Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 160 of 295
Found at i:54429201 original size:79 final size:79
Alignment explanation
Indices: 54429012--54429231 Score: 309
Period size: 79 Copynumber: 2.8 Consensus size: 79
54429002 CATTTGAATG
* *
54429012 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCAGGCTAAGATTCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGATCCGAAGGCA
*
54429077 TTTGTGCGAGTTGCT
65 TTTGTGCGAGTTGAT
* *
54429092 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGA-CCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGATCCGAAGGCA
54429156 TTTGTGCGAGTTGAT
65 TTTGTGCGAGTTGAT
* * * * *
54429171 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCCGGCTAA-ATTCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGA-TCCGAAG
54429232 AAACTTGGGT
Statistics
Matches: 125, Mismatches: 13, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
77 1 0.01
78 6 0.05
79 67 0.54
80 51 0.41
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGATCCGAAGGCAT
TTGTGCGAGTTGAT
Found at i:54430692 original size:19 final size:20
Alignment explanation
Indices: 54430655--54430692 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
54430645 ATAAGGTGGT
54430655 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
54430675 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
54430693 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:54440584 original size:49 final size:49
Alignment explanation
Indices: 54440476--54440696 Score: 205
Period size: 49 Copynumber: 4.7 Consensus size: 49
54440466 TTATTTGTTT
* * *
54440476 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGA-TGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGATATTGAGA
* *
54440521 TC-AGTGTAAGACCATGTCTAGGACATGGCATC-GC-ACAGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTAC-GATAT-TGAGA
* *
54440569 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTCGAT-TTCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGATATT-GAGA
* * * *
54440618 G-TCAGTGTCAGACCATGTCTTGGACATGGCATCAACT-TGATA--GATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGATATTGA-GA
*
54440665 GCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
54440697 TGGTATCATA
Statistics
Matches: 146, Mismatches: 16, Indels: 26
0.78 0.09 0.14
Matches are distributed among these distances:
44 11 0.08
45 19 0.13
46 7 0.05
47 32 0.22
48 6 0.04
49 65 0.45
50 5 0.03
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGATATTGAGA
Found at i:54440643 original size:98 final size:93
Alignment explanation
Indices: 54440476--54440696 Score: 270
Period size: 98 Copynumber: 2.3 Consensus size: 93
54440466 TTATTTGTTT
*
54440476 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTC
*
54440539 TAGGACATGGCATCGCAC-AGATATG-TGAGA
66 TAGGACATGGCATC-AACTAGATA-GAT--GA
* ** *
54440569 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTCGATTTCGATAGTCAGTGTCAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGAGAT-G-T-GTCAGTGTAAGACCAT
* *
54440634 GTCTTGGACATGGCATCAACTTGATAGATGA
63 GTCTAGGACATGGCATCAACTAGATAGATGA
*
54440665 GCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
54440697 TGGTATCATA
Statistics
Matches: 112, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
93 12 0.11
94 14 0.12
95 12 0.11
96 34 0.30
97 4 0.04
98 36 0.32
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (93 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTC
TAGGACATGGCATCAACTAGATAGATGA
Found at i:54441887 original size:21 final size:20
Alignment explanation
Indices: 54441861--54441900 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
54441851 GTTATAATGA
*
54441861 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCGTG-TGCCCTT
54441882 CCACACAGGCGTGTGCCCT
1 CCACACAGGCGTGTGCCCT
54441901 ATTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (20 bp):
CCACACAGGCGTGTGCCCTT
Found at i:54444714 original size:53 final size:53
Alignment explanation
Indices: 54444634--54444736 Score: 206
Period size: 53 Copynumber: 1.9 Consensus size: 53
54444624 ATAAGAGTAA
54444634 GCGGAGCATTTGAGAATGGTTTTACAAACCTTGAGAGATAAGTAGTTATACAT
1 GCGGAGCATTTGAGAATGGTTTTACAAACCTTGAGAGATAAGTAGTTATACAT
54444687 GCGGAGCATTTGAGAATGGTTTTACAAACCTTGAGAGATAAGTAGTTATA
1 GCGGAGCATTTGAGAATGGTTTTACAAACCTTGAGAGATAAGTAGTTATA
54444737 TGTCAAGTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (53 bp):
GCGGAGCATTTGAGAATGGTTTTACAAACCTTGAGAGATAAGTAGTTATACAT
Found at i:54448304 original size:46 final size:46
Alignment explanation
Indices: 54448153--54448512 Score: 225
Period size: 46 Copynumber: 7.6 Consensus size: 46
54448143 TTTGTGTGCT
* * *
54448153 AGTGTAAGACATGTCTGGGACATGCATCTGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGAGAGCC
* * * * *
54448199 AGTGTAAGACCATGTCTGGGACATGGCACCAGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGAGAGCC
* *
54448247 AGTGTAAGACATGTCTAGGACAAGCATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATG-AGAGCC
* * *
54448293 AGTGTAAGACATGTCTGGGACATGCATC-GGCTACGAGAT-A-TGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGAGAGCC
* ** * * *
54448337 AGTGTAAGACCATGTCTAGGACATGGCATTGGCAC-AGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CTCGAGA--TGAGAGCC
* * ** * *
54448387 AGTGTATGACCATGTCTGGGACATGGCGTCAGCCTCGATTTTGATAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGA-GATGAGAGCC
* * * *
54448436 AGTGTAAGACCATGTCTAGGACATGGCAT-TGACT--TGATGGATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGAT-GA-GAGCC
54448483 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
54448513 GGCATCATAC
Statistics
Matches: 247, Mismatches: 49, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
44 12 0.05
45 17 0.07
46 66 0.27
47 59 0.24
48 27 0.11
49 34 0.14
50 31 0.13
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAGAGCC
Found at i:54448449 original size:99 final size:97
Alignment explanation
Indices: 54448289--54448509 Score: 273
Period size: 96 Copynumber: 2.3 Consensus size: 97
54448279 TCGAGATGTA
* *
54448289 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-GGCTACGA----GATATGTCAGTGTAAGAC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCT-CGATTTTGATATGTCAGTGTAAGAC
54448347 CATGTCTAGGACATGGCATTGGCACA-GATATGTGA-G
65 CATGTCTAGGACATGGCATT-G-ACATG--ATG-GATG
* *
54448383 AGCTAGTGTATGACCATGTCTGGGACATGGCGTCAGCCTCGATTTTGATA-GTCAGTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATTTTGATATGTCAGTGTAAGACC
*
54448447 ATGTCTAGGACATGGCATTGACTTGATGGATG
66 ATGTCTAGGACATGGCATTGACATGATGGATG
54448479 AGCCAGTGTAAGACCATGTCTGGGACATGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGC
54448510 ATCGGCATCA
Statistics
Matches: 111, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
94 11 0.10
95 16 0.14
96 40 0.36
97 5 0.05
98 2 0.02
99 33 0.30
100 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (97 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATTTTGATATGTCAGTGTAAGACC
ATGTCTAGGACATGGCATTGACATGATGGATG
Found at i:54469761 original size:40 final size:40
Alignment explanation
Indices: 54469707--54469784 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
54469697 CGGATGTAAC
54469707 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
54469747 AACCCGCACGAATGCCTTCGGGACTTAACCTGGTTATA
1 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATA
54469785 TTTTTTTTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:54472137 original size:84 final size:87
Alignment explanation
Indices: 54472048--54472219 Score: 323
Period size: 84 Copynumber: 2.0 Consensus size: 87
54472038 TTATATGGCT
54472048 TTCTAATTAAATTTCAAAGGTTATTTTTGTAAATGGTGTATTAATATATAATAAAATAAAGT-AA
1 TTCTAATTAAATTTCAAAGGTTATTTTTGTAAATGGTGTATTAATATATAATAAAATAAAGTAAA
54472112 A-AAAATGG-CATTATCATTCA
66 ACAAAATGGCCATTATCATTCA
54472132 TTCTAATTAAATTTCAAAGGTTATTTTTGTAAATGGTGTATTAATATATAATAAAATAAAGTAAA
1 TTCTAATTAAATTTCAAAGGTTATTTTTGTAAATGGTGTATTAATATATAATAAAATAAAGTAAA
54472197 ACAAAATGGCCATTATCATTCA
66 ACAAAATGGCCATTATCATTCA
54472219 T
1 T
54472220 CTTTTTGTGG
Statistics
Matches: 85, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
84 62 0.73
85 3 0.04
86 7 0.08
87 13 0.15
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (87 bp):
TTCTAATTAAATTTCAAAGGTTATTTTTGTAAATGGTGTATTAATATATAATAAAATAAAGTAAA
ACAAAATGGCCATTATCATTCA
Found at i:54473226 original size:42 final size:42
Alignment explanation
Indices: 54473084--54473286 Score: 133
Period size: 43 Copynumber: 4.7 Consensus size: 42
54473074 GAGATATCAC
* * * * * * *
54473084 GTAAAACCCTGTCTGGGACAGTGGTATCGATATATGATTTCTT
1 GTAAGACCCTGTCTGGGACATTGGCATTG-TATTTAATTTCGT
* * * *
54473127 GTAAAACCAC-ATCTGGGACATTGGCA-TGGATTTGAGATTTATGT
1 GTAAGACC-CTGTCTGGGACATTGGCATTGTATTT-A-ATTT-CGT
* * *
54473171 GTAAGGCCATGTCTGGGACATTGACATTGTATTTAATTTCGT
1 GTAAGACCCTGTCTGGGACATTGGCATTGTATTTAATTTCGT
* * * * *
54473213 GTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACAT
1 GTAAGACCCTGTCTGGGACATTGGCATTG-TATTTAATTTCGT
* *
54473256 GTAAGACCAC-GTCTAGGACGTTGGCATTGTA
1 GTAAGACC-CTGTCTGGGACATTGGCATTGTA
54473287 CGAGTTTCCA
Statistics
Matches: 124, Mismatches: 28, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
41 3 0.02
42 29 0.23
43 62 0.50
44 24 0.19
45 6 0.05
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (42 bp):
GTAAGACCCTGTCTGGGACATTGGCATTGTATTTAATTTCGT
Found at i:54473260 original size:43 final size:43
Alignment explanation
Indices: 54473084--54473263 Score: 141
Period size: 43 Copynumber: 4.2 Consensus size: 43
54473074 GAGATATCAC
* * * * *
54473084 GTAAAACCCTGTCTGGGACAGTGGTATCGATATATGATTTCTT
1 GTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACGT
* * * * * *
54473127 GTAAAACCAC-ATCTGGGACATTGGCATGGAT-TTGAGATTTATGT
1 GTAAGACC-CTGTCTGGGACAGTGGCATCGATATT-TGA-TTACGT
* * * * * * *
54473171 GTAAGGCCATGTCTGGGACATTGACATTG-TATTTAATTTCGT
1 GTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACGT
*
54473213 GTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACAT
1 GTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACGT
54473256 GTAAGACC
1 GTAAGACC
54473264 ACGTCTAGGA
Statistics
Matches: 104, Mismatches: 27, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
42 29 0.28
43 47 0.45
44 28 0.27
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
GTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACGT
Found at i:54480129 original size:43 final size:43
Alignment explanation
Indices: 54480068--54480152 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
54480058 TGAATTTGGA
*
54480068 AAGGTTCAGGTACGTATGATACCTATGTGGTAGATGGTATTAG
1 AAGGTTCAGGTACGTATGATACCTATGGGGTAGATGGTATTAG
54480111 AAGGTTCAGGTACGTATGATACCTATGGGGTAGATGGTATTA
1 AAGGTTCAGGTACGTATGATACCTATGGGGTAGATGGTATTA
54480153 TTCTTATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.28, C:0.09, G:0.31, T:0.32
Consensus pattern (43 bp):
AAGGTTCAGGTACGTATGATACCTATGGGGTAGATGGTATTAG
Found at i:54481305 original size:30 final size:31
Alignment explanation
Indices: 54481258--54481315 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
54481248 TTTCTGAGCC
*
54481258 TAGGGGACAAATCGTAATTCTG-CAAAGGTT
1 TAGGGGAAAAATCGTAATTCTGCCAAAGGTT
*
54481288 TAGGGGTAAAAAT-GTAATTTTGCCAAAG
1 TAGGGG-AAAAATCGTAATTCTGCCAAAG
54481316 TTTGAGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (31 bp):
TAGGGGAAAAATCGTAATTCTGCCAAAGGTT
Found at i:54484586 original size:47 final size:47
Alignment explanation
Indices: 54484528--54484649 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
54484518 GCATTGGCAC
*
54484528 TAAGACAAGGATACCTTGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
54484575 TAAGACAAGGATACCATGTTAGACCATGTTTGGAACGTGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * *
54484622 TAAGATAAGGATATCATGTAAAACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
54484650 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:54484754 original size:55 final size:54
Alignment explanation
Indices: 54484628--54484824 Score: 234
Period size: 55 Copynumber: 3.6 Consensus size: 54
54484618 TTGGTAAGAT
* * * * *
54484628 AAGGATATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
54484682 AAGGAAATCATGTAAGACCATGTCAATACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
54484737 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
54484790 AAGGATACCACGTAAGACCATGTCAAGAAATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
54484825 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 21, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
53 36 0.30
54 40 0.33
55 45 0.37
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:54484836 original size:53 final size:54
Alignment explanation
Indices: 54484628--54484835 Score: 229
Period size: 53 Copynumber: 3.9 Consensus size: 54
54484618 TTGGTAAGAT
* * * *
54484628 AAGGATATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
54484682 AAGGAAATCATGTAAGACCATGTCAATACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * * *
54484737 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
54484790 AAGGATACCACGTAAGACCATGTCAAGAAATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
54484836 AAAAAGGAAA
Statistics
Matches: 130, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
53 45 0.35
54 40 0.31
55 45 0.35
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:54491843 original size:45 final size:45
Alignment explanation
Indices: 54491793--54491951 Score: 176
Period size: 45 Copynumber: 3.5 Consensus size: 45
54491783 ATACAAGAAA
* * *
54491793 CGAGTAAGACCATGACTGAAAGATGTTATGACATCACGATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTAT
* * * *
54491838 TGAGTAAGACCATGATTGAAAAACGTTATGGCAACACAATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTAT
* * * *
54491883 CGAGTAAAACCAATG-CTGAAAGACGTTATGGCATCACAAATCAAA
1 CGAGTAAGACC-ATGACTGAAAGACGTTATGGCATCACAATTCTAT
* **
54491928 CGAATAAGACCATGGTTGAAAGAC
1 CGAGTAAGACCATGACTGAAAGAC
54491952 ACTGTGGCAT
Statistics
Matches: 94, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
44 3 0.03
45 88 0.94
46 3 0.03
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (45 bp):
CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTAT
Found at i:54491960 original size:90 final size:90
Alignment explanation
Indices: 54491793--54491960 Score: 194
Period size: 90 Copynumber: 1.9 Consensus size: 90
54491783 ATACAAGAAA
* * * * * ** *
54491793 CGAGTAAGACCATGACTGAAAGATGTTATGACATCACGATTCTATTGAGTAAGACCATGATTGAA
1 CGAGTAAAACCATGACTGAAAGACGTTATGACATCACAAATCAAACGAATAAGACCATGATTGAA
**
54491858 AAACGTTATGGCAACACAATTCTAT
66 AAACACTATGGCAACACAATTCTAT
* *
54491883 CGAGTAAAACCAATG-CTGAAAGACGTTATGGCATCACAAATCAAACGAATAAGACCATGGTTGA
1 CGAGTAAAACC-ATGACTGAAAGACGTTATGACATCACAAATCAAACGAATAAGACCATGATTGA
* *
54491947 AAGACACTGTGGCA
65 AAAACACTATGGCA
54491961 TCAAGACGAG
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
90 60 0.95
91 3 0.05
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (90 bp):
CGAGTAAAACCATGACTGAAAGACGTTATGACATCACAAATCAAACGAATAAGACCATGATTGAA
AAACACTATGGCAACACAATTCTAT
Found at i:54494332 original size:40 final size:40
Alignment explanation
Indices: 54494251--54494471 Score: 288
Period size: 40 Copynumber: 5.6 Consensus size: 40
54494241 CAAACCAGTA
** * *
54494251 CCTTCGGGGTTTAGCCGGA-TATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGATTATAG-TAACTCGCACAAATG
*
54494290 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
* * *
54494330 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGGACAATTG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
* * *
54494370 CCTTCGAGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
54494410 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATG
*
54494450 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGATTAT
54494472 CAATCCGAAT
Statistics
Matches: 163, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 28 0.17
40 133 0.82
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
Found at i:54497404 original size:29 final size:29
Alignment explanation
Indices: 54497369--54497442 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
54497359 GTTGTGAGAT
* *
54497369 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
54497398 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
54497427 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54497443 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:54501865 original size:39 final size:40
Alignment explanation
Indices: 54501751--54501935 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
54501741 GCTACTCGTT
* *
54501751 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
54501791 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
54501831 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
54501870 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* *
54501911 CAAA-GCCATCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54501936 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:54505445 original size:40 final size:40
Alignment explanation
Indices: 54505390--54505531 Score: 209
Period size: 40 Copynumber: 3.6 Consensus size: 40
54505380 TATTCGAATG
*
54505390 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
54505430 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
54505470 ATATCCGGGCTAAGACCCGAAGGCATTTGT-CGGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAG-TGACT
*
54505510 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
54505532 TACTTGGGTT
Statistics
Matches: 95, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
39 15 0.16
40 78 0.82
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:54509203 original size:43 final size:43
Alignment explanation
Indices: 54509156--54509249 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
54509146 CCCGGATAGG
* * *
54509156 GTCTTACACAAAATC-GATTAACGATGCCAATGTCCCAGACATA
1 GTCTTACACAAAATCTCAAT-ACAATGCCAATGTCCCAGACATA
** *
54509199 GTCTTACACGTAATCTCAATACAATGCCAATGTCCCAGACATG
1 GTCTTACACAAAATCTCAATACAATGCCAATGTCCCAGACATA
54509242 GTCTTACA
1 GTCTTACA
54509250 TGTAATCACA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 42 0.95
44 2 0.05
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.26
Consensus pattern (43 bp):
GTCTTACACAAAATCTCAATACAATGCCAATGTCCCAGACATA
Found at i:54512050 original size:24 final size:24
Alignment explanation
Indices: 54512023--54512090 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
54512013 GCAAAGATTT
* *
54512023 TTATACTAATTAATG-TCAAATATA
1 TTATACTAATAAATGCT-AAACATA
*
54512047 TTATGCTAATAAATGCTAAACATA
1 TTATACTAATAAATGCTAAACATA
*
54512071 TTATACTAATAAATACTAAA
1 TTATACTAATAAATGCTAAA
54512091 TCTTTTAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
TTATACTAATAAATGCTAAACATA
Found at i:54514909 original size:41 final size:41
Alignment explanation
Indices: 54514852--54514933 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
54514842 TTTGCCACTT
54514852 CACTTAGTTCAGTTCTCAAACATGGTACATTATAATCAACG
1 CACTTAGTTCAGTTCTCAAACATGGTACATTATAATCAACG
54514893 CACTTAGTTCAGTTCTCAAACATGGTACATTATAATCAACG
1 CACTTAGTTCAGTTCTCAAACATGGTACATTATAATCAACG
54514934 GCATTCTTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (41 bp):
CACTTAGTTCAGTTCTCAAACATGGTACATTATAATCAACG
Found at i:54520381 original size:26 final size:26
Alignment explanation
Indices: 54520352--54520406 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
54520342 TGTTTCTGGA
**
54520352 GTAAACTTTATAAAACTGTAGTGTTT
1 GTAAACTTTATAAAACTACAGTGTTT
54520378 GTAAACTTTATAAAACTACAGTGTTT
1 GTAAACTTTATAAAACTACAGTGTTT
54520404 GTA
1 GTA
54520407 TTAAACCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (26 bp):
GTAAACTTTATAAAACTACAGTGTTT
Found at i:54522312 original size:50 final size:50
Alignment explanation
Indices: 54522237--54522351 Score: 203
Period size: 50 Copynumber: 2.3 Consensus size: 50
54522227 CTGAGCTAAA
54522237 TGATCTTGTATATTCAGCCATATAGGTATGTACATATGTGATGTTATATT
1 TGATCTTGTATATTCAGCCATATAGGTATGTACATATGTGATGTTATATT
**
54522287 TGATCTTGTATATTTGGCCATATAGGTATGTACATATGTGATGTTATATT
1 TGATCTTGTATATTCAGCCATATAGGTATGTACATATGTGATGTTATATT
*
54522337 GGATCTTGTATATTC
1 TGATCTTGTATATTC
54522352 GACCAGATGA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (50 bp):
TGATCTTGTATATTCAGCCATATAGGTATGTACATATGTGATGTTATATT
Found at i:54523956 original size:14 final size:15
Alignment explanation
Indices: 54523929--54523961 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
54523919 TCTATCTACA
54523929 CATATCAGTTCATAT
1 CATATCAGTTCATAT
54523944 CATATCA-TTCATAT
1 CATATCAGTTCATAT
54523958 CATA
1 CATA
54523962 AGCAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.39
Consensus pattern (15 bp):
CATATCAGTTCATAT
Found at i:54524637 original size:24 final size:24
Alignment explanation
Indices: 54524605--54524651 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
54524595 TTAGTGGAAA
*
54524605 AATTTGATAATTCCACTAACACTC
1 AATTAGATAATTCCACTAACACTC
*
54524629 AATTAGATAATTTCACTAACACT
1 AATTAGATAATTCCACTAACACT
54524652 ATTGATTCTT
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:0.40, C:0.21, G:0.04, T:0.34
Consensus pattern (24 bp):
AATTAGATAATTCCACTAACACTC
Found at i:54530410 original size:34 final size:34
Alignment explanation
Indices: 54530367--54530437 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
54530357 CATATCGCCA
54530367 AATGCGATAGATTACTTGGGAAGCCTTTGTGGCT
1 AATGCGATAGATTACTTGGGAAGCCTTTGTGGCT
54530401 AATGCGATAGATTACTTGGGAAGCCTTTGTGGCT
1 AATGCGATAGATTACTTGGGAAGCCTTTGTGGCT
54530435 AAT
1 AAT
54530438 CCTGTGGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.32
Consensus pattern (34 bp):
AATGCGATAGATTACTTGGGAAGCCTTTGTGGCT
Found at i:54530525 original size:25 final size:25
Alignment explanation
Indices: 54530421--54530534 Score: 101
Period size: 26 Copynumber: 4.5 Consensus size: 25
54530411 ATTACTTGGG
*
54530421 AAGCCTTTGTGGCTAATCCTGTGGAA
1 AAGCCTTTGTGGCTAATCTTGTGG-A
* *
54530447 AAACCTTTGTGGCTAATCTTATGGA
1 AAGCCTTTGTGGCTAATCTTGTGGA
* *
54530472 AAGCCCCTGTGGTGTG-TTATC-TG-GG-
1 AAG--CCT-TTGTG-GCTAATCTTGTGGA
54530497 AAGCCTTTGTGGCTAATCTTGTGGA
1 AAGCCTTTGTGGCTAATCTTGTGGA
*
54530522 AAGCCTTGGTGGC
1 AAGCCTTTGTGGC
54530535 ATGTTATTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
21 1 0.01
22 8 0.11
23 5 0.07
24 2 0.03
25 18 0.26
26 23 0.33
27 4 0.06
28 8 0.11
29 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (25 bp):
AAGCCTTTGTGGCTAATCTTGTGGA
Found at i:54534583 original size:23 final size:22
Alignment explanation
Indices: 54534552--54534615 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
54534542 AAGAATAACA
*
54534552 ATAATGCATATATAAGGGTTCGT
1 ATAAAGCATATAT-AGGGTTCGT
* *
54534575 ATAAAGCATACATAGAGTTCGT
1 ATAAAGCATATATAGGGTTCGT
* * *
54534597 ACATAGCATGTATAGGGTT
1 ATAAAGCATATATAGGGTT
54534616 TGCATAAGTA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 22 0.67
23 11 0.33
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (22 bp):
ATAAAGCATATATAGGGTTCGT
Found at i:54539882 original size:49 final size:49
Alignment explanation
Indices: 54539796--54540035 Score: 282
Period size: 49 Copynumber: 4.8 Consensus size: 49
54539786 GTAACCGAAG
* * * *
54539796 CTATCTGGTACGCATAGTAGCCCGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * * *
54539845 TTATCCGGTAAACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * *
54539895 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * *
54539945 GTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
*
54539995 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
54540036 ATGACCTCAC
Statistics
Matches: 157, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 73 0.46
50 46 0.29
51 38 0.24
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:54540722 original size:30 final size:30
Alignment explanation
Indices: 54540688--54540747 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
54540678 CTTTAATACG
54540688 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
54540718 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
54540748 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:54543134 original size:27 final size:27
Alignment explanation
Indices: 54543102--54543155 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
54543092 CAGGAAACTC
54543102 ACAGATAACAGGTACAGATTCAACTTT
1 ACAGATAACAGGTACAGATTCAACTTT
54543129 ACAGATAACAGGTACAGATTCAACTTT
1 ACAGATAACAGGTACAGATTCAACTTT
54543156 CTGTTTCGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (27 bp):
ACAGATAACAGGTACAGATTCAACTTT
Found at i:54547380 original size:77 final size:81
Alignment explanation
Indices: 54547251--54547433 Score: 234
Period size: 77 Copynumber: 2.3 Consensus size: 81
54547241 GCTACTCGTT
* *
54547251 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
54547315 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
54547331 CAAATGCCTTC-GG-CTTAGCCCGGAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
54547393 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
54547409 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54547434 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
76 3 0.03
77 43 0.48
78 20 0.22
79 13 0.14
80 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:54547433 original size:40 final size:40
Alignment explanation
Indices: 54547232--54547433 Score: 236
Period size: 40 Copynumber: 5.1 Consensus size: 40
54547222 CGGAATTTAA
** *
54547232 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
54547272 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
54547312 CCGGATTTAGTAACTCGCACAAATGCCTTC-GG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
54547350 CCGGAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
54547389 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
54547429 CCGGA
1 CCGGA
54547434 CATCATTCAA
Statistics
Matches: 141, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
37 24 0.17
38 11 0.08
39 14 0.10
40 81 0.57
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:54555235 original size:119 final size:120
Alignment explanation
Indices: 54555051--54555275 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
54555041 GCTACACGTT
*
54555051 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
54555116 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * **
54555171 CAAATGCCTTC-GGATCTTAGTCCGGAT-TAGTAACTCGTACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
54555233 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
54555276 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 3 0.03
119 60 0.66
120 28 0.31
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:54555275 original size:40 final size:40
Alignment explanation
Indices: 54555051--54555275 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
54555041 GCTACACGTT
* *
54555051 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
54555091 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
54555131 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
54555171 CAAATGCCTTC-GGATCTTAGTCCGGAT-TAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * * *
54555210 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
54555251 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54555276 CATCATTCAA
Statistics
Matches: 169, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 41 0.24
40 118 0.70
41 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:54560076 original size:21 final size:20
Alignment explanation
Indices: 54560034--54560077 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
54560024 AAAAATTACA
*
54560034 TTTACGGACCTTAAAACGAG
1 TTTACGGACCTTAAAAAGAG
* *
54560054 TTTACGGGGCCTTAAAAATAG
1 TTTAC-GGACCTTAAAAAGAG
54560075 TTT
1 TTT
54560078 GGGATGAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (20 bp):
TTTACGGACCTTAAAAAGAG
Found at i:54563890 original size:14 final size:14
Alignment explanation
Indices: 54563871--54563906 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
54563861 TTGTTTGATT
54563871 GAAAATGGTTTCTG
1 GAAAATGGTTTCTG
*
54563885 GAAAATGATTTCTG
1 GAAAATGGTTTCTG
54563899 GAAAATGG
1 GAAAATGG
54563907 CTTACTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.31
Consensus pattern (14 bp):
GAAAATGGTTTCTG
Found at i:54571086 original size:82 final size:82
Alignment explanation
Indices: 54570949--54571112 Score: 328
Period size: 82 Copynumber: 2.0 Consensus size: 82
54570939 TTAAAAATTC
54570949 ACTAATTAAGCTATTTGATAAATAATTTCTATCATTAACCGTTGTTTTGCTAATATAGTCATTTA
1 ACTAATTAAGCTATTTGATAAATAATTTCTATCATTAACCGTTGTTTTGCTAATATAGTCATTTA
54571014 ATGGCCAATGAAACAAT
66 ATGGCCAATGAAACAAT
54571031 ACTAATTAAGCTATTTGATAAATAATTTCTATCATTAACCGTTGTTTTGCTAATATAGTCATTTA
1 ACTAATTAAGCTATTTGATAAATAATTTCTATCATTAACCGTTGTTTTGCTAATATAGTCATTTA
54571096 ATGGCCAATGAAACAAT
66 ATGGCCAATGAAACAAT
54571113 CATCATGATG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (82 bp):
ACTAATTAAGCTATTTGATAAATAATTTCTATCATTAACCGTTGTTTTGCTAATATAGTCATTTA
ATGGCCAATGAAACAAT
Found at i:54571227 original size:22 final size:22
Alignment explanation
Indices: 54571200--54571245 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
54571190 TGTAAGCAAT
54571200 ATAAAAATTATAAAAAATAAAA
1 ATAAAAATTATAAAAAATAAAA
*
54571222 ATAAAAATTTTAAAAAATAAAA
1 ATAAAAATTATAAAAAATAAAA
54571244 AT
1 AT
54571246 TACTTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAAAATTATAAAAAATAAAA
Found at i:54571764 original size:9 final size:9
Alignment explanation
Indices: 54571743--54571785 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
54571733 TTATTTCTAT
54571743 TTTTTAAAA
1 TTTTTAAAA
54571752 -TTTTAAAA
1 TTTTTAAAA
54571760 TTTTTAAAA
1 TTTTTAAAA
54571769 TTTTTAATAA
1 TTTTTAA-AA
*
54571779 TTATTAA
1 TTTTTAA
54571786 TTAGTTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
8 8 0.26
9 15 0.48
10 8 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:54575180 original size:16 final size:16
Alignment explanation
Indices: 54575159--54575226 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
54575149 TTTGATTCGC
54575159 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
54575175 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
54575191 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
54575207 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
54575223 TGTA
1 TGTA
54575227 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:54575480 original size:16 final size:16
Alignment explanation
Indices: 54575443--54575484 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
54575433 TTAATCATAT
*
54575443 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
54575459 TT-AAATATATTATAA
1 TTAAAATATATTATAA
54575474 TTAAAATATAT
1 TTAAAATATAT
54575485 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:54575491 original size:14 final size:15
Alignment explanation
Indices: 54575452--54575493 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
54575442 TTTAAACATA
*
54575452 ATTATTATTAAATAT
1 ATTATAATTAAATAT
54575467 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
54575481 A-TATAATTTAATA
1 ATTATAATTAAATA
54575494 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:54575590 original size:15 final size:15
Alignment explanation
Indices: 54575562--54575620 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
54575552 ATAAAATATA
54575562 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
54575577 TATTAAATATATTAT
1 AATTAAATATATTAT
54575592 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
54575605 AATTTAATAATATTAT
1 AATTAAAT-ATATTAT
54575621 TAATAATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 9 0.24
14 6 0.16
15 19 0.51
16 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:54575591 original size:120 final size:120
Alignment explanation
Indices: 54575446--54575927 Score: 743
Period size: 120 Copynumber: 4.0 Consensus size: 120
54575436 ATCATATTTA
* *
54575446 AACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTCTTAATAATAA
* * *
54575510 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
65 ATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* * * *
54575566 AACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAATATTATTAATAATCA
1 AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTCTTAATAATAA
* * * *
54575630 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
65 ATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* *
54575686 AATATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
* *
54575751 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATTT
66 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* *
54575806 AAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
* *
54575871 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAGATT
66 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
54575926 AA
1 AA
54575928 TAATGTAGAT
Statistics
Matches: 345, Mismatches: 16, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 342 0.99
121 3 0.01
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
Found at i:54575621 original size:44 final size:43
Alignment explanation
Indices: 54575539--54575623 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
54575529 CTCAAATCAT
* *
54575539 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
* *
54575582 AATATATTATAAT-TAAAATATATAATT-TAATAA-TATTATTA
1 AATATATGATAATATAAAATATA-AATTAAAATAATTATTATTA
54575623 A
1 A
54575624 TAATCAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 9 0.24
42 13 0.35
43 15 0.41
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
Found at i:54575767 original size:38 final size:37
Alignment explanation
Indices: 54575720--54575903 Score: 140
Period size: 37 Copynumber: 4.7 Consensus size: 37
54575710 TTAATAAAAA
*
54575720 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
54575757 TATATGAATTTAATAAAA-TCATAATA-TATAATACTATAT
1 TATAT-AATTTAATAAAATTCTTAATATTA-AATA-T-TAT
* * * * ** *
54575796 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAA
1 TATATAATTT--AATAA-AATTCTT--A-AT-ATTAAATATTAT
*
54575840 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
54575877 TATATGAATTTAATAAAA-TCATAATAT
1 TATAT-AATTTAATAAAATTCTTAATAT
54575904 ATAATACTAT
Statistics
Matches: 114, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
36 2 0.02
37 36 0.32
38 32 0.28
39 7 0.06
40 5 0.04
41 6 0.05
42 7 0.06
44 11 0.10
45 2 0.02
46 5 0.04
47 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (37 bp):
TATATAATTTAATAAAATTCTTAATATTAAATATTAT
Found at i:54575769 original size:56 final size:55
Alignment explanation
Indices: 54575703--54575894 Score: 208
Period size: 56 Copynumber: 3.3 Consensus size: 55
54575693 TTATTATTAA
54575703 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
* * * * *
54575758 ATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT-TTAA-AATAATTATTATT
1 ATAT-AATTTAAT--AA--A-AATATATAAT-TTA-ATAA-A-ATTCTTAATATTAAATATTCTT
54575821 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 --ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
54575878 ATATGAATTTAATAAAA
1 ATAT-AATTTAATAAAA
54575895 TCATAATATA
Statistics
Matches: 112, Mismatches: 10, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
55 10 0.09
56 25 0.22
57 14 0.12
58 4 0.04
59 10 0.09
60 2 0.02
61 10 0.09
62 4 0.04
63 14 0.12
64 13 0.12
65 6 0.05
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (55 bp):
ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
Found at i:54575869 original size:18 final size:18
Alignment explanation
Indices: 54575703--54575856 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
54575693 TTATTATTAA
54575703 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
54575721 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
54575739 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
54575758 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
54575776 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
54575792 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
54575811 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
54575823 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
54575841 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
54575857 TTCTTAATAT
Statistics
Matches: 99, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 8 0.08
17 16 0.16
18 41 0.41
19 15 0.15
20 3 0.03
21 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:54582793 original size:15 final size:15
Alignment explanation
Indices: 54582767--54582822 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
54582757 CAAGGAAACC
54582767 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
54582782 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
54582797 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
54582812 GAATAAAGAAA
1 GAATAAAGAAA
54582823 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:54585126 original size:46 final size:46
Alignment explanation
Indices: 54585003--54585128 Score: 209
Period size: 46 Copynumber: 2.7 Consensus size: 46
54584993 TGTAACCCGC
* *
54585003 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCATTCGCAT
*
54585049 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCG-GACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAG-CATTCGCAT
54585095 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
54585129 TGATGCTCAA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 1 0.01
46 74 0.99
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCATTCGCAT
Found at i:54585150 original size:46 final size:44
Alignment explanation
Indices: 54585008--54585150 Score: 121
Period size: 46 Copynumber: 3.1 Consensus size: 44
54584998 CCCGCCCATA
* *
54585008 AGTGAACTCGGACTCAACTCAACGAGCTCGA-GCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGATGC--TCACCATCC-T
* *** *
54585053 AAGTGAACTCGGATTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-GATGCTCACCATCC-T
54585099 AAGTGAACTCGGACTCAACTCAACGAGTTCTGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-GATGCTC-ACCATCCT
54585146 AGTGA
1 AGTGA
54585151 CATGTCACTT
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
46 75 0.90
47 3 0.04
48 5 0.06
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGATGCTCACCATCCT
Found at i:54590110 original size:30 final size:30
Alignment explanation
Indices: 54590076--54590136 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
54590066 TCCTTAACTC
54590076 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
54590106 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
54590136 A
1 A
54590137 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:54603398 original size:30 final size:30
Alignment explanation
Indices: 54603364--54603424 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
54603354 CACTTAATAC
*
54603364 AAACTTTGGAAAAATTACATTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
54603394 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
54603424 A
1 A
54603425 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:54606568 original size:40 final size:39
Alignment explanation
Indices: 54606484--54606668 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 39
54606474 TCGAATGATG
* *
54606484 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGC-AAGAT-ACTAAA
* *
54606524 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCAAGATACTAAA
* * *
54606564 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGATACTAAA
* *
54606603 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-AAGATACTA-AA
*
54606644 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
54606669 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 34 0.27
40 77 0.62
41 14 0.11
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGATACTAAA
Found at i:54606621 original size:79 final size:81
Alignment explanation
Indices: 54606484--54606668 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 81
54606474 TCGAATGATG
* *
54606484 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
54606548 TGTGC-AAGATACTA-A
66 TGTGCGAA-ATACTATA
* * * **
54606563 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
54606625 TTTGTGCGAATTACTATA
64 TTTGTGCGAAATACTATA
* *
54606643 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54606669 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 54 0.60
80 35 0.39
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAAATACTATA
Found at i:54606690 original size:79 final size:79
Alignment explanation
Indices: 54606537--54606701 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
54606527 GGACTAAGAT
* **
54606537 CCGAAGGCATTTGTGCAAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
54606602 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
54606616 CCGAAGGCATTTGTGCGAA-TTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 CCGAAGGCATTTGTGC-AAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-
* *
54606678 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
54606695 CCGAAGG
1 CCGAAGG
54606702 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 2 0.03
79 45 0.61
80 27 0.36
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:54609714 original size:22 final size:22
Alignment explanation
Indices: 54609687--54609762 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
54609677 ATGTGCATAT
54609687 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
54609709 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
54609733 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
54609756 ATGTGAT
1 ATGTGAT
54609763 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:54609855 original size:47 final size:47
Alignment explanation
Indices: 54609671--54609846 Score: 280
Period size: 47 Copynumber: 3.7 Consensus size: 47
54609661 GATAATTGTG
**
54609671 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
54609718 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
54609765 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGTCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
54609812 ATATGAACATGCATATATGTGGTAAAGCCGAATGG
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGG
54609847 ATAGTGTGAA
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 119 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:54610064 original size:37 final size:37
Alignment explanation
Indices: 54610010--54610122 Score: 181
Period size: 37 Copynumber: 3.1 Consensus size: 37
54610000 GGAAATATAT
* *
54610010 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
54610047 TCCTGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
54610084 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
54610121 TC
1 TC
54610123 TGAGCTAAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:54616022 original size:21 final size:21
Alignment explanation
Indices: 54615998--54616039 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
54615988 TCATCAGATC
*
54615998 TACACCTTGAGGCATCGAGGG
1 TACACCTTGAGGAATCGAGGG
**
54616019 TACAGGTTGAGGAATCGAGGG
1 TACACCTTGAGGAATCGAGGG
54616040 AGGTGGGGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.38, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGAGGG
Found at i:54617506 original size:20 final size:20
Alignment explanation
Indices: 54617481--54617520 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
54617471 TCATACCAAG
54617481 TTCTCAACCCGAGGATTTAA
1 TTCTCAACCCGAGGATTTAA
54617501 TTCTCAACCCGAGGATTTAA
1 TTCTCAACCCGAGGATTTAA
54617521 GCACATACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (20 bp):
TTCTCAACCCGAGGATTTAA
Found at i:54629468 original size:49 final size:49
Alignment explanation
Indices: 54629391--54629635 Score: 303
Period size: 49 Copynumber: 4.9 Consensus size: 49
54629381 TAGCCGAAGC
* *
54629391 TATCTGGTACGCAG-AGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACAC-GTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
54629440 TATCCGGTACACGTAGTAGTCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
54629490 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
54629541 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
54629590 TATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
54629636 TCACAATAGC
Statistics
Matches: 166, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.01
49 80 0.48
50 47 0.28
51 38 0.23
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:54630316 original size:30 final size:30
Alignment explanation
Indices: 54630282--54630341 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
54630272 CTTTAAAATG
54630282 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
54630312 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
54630342 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:54640234 original size:22 final size:22
Alignment explanation
Indices: 54640189--54640234 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
54640179 ATAATTCATA
**
54640189 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAGAAC
*
54640211 ATTATATTAAAGCATTTAGAAC
1 ATTATAATAAAGCATTTAGAAC
54640233 AT
1 AT
54640235 ACTACCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAGAAC
Found at i:54641679 original size:22 final size:22
Alignment explanation
Indices: 54641634--54641679 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
54641624 ATAATTCATA
**
54641634 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAGAAC
*
54641656 ATTATATTAAAGCATTTAGAAC
1 ATTATAATAAAGCATTTAGAAC
54641678 AT
1 AT
54641680 ACTACCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAGAAC
Found at i:54655635 original size:44 final size:44
Alignment explanation
Indices: 54655509--54655637 Score: 138
Period size: 44 Copynumber: 3.0 Consensus size: 44
54655499 AAATTTAGAA
* * * *
54655509 ATCCGAGCTCATTGAGTTGGT--AGGTTCGTGATATGTATG-GAGC
1 ATCCGAGCTCATTGAGTTGGTCCAAGTTCATAACA-G-ATGCGAGC
* *
54655552 ATCCGAGCTCATTGAGTTGGTCCGAGTTCATTACAGATGCGAGC
1 ATCCGAGCTCATTGAGTTGGTCCAAGTTCATAACAGATGCGAGC
* **
54655596 ATCCGAGCTCGTTGAGTTGGTCCAAGTTCATAAGGGATGCGA
1 ATCCGAGCTCATTGAGTTGGTCCAAGTTCATAACAGATGCGA
54655638 TACATGTAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
43 24 0.33
44 42 0.58
45 7 0.10
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (44 bp):
ATCCGAGCTCATTGAGTTGGTCCAAGTTCATAACAGATGCGAGC
Found at i:54666037 original size:38 final size:38
Alignment explanation
Indices: 54665986--54666061 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
54665976 TCTAATGAGT
54665986 ATGTCATTTATTTATATTTCCTTTTCACGAATTTCCAA
1 ATGTCATTTATTTATATTTCCTTTTCACGAATTTCCAA
*
54666024 ATGTCATTTATTTATGTTTCCTTTTCACGAATTTCCAA
1 ATGTCATTTATTTATATTTCCTTTTCACGAATTTCCAA
54666062 TATAACACTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.50
Consensus pattern (38 bp):
ATGTCATTTATTTATATTTCCTTTTCACGAATTTCCAA
Found at i:54676475 original size:27 final size:27
Alignment explanation
Indices: 54676458--54676581 Score: 149
Period size: 27 Copynumber: 4.6 Consensus size: 27
54676448 ATATTAAGTC
54676458 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
54676485 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
54676513 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
54676540 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
54676567 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
54676582 GCACAATTTA
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 66 0.72
28 26 0.28
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:54676542 original size:55 final size:54
Alignment explanation
Indices: 54676458--54676581 Score: 194
Period size: 55 Copynumber: 2.3 Consensus size: 54
54676448 ATATTAAGTC
* *
54676458 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATC-AACT
* * *
54676513 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAACT
54676567 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54676582 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
54 18 0.28
55 46 0.72
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:54688457 original size:40 final size:39
Alignment explanation
Indices: 54688373--54688555 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
54688363 TTGAATAATG
* * * *
54688373 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
54688413 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
54688453 TCCGGGCTAAGCCCGAA-GCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
54688490 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
54688531 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
54688556 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
37 24 0.20
38 8 0.07
39 8 0.07
40 72 0.59
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54688507 original size:77 final size:81
Alignment explanation
Indices: 54688368--54688553 Score: 213
Period size: 77 Copynumber: 2.4 Consensus size: 81
54688358 GTTATTTGAA
* * *
54688368 TAATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGG
1 TAATATCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGG
54688433 CATTTGTGCAAGATAC
66 CATTTGTGCAAGATAC
* * * **
54688449 TAAT-TCCGGGCTAAG-CCCGAA-GCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAG
1 TAATATCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAG
* *
54688509 GCATTTGTGCGAGTTAC
65 GCATTTGTGCAAGATAC
* *
54688526 T-ATAACCGGGCTATGTCCCGAAGGCATT
1 TAATATCCGGGCTAAGTCCCGAAGGCATT
54688554 TGAACGAGGA
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
76 3 0.03
77 47 0.52
78 14 0.16
79 11 0.12
80 11 0.12
81 4 0.04
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
TAATATCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGG
CATTTGTGCAAGATAC
Found at i:54696410 original size:40 final size:39
Alignment explanation
Indices: 54696326--54696510 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
54696316 TTGAATGATG
* * * *
54696326 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
54696366 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
54696406 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
54696445 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
54696486 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
54696511 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54696462 original size:79 final size:81
Alignment explanation
Indices: 54696326--54696508 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
54696316 TTGAATGATG
* *
54696326 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
54696390 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
54696405 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
54696467 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
54696485 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
54696509 TGAACGAGGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:54696532 original size:79 final size:79
Alignment explanation
Indices: 54696379--54696543 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
54696369 GGACTAAGAT
* ** *
54696379 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
*
54696444 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
54696458 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-C
* *
54696521 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
54696537 CCGAAGG
1 CCGAAGG
54696544 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:54699229 original size:19 final size:18
Alignment explanation
Indices: 54699192--54699226 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
54699182 AATCTTTTGT
54699192 ATAATAAATTAACACTTA
1 ATAATAAATTAACACTTA
54699210 ATAATTAAA-TAACACTT
1 ATAA-TAAATTAACACTT
54699227 TAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATAAATTAACACTTA
Found at i:54703589 original size:27 final size:27
Alignment explanation
Indices: 54703547--54703600 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
54703537 AATGTAAGAG
* *
54703547 AAAGGAAGAGGAAGAAGATAGGAGAAA
1 AAAGGAAGAGGAAGAAGAAAAGAGAAA
54703574 AAAGTGAAGAGG-AGAAGAAAAGAGAAA
1 AAAG-GAAGAGGAAGAAGAAAAGAGAAA
54703601 GAGAAGGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.04
Consensus pattern (27 bp):
AAAGGAAGAGGAAGAAGAAAAGAGAAA
Found at i:54703603 original size:19 final size:17
Alignment explanation
Indices: 54703566--54703599 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
54703556 GGAAGAAGAT
*
54703566 AGGAGAAAAAAGTGAAG
1 AGGAGAAAAAAGAGAAG
54703583 AGGAGAAGAAAAGAGAA
1 AGGAGAA-AAAAGAGAA
54703600 AGAGAAGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (17 bp):
AGGAGAAAAAAGAGAAG
Found at i:54703882 original size:29 final size:29
Alignment explanation
Indices: 54703840--54703899 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
54703830 TTTTCAATTT
54703840 TATCAAGTTAATCCTAGAAAAATTACACA
1 TATCAAGTTAATCCTAGAAAAATTACACA
54703869 TATCAAGTTAATCCTAGAAAAATTACACA
1 TATCAAGTTAATCCTAGAAAAATTACACA
54703898 TA
1 TA
54703900 CTTTGGGACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (29 bp):
TATCAAGTTAATCCTAGAAAAATTACACA
Found at i:54713181 original size:52 final size:52
Alignment explanation
Indices: 54713093--54713200 Score: 130
Period size: 52 Copynumber: 2.1 Consensus size: 52
54713083 ATAGAGAAAC
** * * *
54713093 TGTCTTCATGCATTTGAAAATTATCCATTCCTATGTATTTG-GATGAAAAAAA
1 TGTCTTCATGCATTTGAAAACCATACATGCCTATGTATTTGAAATG-AAAAAA
*
54713145 TGTCTTCATGCATTTGAAAACCGTACATG-CTCATGTATTTGAAATGAAAAAA
1 TGTCTTCATGCATTTGAAAACCATACATGCCT-ATGTATTTGAAATGAAAAAA
54713197 TGTC
1 TGTC
54713201 CCTATACATT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
51 2 0.04
52 43 0.90
53 3 0.06
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (52 bp):
TGTCTTCATGCATTTGAAAACCATACATGCCTATGTATTTGAAATGAAAAAA
Found at i:54717640 original size:41 final size:41
Alignment explanation
Indices: 54717587--54717695 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 41
54717577 CGTTGACTCA
* *
54717587 AAAATCCCTTCGAGACCAAGCTCAGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCCC
* * * * * * * *
54717628 GAAGGCCCTTCGAAACTAGGTTC-GGTTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCCC
54717668 AAAAGCCCTTCGAGACCAAGCTCAGATT
1 AAAAGCCCTTCGAGACCAAGCTCAGATT
54717696 TAAACCCCGA
Statistics
Matches: 50, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
40 31 0.62
41 19 0.38
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCCC
Found at i:54732234 original size:18 final size:18
Alignment explanation
Indices: 54732213--54732258 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
54732203 AACAACACGG
54732213 GTGCCATCCAACACACCC
1 GTGCCATCCAACACACCC
*
54732231 GTGCCATCCGACACACCC
1 GTGCCATCCAACACACCC
54732249 GTGCCATCCA
1 GTGCCATCCA
54732259 CTCGTGGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.24, C:0.48, G:0.15, T:0.13
Consensus pattern (18 bp):
GTGCCATCCAACACACCC
Found at i:54739341 original size:184 final size:184
Alignment explanation
Indices: 54739032--54739400 Score: 738
Period size: 184 Copynumber: 2.0 Consensus size: 184
54739022 TACATCAATA
54739032 TTACTTGTATTATGATATTTTATAATAATATTGGAAATATGTTTGTGGATAATTACTTGATTGGT
1 TTACTTGTATTATGATATTTTATAATAATATTGGAAATATGTTTGTGGATAATTACTTGATTGGT
54739097 GAAATTGTTGGAAAGAGAGAGAAATCCCGGTTGAACCTTCGGAAAGATTGGATGATACAGATAGT
66 GAAATTGTTGGAAAGAGAGAGAAATCCCGGTTGAACCTTCGGAAAGATTGGATGATACAGATAGT
54739162 ATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGC
131 ATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGC
54739216 TTACTTGTATTATGATATTTTATAATAATATTGGAAATATGTTTGTGGATAATTACTTGATTGGT
1 TTACTTGTATTATGATATTTTATAATAATATTGGAAATATGTTTGTGGATAATTACTTGATTGGT
54739281 GAAATTGTTGGAAAGAGAGAGAAATCCCGGTTGAACCTTCGGAAAGATTGGATGATACAGATAGT
66 GAAATTGTTGGAAAGAGAGAGAAATCCCGGTTGAACCTTCGGAAAGATTGGATGATACAGATAGT
54739346 ATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGC
131 ATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGC
54739400 T
1 T
54739401 ACAAGACATT
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 185 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (184 bp):
TTACTTGTATTATGATATTTTATAATAATATTGGAAATATGTTTGTGGATAATTACTTGATTGGT
GAAATTGTTGGAAAGAGAGAGAAATCCCGGTTGAACCTTCGGAAAGATTGGATGATACAGATAGT
ATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGC
Found at i:54739505 original size:64 final size:64
Alignment explanation
Indices: 54739339--54739511 Score: 179
Period size: 68 Copynumber: 2.6 Consensus size: 64
54739329 TGGATGATAC
* * * *
54739339 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACA
1 AGATA-TATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCACACCATGTGTACAAGAGAGCTAC-
54739404 AG
63 AG
* * * *
54739406 ACATTATAATGTAGCTAGGTCGCATGGGTGATACTACGTGTACACCATGTAG-ACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCGCATGTGTG-TACTAAGTGCACACCATGT-GTACAAGAGAGCTA
54739470 C-G
62 CAG
*
54739472 GGATATATGTAGCTAGGTCGCATGTGTAGTACTAAGTGCA
1 AGATATATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCA
54739512 GGCTACTATG
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
64 29 0.33
65 4 0.05
66 2 0.02
67 4 0.05
68 48 0.55
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCGCATGTGTGTACTAAGTGCACACCATGTGTACAAGAGAGCTACAG
Found at i:54739663 original size:48 final size:48
Alignment explanation
Indices: 54739494--54739681 Score: 225
Period size: 50 Copynumber: 3.8 Consensus size: 48
54739484 CTAGGTCGCA
* * * *
54739494 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA--TTGGTCA-G
* * * *
54739545 TGTGTAGTACTAAGTGCAGCCTATTACGTGTATCAGATAGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCA-G
*
54739595 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTGCA-
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGT-CAG
*
54739643 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
54739682 GTTTGGCTAC
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
48 37 0.31
49 5 0.04
50 44 0.37
51 33 0.28
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCAG
Found at i:54743980 original size:68 final size:63
Alignment explanation
Indices: 54743860--54744010 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 63
54743850 GATACAGATA
* * * * *
54743860 ATATGTAGCTAGGTCACATGTATGGTGCTAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 ATATGTAGCTAGGTCGCATGGATGATACTAGTGCACACCATGTGTACAAGAGAGCTAC--GACA-
54743925 T
63 T
* * **
54743926 ATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGA
1 AT-ATGTAGCTAGGTCGCATGGATGATACTA-GTGCACACCATGT-GTACAAGAGAGCTACGACA
54743990 T
63 T
54743991 ATATGTAGCTAGGTCGCATG
1 ATATGTAGCTAGGTCGCATG
54744011 TGGTTGCAGG
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
64 18 0.25
65 3 0.04
66 4 0.05
67 23 0.32
68 24 0.33
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (63 bp):
ATATGTAGCTAGGTCGCATGGATGATACTAGTGCACACCATGTGTACAAGAGAGCTACGACAT
Found at i:54748554 original size:50 final size:49
Alignment explanation
Indices: 54748431--54748619 Score: 225
Period size: 50 Copynumber: 3.8 Consensus size: 49
54748421 AGCTAGGTTG
* * * * *
54748431 CGTGTGTAGTACTAAGTGCAGGTTACTATGCGTACCCGATAACTTCGATCA
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCA
* * * *
54748482 TGTGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATAGTTAGGTCA
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCA
*
54748532 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCG
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
* * * *
54748581 CATGTGTAGTACTAAGTGAAGGCTACTATGCGTACCAGA
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
54748620 CAGTTTGGCT
Statistics
Matches: 119, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
49 39 0.33
50 46 0.39
51 34 0.29
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
Found at i:54759420 original size:40 final size:40
Alignment explanation
Indices: 54759375--54759526 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
54759365 ATAACCACAA
* * *
54759375 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
54759415 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
54759455 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
54759495 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
54759527 CATTCAAATG
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:54762972 original size:24 final size:24
Alignment explanation
Indices: 54762942--54762999 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
54762932 TCACATTTCC
54762942 TTTTCTCTTTCACTCGA-TTCTTCT
1 TTTTCTCTTTCACTC-ACTTCTTCT
* * *
54762966 TTTTCTCTCTCATTCACTTTTTCT
1 TTTTCTCTTTCACTCACTTCTTCT
54762990 TTTTCT-TTTC
1 TTTTCTCTTTC
54763000 TCTCTTGCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.07, C:0.28, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTCTCTTTCACTCACTTCTTCT
Found at i:54763076 original size:75 final size:75
Alignment explanation
Indices: 54762985--54763145 Score: 270
Period size: 75 Copynumber: 2.1 Consensus size: 75
54762975 TCATTCACTT
54762985 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTG
1 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTG
54763050 ACTTA-CTCAC
66 AC-TAGCTCAC
* *
54763060 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTTACCTCACTCTCTTTGTTTTTG
1 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTG
54763125 ACTAGCTCAC
66 ACTAGCTCAC
*
54763135 ATTCTTCTTTC
1 TTTCTT-TTTC
54763146 AAATGAATAT
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
74 2 0.02
75 75 0.93
76 4 0.05
ACGTcount: A:0.11, C:0.24, G:0.06, T:0.60
Consensus pattern (75 bp):
TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTG
ACTAGCTCAC
Found at i:54763162 original size:75 final size:75
Alignment explanation
Indices: 54763005--54763162 Score: 185
Period size: 75 Copynumber: 2.1 Consensus size: 75
54762995 TTTTCTCTCT
*
54763005 TGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTGACTTACTCACTTTCTTTTTC
1 TGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTGACTTACTCACATTCTTTTTC
*** ** *
54763070 TTTTCTCTCT
66 AAATCAATCA
* *
54763080 TGCTCATTTTCTCTTGATTTTTTTACCTCACTCTCTTTGTTTTTGAC-TAGCTCACATTCTTCTT
1 TGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTGACTTA-CTCACATTCTT-TT
*
54763144 TCAAATGAAT-A
64 TCAAATCAATCA
*
54763155 TGGTCATT
1 TGCTCATT
54763163 GTACACTTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
74 2 0.03
75 62 0.89
76 6 0.09
ACGTcount: A:0.15, C:0.22, G:0.08, T:0.55
Consensus pattern (75 bp):
TGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTGACTTACTCACATTCTTTTTC
AAATCAATCA
Found at i:54766219 original size:38 final size:39
Alignment explanation
Indices: 54766173--54766273 Score: 105
Period size: 38 Copynumber: 2.6 Consensus size: 39
54766163 GAAATCCTTG
** * * *
54766173 TTATAATTACTGTCGTTATAATTTAT-GATCGAATATTA
1 TTATAATTACTGTAATTATAATTTATCAATCAAACATTA
* *
54766211 TTATAATTATTGTAATTATAATTTTTCAATCAAACATTA
1 TTATAATTACTGTAATTATAATTTATCAATCAAACATTA
**
54766250 TTATAATTTTTGGTAATTATAATT
1 TTATAATTACT-GTAATTATAATT
54766274 ATTATATTCG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 22 0.42
39 19 0.36
40 12 0.23
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (39 bp):
TTATAATTACTGTAATTATAATTTATCAATCAAACATTA
Found at i:54768725 original size:15 final size:14
Alignment explanation
Indices: 54768690--54768725 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
54768680 ATTGTGTGCA
54768690 TTGTAATGAATTAT
1 TTGTAATGAATTAT
*
54768704 ATGTAATGAATTATT
1 TTGTAATGAATTA-T
54768719 TTGTAAT
1 TTGTAAT
54768726 ACTTTCCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
TTGTAATGAATTAT
Found at i:54771872 original size:38 final size:38
Alignment explanation
Indices: 54771753--54771872 Score: 204
Period size: 38 Copynumber: 3.1 Consensus size: 38
54771743 TCGAAATATG
54771753 ATATCCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTAAT
*
54771793 ATAACCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
54771831 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
54771869 ATAT
1 ATAT
54771873 TTGGGCCTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 67 0.87
39 2 0.03
40 8 0.10
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:54771936 original size:46 final size:44
Alignment explanation
Indices: 54771870--54771998 Score: 131
Period size: 46 Copynumber: 3.0 Consensus size: 44
54771860 GCTGGTATTA
* *
54771870 TATTTGGGCCTTT-GAGCCTAGCAGGCTATTATACCGGTGAGACAT
1 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATACCGGTGA-A-AT
* *
54771915 TATTCGGGCCTTTCGAGCCTAGTAGGCTATAATGCCGGTGAAAT
1 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATACCGGTGAAAT
* * * *
54771959 GATATCGGGCC--TCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TAT-TCGGGCCTTTCGAGCCTAGCAGGCTATAATACCGGTGAA
54771999 TGAATAAAAG
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 12 0.16
43 14 0.19
44 4 0.05
45 20 0.27
46 24 0.32
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (44 bp):
TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATACCGGTGAAAT
Found at i:54773373 original size:26 final size:26
Alignment explanation
Indices: 54773344--54773395 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
54773334 AGTACTACAT
54773344 TGAAGTGCACAATCACAACT-TTGCAC
1 TGAAGTGCACAATCACAA-TATTGCAC
*
54773370 TGAAGTTCACAATCACAATATTGCAC
1 TGAAGTGCACAATCACAATATTGCAC
54773396 CAAAGTGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (26 bp):
TGAAGTGCACAATCACAATATTGCAC
Found at i:54773401 original size:26 final size:26
Alignment explanation
Indices: 54773346--54773403 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
54773336 TACTACATTG
**
54773346 AAGTGCACAATCACAACTTTGCACTG
1 AAGTGCACAATCACAACTTTGCACCA
*
54773372 AAGTTCACAATCACAA-TATTGCACCA
1 AAGTGCACAATCACAACT-TTGCACCA
54773398 AAGTGC
1 AAGTGC
54773404 TTAATTCACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (26 bp):
AAGTGCACAATCACAACTTTGCACCA
Found at i:54773449 original size:26 final size:26
Alignment explanation
Indices: 54773420--54773588 Score: 74
Period size: 26 Copynumber: 6.4 Consensus size: 26
54773410 CACATATCGT
*
54773420 ACCGAAGTGCTCAGAT-ACAGTTTAAC
1 ACCGAAGTGCTCAG-TCACAGTATAAC
* * * *
54773446 ACCGAAATGCTTAGTCTCAGTATCAC
1 ACCGAAGTGCTCAGTCACAGTATAAC
* * *
54773472 ACCGAAGTGCTCAATTCATAGTATTAC
1 ACCGAAGTGCTC-AGTCACAGTATAAC
* * * * **
54773499 ACCAAAATGCTTAGTTACAGT-TCTGC
1 ACCGAAGTGCTCAGTCACAGTAT-AAC
* * * **
54773525 ATCGAAGTGCTCAGTCTCATTATCTC
1 ACCGAAGTGCTCAGTCACAGTATAAC
* * *
54773551 ACC-AAATAGCTCAATTCACAGTATCAC
1 ACCGAAGT-GCTC-AGTCACAGTATAAC
54773578 ACCGAAGTGCT
1 ACCGAAGTGCT
54773589 TACAGTTTTG
Statistics
Matches: 102, Mismatches: 34, Indels: 13
0.68 0.23 0.09
Matches are distributed among these distances:
25 5 0.05
26 58 0.57
27 36 0.35
28 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (26 bp):
ACCGAAGTGCTCAGTCACAGTATAAC
Found at i:54773510 original size:53 final size:52
Alignment explanation
Indices: 54773420--54773588 Score: 129
Period size: 53 Copynumber: 3.2 Consensus size: 52
54773410 CACATATCGT
*
54773420 ACCGAAGTGCTCAGA-T-ACAGT-TTAACACCGAAATGCTTAGTCTCAGTATCAC
1 ACCGAAGTGCTCA-ATTCATAGTATT-ACACC-AAATGCTTAGTCTCAGTATCAC
*
54773472 ACCGAAGTGCTCAATTCATAGTATTACACCAAAATGCTTAGT-TACAGT-TCTGC
1 ACCGAAGTGCTCAATTCATAGTATTACACC-AAATGCTTAGTCT-CAGTATC-AC
* * * * *
54773525 ATCGAAGTGCTCAGTCTCAT--TATCT-CACCAAATAGCTCAATTCACAGTATCAC
1 ACCGAAGTGCTCAAT-TCATAGTAT-TACACCAAAT-GCT-TAGTCTCAGTATCAC
54773578 ACCGAAGTGCT
1 ACCGAAGTGCT
54773589 TACAGTTTTG
Statistics
Matches: 96, Mismatches: 10, Indels: 21
0.76 0.08 0.17
Matches are distributed among these distances:
51 5 0.05
52 27 0.28
53 56 0.58
54 8 0.08
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (52 bp):
ACCGAAGTGCTCAATTCATAGTATTACACCAAATGCTTAGTCTCAGTATCAC
Found at i:54776983 original size:600 final size:601
Alignment explanation
Indices: 54775842--54777042 Score: 2233
Period size: 600 Copynumber: 2.0 Consensus size: 601
54775832 ACACAAAGTG
* *
54775842 AGTGTTTTGCCATACATGCCACATTCAAAATACACAAGCCATTTTACCAATTTAGGCCTTCGAAT
1 AGTGTTTTCCCATACATGCCACATTCAAAATACACAAGCCATTTTACCAATTTAAGCCTTCGAAT
* *
54775907 AGTGTGGACGAATCTTCGACCTATCCCAATTCTCAAGCCGGCTTGTCAACAACTACAATGAAAGA
66 AGTGTGAACGAATCTTCGACCTATCCCAATTCTCAAGCCGGCTTGTCAACAACTACAACGAAAGA
*
54775972 AAAGGAGGGAGTAAGCACAAATTCTGAGTAAGTTCACATGCAAATAGCAAGTAACATAATCACAT
131 AAAGGAGGGAGTAAGCACAAATTCTGAGTAAGTTCACATGCAAATAGCAAGTAACATAATCACAC
54776037 AATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATTCATGTTTCATTTACATTTAAT
196 AATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATTCATGTTTCATTTACATTTAAT
*
54776102 ATCTTTCTACGATTTCATCATACCAAGTTTTCAACTTGAGGGTTTAAGCACATACCTATCAAATT
261 ATCTTTCTACGATTTCATCATACCAAGTTTTCAACCTGAGGGTTTAAGCACATACCTATCAAATT
54776167 TTCTCATTTACCACACTTACCAACATGTCACCTTCGTTTTAGGCCTTCTTCTTATTCACTTAAGA
326 TTCTCATTTACCACACTTACCAACATGTCACCTTCGTTTTAGGCCTTCTTCTTATTCACTTAAGA
54776232 TTCACCCATTGAACACATCGAAATATAATTCGAATACACGGATTTCATGAACGTAAGTGTCATAC
391 TTCACCCATTGAACACATCGAAATATAATTCGAATACACGGATTTCATGAACGTAAGTGTCATAC
*
54776297 CCGCAGCTAGACAAACTCAATAGCCTGCGAAACTTATGTAGCCAAGCTACCATGTAACCCGCCCA
456 CCGCAGCTAGACAAACTCAATAACCTGCGAAACTTATGTAGCCAAGCTACCATGTAACCCGCCCA
54776362 TAAGTGAAATCGGACTCAACTCAACGAGCTCGAGCGTTCACATCCATAAGTGAACTAAGACTCAA
521 TAAGTGAAATCGGACTCAACTCAACGAGCTCGAGCGTTCACATCCATAAGTGAACTAAGACTCAA
54776427 CTCAACGAGCTCGGAT
586 CTCAACGAGCTCGGAT
*
54776443 AGTGTTTTCCCATACATGCCACATTCAAAATACACAAGCCATTTTACCAATTTAAGCCTTCGGAT
1 AGTGTTTTCCCATACATGCCACATTCAAAATACACAAGCCATTTTACCAATTTAAGCCTTCGAAT
* *
54776508 AGTGTGAACGAGTCTTCGACCTATCCCGATTCTCAAGCCGGCTTGTCAA-AACTACAACGAAAGA
66 AGTGTGAACGAATCTTCGACCTATCCCAATTCTCAAGCCGGCTTGTCAACAACTACAACGAAAGA
*
54776572 AAAGGAGGGAGTAAGCACAAATTCTGAGTAAGTTCATATGCAAATAGCAAGTAACATAATCACAC
131 AAAGGAGGGAGTAAGCACAAATTCTGAGTAAGTTCACATGCAAATAGCAAGTAACATAATCACAC
54776637 AATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATTCATGTTTCATTTACATTTAAT
196 AATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATTCATGTTTCATTTACATTTAAT
54776702 ATCTTTCTACGATTTCATCATACCAAGTTTTCAACCTGAGGGTTTAAGCACATACCTATCAAATT
261 ATCTTTCTACGATTTCATCATACCAAGTTTTCAACCTGAGGGTTTAAGCACATACCTATCAAATT
54776767 TTCTCATTTACCACACTTACCAACATGTCACCTTCGTTTTAGGCCTTCTTCTTATTCACTTAAGA
326 TTCTCATTTACCACACTTACCAACATGTCACCTTCGTTTTAGGCCTTCTTCTTATTCACTTAAGA
*
54776832 TTCACCCATTGAACACATCGGAATATAATTCGAATACACGGATTTCATGAACGTAAGTGTCATAC
391 TTCACCCATTGAACACATCGAAATATAATTCGAATACACGGATTTCATGAACGTAAGTGTCATAC
*
54776897 CCGCAGCTAGACAAACTCAATAACCTGCGGAACTTATGTAGCCAAGCTACCATGTAACCCGCCCA
456 CCGCAGCTAGACAAACTCAATAACCTGCGAAACTTATGTAGCCAAGCTACCATGTAACCCGCCCA
* * * * *
54776962 TAAGTGAACTCGGACTCAACTCAACGTGCTCGGGTGTTCGCATCCATAAGTGAACTAAGACTCAA
521 TAAGTGAAATCGGACTCAACTCAACGAGCTCGAGCGTTCACATCCATAAGTGAACTAAGACTCAA
54777027 CTCAACGAGCTCGGAT
586 CTCAACGAGCTCGGAT
54777043 GCCTAGTTAC
Statistics
Matches: 582, Mismatches: 18, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
600 474 0.81
601 108 0.19
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (601 bp):
AGTGTTTTCCCATACATGCCACATTCAAAATACACAAGCCATTTTACCAATTTAAGCCTTCGAAT
AGTGTGAACGAATCTTCGACCTATCCCAATTCTCAAGCCGGCTTGTCAACAACTACAACGAAAGA
AAAGGAGGGAGTAAGCACAAATTCTGAGTAAGTTCACATGCAAATAGCAAGTAACATAATCACAC
AATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATTCATGTTTCATTTACATTTAAT
ATCTTTCTACGATTTCATCATACCAAGTTTTCAACCTGAGGGTTTAAGCACATACCTATCAAATT
TTCTCATTTACCACACTTACCAACATGTCACCTTCGTTTTAGGCCTTCTTCTTATTCACTTAAGA
TTCACCCATTGAACACATCGAAATATAATTCGAATACACGGATTTCATGAACGTAAGTGTCATAC
CCGCAGCTAGACAAACTCAATAACCTGCGAAACTTATGTAGCCAAGCTACCATGTAACCCGCCCA
TAAGTGAAATCGGACTCAACTCAACGAGCTCGAGCGTTCACATCCATAAGTGAACTAAGACTCAA
CTCAACGAGCTCGGAT
Found at i:54789759 original size:18 final size:18
Alignment explanation
Indices: 54789738--54789781 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
54789728 ATGAATTATA
54789738 TTTGTGAAATAAACAACT
1 TTTGTGAAATAAACAACT
54789756 TTTGTGAAATAAACAACT
1 TTTGTGAAATAAACAACT
54789774 TTTGTGAA
1 TTTGTGAA
54789782 GTAGTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
TTTGTGAAATAAACAACT
Found at i:54794662 original size:15 final size:15
Alignment explanation
Indices: 54794642--54794686 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
54794632 CCATAATAGT
54794642 CACATATCATATAAA
1 CACATATCATATAAA
* *
54794657 CACATATCACATCACA
1 CACATATCATAT-AAA
54794673 CACATATTCATATA
1 CACATA-TCATATA
54794687 TTATGATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 11 0.44
16 9 0.36
17 5 0.20
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (15 bp):
CACATATCATATAAA
Found at i:54803758 original size:39 final size:39
Alignment explanation
Indices: 54803704--54803860 Score: 244
Period size: 39 Copynumber: 4.0 Consensus size: 39
54803694 GAAATGTGTA
*
54803704 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCCTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCCTTGTGC
54803743 TGGAAATATATCCGGGCTAAAGACCCGCAGGCCTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCCTTGTGC
*
54803782 TGGAAATATATCCGGGCTAAAGACCCGCAGG-CTTCATGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCCTT-GTGC
* * * *
54803821 TGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCCTTGTGC
54803860 T
1 T
54803861 AATAATATAA
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
38 3 0.03
39 104 0.95
40 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCCTTGTGC
Found at i:54807415 original size:40 final size:40
Alignment explanation
Indices: 54807371--54807635 Score: 349
Period size: 40 Copynumber: 6.7 Consensus size: 40
54807361 GCTACTCGTT
* *
54807371 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
54807411 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
54807451 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
54807491 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
54807531 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
54807570 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
54807611 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54807636 CATCATTCGA
Statistics
Matches: 203, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
38 2 0.01
39 32 0.16
40 156 0.77
41 13 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:54807626 original size:119 final size:121
Alignment explanation
Indices: 54807371--54807635 Score: 351
Period size: 119 Copynumber: 2.2 Consensus size: 121
54807361 GCTACTCGTT
* *
54807371 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * *
54807435 GATTTAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 GAATTAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
* *
54807491 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* ** ** * *
54807554 GAATTAGTATCTTGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
66 GAATTAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCA
54807611 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54807636 CATCATTCGA
Statistics
Matches: 127, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
118 3 0.02
119 66 0.52
120 56 0.44
121 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
Found at i:54815858 original size:119 final size:121
Alignment explanation
Indices: 54815603--54815867 Score: 351
Period size: 119 Copynumber: 2.2 Consensus size: 121
54815593 GCTACTCGTT
* *
54815603 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * *
54815667 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCA
* *
54815723 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * ** * * *
54815786 GAATTAGTATCTTGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAGATATAGTAAC-TAGCA
54815843 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54815868 CATCATTCGA
Statistics
Matches: 127, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
118 3 0.02
119 66 0.52
120 56 0.44
121 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCA
Found at i:54815867 original size:40 final size:40
Alignment explanation
Indices: 54815584--54815867 Score: 335
Period size: 40 Copynumber: 7.1 Consensus size: 40
54815574 CGGAATTTAA
** *
54815584 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
54815624 CCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
54815664 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
54815704 CCAGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
54815744 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
54815783 CCGGA-ATTAGTATCTTGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
54815823 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
54815863 CCGGA
1 CCGGA
54815868 CATCATTCGA
Statistics
Matches: 216, Mismatches: 21, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 32 0.15
40 170 0.79
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:54829707 original size:34 final size:35
Alignment explanation
Indices: 54829656--54829722 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
54829646 ATTCTATAGT
*
54829656 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAA
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAA
*
54829690 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGAC
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGAC
54829723 TGTAGCTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 15 0.52
35 8 0.28
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.19
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAA
Found at i:54844582 original size:43 final size:43
Alignment explanation
Indices: 54844500--54844646 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
54844490 TAAGATATCG
* * * * * *
54844500 TGTAAGACCGTGACTGGGACACAGGCCTCGAT-TGAGATTTACG
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATAT-TGATTTACA
* **
54844543 TATAAGACCATGTCTGGGACATCGGCATCG-TATCTGATTT-CA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATAT-TGATTTACA
* *
54844585 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGATTTACA
* *
54844628 CGTAAGACCACGTCTGGGA
1 TGTAAGACCATGTCTGGGA
54844647 TGTCGGTGTT
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
42 33 0.39
43 51 0.61
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGATTTACA
Found at i:54844600 original size:42 final size:43
Alignment explanation
Indices: 54844545--54844646 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
54844535 GATTTACGTA
* ** * *
54844545 TAAGACCATGTCTGGGACATCGGCATCG-TATCTG-ATTTCATG
1 TAAGACCCTGTCTGGGACAGAGGCATCGATAT-TGAATTACACG
54844587 TAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACACG
1 TAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACACG
54844630 TAAGACCAC-GTCTGGGA
1 TAAGACC-CTGTCTGGGA
54844647 TGTCGGTGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
42 27 0.52
43 24 0.46
44 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (43 bp):
TAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACACG
Found at i:54861714 original size:26 final size:26
Alignment explanation
Indices: 54861683--54861732 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
54861673 TGGGTAACAA
54861683 AGAAAATGCATGCATTTCATTTTATG
1 AGAAAATGCATGCATTTCATTTTATG
54861709 AGAAAATGCATGCATTTCATTTTA
1 AGAAAATGCATGCATTTCATTTTA
54861733 CGAGCCTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (26 bp):
AGAAAATGCATGCATTTCATTTTATG
Found at i:54865464 original size:18 final size:18
Alignment explanation
Indices: 54865426--54865464 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
54865416 GACATAGGAA
**
54865426 TAGGAGTAGGATTAGAAT
1 TAGGAGTAGGAGCAGAAT
*
54865444 TAGGAGTAGGAGCAGAGT
1 TAGGAGTAGGAGCAGAAT
54865462 TAG
1 TAG
54865465 ATGTAGAGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.38, T:0.23
Consensus pattern (18 bp):
TAGGAGTAGGAGCAGAAT
Found at i:54867988 original size:22 final size:22
Alignment explanation
Indices: 54867963--54868004 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
54867953 AAGACTATGA
*
54867963 GTATCATGATACCCAAGCTTAG
1 GTATCATGATACCAAAGCTTAG
**
54867985 GTATGGTGATACCAAAGCTT
1 GTATCATGATACCAAAGCTT
54868005 GATAAGTGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (22 bp):
GTATCATGATACCAAAGCTTAG
Found at i:54868212 original size:17 final size:17
Alignment explanation
Indices: 54868191--54868224 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
54868181 AAGTTAGGTT
*
54868191 TTTTTTTTTCTCTTTTCC
1 TTTTCTTTTC-CTTTTCC
54868209 TTTTCTTTTCCTTTTC
1 TTTTCTTTTCCTTTTC
54868225 AATTTTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTCCTTTTCC
Found at i:54873303 original size:22 final size:22
Alignment explanation
Indices: 54873273--54873314 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
54873263 CTATTAGTCC
54873273 TTGTAGCGCA-TCTTGTTGGCCA
1 TTGTAGCGCATTC-TGTTGGCCA
*
54873295 TTGTGGCGCATTCTGTTGGC
1 TTGTAGCGCATTCTGTTGGC
54873315 ATTTATGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.10, C:0.21, G:0.31, T:0.38
Consensus pattern (22 bp):
TTGTAGCGCATTCTGTTGGCCA
Done.