Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 118 of 186
Found at i:39110907 original size:27 final size:26
Alignment explanation
Indices: 39110802--39110913 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
39110792 AGGAAGCGTC
* **
39110802 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
39110829 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
39110856 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
39110884 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
39110910 CTGG
1 CTGG
39110914 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.69
28 16 0.21
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:39117398 original size:24 final size:24
Alignment explanation
Indices: 39117366--39117412 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
39117356 CTGTCAGGAG
**
39117366 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
39117390 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
39117413 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:39118935 original size:54 final size:54
Alignment explanation
Indices: 39118831--39118942 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
39118821 AGGAAGCGTC
*
39118831 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCTGTT
* * * * *
39118885 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-AATCTGGTGACTCTGCCACATATATCTGTT
39118939 CTGG
1 CTGG
39118943 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCTGTT
Found at i:39118936 original size:27 final size:26
Alignment explanation
Indices: 39118831--39118942 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
39118821 AGGAAGCGTC
* **
39118831 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
39118858 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
39118885 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
39118913 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
39118939 CTGG
1 CTGG
39118943 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.69
28 16 0.21
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:39123033 original size:51 final size:51
Alignment explanation
Indices: 39122940--39123039 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 51
39122930 CTACCTTATA
** ** *
39122940 ACATGTAACACATCCATAATGAACTCGGACCTTTCAATGAGCTCAGATGTT
1 ACATGTAACACATCCATAATGAACTAAGACCACTCAACGAGCTCAGATGTT
* * *
39122991 ACATGTATCACATCCATTATGAACTAAGACCACTCAACGAGCTCGGATG
1 ACATGTAACACATCCATAATGAACTAAGACCACTCAACGAGCTCAGATG
39123040 CCACATATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (51 bp):
ACATGTAACACATCCATAATGAACTAAGACCACTCAACGAGCTCAGATGTT
Found at i:39123051 original size:51 final size:51
Alignment explanation
Indices: 39122948--39123051 Score: 118
Period size: 51 Copynumber: 2.0 Consensus size: 51
39122938 TAACATGTAA
** ** * ** *
39122948 CACATCCATAATGAACTCGGACCTTTCAATGAGCTCAGATGTTACATGTAT
1 CACATCCATAATGAACTAAGACCACTCAACGAGCTCAGATGCCACATATAT
* *
39122999 CACATCCATTATGAACTAAGACCACTCAACGAGCTCGGATGCCACATATAT
1 CACATCCATAATGAACTAAGACCACTCAACGAGCTCAGATGCCACATATAT
39123050 CA
1 CA
39123052 TGAACTTGGA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (51 bp):
CACATCCATAATGAACTAAGACCACTCAACGAGCTCAGATGCCACATATAT
Found at i:39128807 original size:48 final size:48
Alignment explanation
Indices: 39128736--39129114 Score: 361
Period size: 48 Copynumber: 7.9 Consensus size: 48
39128726 GTAAACTGCT
* * *
39128736 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * * * * *
39128784 GATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTCTTAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * **
39128832 GATGCCATGTCCTAGACATGGTCTTACACAAGCTCACATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAGGCC
* **
39128880 AATGCCATGTCCCAGACATGGTCTTACACTAGCAT-ACATATCAACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC-TCACATATCAAGGCC
* * * *
39128928 GATGCCATATCCCAGACATGGTCTTACGCTGGCTCACATATCAAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * * * **
39128976 GATGCCATGTCCTAGACATGGTCGTACACTAGCTCTCATCTCAATGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * * ** *
39129024 GATGCCATGTCCTAGATATGGTCTTACACTGGCTCTCATAAT-GTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAGGCC
** *
39129072 GATGCCATGTCCCAGACAT-GTCTTACTTTAGCACACATATCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
39129115 CCAAATGTCA
Statistics
Matches: 266, Mismatches: 59, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
46 2 0.01
47 17 0.06
48 244 0.92
49 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
Found at i:39128900 original size:96 final size:96
Alignment explanation
Indices: 39128736--39129097 Score: 435
Period size: 96 Copynumber: 3.8 Consensus size: 96
39128726 GTAAACTGCT
*
39128736 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGAC
* * *
39128801 ATGGTCTTATACTAGCTCTCGTCTTAATGTC
66 ATGGTCTTACACTAGCTCTCATCTCAATGTC
* ** * *
39128832 GATGCCATGTCCTAGACATGGTCTTACACAAGCTCACATAAT-GTGGCCAATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCCGATGCCATGTCCCAGA
* * ***
39128896 CATGGTCTTACACTAGCAT-ACATATCAACACC
65 CATGGTCTTACACTAGC-TCTCATCTCAATGTC
* * * * *
39128928 GATGCCATATCCCAGACATGGTCTTACGCTGGCTCACATATCAAGGCTGATGCCATGTCCTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGAC
* *
39128993 ATGGTCGTACACTAGCTCTCATCTCAATGTT
66 ATGGTCTTACACTAGCTCTCATCTCAATGTC
* * * * *
39129024 GATGCCATGTCCTAGATATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCCGATGCCATGTCCCAGA
39129088 CAT-GTCTTAC
65 CATGGTCTTAC
39129098 TTTAGCACAC
Statistics
Matches: 221, Mismatches: 40, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
95 9 0.04
96 208 0.94
97 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCATCTCAATGTC
Found at i:39129076 original size:144 final size:141
Alignment explanation
Indices: 39128735--39129114 Score: 417
Period size: 144 Copynumber: 2.7 Consensus size: 141
39128725 GGTAAACTGC
*
39128735 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGA
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGA
* * * * * * *
39128800 CATGGTCTTATACTAGCTCTCGTCTTAATGTCGATGCCATGTCCTAGACATGGTCTTACACAAGC
66 CATGGTCTTACACTAGCTCACATATCAAGGTCGATGCCATGTCCTAGACATGGTCGTACACAAGC
39128865 TCACATAATGT
131 TCACATAATGT
* * * ** *
39128876 GGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCAT-ACATATCAACACCGATGCCATATCC
1 TG---ATGCCATGTCCCAGACATGGTCTTACACTGGC-TCACATATCGAGGCCGATGCCATGTCC
* *
39128940 CAGACATGGTCTTACGCTGGCTCACATATCAAGG-CTGATGCCATGTCCTAGACATGGTCGTACA
62 CAGACATGGTCTTACACTAGCTCACATATCAAGGTC-GATGCCATGTCCTAGACATGGTCGTACA
* *
39129004 CTAGCTCTCATCTCAATGT
126 CAAGCTCACA--T-AATGT
* * * * *
39129023 TGATGCCATGTCCTAGATATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGCCATGTCCCAG
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCCGATGCCATGTCCCAG
** *
39129087 ACAT-GTCTTACTTTAGCACACATATCAA
65 ACATGGTCTTACACTAGCTCACATATCAA
39129115 CCAAATGTCA
Statistics
Matches: 196, Mismatches: 33, Indels: 18
0.79 0.13 0.07
Matches are distributed among these distances:
141 1 0.01
143 22 0.11
144 163 0.83
145 3 0.02
146 1 0.01
147 6 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (141 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCACATATCAAGGTCGATGCCATGTCCTAGACATGGTCGTACACAAGC
TCACATAATGT
Found at i:39140490 original size:40 final size:39
Alignment explanation
Indices: 39140406--39140827 Score: 470
Period size: 40 Copynumber: 10.6 Consensus size: 39
39140396 TCGAATGATG
* * * *
39140406 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
39140446 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
39140486 TCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTATTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39140525 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
39140565 TCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTATTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39140604 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
39140644 TCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTATTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39140683 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
39140723 TCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTATTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
39140762 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
39140803 -CCGGCCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
39140828 AACGAGTAGC
Statistics
Matches: 319, Mismatches: 56, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
39 132 0.41
40 177 0.55
41 10 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39140860 original size:79 final size:79
Alignment explanation
Indices: 39140459--39140825 Score: 682
Period size: 79 Copynumber: 4.6 Consensus size: 79
39140449 GGACTAAGAT
39140459 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTATTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTATTAA
39140524 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
39140538 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTATTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTATTAA
39140603 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
39140617 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTATTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTATTAA
39140682 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
39140696 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTATTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTATTAA
39140761 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
39140775 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGCCTATGTCCCGAAGGCATT
1 CCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
39140826 TGAACGAGTA
Statistics
Matches: 283, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
78 2 0.01
79 269 0.95
80 12 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTATTAA
ATCCGGGTTAAGTC
Found at i:39141397 original size:61 final size:61
Alignment explanation
Indices: 39141321--39141444 Score: 185
Period size: 61 Copynumber: 2.0 Consensus size: 61
39141311 GGACTACCCT
* * * *
39141321 TTTGTTGTTGGTCATGCACCCTTCGGTTTTGTGTAAATTTGGATAGCCATGCGAAAATGGC
1 TTTGTTGTGGGTCATGCACCCTTCGGATTTGTATAAATTTGGATAGCCATGAGAAAATGGC
* * *
39141382 TTTGTTGTGGGTCATGGACCCTTTGGATTTGTATAATTTTGGATAGCCATGAGAAAATGGC
1 TTTGTTGTGGGTCATGCACCCTTCGGATTTGTATAAATTTGGATAGCCATGAGAAAATGGC
39141443 TT
1 TT
39141445 ATATATGTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.39
Consensus pattern (61 bp):
TTTGTTGTGGGTCATGCACCCTTCGGATTTGTATAAATTTGGATAGCCATGAGAAAATGGC
Found at i:39144928 original size:55 final size:52
Alignment explanation
Indices: 39144863--39145116 Score: 205
Period size: 54 Copynumber: 4.8 Consensus size: 52
39144853 GTTAGGGTTT
*
39144863 AAGGATATCATGTAAGACCATGCAAAGGCATGGCAATTGGTAAGGTTTTTAAGGC
1 AAGGATATCATGTAAGACCATGC-AAGGCATGGC-ATTGGTAA-GTTTATAAGGC
* * *
39144918 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATG-CAAGGCATGGCATTGGTAAGTT--TATAAGGC
* * *
39144973 AAAGG-T-CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATATCATGTAAGACCATG-CAAGGCATGGCATTGGTAAGTTTATAAGGC
* * * * * * *
39145025 AAAGATACCATGTAAGACCATGTTAAGACATAGCAATGGTAAGTTT-CAA---
1 AAGGATATCATGTAAGACCATG-CAAGGCATGGCATTGGTAAGTTTATAAGGC
* * * * *
39145074 AAGGATACCACGTAAGACCATGACAAGTCATGGTAATGGTAAG
1 AAGGATATCATGTAAGACCATG-CAAGGCATGGCATTGGTAAG
39145117 GTACCCGTGT
Statistics
Matches: 166, Mismatches: 27, Indels: 18
0.79 0.13 0.09
Matches are distributed among these distances:
49 36 0.22
51 3 0.02
52 10 0.06
53 35 0.21
54 40 0.24
55 37 0.22
56 5 0.03
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (52 bp):
AAGGATATCATGTAAGACCATGCAAGGCATGGCATTGGTAAGTTTATAAGGC
Found at i:39145068 original size:107 final size:109
Alignment explanation
Indices: 39144871--39145069 Score: 285
Period size: 107 Copynumber: 1.8 Consensus size: 109
39144861 TTAAGGATAT
** * *
39144871 CATGTAAGACCATGCAAAGGCATGGCAATTGGTAAGGTTTTTAAGGCAAGGAAATCATGTAAGAC
1 CATGTAAGACCATGCAAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAAGAAACCATGTAAGAC
* *
39144936 CATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CATGTCAAGACATAGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
39144980 CATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GTTCATAAGGCAAAGATACCATGTAAGAC
1 CATGTAAGACCATGCAAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAAGAAACCATGTAAGAC
* *
39145043 CATGTTAAGACATAGCAATGGTAAGTT
66 CATGTCAAGACATAGCAATGATAAGTT
39145070 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
107 47 0.59
108 7 0.09
109 25 0.32
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (109 bp):
CATGTAAGACCATGCAAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAAGAAACCATGTAAGAC
CATGTCAAGACATAGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:39151531 original size:16 final size:16
Alignment explanation
Indices: 39151510--39151547 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
39151500 TTTCAAATTA
39151510 ATTCATGCAAGTCACT
1 ATTCATGCAAGTCACT
39151526 ATTCATGCAAGTCACT
1 ATTCATGCAAGTCACT
*
39151542 ACTCAT
1 ATTCAT
39151548 TTAGAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (16 bp):
ATTCATGCAAGTCACT
Found at i:39155632 original size:42 final size:42
Alignment explanation
Indices: 39155572--39155725 Score: 195
Period size: 42 Copynumber: 3.6 Consensus size: 42
39155562 CGAGACTATG
* *
39155572 TGTAAGACCATATTTGGGATATGGCATC-ATTATGAGATTTCC
1 TGTAAGACCATATCTGGGATATGGCATCGA-TACGAGATTTCC
* *
39155614 TGTAAGACTATATCTGGGATATGGCATCGATACGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATACGAGATTTCC
* * * *
39155656 TGTAATACCATAGCTGGGCTATTGGCATCGATACGAGA-TCCC
1 TGTAAGACCATATCTGGGATA-TGGCATCGATACGAGATTTCC
39155698 ATGTAAGACCATATCTGGGATATGGCAT
1 -TGTAAGACCATATCTGGGATATGGCAT
39155726 TGGTGTGGTA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
42 61 0.64
43 35 0.36
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATACGAGATTTCC
Found at i:39158301 original size:40 final size:39
Alignment explanation
Indices: 39158163--39158307 Score: 130
Period size: 40 Copynumber: 3.6 Consensus size: 39
39158153 GCTACTCGTT
** * *
39158163 CAAATGCCTTCGGGAAATAGCCCGGTTATAGTAACTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
39158203 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * * *
39158243 CCAAGCCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAAGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
39158283 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
39158308 CATCATTCGA
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
38 2 0.02
39 20 0.24
40 60 0.71
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:39169022 original size:27 final size:26
Alignment explanation
Indices: 39168930--39169022 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 26
39168920 GACAGATAAG
* *
39168930 GAAAGCCTTTGTGGCATAATATGAAAA
1 GAAAGCCTTTGTGACGTAATATG-AAA
*
39168957 GATAA-CCTTTGTCACGTAATATGAAA
1 GA-AAGCCTTTGTGACGTAATATGAAA
* *
39168983 GAAAGCCTTTGTGACGTAAAATGAATT
1 GAAAGCCTTTGTGACGTAATATGAA-A
39169010 GAAAGCCTTTGTG
1 GAAAGCCTTTGTG
39169023 GCAAACCATG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
25 2 0.04
26 23 0.40
27 30 0.53
28 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.29
Consensus pattern (26 bp):
GAAAGCCTTTGTGACGTAATATGAAA
Found at i:39175816 original size:48 final size:48
Alignment explanation
Indices: 39175608--39176028 Score: 275
Period size: 48 Copynumber: 8.8 Consensus size: 48
39175598 AAAGGGTAAA
* * * *
39175608 ATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ACATA-ACCG
* * * * * *
39175658 GTGCCGATGCCATGTACCAGACATAGTCTTACATTGAC-ACATAGAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTACATA-ACCG
* * * * * * * **
39175706 ATACCGATGTCATGTTCCAAACATGGTTTTACACTGGCTCGCAT-ATTG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ACATAACCG
** *
39175754 A-GGTGAATGCCATGTCCCAGACATGGTCTTACACTGACTTACATAA-CA
1 ATGCCG-ATGCCATGTCCCAGACATGGTCTTACACTGAC-TACATAACCG
* * * * ** * *
39175802 ATGCTGATGTCATGTTCCAAACATGGTCTTACGTTGGCTCGCATAAACCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ACAT-AACCG
* * * **
39175852 GTGCTGATGCCATGTCCCAGACATTGTCTTACACTGAC-ACA-AATTG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTACATAACCG
* * *
39175898 AGGCCGATGCCATGTCCCAGACATGATCTTACACT-ACTCTCATAAACCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ACAT-AACCG
* * * * *
39175947 GTGCCGATGTCATGTCCCAAACATGGTCTTACATTGAC-ACAT-ATCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTACATAACCG
* * *
39175993 AGGCCAACGCCATGTCCCAGACATGGTCTTACACTG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
39176029 GCTCTCATAT
Statistics
Matches: 280, Mismatches: 77, Indels: 32
0.72 0.20 0.08
Matches are distributed among these distances:
45 2 0.01
46 65 0.23
47 4 0.01
48 102 0.36
49 39 0.14
50 68 0.24
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTACATAACCG
Found at i:39175976 original size:95 final size:97
Alignment explanation
Indices: 39175613--39176037 Score: 439
Period size: 96 Copynumber: 4.4 Consensus size: 97
39175603 GTAAAATGCT
* * *
39175613 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCGATGCCATGTACCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAACCGGTGCCGATGCCATGTCCCAG
* * * **
39175678 ACATAGTCTTACATTGACACATAGAACAATACC
66 ACATGGTCTTACACTGACACATA-ATCAAGGCC
* * * * * **** *
39175711 GATGTCATGTTCCAAACATGGTTTTACACTGGCTCGCATATTGAGGTG--AATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAACCGGTGCCGATGCCATGTCCCAG
* *
39175774 ACATGGTCTTACACTGACTTACATAA-CAATGCT
66 ACATGGTCTTACACTGAC--ACATAATCAAGGCC
* * * ** * *
39175807 GATGTCATGTTCCAAACATGGTCTTACGTTGGCTCGCATAAACCGGTGCTGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAACCGGTGCCGATGCCATGTCCCAG
* **
39175872 ACATTGTCTTACACTGACACA-AATTGAGGCC
66 ACATGGTCTTACACTGACACATAATCAAGGCC
* * * *
39175903 GATGCCATGTCCCAGACATGATCTTACACT-ACTCTCATAAACCGGTGCCGATGTCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAACCGGTGCCGATGCCATGTCCCAG
* *
39175967 ACATGGTCTTACATTGACACAT-ATCGAGGCC
66 ACATGGTCTTACACTGACACATAATCAAGGCC
* *
39175998 AACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
39176038 TCGTCATTGT
Statistics
Matches: 274, Mismatches: 46, Indels: 16
0.82 0.14 0.05
Matches are distributed among these distances:
95 85 0.31
96 113 0.41
97 1 0.00
98 75 0.27
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (97 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAACCGGTGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGACACATAATCAAGGCC
Found at i:39176761 original size:15 final size:15
Alignment explanation
Indices: 39176737--39176768 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
39176727 TTTGAGGTGG
*
39176737 TTTCATAAAAAATCC
1 TTTCAGAAAAAATCC
39176752 TTTCAGAAAAAATCC
1 TTTCAGAAAAAATCC
39176767 TT
1 TT
39176769 CCACAAAAGT
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:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (15 bp):
TTTCAGAAAAAATCC
Found at i:39176776 original size:15 final size:15
Alignment explanation
Indices: 39176743--39176776 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
39176733 GTGGTTTCAT
* *
39176743 AAAAAATCCTTTCAG
1 AAAAAATCCTTCCAC
39176758 AAAAAATCCTTCCAC
1 AAAAAATCCTTCCAC
39176773 AAAA
1 AAAA
39176777 GTTGTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.24, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAAATCCTTCCAC
Found at i:39183748 original size:28 final size:27
Alignment explanation
Indices: 39183684--39183808 Score: 187
Period size: 28 Copynumber: 4.6 Consensus size: 27
39183674 TTATTAAGTC
* *
39183684 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
39183711 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
39183739 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
39183767 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
39183794 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39183809 GCACAATTTA
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
27 40 0.44
28 50 0.55
29 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:39183797 original size:55 final size:55
Alignment explanation
Indices: 39183684--39183808 Score: 189
Period size: 55 Copynumber: 2.3 Consensus size: 55
39183674 TTATTAAGTC
* *
39183684 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCATACT
* * *
39183739 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATATTCA-ATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCATACT
39183794 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39183809 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 37 0.58
56 27 0.42
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCATACT
Found at i:39183827 original size:56 final size:56
Alignment explanation
Indices: 39183684--39183833 Score: 180
Period size: 56 Copynumber: 2.7 Consensus size: 56
39183674 TTATTAAGTC
* * * *
39183684 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAATCATACT
* * *
39183739 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATATTCA-ATT
1 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAATCATACT
* *
39183794 CGCACACTTAGTGCTGCACA-ATTTAAACCCGCACACTTAG
1 CGCACACTTAGTGCT--ACATAGTCAAACCCGCACACTTAG
39183834 CGCCAATCTC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
55 37 0.44
56 44 0.52
57 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAATCATACT
Found at i:39195385 original size:19 final size:20
Alignment explanation
Indices: 39195348--39195385 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
39195338 ATAAGGTGGT
39195348 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
39195368 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
39195386 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:39198909 original size:17 final size:18
Alignment explanation
Indices: 39198879--39198933 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
39198869 AATTATATTG
39198879 TTTAATAAATTAATCTTAT
1 TTTAATAAATTAAT-TTAT
39198898 TTTAA-AAA-TAATTTAT
1 TTTAATAAATTAATTTAT
39198914 TTCT--TAAACTTAATTTAT
1 TT-TAATAAA-TTAATTTAT
39198932 TT
1 TT
39198934 ATATTAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
16 9 0.28
17 5 0.16
18 13 0.41
19 5 0.16
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTAATAAATTAATTTAT
Found at i:39198913 original size:16 final size:19
Alignment explanation
Indices: 39198879--39198915 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
39198869 AATTATATTG
39198879 TTTAATAAATTAATCTTAT
1 TTTAATAAATTAATCTTAT
39198898 TTTAA-AAA-TAAT-TTAT
1 TTTAATAAATTAATCTTAT
39198914 TT
1 TT
39198916 CTTAAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
18 3 0.17
19 5 0.28
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTAATAAATTAATCTTAT
Found at i:39204468 original size:12 final size:12
Alignment explanation
Indices: 39204453--39204477 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39204443 ATGAAATAAA
39204453 TGATATAAATTT
1 TGATATAAATTT
39204465 TGATATAAATTT
1 TGATATAAATTT
39204477 T
1 T
39204478 TTGGAATTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGATATAAATTT
Found at i:39207169 original size:79 final size:79
Alignment explanation
Indices: 39207075--39207240 Score: 305
Period size: 79 Copynumber: 2.1 Consensus size: 79
39207065 ATGTGAGAGG
*
39207075 ACTTTGGTTCGAATCCCTTGGCACGCAAAGGTTGATTATTTTGCTATGTTGGGACGGTAAGAGTT
1 ACTTTGGTTCGAATCCCTTGGCACGCAAAGGTTGATTATTTTGCTATGTTGGGACGGCAAGAGTT
39207140 GATGTTGGTTTTAA
66 GATGTTGGTTTTAA
39207154 ACTTTGGTTCGAATCCCTTGGCACGCAAAGGTTGATTATTTTGCTATGTTGGGACGGCAAGAGTT
1 ACTTTGGTTCGAATCCCTTGGCACGCAAAGGTTGATTATTTTGCTATGTTGGGACGGCAAGAGTT
*
39207219 GGTGTTGGTTTTAA
66 GATGTTGGTTTTAA
*
39207233 ACTCTGGT
1 ACTTTGGT
39207241 GATGGAGGGA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 84 1.00
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.37
Consensus pattern (79 bp):
ACTTTGGTTCGAATCCCTTGGCACGCAAAGGTTGATTATTTTGCTATGTTGGGACGGCAAGAGTT
GATGTTGGTTTTAA
Found at i:39207568 original size:27 final size:27
Alignment explanation
Indices: 39207534--39207681 Score: 156
Period size: 27 Copynumber: 5.5 Consensus size: 27
39207524 TGGATAAGTT
39207534 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
** *
39207561 GTAGAATTATTGAAATACCCATGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
39207587 GATAGAATTACCGAAATACCTCTGT-AG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* * * *
39207614 GATAGAATTACTGAAATACCCTTATAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* * *
39207642 GTAGAAATACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
39207669 GTATAATTACCGA
1 GTAGAATTACCGA
39207682 TGTAAAATTA
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.03
27 97 0.95
28 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:39207612 original size:54 final size:54
Alignment explanation
Indices: 39207535--39207678 Score: 191
Period size: 54 Copynumber: 2.7 Consensus size: 54
39207525 GGATAAGTTG
* *
39207535 TAGAATTACCGAAATACCCCTGTAAGG-TAGAATTATTGAAATACCCATGTAGGA
1 TAGAATTACCGAAATACCCCTGT-AGGATAGAATTACTGAAATACCCATATAGGA
* * *
39207589 TAGAATTACCGAAATACCTCTGTAGGATAGAATTACTGAAATACCCTTATAGGG
1 TAGAATTACCGAAATACCCCTGTAGGATAGAATTACTGAAATACCCATATAGGA
* * * *
39207643 TAGAAATACCGAAATACCCCTATAGGGTATAATTAC
1 TAGAATTACCGAAATACCCCTGTAGGATAGAATTAC
39207679 CGATGTAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 3 0.04
54 76 0.96
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (54 bp):
TAGAATTACCGAAATACCCCTGTAGGATAGAATTACTGAAATACCCATATAGGA
Found at i:39208388 original size:27 final size:26
Alignment explanation
Indices: 39208344--39208395 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
39208334 CTCGCTGCAA
*
39208344 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
39208371 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
39208396 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:39213107 original size:43 final size:43
Alignment explanation
Indices: 39213044--39213212 Score: 163
Period size: 43 Copynumber: 4.0 Consensus size: 43
39213034 GAAAAGCTCG
*
39213044 TACAATGCCAAC-GTCCCAGACGTGGTCTTACATGTAAA-CAAA
1 TACAATGCCAACTGTCCCAGACGTGGTCTTACACG-AAATCAAA
39213086 TATCAATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAA
1 TA-CAATGCCAACTGTCCCAGAC-GTGGTCTTACACGAAATCAAA
* * * *
39213129 TACGATGCCGA-TGTCCCAGACATGGTCTTACACCTAAATCTCAAA
1 TACAATGCCAACTGTCCCAGACGTGGTCTTACA-CGAAA--TCAAA
* * *
39213174 T-CGATGCCAAC-GTCCCAGATGTGGACTTACACGAAATCA
1 TACAATGCCAACTGTCCCAGACGTGGTCTTACACGAAATCA
39213213 CATATCGAAA
Statistics
Matches: 108, Mismatches: 9, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
41 3 0.03
42 32 0.30
43 41 0.38
44 26 0.24
45 6 0.06
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
TACAATGCCAACTGTCCCAGACGTGGTCTTACACGAAATCAAA
Found at i:39220302 original size:13 final size:13
Alignment explanation
Indices: 39220284--39220313 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
39220274 CTCCTAATCC
39220284 TTTAATTTCATGT
1 TTTAATTTCATGT
39220297 TTTAATTTCATGT
1 TTTAATTTCATGT
39220310 TTTA
1 TTTA
39220314 TCCTAGGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (13 bp):
TTTAATTTCATGT
Found at i:39221564 original size:14 final size:13
Alignment explanation
Indices: 39221540--39221578 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
39221530 TGTTTTTAGC
39221540 TTAATTCTTCTTT
1 TTAATTCTTCTTT
*
39221553 TCTAATTTTTCTTT
1 T-TAATTCTTCTTT
39221567 TTAATTGCTTCT
1 TTAATT-CTTCT
39221579 GGCAGGTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.15, C:0.15, G:0.03, T:0.67
Consensus pattern (13 bp):
TTAATTCTTCTTT
Found at i:39225100 original size:34 final size:31
Alignment explanation
Indices: 39225045--39225112 Score: 75
Period size: 34 Copynumber: 2.1 Consensus size: 31
39225035 TTTTCTCCAC
*
39225045 ATTTTCTTTAATTTCATTTATGATTATTTTCTTT
1 ATTTTCTTTAATTTCAGTTATG--TA-TTTCTTT
*
39225079 ATTTTCTTT-CTTTCTAGTTATGTATTTCTTT
1 ATTTTCTTTAATTTC-AGTTATGTATTTCTTT
39225110 ATT
1 ATT
39225113 CATTTTTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 10 0.32
32 2 0.06
33 4 0.13
34 15 0.48
ACGTcount: A:0.18, C:0.10, G:0.04, T:0.68
Consensus pattern (31 bp):
ATTTTCTTTAATTTCAGTTATGTATTTCTTT
Found at i:39231994 original size:76 final size:76
Alignment explanation
Indices: 39231898--39232051 Score: 272
Period size: 76 Copynumber: 2.0 Consensus size: 76
39231888 TCCTTACTAA
* * * *
39231898 TCATACAACATGAATTGAATTCACACCTCATCAATTTCATGTAAGTACCTGTACCACTCACAATA
1 TCATACAACAAGAATTGAATTCACACATCATCAATTTCATGCAAGTACCTGTACCACTCACAACA
39231963 TAGCCATAAGT
66 TAGCCATAAGT
39231974 TCATACAACAAGAATTGAATTCACACATCATCAATTTCATGCAAGTACCTGTACCACTCACAACA
1 TCATACAACAAGAATTGAATTCACACATCATCAATTTCATGCAAGTACCTGTACCACTCACAACA
39232039 TAGCCATAAGT
66 TAGCCATAAGT
39232050 TC
1 TC
39232052 TATCATTTTG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.27
Consensus pattern (76 bp):
TCATACAACAAGAATTGAATTCACACATCATCAATTTCATGCAAGTACCTGTACCACTCACAACA
TAGCCATAAGT
Found at i:39232299 original size:98 final size:97
Alignment explanation
Indices: 39232189--39232372 Score: 255
Period size: 98 Copynumber: 1.9 Consensus size: 97
39232179 CATCTAAGTT
* *
39232189 GATGCCATGTCCCAGATAGGTCTTACACTGACTT-C-TATATATCGAGGCCAATGCAATATCCCA
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTGCATATATA-AG-GGCCAATGC-ATATCCCA
* *
39232252 GATAAGTCTTACATTGGCTCTCATCTATCGGTGTC
63 GACAAGTCTTACACTGGCTCTCATCTATCGGTGTC
* * *
39232287 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTGCATATCTAAGGGCCGATGCATATCCCAGAC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTGCATATATAAGGGCCAATGCATATCCCAGAC
*
39232352 ATGTCTTACACTGGCTCTCAT
66 AAGTCTTACACTGGCTCTCAT
39232373 AATATGGCCA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
97 29 0.38
98 40 0.53
99 2 0.03
100 5 0.07
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (97 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTGCATATATAAGGGCCAATGCATATCCCAGAC
AAGTCTTACACTGGCTCTCATCTATCGGTGTC
Found at i:39232362 original size:48 final size:46
Alignment explanation
Indices: 39232189--39232405 Score: 168
Period size: 49 Copynumber: 4.5 Consensus size: 46
39232179 CATCTAAGTT
* * * *
39232189 GATGCCATGTCCCAGATAGGTCTTACACTGACT-TCTATATATCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTGGCTCTC-ATA-ATAG-GGCC
* * * * * * * *
39232238 AATGCAATATCCCAGATAAGTCTTACATTGGCTCTCATCTATCGGTGTC
1 GATGC-ATGTCCCAGACATGTCTTACACTGGCTCTCAT-AATAGG-GCC
* *
39232287 GATGCCATGTCCCAGACAGGTCTTACACTGGCT-TGCATATCTAAGGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTGGCTCT-CATA-AT-AGGGCC
* *
39232336 GATGCATATCCCAGACATGTCTTACACTGGCTCTCATAATATGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATAGGGCC
*
39232382 AATGCATGTCCCAGACATGTCTTA
1 GATGCATGTCCCAGACATGTCTTA
39232406 GACTAGCGCA
Statistics
Matches: 137, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
46 27 0.20
47 1 0.01
48 33 0.24
49 71 0.52
50 5 0.04
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATAGGGCC
Found at i:39233779 original size:36 final size:34
Alignment explanation
Indices: 39233695--39233768 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 34
39233685 ATTCCCACGT
*
39233695 CAAAT-TAAA-AGAGAAAAGAAAATAATTCAATTC
1 CAAATGTAAATAG-GAAAAGAAAATAATGCAATTC
39233728 CAAATGTAAATAGGAAAAGAGAGAATAATGCAATTC
1 CAAATGTAAATAGGAAAAGA-A-AATAATGCAATTC
*
39233764 TAAAT
1 CAAAT
39233769 TGAAGTAGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 5 0.14
34 11 0.31
35 3 0.09
36 16 0.46
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.22
Consensus pattern (34 bp):
CAAATGTAAATAGGAAAAGAAAATAATGCAATTC
Found at i:39239340 original size:36 final size:34
Alignment explanation
Indices: 39239285--39239357 Score: 101
Period size: 36 Copynumber: 2.1 Consensus size: 34
39239275 AATTGAAAGA
*
39239285 GAAAAGAAAATAATTCAATTCCAAATGGAAATAG
1 GAAAAGAAAATAATCCAATTCCAAATGGAAATAG
* *
39239319 GAAAAGAGAGAATAATCCAATTCCAAATTGAAGTAG
1 GAAAAGA-A-AATAATCCAATTCCAAATGGAAATAG
39239355 GAA
1 GAA
39239358 TACAAAAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 7 0.21
35 1 0.03
36 26 0.76
ACGTcount: A:0.53, C:0.10, G:0.18, T:0.19
Consensus pattern (34 bp):
GAAAAGAAAATAATCCAATTCCAAATGGAAATAG
Found at i:39240140 original size:20 final size:18
Alignment explanation
Indices: 39240103--39240153 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
39240093 CTATAGCAAC
39240103 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
39240120 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
39240140 TTACAACTTTACAA
1 TCACAA-TTTACAA
39240154 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:39242873 original size:30 final size:30
Alignment explanation
Indices: 39242812--39242876 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
39242802 TCATCAAAAA
** *
39242812 CATATCATTCATTTCAGACAAACTGACATT
1 CATATCATTCATTTCAGACAAACCAAAATT
39242842 CATATCATTCATTTCAGACAAACCAAAATT
1 CATATCATTCATTTCAGACAAACCAAAATT
39242872 CATAT
1 CATAT
39242877 TTGTTTTACG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (30 bp):
CATATCATTCATTTCAGACAAACCAAAATT
Found at i:39245866 original size:49 final size:47
Alignment explanation
Indices: 39245802--39246025 Score: 233
Period size: 49 Copynumber: 4.7 Consensus size: 47
39245792 ACATATCTAA
*
39245802 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACT-TACATATGTCGAG
1 GTCGATG-CATGTCCCAGACAGGTCTTACACTGGCTCT-CATATGTCG-G
* * *
39245851 G-CTGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATTGG
1 GTC-GATG-CATGTCCCAGACAGGTCTTACACTGGCTCTCATATGTCGG
* *
39245899 TGTCAATGACATGTCCCAGACAGGTCTTACACTGGCT-TGCATATCTCGAG
1 -GTCGATG-CATGTCCCAGACAGGTCTTACACTGGCTCT-CATATGTCG-G
* **
39245949 GTCGATGCATGTCCCAGACATGAGTTACACTGGCTCTCATAATGT--G
1 GTCGATGCATGTCCCAGACAGGTCTTACACTGGCTCTCAT-ATGTCGG
*
39245995 GTCGATGCATGTCCCAGACATGTCTTACACT
1 GTCGATGCATGTCCCAGACAGGTCTTACACT
39246026 AGCGCAAATA
Statistics
Matches: 151, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
46 30 0.20
48 31 0.21
49 87 0.58
50 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (47 bp):
GTCGATGCATGTCCCAGACAGGTCTTACACTGGCTCTCATATGTCGG
Found at i:39245919 original size:98 final size:94
Alignment explanation
Indices: 39245810--39246025 Score: 283
Period size: 98 Copynumber: 2.3 Consensus size: 94
39245800 AAGTCGATGC
*
39245810 CATGTCCCAGACAGGTCTTACACTGACTTACATATGTCGAGG-CTGATGCCATGTCCCAGACAGG
1 CATGTCCCAGACAGGTCTTACACTGACTTACATATCTCGAGGTC-GATG-CATGTCCCAGACAGG
* *
39245874 TCTTACACTGGCTCTCATCTAT-TGGTGTCAATG
64 ACTTACACTGGCTCTCAT-AATGT-G-GTCAATG
* * *
39245907 ACATGTCCCAGACAGGTCTTACACTGGCTTGCATATCTCGAGGTCGATGCATGTCCCAGACATGA
1 -CATGTCCCAGACAGGTCTTACACTGACTTACATATCTCGAGGTCGATGCATGTCCCAGACAGGA
* *
39245972 GTTACACTGGCTCTCATAATGTGGTCGATG
65 CTTACACTGGCTCTCATAATGTGGTCAATG
*
39246002 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACAGGTCTTACACT
39246026 AGCGCAAATA
Statistics
Matches: 107, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
94 23 0.21
95 6 0.06
96 3 0.03
97 31 0.29
98 43 0.40
99 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACAGGTCTTACACTGACTTACATATCTCGAGGTCGATGCATGTCCCAGACAGGAC
TTACACTGGCTCTCATAATGTGGTCAATG
Found at i:39246716 original size:20 final size:18
Alignment explanation
Indices: 39246679--39246729 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
39246669 CTATAGCAAC
39246679 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
39246696 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
39246716 TTACAACTTTACAA
1 TCACAA-TTTACAA
39246730 ACTAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:39247774 original size:43 final size:42
Alignment explanation
Indices: 39247705--39247861 Score: 142
Period size: 43 Copynumber: 3.6 Consensus size: 42
39247695 ATCTTGAACA
39247705 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ATGTCCCAGACAG-GGTCTTACATGTAATCAAATATCG
* * * *
39247748 ATGCCACTGTCCCAAACAGGGCCTTACACGAAATCAAATA-CG
1 ATGCCA-TGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
* * *
39247790 ATGCCGATATCCCAGACATGGTCTTACATGTAAATCTCAA-ATCG
1 ATGCC-ATGTCCCAGACAGGGTCTTACATGT-AATC-AAATATCG
*
39247834 ATGCCAAGGTCCCAGAC-GTGGTCTTACA
1 ATGCC-ATGTCCCAGACAG-GGTCTTACA
39247862 CGAAATTACA
Statistics
Matches: 92, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 26 0.28
43 38 0.41
44 28 0.30
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCATGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
Found at i:39247867 original size:86 final size:85
Alignment explanation
Indices: 39247705--39247867 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
39247695 ATCTTGAACA
* * **
39247705 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAGGGC
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAAGGTCCCAAACAGGGC
39247770 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* * *
39247790 ATGCCGATATCCCAGACATGGTCTTACATGTAAATCTCAA-ATCGATGCCAAGGTCCCAGAC-GT
1 ATGCCAATATCCCAGACATGGTCTTACATGT-AATC-AAATATCGATGCCAAGGTCCCAAACAG-
*
39247853 GGTCTTACACGAAAT
63 GGCCTTACACGAAAT
39247868 TACATACCGA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
85 29 0.43
86 36 0.54
87 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (85 bp):
ATGCCAATATCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAAGGTCCCAAACAGGGC
CTTACACGAAATCAAATACG
Found at i:39250843 original size:15 final size:17
Alignment explanation
Indices: 39250808--39250846 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
39250798 TCATTTCTTG
39250808 CTTTTGTTCTTTTTAATT
1 CTTTT-TTCTTTTTAATT
39250826 CTTTTTTC-TTTT-ATT
1 CTTTTTTCTTTTTAATT
39250841 CTTTTT
1 CTTTTT
39250847 ATTGATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 4 0.19
17 3 0.14
18 5 0.24
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.77
Consensus pattern (17 bp):
CTTTTTTCTTTTTAATT
Found at i:39252398 original size:17 final size:19
Alignment explanation
Indices: 39252378--39252418 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
39252368 ATATAATTTT
*
39252378 AAAATATA-T-AATACATC
1 AAAATATACTAAAAACATC
39252395 AAAA-ATACTAAAAACATC
1 AAAATATACTAAAAACATC
39252413 AAAATA
1 AAAATA
39252419 AATATTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 5 0.25
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAACATC
Found at i:39252533 original size:30 final size:30
Alignment explanation
Indices: 39252499--39252561 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
39252489 ACTTAAAAAT
39252499 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
39252529 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
39252559 CAA
1 CAA
39252562 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:39253162 original size:24 final size:23
Alignment explanation
Indices: 39253127--39253200 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 23
39253117 TAAATTCCTT
39253127 TACGTCCCATAAATGGCTCTCATA
1 TACGTCCCATAAA-GGCTCTCATA
* *
39253151 TACGTCCAATAAAGGACTCTTATA
1 TACGTCCCATAAAGG-CTCTCATA
*
39253175 TACGTCCCATAAAGGGCACTCATA
1 TACGTCCCATAAA-GGCTCTCATA
39253199 TA
1 TA
39253201 ATAGTGCGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 2 0.05
24 39 0.91
25 2 0.05
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (23 bp):
TACGTCCCATAAAGGCTCTCATA
Found at i:39255039 original size:25 final size:24
Alignment explanation
Indices: 39255011--39255059 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
39255001 TTTCTATCAT
39255011 ATTACTAA-ATTTACAATTAAAAATA
1 ATTA-TAATATTTA-AATTAAAAATA
*
39255036 ATTATAATATTTAATTTAAAAATA
1 ATTATAATATTTAAATTAAAAATA
39255060 TTAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTATAATATTTAAATTAAAAATA
Found at i:39255067 original size:13 final size:15
Alignment explanation
Indices: 39255041--39255072 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
39255031 AAATAATTAT
39255041 AATATTTAATTTAAA
1 AATATTTAATTTAAA
39255056 AATA-TTAA-TTAAA
1 AATATTTAATTTAAA
39255069 AATA
1 AATA
39255073 AAATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 4 0.24
15 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATTTAATTTAAA
Found at i:39255573 original size:13 final size:15
Alignment explanation
Indices: 39255539--39255575 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
39255529 TAATTATCAC
39255539 TTAATTAATATTAGAG
1 TTAATT-ATATTAGAG
39255555 TTAATTATATTA-A-
1 TTAATTATATTAGAG
39255568 TTAATTAT
1 TTAATTAT
39255576 CAGTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 1 0.05
15 6 0.29
16 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
TTAATTATATTAGAG
Found at i:39262444 original size:49 final size:49
Alignment explanation
Indices: 39262379--39262643 Score: 205
Period size: 49 Copynumber: 5.6 Consensus size: 49
39262369 CATCAAAGTC
*
39262379 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCATGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCATGGCT
* * * **
39262428 GATGTCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAATATC-
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATC-ATGGCT
* * * * * *
39262477 GATGCCATGTCCCCGACAGGTCTTACATTGA--CACACA-A-CA-AGTT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCATGGCT
* * * * *
39262521 GACGCCATGTCCCAGACAGGTCTTACACT-AC-CTTGTATATCTCAAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTC-T-CATATATCATGGCT
* * *
39262570 GATG-CATGTCCCAGACATGTCTTACACT-AGCTCTCGTA-AT-GTGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCATGGCT
* *
39262616 GATG-CAGGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
39262644 AGCACACATA
Statistics
Matches: 172, Mismatches: 34, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
43 2 0.01
44 28 0.16
45 1 0.01
46 33 0.19
47 4 0.02
48 28 0.16
49 72 0.42
50 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCATGGCT
Found at i:39262531 original size:98 final size:91
Alignment explanation
Indices: 39262335--39262549 Score: 202
Period size: 98 Copynumber: 2.3 Consensus size: 91
39262325 GATGTCGACG
39262335 CCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACAGGT
1 CCATGTCCCAGACA-GGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACAGGT
*** * *
39262400 CTTACACTGACTTTCATATATCATGGCTGAT
65 CTTACACTGACACACATACAACAT-G--G-T
* ** *
39262431 GTCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAATA-TCGATGCCATGTCCCCGACA
1 -CCATGTCCCAGACAGGTCTTACACTGGCTAGCA-C-ATCAA-AGTCGATGCCATGTCCCAGACA
* **
39262495 GGTCTTACATTGACACACA-ACAAGTTGACG-
62 GGTCTTACACTGACACACATACAACATG--GT
39262525 CCATGTCCCAGACAGGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
39262550 ACCTTGTATA
Statistics
Matches: 100, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
93 24 0.24
96 19 0.19
97 17 0.17
98 39 0.39
99 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (91 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACAGGTC
TTACACTGACACACATACAACATGGT
Found at i:39262586 original size:48 final size:46
Alignment explanation
Indices: 39262526--39262646 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 46
39262516 AAGTTGACGC
* *
39262526 CATGTCCCAGACAGGTCTTACACTA-C-CTTGTATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTA-ATCT---GGCCGATG
* *
39262574 CATGTCCCAGACATGTCTTACACTAGCTCTCGTAATGTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTAATCTGGCCGATG
*
39262620 CAGGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
39262647 ACACATATCA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
46 33 0.50
48 24 0.36
49 4 0.06
50 5 0.08
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTAATCTGGCCGATG
Found at i:39264716 original size:35 final size:35
Alignment explanation
Indices: 39264670--39264741 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
39264660 CCTGAAGACA
39264670 TAGAAGGAATCCAAACTATGTAACCAAGTTTCTAG
1 TAGAAGGAATCCAAACTATGTAACCAAGTTTCTAG
39264705 TAGAAGGAATCCAAACTATGTAACCAAGTTTCTAG
1 TAGAAGGAATCCAAACTATGTAACCAAGTTTCTAG
39264740 TA
1 TA
39264742 TTCATATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (35 bp):
TAGAAGGAATCCAAACTATGTAACCAAGTTTCTAG
Found at i:39265726 original size:21 final size:21
Alignment explanation
Indices: 39265697--39265736 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
39265687 AAATTGCTTG
39265697 AAATATAAATAAAAATTAACA
1 AAATATAAATAAAAATTAACA
* **
39265718 AAATTTAAATCCAAATTAA
1 AAATATAAATAAAAATTAA
39265737 GTCTTTGTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATATAAATAAAAATTAACA
Found at i:39267025 original size:25 final size:24
Alignment explanation
Indices: 39266983--39267043 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
39266973 TTTTTTTTAA
*
39266983 TATTTG-TTT-TTATGTTTTAAATG
1 TATTTGATTTATTATATTTTAAA-G
39267006 TATTTGATTTATTATATTTTAAAG
1 TATTTGATTTATTATATTTTAAAG
* *
39267030 TTTTTTATTTATTA
1 TATTTGATTTATTA
39267044 AAAAAAGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.18
24 16 0.48
25 11 0.33
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (24 bp):
TATTTGATTTATTATATTTTAAAG
Found at i:39273062 original size:19 final size:18
Alignment explanation
Indices: 39273010--39273062 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
39273000 TCAGGAGTAC
*
39273010 TGAAGTACAACAGGGGCA
1 TGAAGTGCAACAGGGGCA
* *
39273028 TGTATGTGCGAACAGGGGTA
1 TG-AAGTGC-AACAGGGGCA
39273048 TCGAAGTGCAACAGG
1 T-GAAGTGCAACAGG
39273063 TATCTTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 2 0.07
19 10 0.36
20 15 0.54
21 1 0.04
ACGTcount: A:0.32, C:0.15, G:0.36, T:0.17
Consensus pattern (18 bp):
TGAAGTGCAACAGGGGCA
Found at i:39291589 original size:13 final size:13
Alignment explanation
Indices: 39291571--39291597 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39291561 GCTCGGTAGG
39291571 GACACGCCCGTGT
1 GACACGCCCGTGT
39291584 GACACGCCCGTGT
1 GACACGCCCGTGT
39291597 G
1 G
39291598 CGATTGCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:39293147 original size:33 final size:34
Alignment explanation
Indices: 39293078--39293149 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
39293068 AACAGTGCAT
* ** *
39293078 ACAGTAACGGTCTGGGCCTGAACCCTATTTATTA
1 ACAGTAACAGTCTGGGCCTGAACCCTATGCAGTA
39293112 ACAGT-ACAGTCTGGGCCT-AAGCCCTATGCAGTA
1 ACAGTAACAGTCTGGGCCTGAA-CCCTATGCAGTA
39293145 ACAGT
1 ACAGT
39293150 GTGGGCCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 2 0.06
33 26 0.79
34 5 0.15
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (34 bp):
ACAGTAACAGTCTGGGCCTGAACCCTATGCAGTA
Found at i:39293171 original size:28 final size:28
Alignment explanation
Indices: 39293111--39293172 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
39293101 CCTATTTATT
*
39293111 AACAGT-ACAGTCTGGGCCTAAGCCCTA
1 AACAGTAACAGTCTGGGCCTAAGCCCAA
** * *
39293138 TGCAGTAACAGTGTGGGCCTATGCCCAA
1 AACAGTAACAGTCTGGGCCTAAGCCCAA
39293166 AACAGTA
1 AACAGTA
39293173 TAATCACAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (28 bp):
AACAGTAACAGTCTGGGCCTAAGCCCAA
Found at i:39306888 original size:55 final size:55
Alignment explanation
Indices: 39306770--39306890 Score: 145
Period size: 55 Copynumber: 2.2 Consensus size: 55
39306760 GTATGCAGGC
* * * *
39306770 GCACGCCCGTGTTAAATTGACAGGTTCGACCACGGGTTCTAGACACGGGCGTGAT
1 GCACGCCCGTGCTAAATTCACAAGTTCAACCACGGGTTCTAGACACGGGCGTGAT
* * * * *
39306825 GAATGCCCGTGCTATATTCTCAAGTTCAACCAC-GGTTCTACGACACGGGCGTGTT
1 GCACGCCCGTGCTAAATTCACAAGTTCAACCACGGGTTCTA-GACACGGGCGTGAT
39306880 GCACGCCCGTG
1 GCACGCCCGTG
39306891 TTGTTTTGGT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 7 0.13
55 47 0.87
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.23
Consensus pattern (55 bp):
GCACGCCCGTGCTAAATTCACAAGTTCAACCACGGGTTCTAGACACGGGCGTGAT
Found at i:39310600 original size:27 final size:26
Alignment explanation
Indices: 39310569--39310746 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
39310559 TAAATTGTAC
39310569 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
39310596 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
39310622 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
39310650 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
39310678 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
39310705 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
39310732 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39310747 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:39310685 original size:82 final size:81
Alignment explanation
Indices: 39310570--39310725 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
39310560 AAATTGTACA
* *
39310570 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39310634 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
39310651 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39310716 TGCGAGTTGA
65 TGCGAATTGA
39310726 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39310737 original size:82 final size:81
Alignment explanation
Indices: 39310566--39310746 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
39310556 GATTAAATTG
* *
39310566 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39310631 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
39310647 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39310711 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39310729 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39310747 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39310757 original size:27 final size:27
Alignment explanation
Indices: 39310651--39310757 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
39310641 TGACCATGCG
* * * *
39310651 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
39310679 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
39310706 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
39310733 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
39310758 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:39314307 original size:13 final size:13
Alignment explanation
Indices: 39314289--39314314 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39314279 GCTCGACAGG
39314289 GACACGCCCATGT
1 GACACGCCCATGT
39314302 GACACGCCCATGT
1 GACACGCCCATGT
39314315 ACGATTGCTT
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:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:39314996 original size:96 final size:96
Alignment explanation
Indices: 39314829--39315018 Score: 353
Period size: 96 Copynumber: 2.0 Consensus size: 96
39314819 AGGCTGAACA
*
39314829 CGACCCTGTCCTGCAGCTTGCATCTAAGTAAACCCCTGAGTACAGTTCTTAAACTGATGATCCAT
1 CGACCCTGTCCTGCAACTTGCATCTAAGTAAACCCCTGAGTACAGTTCTTAAACTGATGATCCAT
* *
39314894 AGACCCATATCTAAAGCATGCCCCAGTTCGT
66 AAACCCACATCTAAAGCATGCCCCAGTTCGT
39314925 CGACCCTGTCCTGCAACTTGCATCTAAGTAAACCCCTGAGTACAGTTCTTAAACTGATGATCCAT
1 CGACCCTGTCCTGCAACTTGCATCTAAGTAAACCCCTGAGTACAGTTCTTAAACTGATGATCCAT
39314990 AAACCCACATCTAAAGCATGCCCCAGTTC
66 AAACCCACATCTAAAGCATGCCCCAGTTC
39315019 ATTTCCAACA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.25
Consensus pattern (96 bp):
CGACCCTGTCCTGCAACTTGCATCTAAGTAAACCCCTGAGTACAGTTCTTAAACTGATGATCCAT
AAACCCACATCTAAAGCATGCCCCAGTTCGT
Found at i:39318822 original size:22 final size:22
Alignment explanation
Indices: 39318791--39318855 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
39318781 AATACGTTTG
* *
39318791 GCACAAAGCCATAGTCTAGATT
1 GCACAGAGCCATAATCTAGATT
* * *
39318813 GCACAGAGCCAT-TTTTAGGTT
1 GCACAGAGCCATAATCTAGATT
39318834 GTCACAGAGCCATAATC-AGATT
1 G-CACAGAGCCATAATCTAGATT
39318856 ACGCGACTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 7 0.21
22 26 0.76
23 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (22 bp):
GCACAGAGCCATAATCTAGATT
Found at i:39323471 original size:48 final size:48
Alignment explanation
Indices: 39323381--39323521 Score: 140
Period size: 48 Copynumber: 2.9 Consensus size: 48
39323371 GGGATACATA
* * **
39323381 GATTTGGCTTTGGGCCATGATATCGGCACTTCAGGTTTGAGATTCATT
1 GATTTGGCTTTGGGCCATGATATCAGCACTTCGGGTGCGAGATTCATT
*
39323429 GATTTGGCTTTGGGCCATGATATTAGCACTTCGGGTGCGAGATAT-ATT
1 GATTTGGCTTTGGGCCATGATATCAGCACTTCGGGTGCGAGAT-TCATT
* * * * * * * * *
39323477 AAGTTGGCTTCGGGTCATAATATGAGCACTTAGTGTGCGAAATTC
1 GATTTGGCTTTGGGCCATGATATCAGCACTTCGGGTGCGAGATTC
39323522 CTAAGTATCC
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 1 0.01
48 75 0.97
49 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.35
Consensus pattern (48 bp):
GATTTGGCTTTGGGCCATGATATCAGCACTTCGGGTGCGAGATTCATT
Found at i:39326289 original size:19 final size:20
Alignment explanation
Indices: 39326265--39326315 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
39326255 TAATAAAGTT
39326265 AAAATAATAAAAT-GAAA-A
1 AAAATAATAAAATGGAAAGA
*
39326283 CAAAAT-AGAAAATGGAAAGA
1 -AAAATAATAAAATGGAAAGA
*
39326303 AAAATATTAAAAT
1 AAAATAATAAAAT
39326316 TGTGGATGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 6 0.23
19 14 0.54
20 6 0.23
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.18
Consensus pattern (20 bp):
AAAATAATAAAATGGAAAGA
Found at i:39329600 original size:17 final size:17
Alignment explanation
Indices: 39329570--39329603 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
39329560 AAACCTGATG
39329570 GGGCCCACGAGCCCATT
1 GGGCCCACGAGCCCATT
39329587 GGGCCACACG-GCCCATT
1 GGGCC-CACGAGCCCATT
39329604 TAAGCCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.18, C:0.41, G:0.29, T:0.12
Consensus pattern (17 bp):
GGGCCCACGAGCCCATT
Found at i:39332847 original size:35 final size:36
Alignment explanation
Indices: 39332775--39332847 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
39332765 TGTATGCTAG
*
39332775 TATATTTTCTTCAATTTATACGTTGATGCACTATGTA
1 TATATTTTCTTCAATTTATACATTGATGCAC-ATGTA
* *
39332812 TATATTTTCTTCGATTTATCCATTGATGCAC-TGTA
1 TATATTTTCTTCAATTTATACATTGATGCACATGTA
39332847 T
1 T
39332848 GTGCCAGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 5 0.15
37 28 0.85
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (36 bp):
TATATTTTCTTCAATTTATACATTGATGCACATGTA
Found at i:39334190 original size:27 final size:28
Alignment explanation
Indices: 39334160--39334300 Score: 136
Period size: 27 Copynumber: 5.2 Consensus size: 28
39334150 ATGACGAAGT
*
39334160 CACCAGATATAGATAT-TGT-GCTAGAGC
1 CACCAGATACAGATATATGTGGC-AGAGC
39334187 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
* *
39334214 CACCAGAT-TAGATA-ATTGTGGCATAGC
1 CACCAGATACAGATATA-TGTGGCAGAGC
* *
39334241 CACCAG-GACAGATATATGTGGTAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
* *
39334268 CACCAGAT-CAGATAAATGAGGCATG-GC
1 CACCAGATACAGATATATGTGGCA-GAGC
39334295 CACCAG
1 CACCAG
39334301 GACGCTTCCT
Statistics
Matches: 95, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
26 8 0.08
27 83 0.87
28 4 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (28 bp):
CACCAGATACAGATATATGTGGCAGAGC
Found at i:39334232 original size:54 final size:54
Alignment explanation
Indices: 39334160--39334300 Score: 180
Period size: 54 Copynumber: 2.6 Consensus size: 54
39334150 ATGACGAAGT
39334160 CACCAGATATAGAT-ATTGT-GCTAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-TAGATAATTGTGGC-AGAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
39334214 CACCAGATTAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGTAGAGC
1 CACCAGATTAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
39334268 CACCAGATCAGATAAATGAGGCATG-GCCACCAG
1 CACCAGATTAGATAATTGTGGCA-GAGCCACCAG
39334301 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
53 5 0.06
54 70 0.91
55 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (54 bp):
CACCAGATTAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:39334301 original size:54 final size:54
Alignment explanation
Indices: 39334184--39334303 Score: 186
Period size: 54 Copynumber: 2.2 Consensus size: 54
39334174 ATTGTGCTAG
* * * *
39334184 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATTAGATAATTGTGGCAT
1 AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAAATGAGGCAT
*
39334238 AGCCACCAGGACAGATATATGTGGTAGAGCCACCAGATCAGATAAATGAGGCAT
1 AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAAATGAGGCAT
*
39334292 GGCCACCAGGAC
1 AGCCACCAGGAC
39334304 GCTTCCTCCA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.17
Consensus pattern (54 bp):
AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAAATGAGGCAT
Found at i:39343565 original size:42 final size:42
Alignment explanation
Indices: 39343506--39343589 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
39343496 AACATAAACA
*
39343506 AGAAATTTAAAGAGAAGGGAACTAGGAAGCAAATCCAGGATT
1 AGAAATTTAAAGAGAAGGGAACTAGGAAGCAAATCCAAGATT
39343548 AGAAATTTAAAGAGAAGGGAACTAGGAAGCAAATCCAAGATT
1 AGAAATTTAAAGAGAAGGGAACTAGGAAGCAAATCCAAGATT
39343590 TCTCTGAAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.49, C:0.10, G:0.25, T:0.17
Consensus pattern (42 bp):
AGAAATTTAAAGAGAAGGGAACTAGGAAGCAAATCCAAGATT
Found at i:39365157 original size:16 final size:16
Alignment explanation
Indices: 39365136--39365168 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
39365126 TAAAGTCGAT
39365136 GATTTTGAAAATTGAG
1 GATTTTGAAAATTGAG
39365152 GATTTTGAAAATTGAG
1 GATTTTGAAAATTGAG
39365168 G
1 G
39365169 TATCGGGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (16 bp):
GATTTTGAAAATTGAG
Found at i:39365572 original size:38 final size:38
Alignment explanation
Indices: 39365521--39365599 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
39365511 AAAGAAAGAT
39365521 ATTGAAATAGTGGATGGTAAGAGAGAGTTTTCTTTCTC
1 ATTGAAATAGTGGATGGTAAGAGAGAGTTTTCTTTCTC
39365559 ATTGAAATAGTGGATGGTAAGAGAGAGTTTTCTTTCTC
1 ATTGAAATAGTGGATGGTAAGAGAGAGTTTTCTTTCTC
39365597 ATT
1 ATT
39365600 TTTTTTCATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (38 bp):
ATTGAAATAGTGGATGGTAAGAGAGAGTTTTCTTTCTC
Found at i:39380558 original size:6 final size:6
Alignment explanation
Indices: 39380549--39380647 Score: 65
Period size: 6 Copynumber: 16.0 Consensus size: 6
39380539 CATTTTCATA
* * * **
39380549 TTTTTC TTTTTC AATTTTC TTTTCTTC ATTTTC TTTTTC TCTCAC TTTTTC
1 TTTTTC TTTTTC -TTTTTC -TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC
* * * **
39380600 GTTTTC TTTTTC TTTTT- TGTTCTC TTTTTC TTCTTC ACTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC
39380648 GAATTCATTA
Statistics
Matches: 68, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
5 1 0.01
6 54 0.79
7 10 0.15
8 3 0.04
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (6 bp):
TTTTTC
Found at i:39380614 original size:18 final size:18
Alignment explanation
Indices: 39380549--39380647 Score: 72
Period size: 18 Copynumber: 5.3 Consensus size: 18
39380539 CATTTTCATA
39380549 TTTTTCTTTTTCAATTTTC
1 TTTTTCTTTTTC-ATTTTC
* *
39380568 TTTTCTTCATTTTCTTTTTC
1 -TTT-TTCTTTTTCATTTTC
* ** *
39380588 TCTCACTTTTTCGTTTTC
1 TTTTTCTTTTTCATTTTC
** *
39380606 TTTTTCTTTTTTGTTCTC
1 TTTTTCTTTTTCATTTTC
* *
39380624 TTTTTCTTCTTCACTTTC
1 TTTTTCTTTTTCATTTTC
39380642 TTTTTC
1 TTTTTC
39380648 GAATTCATTA
Statistics
Matches: 61, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
18 43 0.70
19 2 0.03
20 8 0.13
21 8 0.13
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTTCTTTTTCATTTTC
Found at i:39386786 original size:20 final size:20
Alignment explanation
Indices: 39386749--39386801 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
39386739 TTTTACAAAC
* *
39386749 TAAAATAT-AATCTTAAAAA
1 TAAAATATAAATATCAAAAA
* *
39386768 TTAAATCTAAATATCAAAAA
1 TAAAATATAAATATCAAAAA
39386788 TAAAATATAAATAT
1 TAAAATATAAATAT
39386802 ATAATATACA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATATAAATATCAAAAA
Found at i:39389646 original size:61 final size:61
Alignment explanation
Indices: 39389581--39389776 Score: 189
Period size: 61 Copynumber: 3.2 Consensus size: 61
39389571 TTGCTGTATG
* * * *
39389581 TGAGCCATTGTGGTGAAAAATTTTATATGTGAAAGCTTTTGCGGCTATTATCTACTATAAT-
1 TGAGCCTTTGTGGTGAAAAATGTTATATATGAAAGCCTTTGCGGCTATTATCTACTAT-ATC
* * * * * * *
39389642 TGAGCCTTTGTGGTGGAATATGTTATATATGGAAGCCTTTGTGGCTGTTCTCTATTATATC
1 TGAGCCTTTGTGGTGAAAAATGTTATATATGAAAGCCTTTGCGGCTATTATCTACTATATC
* * * * * * **
39389703 TGAGCCTTTGTGGT-AGAACATGTTATATACGAAAGCCTTTGTGGTTGTTCTCTGTTATATC
1 TGAGCCTTTGTGGTGA-AAAATGTTATATATGAAAGCCTTTGCGGCTATTATCTACTATATC
39389764 TGAGCCTTTGTGG
1 TGAGCCTTTGTGG
39389777 AGTAATATTT
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
60 2 0.02
61 114 0.98
ACGTcount: A:0.22, C:0.13, G:0.23, T:0.41
Consensus pattern (61 bp):
TGAGCCTTTGTGGTGAAAAATGTTATATATGAAAGCCTTTGCGGCTATTATCTACTATATC
Found at i:39389679 original size:31 final size:31
Alignment explanation
Indices: 39389644--39389799 Score: 106
Period size: 31 Copynumber: 5.1 Consensus size: 31
39389634 ACTATAATTG
*
39389644 AGCCTTTGTGGTGGAATATGTTATATATGGA
1 AGCCTTTGTGGTGTAATATGTTATATATGGA
** * * *
39389675 AGCCTTTGTGGCTGTTCTCTATTATATCT-G-
1 AGCCTTTGTGG-TGTAATATGTTATATATGGA
* * *
39389705 AGCCTTTGTGGTAG-AACATGTTATATACGAA
1 AGCCTTTGTGGT-GTAATATGTTATATATGGA
** * *
39389736 AGCCTTTGTGGTTGTTCTCTGTTATATCT-G-
1 AGCCTTTGTGG-TGTAATATGTTATATATGGA
* * *
39389766 AGCCTTTGTGGAGTAATATTTTATATGTGGA
1 AGCCTTTGTGGTGTAATATGTTATATATGGA
39389797 AGC
1 AGC
39389800 TTTTATGGCT
Statistics
Matches: 90, Mismatches: 27, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
29 19 0.21
30 24 0.27
31 27 0.30
32 20 0.22
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (31 bp):
AGCCTTTGTGGTGTAATATGTTATATATGGA
Found at i:39389709 original size:30 final size:29
Alignment explanation
Indices: 39389642--39389776 Score: 103
Period size: 30 Copynumber: 4.4 Consensus size: 29
39389632 CTACTATAAT
*** * *
39389642 TGAGCCTTTGTGGTGGAATATGTTATATA
1 TGAGCCTTTGTGGTGTTCTCTGTTATATC
*
39389671 TGGAAGCCTTTGTGGCTGTTCTCTATTATATC
1 T-G-AGCCTTTGTGG-TGTTCTCTGTTATATC
** *
39389703 TGAGCCTTTGTGGTAGAAC-ATGTTATATAC
1 TGAGCCTTTGTGGT-GTTCTCTGTTATAT-C
39389733 -GAAAGCCTTTGTGGTTGTTCTCTGTTATATC
1 TG--AGCCTTTGTGG-TGTTCTCTGTTATATC
39389764 TGAGCCTTTGTGG
1 TGAGCCTTTGTGG
39389777 AGTAATATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
29 10 0.12
30 26 0.31
31 26 0.31
32 21 0.25
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.41
Consensus pattern (29 bp):
TGAGCCTTTGTGGTGTTCTCTGTTATATC
Found at i:39389790 original size:61 final size:60
Alignment explanation
Indices: 39389642--39389828 Score: 248
Period size: 61 Copynumber: 3.1 Consensus size: 60
39389632 CTACTATAAT
*
39389642 TGAGCCTTTGTGGTGGAATATGTTATATATGGAAGCCTTTGTGGCTGTTCTCTATTATATC
1 TGAGCCTTTGTGG-AGAATATGTTATATATGGAAGCCTTTGTGGCTGTTCTCTATTATATC
* * * * *
39389703 TGAGCCTTTGTGGTAGAACATGTTATATACGAAAGCCTTTGTGGTTGTTCTCTGTTATATC
1 TGAGCCTTTGTGG-AGAATATGTTATATATGGAAGCCTTTGTGGCTGTTCTCTATTATATC
* * * * *
39389764 TGAGCCTTTGTGGAGTAATATTTTATATGTGGAAGCTTTTATGGCTGTTCTCTATTATATG
1 TGAGCCTTTGTGGAG-AATATGTTATATATGGAAGCCTTTGTGGCTGTTCTCTATTATATC
39389825 TGAG
1 TGAG
39389829 TCTTACGATG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
60 2 0.02
61 107 0.98
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (60 bp):
TGAGCCTTTGTGGAGAATATGTTATATATGGAAGCCTTTGTGGCTGTTCTCTATTATATC
Found at i:39391267 original size:41 final size:41
Alignment explanation
Indices: 39391222--39391352 Score: 210
Period size: 41 Copynumber: 3.2 Consensus size: 41
39391212 TCTCTGAATC
*
39391222 AATGAAAAGGTTGAAAAGGATGTTATCTAAAAAGAATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCTAAAAAGGATATCA
*
39391263 AATGAAAAGGTTGAAAAGGATGTTATCTGAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCTAAAAAGGATATCA
* *
39391304 AATGAAAAGGTTGAAAAGGATATTATCCAAAAAGGATAAT-A
1 AATGAAAAGGTTGAAAAGGATGTTATCTAAAAAGGAT-ATCA
39391345 AATGAAAA
1 AATGAAAA
39391353 TGATGTATTT
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
41 82 0.98
42 2 0.02
ACGTcount: A:0.52, C:0.05, G:0.21, T:0.23
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGATGTTATCTAAAAAGGATATCA
Found at i:39394308 original size:86 final size:86
Alignment explanation
Indices: 39394085--39394342 Score: 371
Period size: 84 Copynumber: 3.0 Consensus size: 86
39394075 TAGGGTTAAA
* * *
39394085 TTTTTT-TATTACTATTTATTTGTATGTTTGTTACTTAATTAGTATAAACAAACTAATTAAATAC
1 TTTTTTGTATTATTATTTATTTGTATGCTTGTTACTTAATTAGTATAAACAAATTAATTAAATAC
* *
39394149 TGAACTGACATATTTGAGA-T
66 TGAAATGATATATTTGAGATT
* *
39394169 TTTTTTGTATTATTATTT-TTTGTATGCTTGTCACTTAATTAGTATAAAGAAATTAATTAAATAC
1 TTTTTTGTATTATTATTTATTTGTATGCTTGTTACTTAATTAGTATAAACAAATTAATTAAATAC
*
39394233 TAAAATGATATATTTGAGATT
66 TGAAATGATATATTTGAGATT
*
39394254 TTTTTTGTATTATTATTTATTTGTATGCTTCTTACTTAATTAGTATGAAA-AAATTAATTAAATA
1 TTTTTTGTATTATTATTTATTTGTATGCTTGTTACTTAATTAGTAT-AAACAAATTAATTAAATA
* * *
39394318 TTGAAATGATATGTTTGAGGTT
65 CTGAAATGATATATTTGAGATT
39394340 TTT
1 TTT
39394343 AGAGTTTTTT
Statistics
Matches: 156, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
84 64 0.41
85 29 0.19
86 60 0.38
87 3 0.02
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (86 bp):
TTTTTTGTATTATTATTTATTTGTATGCTTGTTACTTAATTAGTATAAACAAATTAATTAAATAC
TGAAATGATATATTTGAGATT
Found at i:39400283 original size:42 final size:42
Alignment explanation
Indices: 39400174--39400324 Score: 191
Period size: 44 Copynumber: 3.5 Consensus size: 42
39400164 ATATGTGTTA
*
39400174 TCGTGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGATT
*
39400217 TACGTGTAAGACCACGTCTTGGACATTGGCATCGTATTTGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
*
39400260 TCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATT
*
39400303 AT-ATGTAAGACCACGTCTGGGA
1 -TCGTGTAAGACCACGTCTGGGA
39400325 TGTCGGCATT
Statistics
Matches: 97, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 33 0.34
44 34 0.35
45 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
Found at i:39400333 original size:43 final size:42
Alignment explanation
Indices: 39400177--39400333 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
39400167 TGTGTTATCG
*
39400177 TGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGATTTA
* * *
39400219 CGTGTAAGACCACGTCTTGGACATTGGCATCG-TATTTGATTTCG
1 --TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTT-A
39400263 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTATA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATT-TA
* *
39400306 TGTAAGACCACGTCTGGGATGTCGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
39400334 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 38 0.40
44 30 0.31
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTA
Found at i:39405564 original size:18 final size:18
Alignment explanation
Indices: 39405541--39405577 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
39405531 GCTTGATAAG
39405541 TTAGCTGAGTTATACATT
1 TTAGCTGAGTTATACATT
39405559 TTAGCTGAGTTATACATT
1 TTAGCTGAGTTATACATT
39405577 T
1 T
39405578 CTGATATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (18 bp):
TTAGCTGAGTTATACATT
Found at i:39405846 original size:107 final size:107
Alignment explanation
Indices: 39405673--39405995 Score: 601
Period size: 107 Copynumber: 3.0 Consensus size: 107
39405663 GCAAGAGGCT
*
39405673 TTAGGTATGAAAGTGCAATTCAGTACTGCTTTTCACCCACAAACGGATGGTCAATCCGAGCGGAT
1 TTAGGTATGAAAGTGTAATTCAGTACTGCTTTTCACCCACAAACGGATGGTCAATCCGAGCGGAT
39405738 TATTCAGATTCTCGGAGATATGTTGAGATGTTGCATTCTTGA
66 TATTCAGATTCTCGGAGATATGTTGAGATGTTGCATTCTTGA
39405780 TTAGGTATGAAAGTGTAATTCAGTACTGCTTTTCACCCACAAACGGATGGTCAATCCGAGCGGAT
1 TTAGGTATGAAAGTGTAATTCAGTACTGCTTTTCACCCACAAACGGATGGTCAATCCGAGCGGAT
39405845 TATTCAGATTCTCGGAGATATGTTGAGATGTTGCATTCTTGA
66 TATTCAGATTCTCGGAGATATGTTGAGATGTTGCATTCTTGA
39405887 TTAGGTATGAAAGTGTAATTCAGTACTGCTTTTCACCCACAAACGGATGGTCAATCCGAGCGGAT
1 TTAGGTATGAAAGTGTAATTCAGTACTGCTTTTCACCCACAAACGGATGGTCAATCCGAGCGGAT
* * * *
39405952 TATTCAGATTCTCAGTGATATGTTGAGATGCTGCATTCCTGA
66 TATTCAGATTCTCGGAGATATGTTGAGATGTTGCATTCTTGA
39405994 TT
1 TT
39405996 TTAAAGGTAC
Statistics
Matches: 211, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 211 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (107 bp):
TTAGGTATGAAAGTGTAATTCAGTACTGCTTTTCACCCACAAACGGATGGTCAATCCGAGCGGAT
TATTCAGATTCTCGGAGATATGTTGAGATGTTGCATTCTTGA
Found at i:39407351 original size:29 final size:29
Alignment explanation
Indices: 39407312--39407370 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
39407302 TTAAAATGTG
39407312 AAATAAATGAAACATATGGACTTGTATGA
1 AAATAAATGAAACATATGGACTTGTATGA
*
39407341 AAATAAATGAAACATATGGGCTTGTATGA
1 AAATAAATGAAACATATGGACTTGTATGA
39407370 A
1 A
39407371 CACTATGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (29 bp):
AAATAAATGAAACATATGGACTTGTATGA
Found at i:39407943 original size:42 final size:40
Alignment explanation
Indices: 39407840--39407943 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 40
39407830 GTATGTGTTA
*
39407840 TCGTGTAAGACCATGTCTGGGACGTTGGCATCGACTTATT
1 TCGTGTAAGACCATGTCTGGGACGCTGGCATCGACTTATT
** * *
39407880 TATATGTAACACCATGTCTGGGACGCTGGCATCGTATTTGATT
1 T-CGTGTAAGACCATGTCTGGGACGCTGGCATCG-ACTT-ATT
* *
39407923 TCGTGTAAGACCCTATCTGGG
1 TCGTGTAAGACCATGTCTGGG
39407944 GCATTGACAT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
40 1 0.02
41 28 0.55
42 18 0.35
43 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (40 bp):
TCGTGTAAGACCATGTCTGGGACGCTGGCATCGACTTATT
Found at i:39431034 original size:19 final size:16
Alignment explanation
Indices: 39431010--39431054 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
39431000 AAGACTGAAC
39431010 AAATAACTAACAAAGATAA
1 AAATAACTAA-AAAG--AA
*
39431029 AAATAATTAAAAAGAA
1 AAATAACTAAAAAGAA
39431045 AAATAACTAA
1 AAATAACTAA
39431055 TTAACTAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 11 0.46
18 4 0.17
19 9 0.38
ACGTcount: A:0.71, C:0.07, G:0.04, T:0.18
Consensus pattern (16 bp):
AAATAACTAAAAAGAA
Found at i:39433901 original size:87 final size:86
Alignment explanation
Indices: 39433792--39433955 Score: 249
Period size: 87 Copynumber: 1.9 Consensus size: 86
39433782 TACATACTTA
* * *
39433792 AGGTTGAGTTCTCACTCTTAATGAATTCATATCCTAG-GATTTGGGTGGTCCTATTAAGATGGAC
1 AGGTTGAGTTATCACTCTTAATGAATTCATATCCCAGAG-TTTGGGTGGTCCTATTAAGATGAAC
39433856 TTGATGAATTCACCGGAATGTG
65 TTGATGAATTCACCGGAATGTG
* * *
39433878 AGGTTGAGTTTATTACTCTTAATGAGTTCATATCCCAGAGTTTGGGTGGTCCTATTGAGATGAAC
1 AGGTTGAG-TTATCACTCTTAATGAATTCATATCCCAGAGTTTGGGTGGTCCTATTAAGATGAAC
39433943 TTGATGAATTCAC
65 TTGATGAATTCAC
39433956 TAAACTTAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
86 8 0.11
87 61 0.87
88 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (86 bp):
AGGTTGAGTTATCACTCTTAATGAATTCATATCCCAGAGTTTGGGTGGTCCTATTAAGATGAACT
TGATGAATTCACCGGAATGTG
Found at i:39440273 original size:33 final size:33
Alignment explanation
Indices: 39440203--39440293 Score: 128
Period size: 33 Copynumber: 2.7 Consensus size: 33
39440193 TTTAAAAATT
* * * *
39440203 AATTAAATTAGGGTTTAGAGGTTTTAAATAAATA
1 AATTAAATTTGGGTTTAG-TGTTTTAAAGAAAAA
39440237 AATTAAATTTGGGTTTAGTGTTTTAAAGAAAAA
1 AATTAAATTTGGGTTTAGTGTTTTAAAGAAAAA
*
39440270 AATTAAATTTGGGTTTAGTTTTTT
1 AATTAAATTTGGGTTTAGTGTTTT
39440294 TAAAATAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
33 35 0.67
34 17 0.33
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (33 bp):
AATTAAATTTGGGTTTAGTGTTTTAAAGAAAAA
Found at i:39440554 original size:125 final size:125
Alignment explanation
Indices: 39440355--39440817 Score: 782
Period size: 125 Copynumber: 3.7 Consensus size: 125
39440345 AGGATTTTGG
*
39440355 TTTTTAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAA
1 TTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAA
39440420 AATTACTGAAAAAGCTCTCACTTGGACGCTCTTTTTCTACAGTAGTTCTTGAAAAAATAA
66 AATTACTGAAAAAGCTCTCACTTGGACGCTCTTTTTCTACAGTAGTTCTTGAAAAAATAA
39440480 TTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAA
1 TTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAA
39440545 AATTACTGAAAAAGCTCTCACTTGGACGCTCTTTTTCTACAGTAGTTCTTGAAAAAATAA
66 AATTACTGAAAAAGCTCTCACTTGGACGCTCTTTTTCTACAGTAGTTCTTGAAAAAATAA
39440605 TTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAA
1 TTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAA
** * * * * * *
39440670 AATTGACAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTATAGTAGTTCCTGAATAAATAA
66 AATT-ACTGAAAAAGCTCTCACTTGGACGCTCTTTTTCTACAGTAGTTCTTGAAAAAATAA
* * * * *
39440731 TTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAAGATGCACTGTCAGCAA
1 TTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAA
39440796 AATTACTGAAAACAGCTCTCAC
66 AATTACTGAAAA-AGCTCTCAC
39440818 GTGGNACGTT
Statistics
Matches: 319, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
125 199 0.62
126 120 0.38
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (125 bp):
TTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAA
AATTACTGAAAAAGCTCTCACTTGGACGCTCTTTTTCTACAGTAGTTCTTGAAAAAATAA
Found at i:39440802 original size:251 final size:251
Alignment explanation
Indices: 39440355--39440817 Score: 784
Period size: 251 Copynumber: 1.8 Consensus size: 251
39440345 AGGATTTTGG
*
39440355 TTTTTAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAA
1 TTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAA
** * * *
39440420 AATTACTGAAAAAGCTCTCACTTGGACGCTCTTTTTCTACAGTAGTTCTTGAAAAAATAATTTTG
66 AATTACAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTG
* *
39440485 AGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAATTA
131 AGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAATTA
39440550 CTGAAAA-AGCTCTCACTTGGACGCTCTTTTTCTACAGTAGTTCTTGAAAAAATAA
196 CTGAAAACAGCTCTCACTTGGACGCTCTTTTTCTACAGTAGTTCTTGAAAAAATAA
39440605 TTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAA
1 TTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAA
* * *
39440670 AATTGACAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTATAGTAGTTCCTGAATAAATAATTTT
66 AATT-ACAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTT
* * *
39440735 GAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAAGATGCACTGTCAGCAAAATT
130 GAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAATT
39440800 ACTGAAAACAGCTCTCAC
195 ACTGAAAACAGCTCTCAC
39440818 GTGGNACGTT
Statistics
Matches: 197, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
250 68 0.35
251 120 0.61
252 9 0.05
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (251 bp):
TTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAA
AATTACAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTG
AGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGCACTGTCAGCAAAATTA
CTGAAAACAGCTCTCACTTGGACGCTCTTTTTCTACAGTAGTTCTTGAAAAAATAA
Found at i:39440827 original size:82 final size:81
Alignment explanation
Indices: 39440740--39440906 Score: 262
Period size: 82 Copynumber: 2.0 Consensus size: 81
39440730 ATTTTGAGAA
* * * *
39440740 GACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGA
1 GACGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAAGATGCACAGTCAGCAAAATTACTAA
* *
39440805 AAACAGCTCTCACGTG
66 AAAAAGCTCCCACGTG
*
39440821 GNACGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAAGATGCACAGTCAGTAAAATTACTA
1 G-ACGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAAGATGCACAGTCAGCAAAATTACTA
39440886 AAAAAAGCTCCCACGTG
65 AAAAAAGCTCCCACGTG
39440903 GACG
1 GACG
39440907 CTCTTCTTCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 4 0.05
82 74 0.95
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (81 bp):
GACGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAAGATGCACAGTCAGCAAAATTACTAA
AAAAAGCTCCCACGTG
Found at i:39443840 original size:42 final size:42
Alignment explanation
Indices: 39443729--39443884 Score: 188
Period size: 42 Copynumber: 3.7 Consensus size: 42
39443719 TACTACACCA
* **** *
39443729 ATGCCATATCCCATATATGGTCTTACATGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
* *
39443771 ATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACAAAATCTCATATCG
*
39443814 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCAT-ATCG
* *
39443856 ATGCCATATCTCAGATATGGTATTACACA
1 ATGCCATATCCCAGATATGGTCTTACACA
39443885 GTCTCGGTAA
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 62 0.63
43 36 0.37
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
Found at i:39443859 original size:85 final size:84
Alignment explanation
Indices: 39443729--39443884 Score: 206
Period size: 85 Copynumber: 1.8 Consensus size: 84
39443719 TACTACACCA
* * ** * * *
39443729 ATGCCATATCCCATATATGGTCTTACATGGGATCTCGTATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCC-ATAGCCCAGATATGGTA
39443794 TTACACAAAATCTCATATCG
65 TTACACAAAATCTCATATCG
* *
39443814 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAAT-GATGCCATATCTCAGATATGGTA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT-ATCGATGCCATAGCCCAGATATGGTA
39443878 TTACACA
65 TTACACA
39443885 GTCTCGGTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
84 20 0.33
85 39 0.64
86 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (84 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCCATAGCCCAGATATGGTAT
TACACAAAATCTCATATCG
Found at i:39446617 original size:53 final size:54
Alignment explanation
Indices: 39446527--39446632 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 54
39446517 GAGACACACG
* *
39446527 CCCGTGTGCTCAACTGTGTGGGGACGAAATTAGGCTTGGTTTAAGCCACATTTA
1 CCCGTGTGCTCAACCGTGTAGGGACGAAATTAGGCTTGGTTTAAGCCACATTTA
39446581 CCCGTGTGCTCAACCGTGTAGGG-CGAAATTAGGCTTGGTTTAAGCCACATTT
1 CCCGTGTGCTCAACCGTGTAGGGACGAAATTAGGCTTGGTTTAAGCCACATTT
39446633 CTCATCCTCC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 29 0.58
54 21 0.42
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (54 bp):
CCCGTGTGCTCAACCGTGTAGGGACGAAATTAGGCTTGGTTTAAGCCACATTTA
Found at i:39446646 original size:53 final size:54
Alignment explanation
Indices: 39446535--39446646 Score: 147
Period size: 53 Copynumber: 2.1 Consensus size: 54
39446525 CGCCCGTGTG
* * * * *
39446535 CTCAACTGTGTGGGGACGAAATTAGGCTTGGTTTAAGCCACATTTACCCGTGTG
1 CTCAACCGTGTAGGGACGAAATTAGGCTTGGTTTAAGCCACATTTACCCATCTC
*
39446589 CTCAACCGTGTAGGG-CGAAATTAGGCTTGGTTTAAGCCACATTT-CTCATCCTC
1 CTCAACCGTGTAGGGACGAAATTAGGCTTGGTTTAAGCCACATTTACCCAT-CTC
39446642 CTCAA
1 CTCAA
39446647 GCATACCTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
52 3 0.06
53 35 0.69
54 13 0.25
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (54 bp):
CTCAACCGTGTAGGGACGAAATTAGGCTTGGTTTAAGCCACATTTACCCATCTC
Found at i:39447338 original size:58 final size:59
Alignment explanation
Indices: 39447270--39447389 Score: 197
Period size: 58 Copynumber: 2.1 Consensus size: 59
39447260 GAAATAACAG
* *
39447270 ACAAAGTAAGCTTTAAAAGCTTAGTAAACCATATACAAAT-AAATTATCGCATGAATCA
1 ACAAAGTAAGCTTTAAAAGCTTAGTAAACCATATACAAATAAAATTACCACATGAATCA
* *
39447328 ACAAAGTAAGCTTTAAAAGCTTATTAAGCCATATACAAATAAAATTACCACATGAATCA
1 ACAAAGTAAGCTTTAAAAGCTTAGTAAACCATATACAAATAAAATTACCACATGAATCA
39447387 ACA
1 ACA
39447390 CCATTTCCAT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 38 0.67
59 19 0.33
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.25
Consensus pattern (59 bp):
ACAAAGTAAGCTTTAAAAGCTTAGTAAACCATATACAAATAAAATTACCACATGAATCA
Found at i:39449334 original size:18 final size:18
Alignment explanation
Indices: 39449300--39449334 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39449290 AAAAGGAAAC
* *
39449300 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTACGATAT
39449318 ATATAAGGGCTACGATA
1 ATATAAGGGCTACGATA
39449335 CGCACTTGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.29
Consensus pattern (18 bp):
ATATAAGGGCTACGATAT
Found at i:39451085 original size:21 final size:21
Alignment explanation
Indices: 39451061--39451100 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
39451051 AAATAATTAA
**
39451061 TTAAAGAGAGCTTTGAGAAAT
1 TTAAAGAGAAATTTGAGAAAT
*
39451082 TTAAGGAGAAATTTGAGAA
1 TTAAAGAGAAATTTGAGAA
39451101 CTTTGAGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.25, T:0.28
Consensus pattern (21 bp):
TTAAAGAGAAATTTGAGAAAT
Found at i:39451105 original size:30 final size:30
Alignment explanation
Indices: 39451066--39451127 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
39451056 ATTAATTAAA
*
39451066 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAACTTTGAGAAATTTAAGGAGAAATTT
39451096 GAGAACTTTGAGAAATTTAAGGAGAAATTT
1 GAGAACTTTGAGAAATTTAAGGAGAAATTT
39451126 GA
1 GA
39451128 AAGTTTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.42, C:0.03, G:0.26, T:0.29
Consensus pattern (30 bp):
GAGAACTTTGAGAAATTTAAGGAGAAATTT
Found at i:39454831 original size:36 final size:33
Alignment explanation
Indices: 39454776--39454841 Score: 87
Period size: 36 Copynumber: 1.9 Consensus size: 33
39454766 TATGACAGTG
39454776 TGGAAAAAAAATGAAATGGAGATAAATAAAATA
1 TGGAAAAAAAATGAAATGGAGATAAATAAAATA
* *
39454809 TGGAATAAAGAAATTGATATGGAGATGAATAAA
1 TGGAA-AAA-AAA-TGAAATGGAGATAAATAAA
39454842 TAGTGTAGGN
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 5 0.18
34 3 0.11
35 3 0.11
36 17 0.61
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (33 bp):
TGGAAAAAAAATGAAATGGAGATAAATAAAATA
Found at i:39455515 original size:19 final size:20
Alignment explanation
Indices: 39455476--39455516 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
39455466 TTTTCCTTTT
*
39455476 TTTTCTTTTCCTCCTTATTC
1 TTTTCTTCTCCTCCTTATTC
*
39455496 TTTTCTTCTCC-CCTTCTTC
1 TTTTCTTCTCCTCCTTATTC
39455515 TT
1 TT
39455517 ATATAAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTCTTCTCCTCCTTATTC
Found at i:39471556 original size:40 final size:40
Alignment explanation
Indices: 39471500--39471770 Score: 391
Period size: 40 Copynumber: 6.8 Consensus size: 40
39471490 TGGATGATAA
* *
39471500 CCGGGCTAAGTCCCGAAGGCATTTGCGCCAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* * *
39471540 TCGGGCTAAGTCCCGAAGCCATTTGTGTGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* *
39471580 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* * *
39471620 CAGGGCTAAGTCCCGAAGGCATTTGCGCCAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* *
39471660 TCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* *
39471700 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* *
39471740 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
39471771 AGCTATATCC
Statistics
Matches: 205, Mismatches: 26, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
39 9 0.04
40 196 0.96
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
Found at i:39471715 original size:120 final size:120
Alignment explanation
Indices: 39471502--39471762 Score: 495
Period size: 120 Copynumber: 2.2 Consensus size: 120
39471492 GATGATAACC
39471502 GGGCTAAGTCCCGAAGGCATTTGCGCCAGTTATTACATTCGGGCTAAGTCCCGAAGCCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGCGCCAGTTATTACATTCGGGCTAAGTCCCGAAGCCATTTGTG
39471567 TGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCA
66 TGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCA
*
39471622 GGGCTAAGTCCCGAAGGCATTTGCGCCAGTTATTACATTCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGCGCCAGTTATTACATTCGGGCTAAGTCCCGAAGCCATTTGTG
*
39471687 TGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
66 TGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCA
*
39471742 GGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
39471763 GAGCGAGTAG
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 138 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (120 bp):
GGGCTAAGTCCCGAAGGCATTTGCGCCAGTTATTACATTCGGGCTAAGTCCCGAAGCCATTTGTG
TGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCA
Found at i:39474699 original size:22 final size:23
Alignment explanation
Indices: 39474668--39474714 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
39474658 TAAAAATTGG
39474668 AGAAGAAAACCTAAGAGA-ACTAA
1 AGAAGAAAA-CTAAGAGACACTAA
*
39474691 AGAAG-AAACTAAGATACACTAA
1 AGAAGAAAACTAAGAGACACTAA
39474713 AG
1 AG
39474715 CTAATGTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 10 0.45
23 5 0.23
ACGTcount: A:0.60, C:0.13, G:0.17, T:0.11
Consensus pattern (23 bp):
AGAAGAAAACTAAGAGACACTAA
Found at i:39477487 original size:20 final size:20
Alignment explanation
Indices: 39477462--39477499 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
39477452 TCCTTAAAAT
*
39477462 AGGGCACACGCCCGTGTGGA
1 AGGGCAAACGCCCGTGTGGA
*
39477482 AGGGCAAATGCCCGTGTG
1 AGGGCAAACGCCCGTGTG
39477500 ACCAACTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.39, T:0.13
Consensus pattern (20 bp):
AGGGCAAACGCCCGTGTGGA
Found at i:39488094 original size:27 final size:27
Alignment explanation
Indices: 39488064--39488195 Score: 174
Period size: 27 Copynumber: 4.9 Consensus size: 27
39488054 ACACGATAAC
*
39488064 AAAGAATATCCTTTGTGGTGAACTCTA
1 AAAGAATAGCCTTTGTGGTGAACTCTA
* *
39488091 AAAGAATAGCCTTTGTGGAGAACTCTG
1 AAAGAATAGCCTTTGTGGTGAACTCTA
* *
39488118 AAAGAATAGCCTTTGCGGTGAACTCTG
1 AAAGAATAGCCTTTGTGGTGAACTCTA
* ** *
39488145 AAAGAATAGCCTTTATGGAAAAATCTA
1 AAAGAATAGCCTTTGTGGTGAACTCTA
*
39488172 AAAGAATAGCCTTTATGGTGAACT
1 AAAGAATAGCCTTTGTGGTGAACT
39488196 TTGAAATAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (27 bp):
AAAGAATAGCCTTTGTGGTGAACTCTA
Done.