Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 148 of 343
Found at i:49224830 original size:20 final size:20
Alignment explanation
Indices: 49224807--49224846 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
49224797 GGCATTCATT
49224807 CAAATTTGACTTGTTTAATA
1 CAAATTTGACTTGTTTAATA
49224827 CAAATTTGACTTGTTTAATA
1 CAAATTTGACTTGTTTAATA
49224847 ATATATTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (20 bp):
CAAATTTGACTTGTTTAATA
Found at i:49228436 original size:43 final size:43
Alignment explanation
Indices: 49228343--49228501 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
49228333 GGTTATCGAG
* *
49228343 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCTTTGCA
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGCA
* * *
49228386 TTGTGATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTA
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-CA
*** * * * * * *
49228430 AT-TGATTTTGTGCAAGACCCTATCTAGGACAGTGGCATTG-A
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGCA
*
49228471 TATGTG-TTAACATGTAAGACCATATCTGGGA
1 -ATGTGATT-ACATGTAAGACCATGTCTGGGA
49228502 TATGACATTG
Statistics
Matches: 90, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
41 1 0.01
42 4 0.04
43 83 0.92
44 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGCA
Found at i:49238234 original size:25 final size:25
Alignment explanation
Indices: 49238205--49238256 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
49238195 AAACAACTAA
*
49238205 ATCAAGCCTAATTCATGTTAGTTCT
1 ATCAAGCCTAATTCATGCTAGTTCT
49238230 ATCAAGCCTAATTCATGCTAGTTCT
1 ATCAAGCCTAATTCATGCTAGTTCT
49238255 AT
1 AT
49238257 ACCATCGTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (25 bp):
ATCAAGCCTAATTCATGCTAGTTCT
Found at i:49245533 original size:93 final size:93
Alignment explanation
Indices: 49245374--49245545 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
49245364 CGCCCATAAG
* * * *
49245374 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAGGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
49245439 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
49245467 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
49245532 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
49245546 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:49245535 original size:46 final size:46
Alignment explanation
Indices: 49245367--49245542 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
49245357 TGTAACCCGC
* * * *
49245367 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
49245413 CCATAGGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
49245463 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
49245506 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
49245543 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.58
47 28 0.27
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:49245561 original size:46 final size:45
Alignment explanation
Indices: 49245419--49245561 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
49245409 GCATCCATAG
* *
49245419 GTGAACTCAGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTTCA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-A
* * * * *
49245467 -CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AA
1 GTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCTA
49245512 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTA
49245558 GTGA
1 GTGA
49245562 CATGTCACTT
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 33 0.42
47 30 0.38
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTA
Found at i:49247968 original size:30 final size:30
Alignment explanation
Indices: 49247924--49248012 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
49247914 CAAAGATAAC
*
49247924 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
49247953 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
49247983 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
49248013 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:49247972 original size:15 final size:14
Alignment explanation
Indices: 49247924--49248006 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
49247914 CAAAGATAAC
*
49247924 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
49247938 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
49247953 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
49247968 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
49247983 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
49247998 AAGAAACCC
1 AAGAAACCC
49248007 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:49248012 original size:15 final size:15
Alignment explanation
Indices: 49247935--49248012 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
49247925 AGAAAACCGA
49247935 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
49247950 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
49247964 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
49247979 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
49247995 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
49248010 ATA
1 ATA
49248013 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:49250994 original size:46 final size:46
Alignment explanation
Indices: 49250927--49251104 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
49250917 TGTAACCCGC
* * *
49250927 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* **
49250973 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCAT
* * **
49251023 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
49251066 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
49251105 CTCAACCATC
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 3 0.03
46 64 0.59
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:49251093 original size:93 final size:93
Alignment explanation
Indices: 49250934--49251105 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
49250924 CGCCCATAAG
*** *
49250934 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49250999 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
49251027 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49251092 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
49251106 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:49260229 original size:42 final size:42
Alignment explanation
Indices: 49260170--49260254 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
49260160 TACTAATTTG
*
49260170 TACATAAATAGAAAATTTTGAAAATTAATCAAAATAAAAAGT
1 TACATAAATAGAAAATTTTGAAAATTAATCAAAAGAAAAAGT
*
49260212 TACATAAATAGAAAATTTTGAAAGTTAATCAAAAGAAAAAGT
1 TACATAAATAGAAAATTTTGAAAATTAATCAAAAGAAAAAGT
49260254 T
1 T
49260255 TAAAAAGACT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (42 bp):
TACATAAATAGAAAATTTTGAAAATTAATCAAAAGAAAAAGT
Found at i:49260335 original size:17 final size:18
Alignment explanation
Indices: 49260300--49260338 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49260290 GCAAAAATTG
* *
49260300 AAAAGCAAAGTGAATGAA
1 AAAAGCAAAGTCAAAGAA
49260318 AAAAGCAAAG-CAAAGAA
1 AAAAGCAAAGTCAAAGAA
49260335 AAAA
1 AAAA
49260339 TCCTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.69, C:0.08, G:0.18, T:0.05
Consensus pattern (18 bp):
AAAAGCAAAGTCAAAGAA
Found at i:49267722 original size:15 final size:15
Alignment explanation
Indices: 49267702--49267757 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
49267692 GTATCTTGGG
49267702 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
49267717 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
49267732 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
49267747 TTTCTTTATTC
1 TTTCTTTATTC
49267758 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:49272998 original size:27 final size:26
Alignment explanation
Indices: 49272950--49273009 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
49272940 GTGAGGCTGC
*
49272950 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
49272977 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
*
49273003 CATATAT
1 CAGATAT
49273010 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:49276482 original size:17 final size:18
Alignment explanation
Indices: 49276460--49276494 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
49276450 ATTAAATTAA
49276460 TTTTAATTAATT-ATTTT
1 TTTTAATTAATTAATTTT
49276477 TTTTAATTAATTAATTTT
1 TTTTAATTAATTAATTTT
49276495 CTCAATCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTAATTAATTAATTTT
Found at i:49282233 original size:40 final size:39
Alignment explanation
Indices: 49282168--49282253 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
49282158 TATATAAATA
**
49282168 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* * * *
49282208 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGTCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
49282247 TAGCCGA
1 TAGCCGA
49282254 TAAGTCGTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 10 0.25
40 30 0.75
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:49286868 original size:20 final size:20
Alignment explanation
Indices: 49286832--49286872 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
49286822 AAATATTTTA
*
49286832 TTTATTTAATTGTTCTATTT
1 TTTATTTAATTGATCTATTT
49286852 TTTATCTTAATT-ATCTATTT
1 TTTAT-TTAATTGATCTATTT
49286872 T
1 T
49286873 AATTGTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTATTTAATTGATCTATTT
Found at i:49308145 original size:24 final size:24
Alignment explanation
Indices: 49308077--49308146 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
49308067 GCATATATGA
49308077 GATAAGGCCGAATGGCCAA--TGT
1 GATAAGGCCGAATGGCCAATGTGT
*
49308099 GATGAAGG-TGAACAT-G-CATATGTGT
1 GAT-AAGGCCG-A-ATGGCCA-ATGTGT
49308124 GATAAGGCCGAATGGCCAATGTG
1 GATAAGGCCGAATGGCCAATGTG
49308147 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
22 6 0.16
23 9 0.24
24 13 0.35
25 9 0.24
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.21
Consensus pattern (24 bp):
GATAAGGCCGAATGGCCAATGTGT
Found at i:49308327 original size:47 final size:47
Alignment explanation
Indices: 49307907--49308292 Score: 583
Period size: 47 Copynumber: 8.2 Consensus size: 47
49307897 TTAGGATTTT
** * * *
49307907 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
49307954 ATGTGATGAATGTGAACATTCATATGTGTGACAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49308001 ATGTCATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49308048 ATGTGGTGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49308095 ATGTGATGAAGGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49308142 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49308189 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49308236 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
49308283 ATGTGATGAA
1 ATGTGATGAA
49308293 CGTGGAAGTG
Statistics
Matches: 306, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 306 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49308370 original size:46 final size:46
Alignment explanation
Indices: 49308306--49308488 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
49308296 GGAAGTGTAT
* * *
49308306 ATATGTGGAAAAGTCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
49308352 ATATGAGGTAAAGCCGAATGGCTAATACGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
49308398 ATATGAGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
49308444 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
49308489 TGTATATATA
Statistics
Matches: 123, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 123 1.00
ACGTcount: A:0.36, C:0.08, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:49310031 original size:39 final size:40
Alignment explanation
Indices: 49309977--49310368 Score: 497
Period size: 39 Copynumber: 9.9 Consensus size: 40
49309967 GTTATATATG
* *
49309977 ATCCGGGCTAAGTCCCAAAGAGCATACGTGCTGGTGTT-T
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
49310016 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
49310056 ATCCGGGCTAAGT-CCGAAGAGCATACGTGCTGGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
49310095 ATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * * * *
49310135 AATCAGGGCTAAGTCCTGAAGAGCATACGTGTTGGTGATAT
1 -ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
49310176 ATCCGGGCTAAGTCTCGAAGAGTATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
49310216 AT-CGGGCTAAGTCTCGAAGAGTATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
49310255 ATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * * * **
49310295 ATCAGGG-TTAGTCCCAAAGAGCATTTGCACTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
49310334 ATCCGGGCT-AGTCCCGAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
49310369 ATGTGTATTC
Statistics
Matches: 312, Mismatches: 36, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
39 166 0.53
40 113 0.36
41 33 0.11
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:49310108 original size:79 final size:79
Alignment explanation
Indices: 49309977--49310366 Score: 509
Period size: 79 Copynumber: 4.9 Consensus size: 79
49309967 GTTATATATG
* * *
49309977 ATCCGGGCTAAGTCCCAAAGAGCATACGTGCTGGTG-TTTATCCGGGCTAAGTCCCGAAGAGCAT
1 ATCCGGGCTAAGT-CCGAAGAGCATACGTGCTGGTGATATATCCGGGCTAAGTCTCGAAGAGCAT
* *
49310041 ACGTGCTGGTGTTAT
65 TCGTGCTGGAGTTAT
49310056 ATCCGGGCTAAGTCCGAAGAGCATACGTGCTGGTGATATATCCGGGCTAAGTCTCGAAGAGCATT
1 ATCCGGGCTAAGTCCGAAGAGCATACGTGCTGGTGATATATCCGGGCTAAGTCTCGAAGAGCATT
49310121 CGTGCTGGAGTTAT
66 CGTGCTGGAGTTAT
* * *
49310135 AATCAGGGCTAAGTCCTGAAGAGCATACGTGTTGGTGATATATCCGGGCTAAGTCTCGAAGAGTA
1 -ATCCGGGCTAAGTCC-GAAGAGCATACGTGCTGGTGATATATCCGGGCTAAGTCTCGAAGAGCA
49310200 TTCGTGCTGGAGTTAT
64 TTCGTGCTGGAGTTAT
* * * *
49310216 AT-CGGGCTAAGTCTCGAAGAGTATTCGTGCTGGAGTTATATCCGGGCTAAGTCTCGAAGAGCAT
1 ATCCGGGCTAAGTC-CGAAGAGCATACGTGCTGGTGATATATCCGGGCTAAGTCTCGAAGAGCAT
49310280 TCGTGCTGGAGTTAT
65 TCGTGCTGGAGTTAT
* * * ** ** * *
49310295 ATCAGGG-TTAGTCCCAAAGAGCATTTGCACTGGTGTTATATCCGGGCT-AGTCCCGAAGAGCAT
1 ATCCGGGCTAAGT-CCGAAGAGCATACGTGCTGGTGATATATCCGGGCTAAGTCTCGAAGAGCAT
*
49310358 TCATGCTGG
65 TCGTGCTGG
49310367 TGATGTGTAT
Statistics
Matches: 280, Mismatches: 25, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
78 43 0.15
79 154 0.55
80 21 0.08
81 62 0.22
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCGAAGAGCATACGTGCTGGTGATATATCCGGGCTAAGTCTCGAAGAGCATT
CGTGCTGGAGTTAT
Found at i:49310208 original size:160 final size:158
Alignment explanation
Indices: 49309981--49310368 Score: 557
Period size: 160 Copynumber: 2.4 Consensus size: 158
49309971 TATATGATCC
* *
49309981 GGGCTAAGTCCCAAAGAGCATACGTGCTGGTGTTTATCCGGGCTAAGTCCCGAAGAGCATACGTG
1 GGGCTAAGTCCCAAAGAGCATACGTGCTGGTGTATATCCGGGCTAAGTCCCGAAGAGCATTCGTG
*
49310046 CTGGTGTTATATCCGGGCTAAGTC-CGAAGAGCATACGTGCTGGTGATATATCCGGGCTAAGTCT
66 CTGGTGTTATAT-CGGGCTAAGTCTCGAAGAGCATACGTGCTGGAGATATATCCGGGCTAAGTCT
49310110 CGAAGAGCATTCGTGCTGGAGTTATAATCA
130 CGAAGAGCATTCGTGCTGGAGTTAT-ATCA
** * * *
49310140 GGGCTAAGTCCTGAAGAGCATACGTGTTGGTGATATATCCGGGCTAAGTCTCGAAGAGTATTCGT
1 GGGCTAAGTCCCAAAGAGCATACGTGCTGGTG-TATATCCGGGCTAAGTCCCGAAGAGCATTCGT
* * * *
49310205 GCTGGAGTTATATCGGGCTAAGTCTCGAAGAGTATTCGTGCTGGAGTTATATCCGGGCTAAGTCT
65 GCTGGTGTTATATCGGGCTAAGTCTCGAAGAGCATACGTGCTGGAGATATATCCGGGCTAAGTCT
49310270 CGAAGAGCATTCGTGCTGGAGTTATATCA
130 CGAAGAGCATTCGTGCTGGAGTTATATCA
* ** ** *
49310299 GGG-TTAGTCCCAAAGAGCATTTGCACTGGTGTTATATCCGGGCT-AGTCCCGAAGAGCATTCAT
1 GGGCTAAGTCCCAAAGAGCATACGTGCTGGTG-TATATCCGGGCTAAGTCCCGAAGAGCATTCGT
49310362 GCTGGTG
65 GCTGGTG
49310369 ATGTGTATTC
Statistics
Matches: 202, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
157 22 0.11
158 32 0.16
159 47 0.23
160 101 0.50
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (158 bp):
GGGCTAAGTCCCAAAGAGCATACGTGCTGGTGTATATCCGGGCTAAGTCCCGAAGAGCATTCGTG
CTGGTGTTATATCGGGCTAAGTCTCGAAGAGCATACGTGCTGGAGATATATCCGGGCTAAGTCTC
GAAGAGCATTCGTGCTGGAGTTATATCA
Found at i:49314199 original size:39 final size:40
Alignment explanation
Indices: 49314145--49314281 Score: 201
Period size: 39 Copynumber: 3.5 Consensus size: 40
49314135 AAACCAAGTA
*
49314145 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
49314184 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
49314224 CCTTC-GGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
49314263 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49314282 TTATCATCCG
Statistics
Matches: 91, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
38 1 0.01
39 49 0.54
40 41 0.45
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49322361 original size:40 final size:40
Alignment explanation
Indices: 49322284--49322500 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
49322274 AAACCAAGTA
* *
49322284 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
49322323 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
49322363 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
49322403 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
49322443 CCTTC-GGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
49322482 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49322501 TTATCATCCG
Statistics
Matches: 166, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.01
39 49 0.30
40 116 0.70
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49334933 original size:40 final size:40
Alignment explanation
Indices: 49334866--49335068 Score: 261
Period size: 40 Copynumber: 5.1 Consensus size: 40
49334856 ACCCAAGTAT
*
49334866 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
49334905 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
49334945 CTTCGGGTCTTAGCTCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
49334985 CTTCGGGACATAGCCCGGATATAGCAACTCGCA-GAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
49335024 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
49335064 CTTCG
1 CTTCG
49335069 ATCTTAGTCC
Statistics
Matches: 148, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 51 0.34
40 94 0.64
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:49342980 original size:40 final size:40
Alignment explanation
Indices: 49342922--49343089 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
49342912 TCTTCAGGAT
* *
49342922 TTAG-CCGGATATAACAACTCGCACAAATGCCTTTGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* *
49342961 TTAGCCCAGATATAGCAACTCGCACAAATGCCTTCGAGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * * *
49343001 TTAGCCCGGATATAATC-ACTAGTATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* * * *
49343041 ATAGCCCGGATATAGCAACTCGCACGAATGCCTTCAGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
49343081 TTAGTCCGG
1 TTAGCCCGG
49343090 TTATCATCCG
Statistics
Matches: 104, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 6 0.06
40 96 0.92
41 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:49346822 original size:45 final size:46
Alignment explanation
Indices: 49346722--49346844 Score: 135
Period size: 47 Copynumber: 2.7 Consensus size: 46
49346712 TGTGGCCATG
49346722 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGGAAGTGCAT
1 ATATGTGATAAGGCCGAATGGCCAATGTGAT-AATATGGAAGTGCAT
* * ** *
49346769 ACATGTGATAAGGCCGGATGGTTAATGTGAT-ATATGTGTACGTG-A-
1 ATATGTGATAAGGCCGAATGGCCAATGTGATAATATG-G-AAGTGCAT
*
49346814 ATATGTGATAAGGCCGAATGACCAATTGTGA
1 ATATGTGATAAGGCCGAATGGCCAA-TGTGA
49346845 AAAGTGTGCA
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
45 25 0.40
46 7 0.11
47 31 0.49
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.28
Consensus pattern (46 bp):
ATATGTGATAAGGCCGAATGGCCAATGTGATAATATGGAAGTGCAT
Found at i:49349589 original size:22 final size:22
Alignment explanation
Indices: 49349564--49349613 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
49349554 AGAAACAATT
*
49349564 AAAATAG-ATAATTAAGATAAAA
1 AAAATAGAACAATTAA-ATAAAA
*
49349586 AAAATAGAACAATTAAATAAAT
1 AAAATAGAACAATTAAATAAAA
49349608 AAAATA
1 AAAATA
49349614 TTTAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (22 bp):
AAAATAGAACAATTAAATAAAA
Found at i:49355356 original size:25 final size:24
Alignment explanation
Indices: 49355322--49355368 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
49355312 GAAATGGGAA
*
49355322 GAAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAAGA-AAAAAAAATGAT
*
49355347 GAAAACAAAAGAAAAAAAAATG
1 GAAAAAAAAAGAAAAAAAAATG
49355369 TGTCCATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
GAAAAAAAAAGAAAAAAAAATGAT
Found at i:49356708 original size:79 final size:80
Alignment explanation
Indices: 49356604--49356791 Score: 272
Period size: 79 Copynumber: 2.4 Consensus size: 80
49356594 TATTCGATAG
* * * *
49356604 ATAACCGGGCTAAGTCCCGAAGGCATATTGTGCGAGTTATTAT-ACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCAT-TTGTGCGAATCACTATAACCGGGCTAAGTCCCGAAGAC
* *
49356668 ATTTATGCGAGTTATT
65 ATTTATGCGAGTCACT
* *
49356684 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACTATAATCGGGCTAAGTCCCGAAGATA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACTATAACCGGGCTAAGTCCCGAAGACA
*
49356748 TTTGTGCGAGTCACT
66 TTTATGCGAGTCACT
49356763 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
49356792 AGCTAGTGGC
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 13 0.13
79 56 0.58
80 28 0.29
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACTATAACCGGGCTAAGTCCCGAAGACA
TTTATGCGAGTCACT
Found at i:49356805 original size:40 final size:40
Alignment explanation
Indices: 49356604--49356791 Score: 272
Period size: 40 Copynumber: 4.7 Consensus size: 40
49356594 TATTCGATAG
* *
49356604 ATAACCGGGCTAAGTCCCGAAGGCATATTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCAT-TTGTGCGAGTCACT
* * *
49356645 AT-ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
*
49356684 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
* **
49356723 ATAATCGGGCTAAGTCCCGAAGATATTTGTGCGAGTCACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
49356763 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
49356792 AGCTAGTGGC
Statistics
Matches: 134, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 50 0.37
40 82 0.61
41 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
Found at i:49356822 original size:79 final size:79
Alignment explanation
Indices: 49356604--49356814 Score: 255
Period size: 79 Copynumber: 2.7 Consensus size: 79
49356594 TATTCGATAG
* * *
49356604 ATAACCGGGCTAAGTCCCGAAGGCATATTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCAT-TTGTGCGAGTCACTATATCC-GGCTAAGTCCCGAAGAC
* *
49356668 ATTTATGCGAGTTATT
64 ATTTATGCGAGTCACT
* * *
49356684 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACTATAATCGGGCTAAGTCCCGAAGATA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT-ATCCGGCTAAGTCCCGAAGACA
*
49356748 TTTGTGCGAGTCACT
65 TTTATGCGAGTCACT
* * ** *
49356763 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCAGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATATCCGGCTAA
49356815 ACTCCGAAGG
Statistics
Matches: 112, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 13 0.12
79 62 0.55
80 37 0.33
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATATCCGGCTAAGTCCCGAAGACAT
TTATGCGAGTCACT
Found at i:49356822 original size:119 final size:119
Alignment explanation
Indices: 49356604--49356824 Score: 281
Period size: 119 Copynumber: 1.9 Consensus size: 119
49356594 TATTCGATAG
* *
49356604 ATAACCGGGCTAAGTCCCGAAGGCATATTGTGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATATTGTGCGAGTCACTATACCGGGCTAAGTCCCGAAGGCA
* * * *
49356669 TTTATGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACT
66 TTTATGCGAGTGACTATACCGAGCTAACTCCCGAAGGCATTTGTGCGAATCACT
*
49356723 ATAATCGGGCTAAGTCCCGAA-G-ATATTTGTGCGAGTCACTATAACCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATA-TTGTGCGAGTCACTAT-ACCGGGCTAAGTCCCGAAGG
* *
49356786 CATTTGA-GCTAGTGGCTATATCC-AGCTAAACT-CCGAAGG
64 CATTT-ATGCGAGTGACTATA-CCGAGCT-AACTCCCGAAGG
49356825 TACTCGTTTG
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
117 3 0.03
118 15 0.17
119 64 0.73
120 6 0.07
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATATTGTGCGAGTCACTATACCGGGCTAAGTCCCGAAGGCA
TTTATGCGAGTGACTATACCGAGCTAACTCCCGAAGGCATTTGTGCGAATCACT
Found at i:49371752 original size:25 final size:24
Alignment explanation
Indices: 49371724--49371770 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
49371714 AAGAAATGGG
*
49371724 GAAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAAGA-AAAAAAAATGAT
*
49371749 GAAAACAAAAGAAAAAAAAATG
1 GAAAAAAAAAGAAAAAAAAATG
49371771 CGTCCATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
GAAAAAAAAAGAAAAAAAAATGAT
Found at i:49373142 original size:40 final size:39
Alignment explanation
Indices: 49373011--49373154 Score: 207
Period size: 39 Copynumber: 3.7 Consensus size: 39
49373001 TCAGTTGATA
*
49373011 ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
* * * *
49373050 ACCGGGCTAAGTCCCAAAGTCATTTATGTGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
* *
49373089 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
*
49373128 AACCGGGCTAAGTCCCGAAGGCTTTTG
1 -ACCGGGCTAAGTCCCGAAGGCATTTG
49373155 AGCTAGTGGC
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 67 0.73
40 25 0.27
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
Found at i:49373168 original size:40 final size:40
Alignment explanation
Indices: 49373008--49373168 Score: 166
Period size: 39 Copynumber: 4.1 Consensus size: 40
49372998 TATTCAGTTG
* * * *
49373008 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACT
* * * * *
49373048 AT-ACCGGGCTAAGTCCCAAAGTCATTT-ATGTGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGA-GCGAGTGACT
* *
49373087 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACT
* * *
49373126 ATAACCGGGCTAAGTCCCGAAGGCTTTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACT
49373166 ATA
1 ATA
49373169 TCCAACTAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 65 0.64
40 37 0.36
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACT
Found at i:49379837 original size:16 final size:16
Alignment explanation
Indices: 49379813--49379846 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
49379803 TTGGATTGAG
*
49379813 AAAATTAATTAATTAA
1 AAAAATAATTAATTAA
49379829 AAAAATAATTAATTAA
1 AAAAATAATTAATTAA
49379845 AA
1 AA
49379847 TTAATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAAATAATTAATTAA
Found at i:49382850 original size:20 final size:20
Alignment explanation
Indices: 49382820--49382864 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
49382810 CTGTTTTATT
49382820 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
49382839 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
49382859 ATGGGC
1 ATGGGC
49382865 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:49386504 original size:27 final size:26
Alignment explanation
Indices: 49386466--49386525 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
49386456 CCACATATAT
* *
49386466 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
49386492 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
49386519 ATATCTG
1 ATATCTG
49386526 GCAGCCTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:49387305 original size:27 final size:26
Alignment explanation
Indices: 49387267--49387326 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
49387257 CCACATATAT
* *
49387267 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
49387293 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
49387320 ATATCTG
1 ATATCTG
49387327 GCAGCCTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:49387398 original size:801 final size:801
Alignment explanation
Indices: 49385857--49387459 Score: 3172
Period size: 801 Copynumber: 2.0 Consensus size: 801
49385847 ACTTGTGTGA
49385857 TGGTTGGATTAGTTGACGTGGATTTATGTTAGTTATCGTTAATTCGTAAGTCTAATGTGTTAGTG
1 TGGTTGGATTAGTTGACGTGGATTTATGTTAGTTATCGTTAATTCGTAAGTCTAATGTGTTAGTG
49385922 ATTGATTGTAGGATTATCGCGTGGGAGATATCGTCATTAATCGTCATCAACCAGGTGTGTAAACG
66 ATTGATTGTAGGATTATCGCGTGGGAGATATCGTCATTAATCGTCATCAACCAGGTGTGTAAACG
49385987 ATACCCTCCCTTAGACTGAATCAGTAAAAGCCGAAATACCGAAAAGTTGTTATTTTGTGAACTCG
131 ATACCCTCCCTTAGACTGAATCAGTAAAAGCCGAAATACCGAAAAGTTGTTATTTTGTGAACTCG
*
49386052 CGAGCGTGCGAGCACTCGTGAGACAGTTGTTAATGAATATAGTGCATTTGGATGATTAGAGTGCA
196 CGAGCGTGCAAGCACTCGTGAGACAGTTGTTAATGAATATAGTGCATTTGGATGATTAGAGTGCA
49386117 AAGTGTGCATTTTCGTGTACAACGGTATTTTTGGCTTAATAGGCCGAAAGCGGGCCAATGGGCCA
261 AAGTGTGCATTTTCGTGTACAACGGTATTTTTGGCTTAATAGGCCGAAAGCGGGCCAATGGGCCA
49386182 ACGGGCCCACTTTGGTAAAAAAACGGGGTAAGTACTTCTGATTACTTGGTAAACGTTAGAATGAA
326 ACGGGCCCACTTTGGTAAAAAAACGGGGTAAGTACTTCTGATTACTTGGTAAACGTTAGAATGAA
49386247 CATGAAACCTTAGAAATAGGTAATAATTATTGAAATACCGTTATGCATGCAAAATTACGATTTTA
391 CATGAAACCTTAGAAATAGGTAATAATTATTGAAATACCGTTATGCATGCAAAATTACGATTTTA
49386312 CCCCTAGGGTTATTTTTTTCTGAAACGCATGATGTTCTGTTTATGTATACGTATGCCATGACATA
456 CCCCTAGGGTTATTTTTTTCTGAAACGCATGATGTTCTGTTTATGTATACGTATGCCATGACATA
49386377 TTATTTCTGTTGCATGGGACGTGGGTTTATATTGATAGAGGAAGCATTTTGGCAGCCTCACTACA
521 TTATTTCTGTTGCATGGGACGTGGGTTTATATTGATAGAGGAAGCATTTTGGCAGCCTCACTACA
49386442 ATTTGGTCGCCTCGCCACATATATATATATGTTCTGGTGGCCTAGCCACAATATCTGTATCTGGT
586 ATTTGGTCGCCTCGCCACATATATATATATGTTCTGGTGGCCTAGCCACAATATCTGTATCTGGT
49386507 GACTTTGTCACAATATCTGGCAGCCTCACTACAATTTTTGTGGTGTGTAGCAGTTGGGTGGGTCG
651 GACTTTGTCACAATATCTGGCAGCCTCACTACAATTTTTGTGGTGTGTAGCAGTTGGGTGGGTCG
49386572 AGTAGTCTCCCCACATGGTGTAAGGCTGGTACGGGGGTGTTATGGATGGCTCTGGGTTGGGATTT
716 AGTAGTCTCCCCACATGGTGTAAGGCTGGTACGGGGGTGTTATGGATGGCTCTGGGTTGGGATTT
49386637 CTGCTTTCATGATATATTTGT
781 CTGCTTTCATGATATATTTGT
49386658 TGGTTGGATTAGTTGACGTGGATTTATGTTAGTTATCGTTAATTCGTAAGTCTAATGTGTTAGTG
1 TGGTTGGATTAGTTGACGTGGATTTATGTTAGTTATCGTTAATTCGTAAGTCTAATGTGTTAGTG
49386723 ATTGATTGTAGGATTATCGCGTGGGAGATATCGTCATTAATCGTCATCAACCAGGTGTGTAAACG
66 ATTGATTGTAGGATTATCGCGTGGGAGATATCGTCATTAATCGTCATCAACCAGGTGTGTAAACG
49386788 ATACCCTCCCTTAGACTGAATCAGTAAAAGCCGAAATACCGAAAAGTTGTTATTTTGTGAACTCG
131 ATACCCTCCCTTAGACTGAATCAGTAAAAGCCGAAATACCGAAAAGTTGTTATTTTGTGAACTCG
49386853 CGAGCGTGCAAGCACTCGTGAGACAGTTGTTAATGAATATAGTGCATTTGGATGATTAGAGTGCA
196 CGAGCGTGCAAGCACTCGTGAGACAGTTGTTAATGAATATAGTGCATTTGGATGATTAGAGTGCA
49386918 AAGTGTGCATTTTCGTGTACAACGGTATTTTTGGGCTTAATAGGCCGAAAGCGGGCCAATGGGCC
261 AAGTGTGCATTTTCGTGTACAACGGTATTTTT-GGCTTAATAGGCCGAAAGCGGGCCAATGGGCC
49386983 AACGGGCCCACTTTGGT-AAAAAACGGGGTAAGTACTTCTGATTACTTGGTAAACGTTAGAATGA
325 AACGGGCCCACTTTGGTAAAAAAACGGGGTAAGTACTTCTGATTACTTGGTAAACGTTAGAATGA
*
49387047 GCATGAAACCTTAGAAATAGGTAATAATTATTGAAATACCGTTATGCATGCAAAATTACGATTTT
390 ACATGAAACCTTAGAAATAGGTAATAATTATTGAAATACCGTTATGCATGCAAAATTACGATTTT
49387112 ACCCCTAGGGTTATTTTTTTCTGAAACGCATGATGTTCTGTTTATGTATACGTATGCCATGACAT
455 ACCCCTAGGGTTATTTTTTTCTGAAACGCATGATGTTCTGTTTATGTATACGTATGCCATGACAT
49387177 ATTATTTCTGTTGCATGGGACGTGGGTTTATATTGATAGAGGAAGCATTTTGGCAGCCTCACTAC
520 ATTATTTCTGTTGCATGGGACGTGGGTTTATATTGATAGAGGAAGCATTTTGGCAGCCTCACTAC
49387242 AATTTGGTCGCCTCGCCACATATATATATATGTTCTGGTGGCCTAGCCACAATATCTGTATCTGG
585 AATTTGGTCGCCTCGCCACATATATATATATGTTCTGGTGGCCTAGCCACAATATCTGTATCTGG
49387307 TGACTTTGTCACAATATCTGGCAGCCTCACTACAATTTTTGTGGTGTGTAGCAGTTGGGTGGGTC
650 TGACTTTGTCACAATATCTGGCAGCCTCACTACAATTTTTGTGGTGTGTAGCAGTTGGGTGGGTC
49387372 GAGTAGTCTCCCCACATGGTGTAAGGCTGGTACGGGGGTGTTATGGATGGCTCTGGGTTGGGATT
715 GAGTAGTCTCCCCACATGGTGTAAGGCTGGTACGGGGGTGTTATGGATGGCTCTGGGTTGGGATT
49387437 TCTGCTTTCATGATATATTTGT
780 TCTGCTTTCATGATATATTTGT
49387459 T
1 T
49387460 TTGTATCTGC
Statistics
Matches: 799, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
801 750 0.94
802 49 0.06
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (801 bp):
TGGTTGGATTAGTTGACGTGGATTTATGTTAGTTATCGTTAATTCGTAAGTCTAATGTGTTAGTG
ATTGATTGTAGGATTATCGCGTGGGAGATATCGTCATTAATCGTCATCAACCAGGTGTGTAAACG
ATACCCTCCCTTAGACTGAATCAGTAAAAGCCGAAATACCGAAAAGTTGTTATTTTGTGAACTCG
CGAGCGTGCAAGCACTCGTGAGACAGTTGTTAATGAATATAGTGCATTTGGATGATTAGAGTGCA
AAGTGTGCATTTTCGTGTACAACGGTATTTTTGGCTTAATAGGCCGAAAGCGGGCCAATGGGCCA
ACGGGCCCACTTTGGTAAAAAAACGGGGTAAGTACTTCTGATTACTTGGTAAACGTTAGAATGAA
CATGAAACCTTAGAAATAGGTAATAATTATTGAAATACCGTTATGCATGCAAAATTACGATTTTA
CCCCTAGGGTTATTTTTTTCTGAAACGCATGATGTTCTGTTTATGTATACGTATGCCATGACATA
TTATTTCTGTTGCATGGGACGTGGGTTTATATTGATAGAGGAAGCATTTTGGCAGCCTCACTACA
ATTTGGTCGCCTCGCCACATATATATATATGTTCTGGTGGCCTAGCCACAATATCTGTATCTGGT
GACTTTGTCACAATATCTGGCAGCCTCACTACAATTTTTGTGGTGTGTAGCAGTTGGGTGGGTCG
AGTAGTCTCCCCACATGGTGTAAGGCTGGTACGGGGGTGTTATGGATGGCTCTGGGTTGGGATTT
CTGCTTTCATGATATATTTGT
Found at i:49394820 original size:30 final size:30
Alignment explanation
Indices: 49394784--49394843 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
49394774 ATAGCCTAAA
49394784 GATTGATAAACCGGCTTTTCATTCAACTGC
1 GATTGATAAACCGGCTTTTCATTCAACTGC
49394814 GATTGATAAACCGGCTTTTCATTCAACTGC
1 GATTGATAAACCGGCTTTTCATTCAACTGC
49394844 TGTTTTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (30 bp):
GATTGATAAACCGGCTTTTCATTCAACTGC
Found at i:49402504 original size:9 final size:9
Alignment explanation
Indices: 49402492--49402566 Score: 78
Period size: 9 Copynumber: 7.9 Consensus size: 9
49402482 TTTGATAAAC
49402492 ATGATATGT
1 ATGATATGT
*
49402501 ATGATATGCAC
1 ATGATATG--T
49402512 ATGATATGT
1 ATGATATGT
*
49402521 ATGATATGC
1 ATGATATGT
*
49402530 ATGACATGT
1 ATGATATGT
*
49402539 ATGATATGCAC
1 ATGATATG--T
49402550 ATGATATGT
1 ATGATATGT
49402559 ATGATATG
1 ATGATATG
49402567 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
9 38 0.70
11 16 0.30
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:49402533 original size:38 final size:38
Alignment explanation
Indices: 49402491--49402568 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
49402481 TTTTGATAAA
*
49402491 CATGATATGTATGATATGCACATGATATGTATGATATG
1 CATGACATGTATGATATGCACATGATATGTATGATATG
49402529 CATGACATGTATGATATGCACATGATATGTATGATATG
1 CATGACATGTATGATATGCACATGATATGTATGATATG
49402567 CA
1 CA
49402569 CACGAGATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.35
Consensus pattern (38 bp):
CATGACATGTATGATATGCACATGATATGTATGATATG
Found at i:49402578 original size:20 final size:20
Alignment explanation
Indices: 49402490--49402570 Score: 139
Period size: 20 Copynumber: 4.2 Consensus size: 20
49402480 ATTTTGATAA
49402490 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49402510 ACATGATATGTATGATATG-
1 ACATGATATGTATGATATGC
*
49402529 -CATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
49402548 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49402568 ACA
1 ACA
49402571 CGAGATGTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
18 17 0.30
20 40 0.70
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:49402652 original size:26 final size:25
Alignment explanation
Indices: 49402623--49402675 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
49402613 GAGGAAGTGC
49402623 AAAAGGGCTTATGCCCCAGTTATTAA
1 AAAAGGGCTT-TGCCCCAGTTATTAA
*
49402649 AAAAGGTCTTTGCCCCAGTTATTAA
1 AAAAGGGCTTTGCCCCAGTTATTAA
49402674 AA
1 AA
49402676 GAGGCTAGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTATTAA
Found at i:49402922 original size:31 final size:31
Alignment explanation
Indices: 49402887--49402950 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
49402877 CGTTTACCGT
*
49402887 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
** *
49402918 AAAGGCTTCAGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
49402949 AA
1 AA
49402951 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:49410490 original size:25 final size:25
Alignment explanation
Indices: 49410461--49410508 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
49410451 TTATAATATG
* * *
49410461 AAAATGACCGTTTTTCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
49410486 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
49410509 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:49410559 original size:9 final size:9
Alignment explanation
Indices: 49410547--49410623 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
49410537 TTTGATAAAC
49410547 ATGATATGT
1 ATGATATGT
*
49410556 ATGATATGCAC
1 ATGATATG--T
49410567 ATGATATGT
1 ATGATATGT
*
49410576 ATGATATGCAG
1 ATGATATG--T
*
49410587 ATGACATGT
1 ATGATATGT
*
49410596 ATGATATGCAC
1 ATGATATG--T
49410607 ATGATATGT
1 ATGATATGT
49410616 ATGATATG
1 ATGATATG
49410624 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:49410572 original size:11 final size:11
Alignment explanation
Indices: 49410556--49410627 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
49410546 CATGATATGT
49410556 ATGATATGCAC
1 ATGATATGCAC
*
49410567 ATGATATG--T
1 ATGATATGCAC
*
49410576 ATGATATGCAG
1 ATGATATGCAC
* *
49410587 ATGACATG--T
1 ATGATATGCAC
49410596 ATGATATGCAC
1 ATGATATGCAC
*
49410607 ATGATATG--T
1 ATGATATGCAC
49410616 ATGATATGCAC
1 ATGATATGCAC
49410627 A
1 A
49410628 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:49410635 original size:20 final size:20
Alignment explanation
Indices: 49410545--49410627 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
49410535 ATTTTGATAA
49410545 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49410565 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
49410585 AGATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
49410605 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49410625 ACA
1 ACA
49410628 CGAGATGTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:49410750 original size:47 final size:47
Alignment explanation
Indices: 49410681--49410778 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
49410671 AGGAAGTGCA
49410681 AAAGGGCTTATGCCCCAGTTATT-AAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTATT
49410728 AAAGGGCTTATGCCCCAGTTATTAAAAAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT-AAAAAGGGCTTTGCCCCAGTTATT
49410776 AAA
1 AAA
49410779 AGAGGCTAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
47 23 0.47
48 16 0.33
49 10 0.20
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
Found at i:49410795 original size:25 final size:24
Alignment explanation
Indices: 49410680--49410799 Score: 174
Period size: 24 Copynumber: 5.0 Consensus size: 24
49410670 GAGGAAGTGC
49410680 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49410704 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49410728 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49410751 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
49410776 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
49410800 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
23 29 0.33
24 30 0.34
25 21 0.24
26 9 0.10
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:49411030 original size:31 final size:31
Alignment explanation
Indices: 49410995--49411055 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
49410985 TTACCGTAAA
*
49410995 GGCTTTGGCCCAGTAATATGAAATATGAAAG
1 GGCTTCGGCCCAGTAATATGAAATATGAAAG
** *
49411026 GGCTTCGGCCCAGTGTTATGAATTATGAAA
1 GGCTTCGGCCCAGTAATATGAAATATGAAA
49411056 TATGAAAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (31 bp):
GGCTTCGGCCCAGTAATATGAAATATGAAAG
Found at i:49412620 original size:25 final size:25
Alignment explanation
Indices: 49412582--49412633 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
49412572 GGACGATGGT
*
49412582 ATAGAACTAGCATGAATTAGGCTTG
1 ATAGAACTAACATGAATTAGGCTTG
49412607 ATAGAACTAACATGAATTAGGCTTG
1 ATAGAACTAACATGAATTAGGCTTG
49412632 AT
1 AT
49412634 TTAGTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (25 bp):
ATAGAACTAACATGAATTAGGCTTG
Found at i:49413118 original size:20 final size:19
Alignment explanation
Indices: 49413079--49413118 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
49413069 TCCCCTGTGG
*
49413079 TTTGAAAAATTTTCTAAGT
1 TTTGAAAAATTTCCTAAGT
*
49413098 TTTGTAAAAATTTCCTGAGT
1 TTTG-AAAAATTTCCTAAGT
49413118 T
1 T
49413119 GATGGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (19 bp):
TTTGAAAAATTTCCTAAGT
Found at i:49420530 original size:48 final size:48
Alignment explanation
Indices: 49420410--49420628 Score: 206
Period size: 48 Copynumber: 4.5 Consensus size: 48
49420400 AGGGTAAGAT
** * *
49420410 GCCGATGCCATGTCTTAGACATGGTCTTACACTGGCTCTCATATAT-AGG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAT-TGA-G
* * * * *
49420459 TGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTTGAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATTGAG
* * * ** *
49420508 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTTATAAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATTGAG
* * * * *
49420556 GCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATTGAG
* *
49420604 GCCAATGCCGTGTCCCAGACATGGT
1 GCCGATGCCATGTCCCAGACATGGT
49420629 ATCATGGCAT
Statistics
Matches: 137, Mismatches: 31, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
48 99 0.72
49 2 0.01
50 36 0.26
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATTGAG
Found at i:49420597 original size:96 final size:98
Alignment explanation
Indices: 49420410--49420628 Score: 298
Period size: 96 Copynumber: 2.3 Consensus size: 98
49420400 AGGGTAAGAT
** * ** **
49420410 GCCGATGCCATGTCTTAGACATGGTCTTACACTGGCTCTCATATATAGGTGCTGATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATAAATGCCAATGCCATGTTC
* *
49420475 CAAACATGGTCTTACACTAGCCCACATGTTGAG
66 CAAACATGGTCTTACACTAGCCCACATATCGAG
*
49420508 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-T-TATAAATGCCAATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATAAATGCCAATGCCATGTTC
* *
49420571 CAAACATGGTCTTACACTGGCTCACATATCGAG
66 CAAACATGGTCTTACACTAGCCCACATATCGAG
* *
49420604 GCCAATGCCGTGTCCCAGACATGGT
1 GCCGATGCCATGTCCCAGACATGGT
49420629 ATCATGGCAT
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 69 0.65
97 1 0.01
98 36 0.34
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (98 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATAAATGCCAATGCCATGTTC
CAAACATGGTCTTACACTAGCCCACATATCGAG
Found at i:49425937 original size:42 final size:42
Alignment explanation
Indices: 49425873--49425981 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 42
49425863 TTTTGATTTG
49425873 CATGTAAGACCATGTCTT-GGACATCGACATC-ATATATGAGTT-
1 CATGTAAGACCATGT-TTGGGACAT-GACATCGATATATGA-TTA
* * * *
49425915 CGTGTAAGACCTTGTTTGGGACAGTGGCATCGATATGTGATTA
1 CATGTAAGACCATGTTTGGGACA-TGACATCGATATATGATTA
*
49425958 CATGTAAGACCACGTTTGGGACAT
1 CATGTAAGACCATGTTTGGGACAT
49425982 TGGAACTGTA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.04
42 26 0.46
43 28 0.50
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATGTTTGGGACATGACATCGATATATGATTA
Found at i:49464078 original size:82 final size:80
Alignment explanation
Indices: 49463966--49464120 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 80
49463956 AAATTGTACA
*
49463966 GCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGT
49464030 GCGAATTGACCATGCG
65 GCGAATTGACCATGCG
** *
49464046 GCACTAAGTGT-CGAGTTTGTACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTG-ACTATGT-GCACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
49464110 GTGCGAGTTGA
63 GTGCGAATTGA
49464121 TTAATAGCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
79 3 0.05
80 15 0.23
81 7 0.11
82 40 0.61
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (80 bp):
GCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:49464105 original size:55 final size:53
Alignment explanation
Indices: 49463965--49464140 Score: 180
Period size: 55 Copynumber: 3.3 Consensus size: 53
49463955 TAAATTGTAC
**
49463965 AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGA-AATGAATATG
1 AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAGTTTGAATATG
* * * *
49464017 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGT-CGAGTTTGTACTATG
1 A-GCACTAAGTGTGCGATTTGACTATG-TGCACTAAGTGTGCGAGTTTG-AATATG
* * *
49464072 TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAG-TTGATTAAT-
1 -AGCACTAAGTGTGCGATTTGACTATGT-GCACTAAGTGTGCGAGTTTGAAT-ATG
*
49464126 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49464141 GACTCAATAT
Statistics
Matches: 103, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
52 1 0.01
53 40 0.39
54 15 0.15
55 42 0.41
56 5 0.05
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAGTTTGAATATG
Found at i:49464120 original size:27 final size:27
Alignment explanation
Indices: 49463965--49464140 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
49463955 TAAATTGTAC
*
49463965 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
49463992 -GCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
49464017 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
49464045 GGCACTAAGTGT-CGAGTTTGTACTATGT
1 AGCACTAAGTGTGCGA-ATTG-ACTATGT
* * *
49464073 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
49464100 AGCACTAAGTGTGCGAGTTGATTA-AT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
49464126 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49464141 GACTCAATAT
Statistics
Matches: 127, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
26 40 0.31
27 64 0.50
28 20 0.16
29 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:49472158 original size:27 final size:27
Alignment explanation
Indices: 49472127--49472304 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49472117 TAAATTGTAC
49472127 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
49472154 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49472180 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
49472208 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
49472236 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49472263 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
49472290 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49472305 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:49472241 original size:82 final size:81
Alignment explanation
Indices: 49472128--49472283 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49472118 AAATTGTACA
* *
49472128 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
49472192 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49472209 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
49472274 TGCGAGTTGA
65 TGCGAATTGA
49472284 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49472295 original size:82 final size:81
Alignment explanation
Indices: 49472124--49472304 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
49472114 GATTAAATTG
* *
49472124 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
49472189 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
49472205 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
49472269 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
49472287 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
49472305 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:49474480 original size:31 final size:31
Alignment explanation
Indices: 49474437--49474500 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49474427 CCTTTTCATA
49474437 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
49474468 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
49474499 TT
1 TT
49474501 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:49474740 original size:24 final size:24
Alignment explanation
Indices: 49474693--49474860 Score: 243
Period size: 24 Copynumber: 7.0 Consensus size: 24
49474683 GCTTTATCAT
*
49474693 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
49474718 ATAACTGGGGCA-AAGCCTTTTTTTA
1 ATAACTGGGGCATAAGCC--CTTTTA
49474743 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
49474766 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49474790 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49474814 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
49474838 ATAATTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
49474861 GCACTTCCTC
Statistics
Matches: 133, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
23 22 0.17
24 80 0.60
25 26 0.20
26 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:49474931 original size:9 final size:9
Alignment explanation
Indices: 49474917--49474993 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
49474907 ATCTCGTGTG
49474917 CATATCATA
1 CATATCATA
*
49474926 CATATCATGTG
1 CATATCA--TA
49474937 CATATCATA
1 CATATCATA
* *
49474946 CATGTCATCTG
1 CATATCA--TA
49474957 CATATCATA
1 CATATCATA
*
49474966 CATATCATGTG
1 CATATCA--TA
49474977 CATATCATA
1 CATATCATA
49474986 CATATCAT
1 CATATCAT
49474994 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:49474936 original size:20 final size:20
Alignment explanation
Indices: 49474913--49474995 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
49474903 GAACATCTCG
49474913 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
49474933 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
*
49474953 TCTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
49474973 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
49474993 TGT
1 TGT
49474996 TTATCAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:49482523 original size:34 final size:34
Alignment explanation
Indices: 49482480--49482548 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 34
49482470 CACTAGGTGC
49482480 CAAATCAGTGTGTTGATTGGATCCGTGTA-TTTGT
1 CAAATCAGTGTGTTGATTGGATCCGTG-ACTTTGT
49482514 CAAATCAGTGTGTTGATTGGATCCGTGACTTTGT
1 CAAATCAGTGTGTTGATTGGATCCGTGACTTTGT
49482548 C
1 C
49482549 TGAGTCCAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 1 0.03
34 33 0.97
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.39
Consensus pattern (34 bp):
CAAATCAGTGTGTTGATTGGATCCGTGACTTTGT
Found at i:49487025 original size:24 final size:24
Alignment explanation
Indices: 49486993--49487039 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
49486983 CTGTCAGGAG
**
49486993 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
49487017 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
49487040 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:49488504 original size:27 final size:26
Alignment explanation
Indices: 49488450--49488537 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 26
49488440 TGGAGGAAGC
*
49488450 GTCCTGGTGGCTCTGCCACATATTTCT
1 GTCCTGGTGGCTCTGCCACAT-TATCT
49488477 GTCCTGGTGGCTCTGCCACGATTATCT
1 GTCCTGGTGGCTCTGCCAC-ATTATCT
* ** *
49488504 GTATCTGGTAACTCTGTCACATTATCT
1 GT-CCTGGTGGCTCTGCCACATTATCT
*
49488531 GTTCTGG
1 GTCCTGG
49488538 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.09
27 34 0.63
28 15 0.28
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.38
Consensus pattern (26 bp):
GTCCTGGTGGCTCTGCCACATTATCT
Found at i:49496415 original size:42 final size:42
Alignment explanation
Indices: 49496356--49496440 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
49496346 TACTAATTTG
49496356 TACATAAATAGAAAATTTTGAAAATTAATCAAAAGAAAAAGT
1 TACATAAATAGAAAATTTTGAAAATTAATCAAAAGAAAAAGT
49496398 TACATAAATAGAAAATTTTGAAAATTAATCAAAAGAAAAAGT
1 TACATAAATAGAAAATTTTGAAAATTAATCAAAAGAAAAAGT
49496440 T
1 T
49496441 TAAAAAAGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (42 bp):
TACATAAATAGAAAATTTTGAAAATTAATCAAAAGAAAAAGT
Found at i:49498486 original size:46 final size:46
Alignment explanation
Indices: 49498333--49498603 Score: 185
Period size: 46 Copynumber: 5.8 Consensus size: 46
49498323 TCACTTGTGT
* * * *
49498333 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* ** *
49498379 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGTATAGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
* * * *
49498427 GTGCTAGTGTAAGACATGTCTGGGACATGTATTGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* *
49498474 -AGCCAGTGTAAGACATGTCTAGGACATGCATCGG-CT-AAG-CGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
* ** * * *
49498516 TGTGTTAGTGTAAGACCCTGTCTGGGACATGGCATCAGCACT-GATATACGA
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCG--AGACGA
* * *
49498567 GAGCTAGTATAAGACCATGTCTAGGACATGGCATCGG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
49498604 TAGTTACCCC
Statistics
Matches: 176, Mismatches: 36, Indels: 22
0.75 0.15 0.09
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 12 0.07
45 14 0.08
46 59 0.34
47 29 0.16
48 23 0.13
49 1 0.01
50 32 0.18
51 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:49506009 original size:47 final size:46
Alignment explanation
Indices: 49505895--49506065 Score: 154
Period size: 45 Copynumber: 3.7 Consensus size: 46
49505885 TCACTTGTGT
* ** **
49505895 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCACAAGACAA
*
49505940 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATAGAGACAA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCACA-AGACAA
* * ** * *
49505988 GTGCTAGTGTAAGACATGTCTGGGACAT-GCATTGGCCTCGAGACATA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAG-CACAAGACA-A
*
49506035 -AGCCAGT-TAAGACATGTCAGGGACAT-GCATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATC
49506066 GACTAAGCGA
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
45 36 0.35
46 29 0.28
47 25 0.24
48 14 0.13
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCACAAGACAA
Found at i:49511855 original size:55 final size:56
Alignment explanation
Indices: 49511734--49511868 Score: 209
Period size: 55 Copynumber: 2.4 Consensus size: 56
49511724 TCCCAAACAA
*
49511734 GGTCTTACTCGCACACATATATTGGAGTCACATATCGATGCCAACATATAAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAACGT
* * **
49511790 GTTCTAACTCGCACACATATATCGGAGTCACA-ATCGATGCCAATGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAACGT
*
49511845 GGTCTTACTCGCACACATAAATCG
1 GGTCTTACTCGCACACATATATCG
49511869 ATGCCATGGT
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 42 0.59
56 29 0.41
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAACGT
Found at i:49526179 original size:46 final size:46
Alignment explanation
Indices: 49526126--49526216 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
49526116 TATATATACA
* * *
49526126 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
49526172 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
49526217 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:49526259 original size:22 final size:22
Alignment explanation
Indices: 49526233--49526354 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
49526223 TTCCACGTTC
49526233 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
49526255 ATCACATATATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
49526280 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
49526302 ATCACATATGTG-CATGT-T-CACATT
1 ATCACAT-TG-GCCAT-TCTGC-C-TT
*
49526326 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTGCCTT
49526349 ATCACA
1 ATCACA
49526355 CATATGCATG
Statistics
Matches: 77, Mismatches: 5, Indels: 36
0.65 0.04 0.31
Matches are distributed among these distances:
22 24 0.31
23 18 0.23
24 17 0.22
25 18 0.23
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:49526261 original size:47 final size:47
Alignment explanation
Indices: 49526230--49526475 Score: 438
Period size: 47 Copynumber: 5.2 Consensus size: 47
49526220 CACTTCCACG
*
49526230 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
49526277 TTTATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
49526324 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
49526371 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
49526418 TTCATCACATTGGCCATTCGGCCTTATCACATATGTACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
49526465 TTCATCACATT
1 TTCATCACATT
49526476 AAATCCTAAA
Statistics
Matches: 190, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 190 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:49528793 original size:13 final size:13
Alignment explanation
Indices: 49528775--49528800 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49528765 ATTTTTATTT
49528775 TTAACATAAAATA
1 TTAACATAAAATA
49528788 TTAACATAAAATA
1 TTAACATAAAATA
49528801 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:49535980 original size:40 final size:40
Alignment explanation
Indices: 49535906--49536127 Score: 301
Period size: 40 Copynumber: 5.6 Consensus size: 40
49535896 AACCCAAGTA
* *
49535906 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
49535945 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAT-
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCAC-AAATG
49535985 CCTTCGGGACTTAGCCCGGATATAG-CAATTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-T-AGCACAAATG
49536025 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * * * *
49536065 ACTTTGGGACTTAGCTCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
49536105 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
49536128 CATTCGAATA
Statistics
Matches: 163, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
39 20 0.12
40 132 0.81
41 11 0.07
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:49541589 original size:18 final size:19
Alignment explanation
Indices: 49541548--49541589 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
49541538 CCCATTCCGA
* *
49541548 AGTATATATATATACATAT
1 AGTATGTATATACACATAT
49541567 A-TATGTATATACACAT-T
1 AGTATGTATATACACATAT
49541584 AGTATG
1 AGTATG
49541590 CCCATTCGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 17 0.85
19 1 0.05
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (19 bp):
AGTATGTATATACACATAT
Found at i:49542098 original size:28 final size:28
Alignment explanation
Indices: 49542058--49542211 Score: 249
Period size: 28 Copynumber: 5.5 Consensus size: 28
49542048 TAAATTGTAC
49542058 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
49542086 AGCAC-ATAGTGTGCGAGTTTGATTATGT
1 AGCACTA-AGTGTGCGAGTTTGATTATGT
*
49542114 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
49542142 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
49542170 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
49542197 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49542212 GACTTAATAT
Statistics
Matches: 120, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
27 25 0.21
28 94 0.78
29 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:49542225 original size:56 final size:55
Alignment explanation
Indices: 49542035--49542211 Score: 248
Period size: 56 Copynumber: 3.2 Consensus size: 55
49542025 GATTGGCGCT
* * * * *
49542035 TAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCAC
1 TAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCAC
*
49542091 ATAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATGTAGCAC
1 -TAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCAC
*
49542147 TAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCAC
1 T-AGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCAC
49542202 TGAGTGTGCG
1 T-AGTGTGCG
49542212 GACTTAATAT
Statistics
Matches: 110, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
55 24 0.22
56 73 0.66
57 13 0.12
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (55 bp):
TAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTTGATTATGTAGCAC
Found at i:49543040 original size:35 final size:35
Alignment explanation
Indices: 49543001--49543071 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
49542991 GGGAGATGTT
49543001 TGACAATGATTAGCCTTTGGCATGGCTAGTCATGA
1 TGACAATGATTAGCCTTTGGCATGGCTAGTCATGA
49543036 TGACAATGATTAGCCTTTGGCATGGCTAGTCATGA
1 TGACAATGATTAGCCTTTGGCATGGCTAGTCATGA
49543071 T
1 T
49543072 CATAATTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (35 bp):
TGACAATGATTAGCCTTTGGCATGGCTAGTCATGA
Found at i:49545887 original size:35 final size:35
Alignment explanation
Indices: 49545841--49545911 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
49545831 GGGAGATGTT
49545841 TGACAATGATTAGCCTTTGGCATGGCTAGTCATGA
1 TGACAATGATTAGCCTTTGGCATGGCTAGTCATGA
49545876 TGACAATGATTAGCCTTTGGCATGGCTAGTCATGA
1 TGACAATGATTAGCCTTTGGCATGGCTAGTCATGA
49545911 T
1 T
49545912 CATAATTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (35 bp):
TGACAATGATTAGCCTTTGGCATGGCTAGTCATGA
Found at i:49548192 original size:31 final size:31
Alignment explanation
Indices: 49548154--49548218 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
49548144 GCGCATGTTC
* *
49548154 TTAGCCTTGTCCCATGATTTCCATATTCCCT
1 TTAGCCTTGTCCCATGATTGCCATATCCCCT
49548185 TTAGCCTTGTCCCATGATTGCCATATCCCCT
1 TTAGCCTTGTCCCATGATTGCCATATCCCCT
49548216 TTA
1 TTA
49548219 ACTCATCTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.17, C:0.32, G:0.11, T:0.40
Consensus pattern (31 bp):
TTAGCCTTGTCCCATGATTGCCATATCCCCT
Found at i:49550740 original size:32 final size:32
Alignment explanation
Indices: 49550703--49550765 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
49550693 ATATAAGTAT
49550703 AAATTATTTATTAAAGATGGAAACAAAATGAA
1 AAATTATTTATTAAAGATGGAAACAAAATGAA
49550735 AAATTATTTATTAAAGATGGAAACAAAATGA
1 AAATTATTTATTAAAGATGGAAACAAAATGA
49550766 CATAGCTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.56, C:0.03, G:0.13, T:0.29
Consensus pattern (32 bp):
AAATTATTTATTAAAGATGGAAACAAAATGAA
Found at i:49552222 original size:32 final size:32
Alignment explanation
Indices: 49552144--49552226 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
49552134 AGAAATTTTG
* * *
49552144 GGCCCACACGGTCCAAATTGCCATGCTCATGT
1 GGCCCACACTGCCCAAATTGCCATGCCCATGT
* * *
49552176 GGCCTATA-TGGCCCAAATTGCCATGCCCGTGT
1 GGCCCACACT-GCCCAAATTGCCATGCCCATGT
49552208 GGCCCACACTGCCCAAATT
1 GGCCCACACTGCCCAAATT
49552227 ACCCTGTCCT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 40 0.98
33 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.22
Consensus pattern (32 bp):
GGCCCACACTGCCCAAATTGCCATGCCCATGT
Found at i:49557216 original size:42 final size:41
Alignment explanation
Indices: 49557098--49557204 Score: 124
Period size: 43 Copynumber: 2.6 Consensus size: 41
49557088 TTAGATTTCG
* * * *
49557098 TGTAAGACCATGTTTGGGACATGGCATCGATATGAGAACCG
1 TGTAAGACCATATATGGGATATGGCATCGATATGAGAACCA
** * *
49557139 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATATATGGGATA-TGGCATCGATATGAGA-ACCA
49557182 TGTAAGACCATATATGGGATATG
1 TGTAAGACCATATATGGGATATG
49557205 ACATTGGTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 16 0.30
42 18 0.33
43 20 0.37
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (41 bp):
TGTAAGACCATATATGGGATATGGCATCGATATGAGAACCA
Found at i:49561585 original size:77 final size:77
Alignment explanation
Indices: 49561491--49561647 Score: 305
Period size: 77 Copynumber: 2.0 Consensus size: 77
49561481 TCTAAAAGTA
*
49561491 AAACCTTTTGTACGGGGTTTGCAAATCATCTCGTCACGTACGTTTGCTCAAAATATTTTCCTTTG
1 AAACCTTTTATACGGGGTTTGCAAATCATCTCGTCACGTACGTTTGCTCAAAATATTTTCCTTTG
49561556 GGATATTAATTC
66 GGATATTAATTC
49561568 AAACCTTTTATACGGGGTTTGCAAATCATCTCGTCACGTACGTTTGCTCAAAATATTTTCCTTTG
1 AAACCTTTTATACGGGGTTTGCAAATCATCTCGTCACGTACGTTTGCTCAAAATATTTTCCTTTG
49561633 GGATATTAATTC
66 GGATATTAATTC
49561645 AAA
1 AAA
49561648 TTAAATCGCG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (77 bp):
AAACCTTTTATACGGGGTTTGCAAATCATCTCGTCACGTACGTTTGCTCAAAATATTTTCCTTTG
GGATATTAATTC
Found at i:49562046 original size:33 final size:34
Alignment explanation
Indices: 49561999--49562070 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
49561989 AACAGTGCAT
* * * * *
49561999 ACAGTAACGGTCTGGGCTTGAGCCCTATTCATTA
1 ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
49562033 ACAGT-ACAGTCTGGGCCTAAGCCCTATGCAGTA
1 ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
49562066 ACAGT
1 ACAGT
49562071 GTGGGCCTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 28 0.85
34 5 0.15
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (34 bp):
ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
Found at i:49563856 original size:20 final size:21
Alignment explanation
Indices: 49563831--49563877 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
49563821 CGGCCCATAT
49563831 ACATGGGCATGTGAGATCA-C
1 ACATGGGCATGTGAGATCAGC
* *
49563851 ACATGGGCATGTGGGATGAGC
1 ACATGGGCATGTGAGATCAGC
49563872 ACATGG
1 ACATGG
49563878 CCATATCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.19
Consensus pattern (21 bp):
ACATGGGCATGTGAGATCAGC
Found at i:49565737 original size:26 final size:26
Alignment explanation
Indices: 49565708--49565764 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
49565698 GCACAACTCT
49565708 TGTGAACA-AGCCTAATTCATAGCTCG
1 TGTGAACATA-CCTAATTCATAGCTCG
* * * *
49565734 TGTGAGCATACTTATTTCGTAGCTCG
1 TGTGAACATACCTAATTCATAGCTCG
49565760 TGTGA
1 TGTGA
49565765 GCAACGATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (26 bp):
TGTGAACATACCTAATTCATAGCTCG
Found at i:49567182 original size:31 final size:31
Alignment explanation
Indices: 49567144--49567253 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
49567134 TTTAACGGTT
* * *
49567144 ACTGGGCCGAAGCCTTTTCATAAGTCAAATA
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
49567175 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
49567206 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
49567237 ACTGGGCTGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
49567254 ATTGTAAACG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:49567339 original size:42 final size:42
Alignment explanation
Indices: 49567277--49567368 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
49567267 TGGCCCATAG
* * *
49567277 GCCCATTTCAATAACGCATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTAGGCAA
*
49567319 GCCCATTTCAATATCACATGAAATACCAATGAATGTAGGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTAGGCAA
49567361 GCCCATTT
1 GCCCATTT
49567369 AGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTAGGCAA
Found at i:49567577 original size:26 final size:26
Alignment explanation
Indices: 49567513--49567686 Score: 246
Period size: 26 Copynumber: 6.8 Consensus size: 26
49567503 CCTCTTTAAT
* **
49567513 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
49567538 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
49567563 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
49567589 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
49567615 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
49567641 AACTAGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
49567667 AACT-GGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
49567687 GCACTTCCTC
Statistics
Matches: 134, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
25 47 0.35
26 87 0.65
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:49567625 original size:52 final size:52
Alignment explanation
Indices: 49567513--49567686 Score: 300
Period size: 52 Copynumber: 3.4 Consensus size: 52
49567503 CCTCTTTAAT
* *
49567513 AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
49567563 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
49567615 AACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
49567667 AACT-GGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
49567687 GCACTTCCTC
Statistics
Matches: 119, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
50 9 0.08
51 41 0.34
52 69 0.58
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:49567760 original size:20 final size:20
Alignment explanation
Indices: 49567735--49567811 Score: 115
Period size: 20 Copynumber: 4.0 Consensus size: 20
49567725 TTTATGAATT
*
49567735 TATCATGTGCATTTCATACA
1 TATCATGTGCATATCATACA
49567755 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
49567775 TATCATGTGCATATCATATCA
1 TATCATGTGCATATCATA-CA
49567796 -ATCATGT--ATATCATAC
1 TATCATGTGCATATCATAC
49567812 CCCACGTATC
Statistics
Matches: 55, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
17 1 0.02
18 8 0.15
20 44 0.80
21 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:49567767 original size:11 final size:11
Alignment explanation
Indices: 49567735--49567791 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
49567725 TTTATGAATT
49567735 TATCATGTGCA
1 TATCATGTGCA
* *
49567746 TTTCA--TACA
1 TATCATGTGCA
49567755 TATCATGTGCA
1 TATCATGTGCA
*
49567766 TATCA--TACA
1 TATCATGTGCA
49567775 TATCATGTGCA
1 TATCATGTGCA
49567786 TATCAT
1 TATCAT
49567792 ATCAATCATG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:49568502 original size:27 final size:27
Alignment explanation
Indices: 49568472--49568536 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
49568462 GGGCATATTC
49568472 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
49568499 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
49568526 GTCTTTTTACC
1 GTCATTTTACC
49568537 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:49568628 original size:27 final size:27
Alignment explanation
Indices: 49568568--49569046 Score: 342
Period size: 27 Copynumber: 17.7 Consensus size: 27
49568558 TTCATCCTAC
* * * * * *
49568568 AAGGGTGTTTTGCTAAATCTACAAGCC
1 AAGGGTATTTTGGTAATTTTACAAACT
* **
49568595 AAGGGTATTTTAGTAATTTTGTAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
49568622 AATGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTACAAACT
* * *
49568650 CAATGGTATTTTTGTAACTTTGTA-AATC-
1 -AAGGGTATTTTGGTAA-TTT-TACAAACT
* *
49568678 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
49568705 GAGCGTATTTTGGTAATTTTACAAAC-
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
49568731 CAGTGGTATTTTGGTAACTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
* *
49568759 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
49568786 GAGGGTATTTCGATAATTTTACAAAC-
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
49568812 CAGTGGAATTTAGGTAACTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
* *
49568840 AGGGGTATTTTGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * * *
49568867 AGGGGTATTTTAGCAATTTTACAGACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
49568894 AA-GGTATTTTGGTAATTTTATAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
49568920 GAGGGTATTTCGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
49568947 AAGGGTATTTTAGCAATTTTACAGA-T
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
49568973 TAGGGTATTTTGGTAATTTTACTAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * ** *
49569000 GATGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
49569027 GAGGGTATTTTAGTAATTTT
1 AAGGGTATTTTGGTAATTTT
49569047 GTAAATCGAG
Statistics
Matches: 354, Mismatches: 85, Indels: 26
0.76 0.18 0.06
Matches are distributed among these distances:
25 2 0.01
26 48 0.14
27 272 0.77
28 12 0.03
29 18 0.05
30 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:49568771 original size:81 final size:80
Alignment explanation
Indices: 49568653--49569046 Score: 427
Period size: 81 Copynumber: 4.9 Consensus size: 80
49568643 AGAAAGTCAA
* ** ** * *
49568653 TGGTATTTTTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGCGTATTTTGG
1 TGGTATTTTGGTAACTTTACAAAT-AGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAG
49568718 TAATTTTACAAACCAG
65 TAATTTTACAAACCAG
** *
49568734 TGGTATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA-TTTCG
1 TGGTATTTTGGTAACTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAG
49568798 ATAATTTTACAAACCAG
65 -TAATTTTACAAACCAG
* *
49568815 TGGAATTTAGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACC-AGGGGTATTTTA
1 TGGTATTTTGGTAACTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACCGA-GGGTATTTTA
* *
49568879 GCAATTTTACAGACCA-
64 GTAATTTTACAAACCAG
* * * * * *
49568895 AGGTATTTTGGTAATTTTATAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAG
1 TGGTATTTTGGTAACTTTACAAATAG-GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAG
* * **
49568960 CAATTTTACAGATTAG
65 TAATTTTACAAACCAG
* * * * **
49568976 -GGTATTTTGGTAATTTTACTAATTGATGGTATTTTGGTAATTTTGTAAACCGAGGGTATTTTAG
1 TGGTATTTTGGTAACTTTACAAATAG-GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAG
49569040 TAATTTT
65 TAATTTT
49569047 GTAAATCGAG
Statistics
Matches: 277, Mismatches: 29, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
79 2 0.01
80 134 0.48
81 136 0.49
82 5 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (80 bp):
TGGTATTTTGGTAACTTTACAAATAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGT
AATTTTACAAACCAG
Found at i:49569068 original size:27 final size:27
Alignment explanation
Indices: 49569038--49569141 Score: 163
Period size: 27 Copynumber: 3.9 Consensus size: 27
49569028 AGGGTATTTT
*
49569038 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49569065 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49569092 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49569119 GGTAATTCTGTAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
49569142 CTTTGGTAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:49569070 original size:54 final size:54
Alignment explanation
Indices: 49569012--49569155 Score: 189
Period size: 54 Copynumber: 2.7 Consensus size: 54
49569002 TGGTATTTTG
* * * *
49569012 GTAATTTTGTAAACCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACA
* ** * *
49569066 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACA
* *
49569120 GTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTA
1 GTAATTCTGTAAATCGAGGGTAATTTAGTAATTTTA
49569156 CAATTTGAGG
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACA
Found at i:49569152 original size:27 final size:27
Alignment explanation
Indices: 49569012--49569141 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
49569002 TGGTATTTTG
* * ***
49569012 GTAATTTTGTAAACCGAGGGTATTTTA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
49569039 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
49569066 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* **
49569093 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATA
49569120 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
49569142 CTTTGGTAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:49569166 original size:54 final size:54
Alignment explanation
Indices: 49568974--49569168 Score: 183
Period size: 54 Copynumber: 3.6 Consensus size: 54
49568964 TTTACAGATT
* * * * **** * *
49568974 AGGGTATTTTGGTAATTTTACTAATTGATGGTATTTTGGTAATTTTGTAAACCG
1 AGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
** * *
49569028 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCA
1 AGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
*** * *
49569082 AGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
* * * *
49569136 AGGGTACTTTGGTAATTTTACAATTTGAGGGTA
1 AGGGTATTTTAGTAATTTTACAAATCGAGGGTA
49569169 TTTCTGTAAT
Statistics
Matches: 112, Mismatches: 29, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 112 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
Found at i:49573900 original size:15 final size:15
Alignment explanation
Indices: 49573880--49573911 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49573870 TAGCCAGACT
*
49573880 TTCGACTTTTCGGCA
1 TTCGACTTTTCAGCA
49573895 TTCGACTTTTCAGCA
1 TTCGACTTTTCAGCA
49573910 TT
1 TT
49573912 TCGGGATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.44
Consensus pattern (15 bp):
TTCGACTTTTCAGCA
Found at i:49577342 original size:26 final size:26
Alignment explanation
Indices: 49577295--49577344 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
49577285 TGGATGAATT
* * * *
49577295 TTTTTCTTTTTCTTCTTCTTTTTAAG
1 TTTTTATTTTGCTACTTATTTTTAAG
49577321 TTTTTATTTTGCTACTTATTTTTA
1 TTTTTATTTTGCTACTTATTTTTA
49577345 TTTTATTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.72
Consensus pattern (26 bp):
TTTTTATTTTGCTACTTATTTTTAAG
Found at i:49579650 original size:40 final size:40
Alignment explanation
Indices: 49579606--49579724 Score: 175
Period size: 40 Copynumber: 3.0 Consensus size: 40
49579596 CTAGATATAT
* *
49579606 TGTATATCCGGATTAAATCCCGCAGGCATCGTGCTGGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
49579646 TGTATATCCGGGTTAAATCCCGCAGGCTTCATGCTAGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * *
49579686 AGTATATCCGGGCTAAATCCCGCAGGCTTAGTGCTGGTA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
49579725 CTATATCCGG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (40 bp):
TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:49579753 original size:80 final size:80
Alignment explanation
Indices: 49579607--49579765 Score: 196
Period size: 80 Copynumber: 2.0 Consensus size: 80
49579597 TAGATATATT
* * * *
49579607 GTATATCCGGATTAAATCCCGCAGGCATCGTGCTGGTAATGTATATCCGGGTTAAATCCCGCAGG
1 GTATATCCGGACTAAATCCCGCAGGCATAGTGCTGGTAATCTATATCCGGGCTAAATCCCGCAGG
49579672 CTTCATGCTAGTAAA
66 CTTCATGCTAGTAAA
* * * *
49579687 GTATATCCGGGCTAAATCCCGCAGGCTTAGTGCTGGT-A-CTATATCCGGGCCTAAAGTCCTGTA
1 GTATATCCGGACTAAATCCCGCAGGCATAGTGCTGGTAATCTATATCCGGG-CTAAA-TCCCGCA
**
49579750 GGCTTTGTGCTAGTAA
64 GGCTTCATGCTAGTAA
49579766 CTGGATTCGG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
78 10 0.15
79 5 0.07
80 52 0.78
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (80 bp):
GTATATCCGGACTAAATCCCGCAGGCATAGTGCTGGTAATCTATATCCGGGCTAAATCCCGCAGG
CTTCATGCTAGTAAA
Found at i:49587538 original size:40 final size:40
Alignment explanation
Indices: 49587495--49587652 Score: 255
Period size: 40 Copynumber: 4.0 Consensus size: 40
49587485 TCGATATATT
* * *
49587495 GTATATCCGGGTTAAATCCCGCAGGCATCGTGCTGGTAAT
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
49587535 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
* *
49587575 GTATATCCGGGTTAAATCCCGTAGGCTTCATGCTAGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
49587615 GTATATCCGGGTTAAATCCCGCAGGCTT-AGTGCTGGTA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTA
49587653 CTATATCCGG
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 109 0.99
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
Found at i:49587628 original size:80 final size:78
Alignment explanation
Indices: 49587495--49587693 Score: 265
Period size: 80 Copynumber: 2.5 Consensus size: 78
49587485 TCGATATATT
* * * *
49587495 GTATATCCGGGTTAAATCCCGCAGGCATCGTGCTGGTAATGTATATCCGGGTTAAATCCCGCAGG
1 GTATATCCGGGTTAAATCCCGTAGGCTTCGTGCTAGTAAAGTATATCCGGGTTAAATCCCGCAGG
49587560 CTTCA-TGCTGGTAAA
66 CTT-AGTGCTGGT--A
*
49587575 GTATATCCGGGTTAAATCCCGTAGGCTTCATGCTAGTAAAGTATATCCGGGTTAAATCCCGCAGG
1 GTATATCCGGGTTAAATCCCGTAGGCTTCGTGCTAGTAAAGTATATCCGGGTTAAATCCCGCAGG
49587640 CTTAGTGCTGGTA
66 CTTAGTGCTGGTA
* * * *
49587653 CTATATCCGGGCCTAAAGTCCCATAGGCTTTGTGCTAGTAA
1 GTATATCCGGG-TTAAA-TCCCGTAGGCTTCGTGCTAGTAA
49587694 CTGGATTCGG
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
78 11 0.10
79 5 0.05
80 90 0.85
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (78 bp):
GTATATCCGGGTTAAATCCCGTAGGCTTCGTGCTAGTAAAGTATATCCGGGTTAAATCCCGCAGG
CTTAGTGCTGGTA
Found at i:49589235 original size:21 final size:20
Alignment explanation
Indices: 49589207--49589261 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
49589197 AGTTACACTA
*
49589207 CCTGTTCACACGGTCGTGTC
1 CCTGTTCACACGGGCGTGTC
*
49589227 CCTGCTTCACACGGGCGTGTA
1 CCTG-TTCACACGGGCGTGTC
*
49589248 CCTATGTCACACGG
1 CCTGT-TCACACGG
49589262 CCATGTGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.17
21 25 0.83
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.25
Consensus pattern (20 bp):
CCTGTTCACACGGGCGTGTC
Found at i:49590198 original size:13 final size:14
Alignment explanation
Indices: 49590180--49590212 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
49590170 CAAAAACAAC
49590180 TTAATAAG-CTTAA
1 TTAATAAGTCTTAA
49590193 TTAAT-AGTCTTAA
1 TTAATAAGTCTTAA
49590206 TTAATAA
1 TTAATAA
49590213 ACACATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 15 0.83
14 1 0.06
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (14 bp):
TTAATAAGTCTTAA
Found at i:49590263 original size:33 final size:33
Alignment explanation
Indices: 49590201--49590263 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
49590191 AATTAATAGT
**
49590201 CTTAATTAATAAACACATTTAACACTTAACTAA
1 CTTAATTAATAAACACATAAAACACTTAACTAA
*
49590234 CTTAATTAATAAACATA-AAAACACATTAAC
1 CTTAATTAATAAACACATAAAACAC-TTAAC
49590264 AATAATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 5 0.19
33 21 0.81
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.30
Consensus pattern (33 bp):
CTTAATTAATAAACACATAAAACACTTAACTAA
Found at i:49592416 original size:19 final size:19
Alignment explanation
Indices: 49592380--49592417 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
49592370 GATGAATGAG
*
49592380 ATGTGTTAGGTACATGTAT
1 ATGTGTTAGGTAAATGTAT
49592399 ATGT-TTAGGTAAATTGTAT
1 ATGTGTTAGGTAAA-TGTAT
49592418 GTTTGCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.45
Consensus pattern (19 bp):
ATGTGTTAGGTAAATGTAT
Found at i:49596211 original size:23 final size:22
Alignment explanation
Indices: 49596140--49596252 Score: 75
Period size: 23 Copynumber: 4.8 Consensus size: 22
49596130 GGACTCACCA
*
49596140 CAGCTCATATGAGCTTACCGATATAT
1 CAGCTTAT-TGAGCTTACCG-T-T-T
* * * *
49596166 CAGCTCATAAGAGCTTTCAGTTT
1 CAGCTTAT-TGAGCTTACCGTTT
*
49596189 TAGCTTATTGGAGCTTACCGTTT
1 CAGCTTATT-GAGCTTACCGTTT
49596212 CAGCTCCTA-TGAGCTTACCGTTT
1 CAGCT--TATTGAGCTTACCGTTT
*
49596235 CAGCTCATTAGAGCTTAC
1 CAGCTTATT-GAGCTTAC
49596253 TGCTATCAGC
Statistics
Matches: 72, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 48 0.67
24 2 0.03
25 3 0.04
26 17 0.24
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (22 bp):
CAGCTTATTGAGCTTACCGTTT
Done.