGCCCGGATAATAAC-TC-GCACAAAT-CCCTTCGGGACTTAGCCCGG
*
95851291 ATATAGCT-ACTCACTCA
62 ATATAG-TAACTCACACA
*
95851308 AATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGG--ATAATAACTCGCACAAATCCCTTCGGGACTTAGCCCGGAT
*
95851373 ATAGTAACTCGCACA
64 ATAGTAACTCACACA
* * * * * *
95851388 ATTGCCTTCGGG-CTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACTTAGCCCGG-A-TAATAACTCGCACAAATCCCTTCGGGACTTAGCCCGGAT
* *
95851452 ATA-TCACT-AGCACG
64 ATAGTAACTCA-CACA
* * * * * *
95851466 AATGCTCTTCAGGACATAGCCCTGG-TATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 AATGC-CTTCGGGACTTAGCCC-GGATA-ATAACTCGCACAAAT-CCCTTCGGGACTTAGCCCGG
* * *
95851530 GTATA-TCACT-AGCACG
62 ATATAGTAACTCA-CACA
95851546 AATGCTCTTCGGGACTTAGCCCGG
1 AATGC-CTTCGGGACTTAGCCCGG
95851570 GTATATCACT
Statistics
Matches: 227, Mismatches: 23, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
78 14 0.06
79 102 0.45
80 100 0.44
81 6 0.03
82 5 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
AATGCCTTCGGGACTTAGCCCGGATAATAACTCGCACAAATCCCTTCGGGACTTAGCCCGGATAT
AGTAACTCACACA
Found at i:95851444 original size:119 final size:119
Alignment explanation
Indices: 95851223--95851574 Score: 391
Period size: 119 Copynumber: 2.9 Consensus size: 119
95851213 CACATCACCG
** *
95851223 GCACGAATGCCCTTCGGGACTTAGCCCGG-ATATAACATCGGCACAAATACCCTTCGGGATTTAG
1 GCACGAATG-CCTTCGGGACTTAGCCCGGTATATAAC-TC-GCACAAATTGCCTTCGGGACTTAG
* *
95851287 -CCGGATATAG-CTACTCA-CTCAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTC
63 CCCGGATATAGTC-ACT-AGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTA
*
95851343 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATTGCCTTCGGG-CTTAGC
1 GCACGAATGCCTTCGGGACTTAGCCCGG-TATA-TAACTCGCACAAATTGCCTTCGGGACTTAGC
*
95851406 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT-ATCACTA
64 CCGGATA-TAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTA
* * * * *
95851461 GCACGAATGCTCTTCAGGACATAGCCCTGGTATATCACTAGCACGAA-TGCTCTTCGGGACTTAG
1 GCACGAATGC-CTTCGGGACTTAGCCC-GGTATATAACTCGCACAAATTGC-CTTCGGGACTTAG
* * *
95851525 CCCGGGTATA-TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGGTATA
63 CCCGGATATAGTCACTAGCACAAATGC-CTTCGGGACTTAGCCCGGTTATA
95851575 TCACTCTCAA
Statistics
Matches: 202, Mismatches: 15, Indels: 29
0.82 0.06 0.12
Matches are distributed among these distances:
118 31 0.15
119 113 0.56
120 48 0.24
121 6 0.03
122 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
GCACGAATGCCTTCGGGACTTAGCCCGGTATATAACTCGCACAAATTGCCTTCGGGACTTAGCCC
GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTA
Done.