Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 229 of 345
Found at i:66796804 original size:27 final size:28
Alignment explanation
Indices: 66796748--66796817 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
66796738 AAATTTGTAC
66796748 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
66796776 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
66796803 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66796818 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:66804708 original size:27 final size:28
Alignment explanation
Indices: 66804652--66804721 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
66804642 AAATTTGTAC
66804652 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
66804680 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
66804707 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66804722 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:66815606 original size:48 final size:48
Alignment explanation
Indices: 66815509--66815915 Score: 197
Period size: 47 Copynumber: 8.6 Consensus size: 48
66815499 TTTGTGTGCT
* ** * *
66815509 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC-ACATTATGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGA-GATGAGAGCC
66815555 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCATTGAGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCC-TTGAGATGAGAGCC
** * *
66815603 AGTGTAAGA-CATGTCTGGGACAT-GCATGGGCCTCGAGATGTA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATG-AGAGCC
* * * * * *
66815649 AGTGTAAGA-CATGTCTGGGGA-AT-GCA-CTGACTACGAAAT--GTGTC
1 AGTGTAAGACCATGTCT-GGGACATGGCATCAGCCT-TGAGATGAGAGCC
** * ***
66815693 AGTGTAAGACCATGTCTGGGACATGGTGTCGGCACGTAT-AGA-G-GTTTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-C-T-TGAGATGAGAGCC
* ** * * * *
66815741 TGTGTAAGACCATGTCTGGGACATTACATCAGCAC-AGATATGTGAGAACT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTTGAGA--TGAGAGCC
* * * ** * *
66815791 AGTGTAAGACCACGTCTGGGACATGGCGTCAGCCTCGATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGAT-GAGAGCC
* * * *
66815840 AGTGTAAGTCCATGTCTAGGACATGGCATC-GACTT--GATGGATGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGAT-GA-GAGCC
66815887 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
66815916 TGGCACTACA
Statistics
Matches: 279, Mismatches: 58, Indels: 47
0.73 0.15 0.12
Matches are distributed among these distances:
44 14 0.05
45 12 0.04
46 55 0.20
47 70 0.25
48 62 0.22
49 34 0.12
50 32 0.11
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATGAGAGCC
Found at i:66815657 original size:46 final size:45
Alignment explanation
Indices: 66815506--66815717 Score: 186
Period size: 46 Copynumber: 4.6 Consensus size: 45
66815496 TTATTTGTGT
* *
66815506 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCAT-GGCCTCGA-GATGAGA
* *
66815552 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGCCATTGAGATGAGA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATGGCC-TCGAGATGAGA
*
66815600 GCCAGTGTAAGACATGTCTGGGACATGCATGGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCAT-GGCCTCGAGATG-AGA
* * *
66815646 GCTAGTGTAAGACATGTCTGGGGA-ATGCACT-GACTACGAAATGTG-
1 GCTAGTGTAAGACATGTCT-GGGACATGCA-TGGCCT-CGAGATGAGA
*
66815691 TC-AGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
66815718 GTGTCGGCAC
Statistics
Matches: 140, Mismatches: 12, Indels: 29
0.77 0.07 0.16
Matches are distributed among these distances:
44 13 0.09
45 15 0.11
46 51 0.36
47 40 0.29
48 20 0.14
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATGGCCTCGAGATGAGA
Found at i:66825887 original size:21 final size:21
Alignment explanation
Indices: 66825849--66825888 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
66825839 ATTACTCAAG
*
66825849 AGAAGCCGATTGATCCATCTC
1 AGAAGCCGATTCATCCATCTC
66825870 AGAAGCCGGATTCA-CCATC
1 AGAAGCC-GATTCATCCATC
66825889 AAGACTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (21 bp):
AGAAGCCGATTCATCCATCTC
Found at i:66830015 original size:46 final size:47
Alignment explanation
Indices: 66829837--66830200 Score: 256
Period size: 46 Copynumber: 7.7 Consensus size: 47
66829827 TTTGTGTGCT
* *
66829837 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGA-GATGTA-AGCC
* * * *
66829883 AGTGTAAGACCATGTTTGGGACATGGCATCAGCATTGAGACG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAGATGTA-AGCC
* *
66829931 GGTGTAAGA-CATGTATGGGACAT-GCATCGGC-CTTGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--GAGATGTAAGCC
*
66829977 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGAGATGTAAGCC
* * * * *
66830021 AGTGTATGACCATGTCTAGGACATGGCATCAGCACGTATAGAGGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACG---AGATGTAAGCC
* * * * *
66830069 AGTGTAAGACCATGTCTAGGACATGGCATCTGCACAAATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GAGATGT-A-AGCC
* ** *
66830119 AGTGTAAGACCATGTCTGGGACATGGCA-CCG-ACTTGATGGATACGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGAT-G-TAAGCC
*
66830166 AGTGTAAGACCATGTCTGGGACATGGCATTGGCAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
66830201 TACACCCTAT
Statistics
Matches: 263, Mismatches: 32, Indels: 43
0.78 0.09 0.13
Matches are distributed among these distances:
44 10 0.04
45 16 0.06
46 72 0.27
47 62 0.24
48 69 0.26
49 6 0.02
50 28 0.11
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGTAAGCC
Found at i:66837675 original size:47 final size:47
Alignment explanation
Indices: 66837624--66837728 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
66837614 TAGTATTAAT
* *
66837624 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA
66837671 TATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA
*
66837718 AATGTGATAAG
1 TATGTGATAAG
66837729 TCCCGAAGGA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA
Found at i:66847249 original size:39 final size:39
Alignment explanation
Indices: 66847165--66847327 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
66847155 TATGGTAACC
** *
66847165 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
66847205 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
66847244 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
66847283 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
66847322 CGCACA
1 CGCACA
66847328 TTCATTCACA
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 98 0.87
40 15 0.13
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:66869626 original size:27 final size:28
Alignment explanation
Indices: 66869570--66869639 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
66869560 AAACTTGTAC
66869570 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
66869598 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
66869625 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66869640 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:66869650 original size:27 final size:27
Alignment explanation
Indices: 66869570--66869651 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
66869560 AAACTTGTAC
* *
66869570 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
66869598 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
66869625 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
66869652 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:66876099 original size:27 final size:27
Alignment explanation
Indices: 66876061--66876114 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
66876051 TTTCAAAGTC
66876061 TCAATAATCATAAGCTTAGTGTACATA
1 TCAATAATCATAAGCTTAGTGTACATA
66876088 TCAATAATCATAAGCTTAGTGTACATA
1 TCAATAATCATAAGCTTAGTGTACATA
66876115 CCTGTACCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (27 bp):
TCAATAATCATAAGCTTAGTGTACATA
Found at i:66876552 original size:45 final size:45
Alignment explanation
Indices: 66876469--66876559 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
66876459 CACATCCATA
* *
66876469 ATGAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATC
1 ATGAACTCGGACCAACTCAACAAGCTCAGATGCTTCACATATATC
* * *
66876514 ATGAACTTGGACCAACTCAACAAGTTCAGAT-TTCTCACATATATC
1 ATGAACTCGGACCAACTCAACAAGCTCAGATGCT-TCACATATATC
66876559 A
1 A
66876560 CATAATATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.03
45 39 0.98
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.25
Consensus pattern (45 bp):
ATGAACTCGGACCAACTCAACAAGCTCAGATGCTTCACATATATC
Found at i:66891103 original size:39 final size:39
Alignment explanation
Indices: 66891019--66891171 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
66891009 TATGGTAACC
** * *
66891019 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
66891059 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
66891098 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
66891137 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
66891172 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:66891145 original size:78 final size:79
Alignment explanation
Indices: 66890988--66891170 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
66890978 TCGTTCAAAA
* * **
66890988 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
66891053 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
66891068 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
66891132 CAATTTGCACAATT
66 CAATTTGCACAATT
66891146 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
66891171 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:66893178 original size:40 final size:41
Alignment explanation
Indices: 66893092--66893237 Score: 147
Period size: 40 Copynumber: 3.6 Consensus size: 41
66893082 GCGTCTCGCT
* * * ** *
66893092 CAAAAGCCTTCGGGACATAGCCCGGTTATAATAGCTT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATGGTAACTTAGCA
* * * *
66893132 CGAATGCCTTCGGGACTTAACCCGGATTTGGTAAC-TGGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATGGTAACTTAGCA
* *
66893172 CAAATGCCTTC-GGACCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATGGTAACTTAGCA
66893213 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66893238 CATCATTCGA
Statistics
Matches: 86, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.83
41 11 0.13
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATGGTAACTTAGCA
Found at i:66895068 original size:50 final size:48
Alignment explanation
Indices: 66894935--66895116 Score: 211
Period size: 50 Copynumber: 3.7 Consensus size: 48
66894925 ATTTTGGGCT
* * * *
66894935 GTCACATATGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGATAA-TT-G
* **
66894986 ATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGATAATT-G
* * *
66895036 GTCACGTGTATAGTACTAAGTGCAGGCTACTACATGTACTAGATAATTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-AGATAATTG
*
66895085 GTCACATGTGTAGTACTAAATGCAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
66895117 TGGGTACCAG
Statistics
Matches: 112, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 31 0.28
50 43 0.38
51 38 0.34
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (48 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGATAATTG
Found at i:66895128 original size:99 final size:101
Alignment explanation
Indices: 66894945--66895128 Score: 264
Period size: 99 Copynumber: 1.8 Consensus size: 101
66894935 GTCACATATG
** * *
66894945 TAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTGTAGTACTAAGTGCA
1 TAGTACTAAGTGCAGGCTACTACACGTACCAGATAACTTCGATCACATGTGTAGTACTAAATGCA
* *
66895010 GGCTACTACGTGTATCAGATGGTTAGGTCACGTGTA
66 GGCTACTACGGGTACCAGATGGTTAGGTCACGTGTA
* * *
66895046 TAGTACTAAGTGCAGGCTACTACATGTACTAGATAA-TT-GGTCACATGTGTAGTACTAAATGCA
1 TAGTACTAAGTGCAGGCTACTACACGTACCAGATAACTTCGATCACATGTGTAGTACTAAATGCA
*
66895109 GGCTACTATGGGTACCAGAT
66 GGCTACTACGGGTACCAGAT
66895129 AGTTTGGCTA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 40 0.55
100 2 0.03
101 31 0.42
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (101 bp):
TAGTACTAAGTGCAGGCTACTACACGTACCAGATAACTTCGATCACATGTGTAGTACTAAATGCA
GGCTACTACGGGTACCAGATGGTTAGGTCACGTGTA
Found at i:66897301 original size:12 final size:12
Alignment explanation
Indices: 66897284--66897330 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
66897274 TCGAGCACCT
66897284 CCACGGCCTCTG
1 CCACGGCCTCTG
66897296 CCACGGCCTCTG
1 CCACGGCCTCTG
66897308 CCACGGCCTCTG
1 CCACGGCCTCTG
*
66897320 CCGCGGCCTCT
1 CCACGGCCTCT
66897331 TGTACCCCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.06, C:0.51, G:0.26, T:0.17
Consensus pattern (12 bp):
CCACGGCCTCTG
Found at i:66898753 original size:24 final size:26
Alignment explanation
Indices: 66898698--66898748 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
66898688 AGTCATACAT
*
66898698 CTCATAAGGGCATAATAATCATTTTA
1 CTCAAAAGGGCATAATAATCATTTTA
*
66898724 CCTCAAAAGGGCATAATAGTCATTT
1 -CTCAAAAGGGCATAATAATCATTT
66898749 ATCAATCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (26 bp):
CTCAAAAGGGCATAATAATCATTTTA
Found at i:66914234 original size:40 final size:40
Alignment explanation
Indices: 66914190--66914330 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
66914180 CAAGCGCAAT
* * ** *
66914190 TGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAAA
* * *
66914230 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAAA
* *
66914270 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAAA
*
66914310 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
66914331 GTATCATTCA
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAAA
Found at i:66917901 original size:27 final size:28
Alignment explanation
Indices: 66917871--66917940 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
66917861 ATAGTGAATC
*
66917871 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
66917898 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
66917926 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66917941 GTACAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:66924440 original size:27 final size:28
Alignment explanation
Indices: 66924410--66924479 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
66924400 ATAGTGAATC
*
66924410 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
66924437 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
66924465 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66924480 GTACAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:66928405 original size:28 final size:28
Alignment explanation
Indices: 66928365--66928443 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
66928355 GCAATCAAAT
* *
66928365 ATGGCACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
66928393 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* * *
66928421 ACGACACTTAGTGTGTGAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
66928444 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:66928608 original size:41 final size:41
Alignment explanation
Indices: 66928562--66928674 Score: 106
Period size: 40 Copynumber: 2.8 Consensus size: 41
66928552 GGTGATATTC
* *
66928562 GGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTAAAT-A
1 GGGC-TTGAGCCTAGCAAGCCTTGTGCCGGTGAATAAAATCA
* *
66928603 GGGCTT-ATGCCTAGCAAG-CTTATTGCCGGTGTATAAAATCA
1 GGGCTTGA-GCCTAGCAAGCCTT-GTGCCGGTGAATAAAATCA
** * *
66928644 GACCTTGAGTCTAGCAAGCCTTGTGCGGGTG
1 GGGCTTGAGCCTAGCAAGCCTTGTGCCGGTG
66928675 TGAGATACAG
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
39 4 0.07
40 25 0.43
41 25 0.43
42 4 0.07
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (41 bp):
GGGCTTGAGCCTAGCAAGCCTTGTGCCGGTGAATAAAATCA
Found at i:66931560 original size:21 final size:22
Alignment explanation
Indices: 66931529--66931569 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
66931519 AAATGTATTG
*
66931529 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
66931551 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
66931570 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:66940208 original size:14 final size:14
Alignment explanation
Indices: 66940189--66940216 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66940179 GGGACAGTGC
66940189 GTTGTCCCTAGCTA
1 GTTGTCCCTAGCTA
66940203 GTTGTCCCTAGCTA
1 GTTGTCCCTAGCTA
66940217 CTCAATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.21, T:0.36
Consensus pattern (14 bp):
GTTGTCCCTAGCTA
Found at i:66941414 original size:34 final size:34
Alignment explanation
Indices: 66941356--66941451 Score: 106
Period size: 34 Copynumber: 2.8 Consensus size: 34
66941346 GTTCCAGTTA
* *
66941356 GGACCTTAGCCCCTTTTCATTAACAGTATCAGTCT
1 GGACCTTAG-CCCATTTCAATAACAGTATCAGTCT
* * *
66941391 GGACCTGAGCCCATTTCAGTAACAG-AGGCAGTCT
1 GGACCTTAGCCCATTTCAATAACAGTA-TCAGTCT
*
66941425 GGGCCTTAGCCCATTTCAAT-ACAGTAT
1 GGACCTTAGCCCATTTCAATAACAGTAT
66941452 GCAAACAAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
33 5 0.10
34 38 0.75
35 8 0.16
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (34 bp):
GGACCTTAGCCCATTTCAATAACAGTATCAGTCT
Found at i:66945070 original size:21 final size:20
Alignment explanation
Indices: 66945046--66945090 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
66945036 TAAAATTTTC
66945046 ATAATTTTTGGTTTATCACAG
1 ATAA-TTTTGGTTTATCACAG
*
66945067 ATAA--TTGGTTTATCTCAG
1 ATAATTTTGGTTTATCACAG
66945085 ATAATT
1 ATAATT
66945091 GGATTTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 17 0.81
21 4 0.19
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (20 bp):
ATAATTTTGGTTTATCACAG
Found at i:66945076 original size:18 final size:18
Alignment explanation
Indices: 66945053--66945092 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
66945043 TTCATAATTT
66945053 TTGGTTTATCACAGATAA
1 TTGGTTTATCACAGATAA
*
66945071 TTGGTTTATCTCAGATAA
1 TTGGTTTATCACAGATAA
66945089 TTGG
1 TTGG
66945093 ATTTTTGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (18 bp):
TTGGTTTATCACAGATAA
Found at i:66946236 original size:78 final size:81
Alignment explanation
Indices: 66946125--66946306 Score: 223
Period size: 78 Copynumber: 2.3 Consensus size: 81
66946115 TACTCGTTCA
* *
66946125 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
66946188 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
66946205 AATGCCTTC-GG-CTTAGCCCGGAAT-TAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
66946267 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
66946283 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
66946307 CATCATTCGA
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
77 3 0.03
78 56 0.64
79 9 0.10
80 20 0.23
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:66946306 original size:40 final size:39
Alignment explanation
Indices: 66946123--66946306 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
66946113 GCTACTCGTT
* *
66946123 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
66946163 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
66946203 CCAATGCCTTC-GG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 -CAAAGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
66946241 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
66946282 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
66946307 CATCATTCGA
Statistics
Matches: 124, Mismatches: 12, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
37 1 0.01
38 33 0.27
39 2 0.02
40 76 0.61
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:66956885 original size:39 final size:39
Alignment explanation
Indices: 66956795--66957018 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 39
66956785 TCGAATGATG
* * *
66956795 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
66956835 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
66956875 T-CGGACTAAGATCCGAAGGCATTTGTGTGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
66956914 TCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
66956953 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
66956994 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
66957019 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 72 0.44
40 81 0.50
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:66956971 original size:79 final size:80
Alignment explanation
Indices: 66956795--66957016 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 80
66956785 TCGAATGATG
* * * *
66956795 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
66956859 TGTGCGAGTTACTAAA
65 GGTGCGAGTTACTAAA
*
66956875 T-CGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGTGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCAT
*
66956936 TGGTGTGAGTTACTAAA
64 TGGTGCGAGTTACTAAA
* * * * *
66956953 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
66957017 TGAACGAGTA
Statistics
Matches: 123, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
78 28 0.23
79 74 0.60
80 21 0.17
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTG
GTGCGAGTTACTAAA
Found at i:66957040 original size:79 final size:79
Alignment explanation
Indices: 66956802--66957051 Score: 262
Period size: 79 Copynumber: 3.2 Consensus size: 79
66956792 ATGTCCGGGC
* * *
66956802 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
66956865 AGTTACTAAAT-CGGAC
64 AGTTACTAAATCCGG-T
* * *
66956881 TAAGAT-CCGAAGGCATTTGTGTGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGTG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
66956943 AGTTACTAAATCCGGGT
64 AGTTACTAAATCC-GGT
* * **
66956960 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
66957025 -TAGCTATATCCGGT
66 TTA-CTAAATCCGGT
* *
66957039 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
66957052 TACGTGATTC
Statistics
Matches: 144, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
78 28 0.19
79 83 0.58
80 33 0.23
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAAATCCGGT
Found at i:66965101 original size:79 final size:80
Alignment explanation
Indices: 66965000--66965165 Score: 239
Period size: 79 Copynumber: 2.1 Consensus size: 80
66964990 CTAAGATCCA
**
66965000 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 AAGGCATCGGTGCGAGTTACTAAATCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
*
66965063 TTCCGGGCTAAG-CCCG
65 -ACCGGGCTAAGTCCCG
**
66965079 AAGGCATCGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 AAGGCATCGGTGCGAGTTACTAAATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
66965144 CCGGGCTATGTCCCG
66 CCGGGCTAAGTCCCG
66965159 AAGGCAT
1 AAGGCAT
66965166 TTGAACGAGT
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
78 1 0.01
79 65 0.83
80 12 0.15
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
AAGGCATCGGTGCGAGTTACTAAATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
CCGGGCTAAGTCCCG
Found at i:66965175 original size:40 final size:40
Alignment explanation
Indices: 66964944--66965168 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
66964934 TCGAATGATG
* * ** *
66964944 TCCGGGCTAAGTCCAGAAGGC-TTTGTGCTAAGTGGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
66964984 TCCAGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
66965024 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
**
66965064 TCCGGGCTAAG-CCCGAAGGCATCGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
66965103 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
66965144 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66965169 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 34 0.21
40 116 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:66965190 original size:79 final size:79
Alignment explanation
Indices: 66965012--66965201 Score: 217
Period size: 79 Copynumber: 2.4 Consensus size: 79
66965002 GGCATTTGTG
** *
66965012 CGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGC
1 CGAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGC
**
66965076 CCGAAGGCATCGGTG
65 CCGAAGGCATCGGAA
* *
66965091 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGT
1 CGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-
**
66965155 CCCGAAGGCATTTGAA
64 CCCGAAGGCATCGGAA
* *
66965171 CGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
66965202 TACGTGATTC
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 69 0.73
80 23 0.24
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCC
CGAAGGCATCGGAA
Found at i:66975855 original size:39 final size:39
Alignment explanation
Indices: 66975812--66975890 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
66975802 TGGGAAGTGA
66975812 ATGAGTAAATTATTTTGATTATACTATAACTAAGTGTGT
1 ATGAGTAAATTATTTTGATTATACTATAACTAAGTGTGT
66975851 ATGAGTAAATTATTTTGATTATACTATAACTAAGTGTGT
1 ATGAGTAAATTATTTTGATTATACTATAACTAAGTGTGT
66975890 A
1 A
66975891 ATACCCTCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (39 bp):
ATGAGTAAATTATTTTGATTATACTATAACTAAGTGTGT
Found at i:66977639 original size:54 final size:54
Alignment explanation
Indices: 66977581--66977707 Score: 130
Period size: 54 Copynumber: 2.4 Consensus size: 54
66977571 GCATCCTGTT
* * ** * * **
66977581 GGACTATCTTGTGTTTAACG-TCTCTTTGGATTATCCCATGTTTGATGTCCCATC
1 GGACTATCATGTGTTTAACGTTC-CATCAGAGTATCCCATGTTTAACATCCCATC
** *
66977635 GGACTATCCCGTGTTTAATGTTCCATCAGAGTATCCCATGTTTAACATCCCATC
1 GGACTATCATGTGTTTAACGTTCCATCAGAGTATCCCATGTTTAACATCCCATC
*
66977689 AGACTATCATGTGTTTAAC
1 GGACTATCATGTGTTTAAC
66977708 ATCCCATTGA
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
54 56 0.97
55 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
GGACTATCATGTGTTTAACGTTCCATCAGAGTATCCCATGTTTAACATCCCATC
Found at i:66977642 original size:27 final size:27
Alignment explanation
Indices: 66977612--66977696 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
66977602 CTCTTTGGAT
* *
66977612 TATCCCATGTTTGATGTCCCATCGGAC
1 TATCCCATGTTTAATGTCCCATCAGAC
* * *
66977639 TATCCCGTGTTTAATGTTCCATCAGAG
1 TATCCCATGTTTAATGTCCCATCAGAC
**
66977666 TATCCCATGTTTAACATCCCATCAGAC
1 TATCCCATGTTTAATGTCCCATCAGAC
66977693 TATC
1 TATC
66977697 ATGTGTTTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (27 bp):
TATCCCATGTTTAATGTCCCATCAGAC
Found at i:66977703 original size:27 final size:27
Alignment explanation
Indices: 66977628--66977714 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
66977618 ATGTTTGATG
* **
66977628 TCCCATCGGACTATCCCGTGTTTAATG
1 TCCCATCAGACTATCCCGTGTTTAACA
* * *
66977655 TTCCATCAGAGTATCCCATGTTTAACA
1 TCCCATCAGACTATCCCGTGTTTAACA
**
66977682 TCCCATCAGACTATCATGTGTTTAACA
1 TCCCATCAGACTATCCCGTGTTTAACA
66977709 TCCCAT
1 TCCCAT
66977715 TGAACTATCT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (27 bp):
TCCCATCAGACTATCCCGTGTTTAACA
Found at i:66977922 original size:45 final size:45
Alignment explanation
Indices: 66977870--66978037 Score: 185
Period size: 45 Copynumber: 3.7 Consensus size: 45
66977860 TGATATCATG
*
66977870 ACATCTTTTAGATATGGTCTTACTCAT-TTCTATCATGATGCCATA
1 ACATCTTTTAGCTATGGTCTTACTCATCTT-TATCATGATGCCATA
* * * * * ** *
66977915 TCTTCTTTCAGCTATGGTATTACTTATCTTTATGGTGATTCCATA
1 ACATCTTTTAGCTATGGTCTTACTCATCTTTATCATGATGCCATA
* * *
66977960 AAATCTTTTAGCTATGATCTTACTCATCTTTATCATGATGTCATA
1 ACATCTTTTAGCTATGGTCTTACTCATCTTTATCATGATGCCATA
* * *
66978005 GCATCTTTTAGCTATGGTTTTACTCATTTTTAT
1 ACATCTTTTAGCTATGGTCTTACTCATCTTTAT
66978038 GCATATAGGC
Statistics
Matches: 97, Mismatches: 25, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
45 95 0.98
46 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (45 bp):
ACATCTTTTAGCTATGGTCTTACTCATCTTTATCATGATGCCATA
Found at i:66977985 original size:90 final size:90
Alignment explanation
Indices: 66977872--66978038 Score: 237
Period size: 90 Copynumber: 1.9 Consensus size: 90
66977862 ATATCATGAC
* * *
66977872 ATCTTTTAGATATGGTCTTACTCAT-TTCTATCATGATGCCATATCTTCTTTCAGCTATGGTATT
1 ATCTTTTAGATATGATCTTACTCATCTT-TATCATGATGCCATAGCATCTTTCAGCTATGGTATT
*
66977936 ACTTATCTTTATGGTGATTCCATAAA
65 ACTCATCTTTATGGTGATTCCATAAA
* * * *
66977962 ATCTTTTAGCTATGATCTTACTCATCTTTATCATGATGTCATAGCATCTTTTAGCTATGGTTTTA
1 ATCTTTTAGATATGATCTTACTCATCTTTATCATGATGCCATAGCATCTTTCAGCTATGGTATTA
*
66978027 CTCATTTTTATG
66 CTCATCTTTATG
66978039 CATATAGGCT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
90 65 0.97
91 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.47
Consensus pattern (90 bp):
ATCTTTTAGATATGATCTTACTCATCTTTATCATGATGCCATAGCATCTTTCAGCTATGGTATTA
CTCATCTTTATGGTGATTCCATAAA
Found at i:66977988 original size:23 final size:23
Alignment explanation
Indices: 66977962--66978036 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 23
66977952 ATTCCATAAA
66977962 ATCTTTTAGCTATGATCTTACTC
1 ATCTTTTAGCTATGATCTTACTC
* * *
66977985 ATC-TTTATC-ATGATGTCATA-GC
1 ATCTTTTAGCTATGA--TCTTACTC
* *
66978007 ATCTTTTAGCTATGGTTTTACTC
1 ATCTTTTAGCTATGATCTTACTC
66978030 AT-TTTTA
1 ATCTTTTA
66978037 TGCATATAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
21 4 0.10
22 17 0.44
23 15 0.38
24 3 0.08
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (23 bp):
ATCTTTTAGCTATGATCTTACTC
Found at i:66981742 original size:40 final size:41
Alignment explanation
Indices: 66981697--66981863 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
66981687 CGGAATATAA
*
66981697 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
66981737 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
66981777 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
66981817 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
66981856 CCGGATAT
1 CCGGATAT
66981864 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66982709 original size:17 final size:19
Alignment explanation
Indices: 66982686--66982731 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
66982676 AAGAAGCATG
66982686 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
66982704 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
66982722 AATCATGCTC
1 AATCATGCTC
66982732 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:66989776 original size:40 final size:40
Alignment explanation
Indices: 66989731--66989897 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
66989721 CGGAATATAA
66989731 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
66989771 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
66989811 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
66989851 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
66989890 CCGGATAT
1 CCGGATAT
66989898 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66990748 original size:17 final size:19
Alignment explanation
Indices: 66990725--66990770 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
66990715 AAGAAGCATG
66990725 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
66990743 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
66990761 AATCATGCTC
1 AATCATGCTC
66990771 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:66993019 original size:28 final size:28
Alignment explanation
Indices: 66992978--66993031 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
66992968 ATACCGTTAA
*
66992978 ATACTCAATGTCTCACACACTAAGTGCC
1 ATACTCAATATCTCACACACTAAGTGCC
*
66993006 ATACTCAATATCTCACACATTAAGTG
1 ATACTCAATATCTCACACACTAAGTG
66993032 TCGTACATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.28
Consensus pattern (28 bp):
ATACTCAATATCTCACACACTAAGTGCC
Found at i:66993070 original size:40 final size:41
Alignment explanation
Indices: 66993021--66993115 Score: 102
Period size: 40 Copynumber: 2.3 Consensus size: 41
66993011 CAATATCTCA
* * *
66993021 CACATTAAGTGTCGTACATACCTAAAGCTATCTC-AAATCG
1 CACACTAAGTGCCATACATACCTAAAGCTATCTCGAAATCG
* * * * **
66993061 CACACTAAGTGCCATATATAGCTGACGCTATCTCGATCTCG
1 CACACTAAGTGCCATACATACCTAAAGCTATCTCGAAATCG
66993102 CACACTAAGTGCCA
1 CACACTAAGTGCCA
66993116 CAAATAGCCG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 27 0.60
41 18 0.40
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (41 bp):
CACACTAAGTGCCATACATACCTAAAGCTATCTCGAAATCG
Found at i:67006664 original size:241 final size:241
Alignment explanation
Indices: 67006241--67006725 Score: 970
Period size: 241 Copynumber: 2.0 Consensus size: 241
67006231 CTAGCATATG
67006241 TGTTTATACTATCAAGGTGTTGGATTGATAGTGTGATGCTGGCTCCGACGATCTCCAACCCTGAG
1 TGTTTATACTATCAAGGTGTTGGATTGATAGTGTGATGCTGGCTCCGACGATCTCCAACCCTGAG
67006306 CTAACCTGACAACACTAAAAGAAATGGAAAGGAGGGGGTAAGCTTTACGCTTAGTAAGCTCGCAT
66 CTAACCTGACAACACTAAAAGAAATGGAAAGGAGGGGGTAAGCTTTACGCTTAGTAAGCTCGCAT
67006371 GAAATAATAATAAGCAATTTACGAACATGCTTTCCATAGTAAAACTAACCCAATTGTACATTTAC
131 GAAATAATAATAAGCAATTTACGAACATGCTTTCCATAGTAAAACTAACCCAATTGTACATTTAC
67006436 ACATGTTTTGGTTAAGCTGGTTTTTTGGGTCACAGTCACTAAATCA
196 ACATGTTTTGGTTAAGCTGGTTTTTTGGGTCACAGTCACTAAATCA
67006482 TGTTTATACTATCAAGGTGTTGGATTGATAGTGTGATGCTGGCTCCGACGATCTCCAACCCTGAG
1 TGTTTATACTATCAAGGTGTTGGATTGATAGTGTGATGCTGGCTCCGACGATCTCCAACCCTGAG
67006547 CTAACCTGACAACACTAAAAGAAATGGAAAGGAGGGGGTAAGCTTTACGCTTAGTAAGCTCGCAT
66 CTAACCTGACAACACTAAAAGAAATGGAAAGGAGGGGGTAAGCTTTACGCTTAGTAAGCTCGCAT
67006612 GAAATAATAATAAGCAATTTACGAACATGCTTTCCATAGTAAAACTAACCCAATTGTACATTTAC
131 GAAATAATAATAAGCAATTTACGAACATGCTTTCCATAGTAAAACTAACCCAATTGTACATTTAC
67006677 ACATGTTTTGGTTAAGCTGGTTTTTTGGGTCACAGTCACTAAATCA
196 ACATGTTTTGGTTAAGCTGGTTTTTTGGGTCACAGTCACTAAATCA
67006723 TGT
1 TGT
67006726 ATATCTGGAG
Statistics
Matches: 244, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
241 244 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (241 bp):
TGTTTATACTATCAAGGTGTTGGATTGATAGTGTGATGCTGGCTCCGACGATCTCCAACCCTGAG
CTAACCTGACAACACTAAAAGAAATGGAAAGGAGGGGGTAAGCTTTACGCTTAGTAAGCTCGCAT
GAAATAATAATAAGCAATTTACGAACATGCTTTCCATAGTAAAACTAACCCAATTGTACATTTAC
ACATGTTTTGGTTAAGCTGGTTTTTTGGGTCACAGTCACTAAATCA
Found at i:67007547 original size:49 final size:49
Alignment explanation
Indices: 67007488--67007669 Score: 256
Period size: 49 Copynumber: 3.7 Consensus size: 49
67007478 CTGGTGCGCA
* * *
67007488 TAGTATCCTGCACTTGGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * *
67007537 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
*
67007588 TAGTAGCATGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
*
67007637 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC
67007670 TCACAATAGA
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 70 0.61
50 6 0.05
51 39 0.34
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:67007618 original size:100 final size:100
Alignment explanation
Indices: 67007475--67007667 Score: 332
Period size: 100 Copynumber: 1.9 Consensus size: 100
67007465 TAGCCAAAGC
* * * * *
67007475 TATCTGGTGCGCATAGTATCCTGCACTTGGTACTACACATGCGACCAATTATCCAGTACACGTAG
1 TATCGGGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
67007540 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
*
67007575 TATCGGGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
67007640 TAGCCTGCACTTAGTACTACACATGTGA
66 TAGCCTGCACTTAGTACTACACATGTGA
67007668 CCTCACAATA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
Found at i:67012715 original size:49 final size:49
Alignment explanation
Indices: 67012658--67012839 Score: 247
Period size: 49 Copynumber: 3.7 Consensus size: 49
67012648 CTGGTACGCA
* *
67012658 TAGTAGCCTGCACTTAGTACTACATATGTGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * * ***
67012707 TAGTAGCCTGCACTTAGTACTACACACGTAACCGAAGTTATCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AA-TTATCCGGTACACG
* *
67012758 TAGTAGCCTGCACCTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
*
67012807 TAGTAGCCTGCATTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
67012840 TCACAATAGA
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 70 0.62
50 4 0.04
51 38 0.34
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:67012791 original size:100 final size:100
Alignment explanation
Indices: 67012645--67012832 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
67012635 TAGCCAAAGC
* * * *
67012645 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACATATGTGACCAATTATCCAGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACCTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
67012710 TAGCCTGCACTTAGTACTACACACGTAACCGAAGT
66 TAGCCTGCACTTAGTACTACACACGTAACCGAAGT
* *
67012745 TATCGGGTACGTATAGTAGCCTGCACCTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACCTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
*
67012810 TAGCCTGCATTTAGTACTACACA
66 TAGCCTGCACTTAGTACTACACA
67012833 TGTGACCTCA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACCTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
TAGCCTGCACTTAGTACTACACACGTAACCGAAGT
Found at i:67014450 original size:31 final size:31
Alignment explanation
Indices: 67014412--67014474 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
67014402 CTTTTCACAC
*
67014412 TTCATATTTCGTAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
**
67014443 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
67014474 T
1 T
67014475 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:67014719 original size:24 final size:24
Alignment explanation
Indices: 67014669--67014765 Score: 133
Period size: 24 Copynumber: 4.0 Consensus size: 24
67014659 CTTTATCATT
*
67014669 TAACTGGAGGCCT-AGCCTCTTTTAA
1 TAACTGG-GGCATAAGCC-CTTTTAA
67014694 TAACTGGGGCATAAGCCCTTTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
*
67014718 TAACTGGGGCATAAGCCCTTTATCA
1 TAACTGGGGCATAAGCCCTTT-TAA
*
67014743 TAACTAGGGCATAAGCCCTTTTA
1 TAACTGGGGCATAAGCCCTTTTA
67014766 CACTTCCTCC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
24 33 0.50
25 33 0.50
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (24 bp):
TAACTGGGGCATAAGCCCTTTTAA
Found at i:67014722 original size:49 final size:49
Alignment explanation
Indices: 67014669--67014765 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
67014659 CTTTATCATT
* *
67014669 TAACTGGAGGCCT-AGCCTCTTT-TAATAACTGGGGCATAAGCCCTTTTAA
1 TAACTGG-GGCATAAGCC-CTTTATAATAACTAGGGCATAAGCCCTTTTAA
*
67014718 TAACTGGGGCATAAGCCCTTTATCATAACTAGGGCATAAGCCCTTTTA
1 TAACTGGGGCATAAGCCCTTTATAATAACTAGGGCATAAGCCCTTTTA
67014766 CACTTCCTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 8 0.19
49 35 0.81
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (49 bp):
TAACTGGGGCATAAGCCCTTTATAATAACTAGGGCATAAGCCCTTTTAA
Found at i:67020504 original size:12 final size:12
Alignment explanation
Indices: 67020487--67020520 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
67020477 GAAAATAATC
67020487 AAAATTAATTAT
1 AAAATTAATTAT
67020499 AAAATTAATTAT
1 AAAATTAATTAT
67020511 --AATTAATTAT
1 AAAATTAATTAT
67020521 GTTAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.45
12 12 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAAATTAATTAT
Found at i:67024235 original size:51 final size:51
Alignment explanation
Indices: 67024139--67024235 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 51
67024129 ACATGTAACA
* * **
67024139 CATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGTTACATAAATCG
1 CATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGCCACATAAATCG
* *
67024190 CATCCATTATGAACTCGGACCTCTCAATAAGCTCGGATGCCACATA
1 CATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGCCACATA
67024236 TCTCACGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
CATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGCCACATAAATCG
Found at i:67025913 original size:40 final size:39
Alignment explanation
Indices: 67025868--67026075 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
67025858 CGGAATACAA
*
67025868 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
67025908 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
67025948 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * ** * *
67025988 TCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
67026028 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
67026068 CCGGATAT
1 CCGGATAT
67026076 CATTCAATTG
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 1 0.01
40 139 0.99
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:67026008 original size:80 final size:80
Alignment explanation
Indices: 67025868--67026074 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 80
67025858 CGGAATACAA
* *
67025868 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
*
67025933 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * * *
67025948 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCTCGGAT-GTA-GTCACTAGCACAAT
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAA
*
67026011 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
** ** * *
67026028 CCGGATATAATTAC-TAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACAT-GCACGAATGCCTTCGGGTCTTAGCCCGGATA
67026075 TCATTCAATT
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 3 0.03
80 102 0.96
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:67026643 original size:65 final size:66
Alignment explanation
Indices: 67026526--67026659 Score: 245
Period size: 65 Copynumber: 2.0 Consensus size: 66
67026516 ATAATACATC
67026526 CATATATTTAAGCTCAAGAATTTTAATATAACATCAAGTGCTCAAATTACTCATGTGGCCGATTA
1 CATATATTTAAGCTCAAGAATTTTAATATAACATCAAGTGCTCAAATTACTCATG-GGCCGATTA
67026591 TA
65 TA
67026593 CATATATTTAAGCTCAAGAA-TTTAATAT-ACATCAAGTGCTCAAATTACTCATGGGCCGATTAT
1 CATATATTTAAGCTCAAGAATTTTAATATAACATCAAGTGCTCAAATTACTCATGGGCCGATTAT
67026656 A
66 A
67026657 CAT
1 CAT
67026660 GGTCATAATA
Statistics
Matches: 67, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
64 14 0.21
65 25 0.37
66 8 0.12
67 20 0.30
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (66 bp):
CATATATTTAAGCTCAAGAATTTTAATATAACATCAAGTGCTCAAATTACTCATGGGCCGATTAT
A
Found at i:67031314 original size:47 final size:47
Alignment explanation
Indices: 67031245--67031339 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
67031235 AACTCTCGTA
67031245 TTTCGAGAATGCCAACGAACATCCTTATATCATCATTCAGCCCATCC
1 TTTCGAGAATGCCAACGAACATCCTTATATCATCATTCAGCCCATCC
67031292 TTTCGAGAATGCCAACGAACATCCTTATATCATCATTCAGCCCATCC
1 TTTCGAGAATGCCAACGAACATCCTTATATCATCATTCAGCCCATCC
67031339 T
1 T
67031340 CGAAGCATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.28
Consensus pattern (47 bp):
TTTCGAGAATGCCAACGAACATCCTTATATCATCATTCAGCCCATCC
Found at i:67033565 original size:40 final size:39
Alignment explanation
Indices: 67033520--67033726 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
67033510 CGGAATACAA
*
67033520 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
67033560 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
67033600 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
67033639 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
67033679 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
67033719 CCGGATAT
1 CCGGATAT
67033727 CATTCAATTG
Statistics
Matches: 140, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
38 1 0.01
39 30 0.21
40 109 0.78
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:67033709 original size:79 final size:81
Alignment explanation
Indices: 67033520--67033724 Score: 222
Period size: 79 Copynumber: 2.6 Consensus size: 81
67033510 CGGAATACAA
* * *
67033520 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAA
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAA
*
67033583 TGCCTTCGGGTATTAGC
65 TGCCTTCGGGTATTAAC
* * * * *
67033600 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG-CCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
67033662 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * * *
67033679 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT
67033725 ATCATTCAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
79 60 0.57
80 42 0.40
81 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:67039845 original size:8 final size:8
Alignment explanation
Indices: 67039832--67039857 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
67039822 TTATCAGCTC
67039832 TTATTATT
1 TTATTATT
67039840 TTATTATT
1 TTATTATT
67039848 TTATTATT
1 TTATTATT
67039856 TT
1 TT
67039858 GAATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTATT
Found at i:67041596 original size:29 final size:29
Alignment explanation
Indices: 67041563--67041618 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
67041553 GAGCCATATG
67041563 CTCACAAATAACACATACAATGGTGAGTA
1 CTCACAAATAACACATACAATGGTGAGTA
* *
67041592 CTCACAAATCATACATACAATGGTGAG
1 CTCACAAATAACACATACAATGGTGAG
67041619 CCATATGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (29 bp):
CTCACAAATAACACATACAATGGTGAGTA
Found at i:67043232 original size:15 final size:15
Alignment explanation
Indices: 67043212--67043263 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
67043202 AAAAATATTC
67043212 TTATTTTGGAAAATA
1 TTATTTTGGAAAATA
*
67043227 TTATTTCT-AAAAATA
1 TTATTT-TGGAAAATA
*
67043242 TTTTTTTTGGAAAATA
1 -TTATTTTGGAAAATA
*
67043258 CTATTT
1 TTATTT
67043264 ACCGATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (15 bp):
TTATTTTGGAAAATA
Found at i:67043253 original size:31 final size:33
Alignment explanation
Indices: 67043197--67043263 Score: 111
Period size: 31 Copynumber: 2.1 Consensus size: 33
67043187 AAAATTAATT
*
67043197 TTTCTAAAAATATTCTTATTTTGGAAAATATTA
1 TTTCTAAAAATATTCTTATTTTGGAAAATACTA
67043230 TTTCTAAAAATATT-TT-TTTTGGAAAATACTA
1 TTTCTAAAAATATTCTTATTTTGGAAAATACTA
67043261 TTT
1 TTT
67043264 ACCGATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
31 17 0.52
32 2 0.06
33 14 0.42
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (33 bp):
TTTCTAAAAATATTCTTATTTTGGAAAATACTA
Found at i:67045826 original size:27 final size:27
Alignment explanation
Indices: 67045742--67045909 Score: 142
Period size: 27 Copynumber: 6.3 Consensus size: 27
67045732 TTTGGTTTAC
* * *
67045742 AAAATTACTAAAATACCCTAG-TTTGT
1 AAAATTACCAAAATACCCTCGACTTGT
* *
67045768 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-CTTGT
* *
67045795 GAAATTACCAAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGACTTGT
***
67045822 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGACTTGT
* * *
67045849 AAAATTACCAAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGACTTGT
* **** *
67045876 AGAATTACCGTTTTACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGACTTGT
67045903 AAAATTA
1 AAAATTA
67045910 TCGTTTTACC
Statistics
Matches: 114, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
26 17 0.15
27 95 0.83
28 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGACTTGT
Found at i:67045882 original size:54 final size:54
Alignment explanation
Indices: 67045742--67045993 Score: 161
Period size: 54 Copynumber: 4.7 Consensus size: 54
67045732 TTTGGTTTAC
* * * * * * *
67045742 AAAATTACTAAAATACCCTAG-TTTGTAAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGAAATACCCTCGA-CTTGT
* ** * * **
67045795 GAAATTACCAAAATACCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
* *** *
67045849 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
* **** *** *
67045903 AAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTC-AGTT-T
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
* ***
67045955 ACAGAATTACTATTTTACCCTCGATTTATAGAATTACCG
1 A-A-AATTACCAAAATACCCTCGATTTATAGAATTACCG
67045994 TTTTACCCAC
Statistics
Matches: 164, Mismatches: 31, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
52 2 0.01
53 22 0.13
54 138 0.84
55 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTGT
Found at i:67045914 original size:27 final size:27
Alignment explanation
Indices: 67045862--67046182 Score: 410
Period size: 27 Copynumber: 11.9 Consensus size: 27
67045852 ATTACCAAAG
67045862 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
67045889 TACCCTCGATTTGTAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
67045916 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* **
67045943 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTATAGAATTACCGTTT
67045970 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * * *
67045997 TACCCACAATTTACATAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *
67046024 TACCCTTGATTTACATAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
67046051 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
67046078 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
**
67046105 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
67046132 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
67046159 TACCCTCGATTTACAAAATTACCG
1 TACCCTCGATTTATAGAATTACCG
67046183 AAATACCCTC
Statistics
Matches: 256, Mismatches: 36, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 254 0.99
28 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:67046189 original size:27 final size:27
Alignment explanation
Indices: 67045835--67046208 Score: 279
Period size: 27 Copynumber: 13.9 Consensus size: 27
67045825 ATTATTGAAA
* * * **
67045835 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTATAAAATTACCGATT
* *
67045862 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGATT
* * *
67045889 TACCCTCGATTTGTAAAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCGATT
* *
67045916 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGATT
* * *
67045943 TACCCTC-AGTTTACAGAATTA-CTATTT
1 TACCCTCGA-TTTATAAAATTACCGA-TT
* *
67045970 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGATT
* * * *
67045997 TACCCACAATTTACATAATTACC-ATTT
1 TACCCTCGATTTATAAAATTACCGA-TT
* * * * *
67046024 TACCCTTGATTTACATAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCGATT
* * * *
67046051 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGATT
* *
67046078 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGATT
* ** *
67046105 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTATAAAATTACCGATT
* * * * *
67046132 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCGATT
* **
67046159 TACCCTCGATTTACAAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCGATT
*
67046186 TACCCTCAATTTGA-AAAATTACC
1 TACCCTCGATTT-ATAAAATTACC
67046209 AAAATACCCC
Statistics
Matches: 293, Mismatches: 47, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.01
27 288 0.98
28 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCGATT
Found at i:67046207 original size:54 final size:54
Alignment explanation
Indices: 67045835--67046197 Score: 381
Period size: 54 Copynumber: 6.7 Consensus size: 54
67045825 ATTATTGAAA
* ** * **
67045835 TACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATTTACCCTCGATTTATAGAATTACCGTTT
** * *
67045889 TACCCTCGATTTGTAAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATTTACCCTCGATTTATAGAATTACCGTTT
* *
67045943 TACCCTC-AGTTTACAGAATTA-CTATTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCGA-TTTACCCTCGATTTATAGAATTACCGTTT
* * * * * * *
67045997 TACCCACAATTTACATAATTACC-ATTTTACCCTTGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGA-TTTACCCTCGATTTATAGAATTACCGTTT
* * *
67046051 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATTTACCCTCGATTTATAGAATTACCGTTT
* * ** * * * *
67046105 TACCCTCGATTTATAGAATTATTGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGATTTACCCTCGATTTATAGAATTACCGTTT
** *
67046159 TACCCTCGATTTACAAAATTACCGAAATACCCTCAATTT
1 TACCCTCGATTTACAAAATTACCGATTTACCCTCGATTT
67046198 GAAAAATTAC
Statistics
Matches: 262, Mismatches: 42, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
53 2 0.01
54 258 0.98
55 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGATTTACCCTCGATTTATAGAATTACCGTTT
Found at i:67046213 original size:27 final size:27
Alignment explanation
Indices: 67046159--67046245 Score: 90
Period size: 27 Copynumber: 3.2 Consensus size: 27
67046149 ATTACTGTTT
* *
67046159 TACCCTCGATTTACAAAATTACCGAAA
1 TACCCTCAATTTACAAAATTACCAAAA
67046186 TACCCTCAATTTGA-AAAATTACCAAAA
1 TACCCTCAATTT-ACAAAATTACCAAAA
* *
67046213 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-AATTTACAAAATTACCA-AAA
67046240 TACCCT
1 TACCCT
67046246 TGACTTTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
26 4 0.08
27 46 0.90
28 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.26
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:67046299 original size:27 final size:26
Alignment explanation
Indices: 67046252--67046307 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
67046242 CCCTTGACTT
*
67046252 TTTAAAAATTATAGAAGTACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
67046278 TTTACAAAATTACT-GAAATACCTTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
67046305 TTT
1 TTT
67046308 GTTGATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:67046391 original size:27 final size:27
Alignment explanation
Indices: 67046361--67046421 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
67046351 ACCCCTAAAA
67046361 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAAGACCGTAATA-CCCCTGTAG
** *
67046388 GGTAAAGTGACCGTAATACCCCTGTAT
1 GGTAAAAAGACCGTAATACCCCTGTAG
67046415 GGTAAAA
1 GGTAAAA
67046422 TGATGAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCCTGTAG
Found at i:67047603 original size:25 final size:25
Alignment explanation
Indices: 67047571--67047618 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
67047561 TTATAATATG
* * *
67047571 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
67047596 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
67047619 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:67047687 original size:20 final size:20
Alignment explanation
Indices: 67047662--67047719 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
67047652 TAAATATGGT
67047662 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
67047682 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
67047702 ATGTAT-ATATGCACATGA
1 ATGTATGATATGCACATGA
67047720 GGTAATCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
19 11 0.31
20 24 0.69
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:67047797 original size:24 final size:24
Alignment explanation
Indices: 67047770--67047936 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
67047760 GAGGAAGTGA
67047770 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
67047794 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
67047818 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
67047842 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
67047865 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
67047889 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
67047913 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
67047937 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 101 0.75
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:67047887 original size:71 final size:71
Alignment explanation
Indices: 67047770--67047937 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
67047760 GAGGAAGTGA
67047770 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
67047835 AGTTATC
65 AGTTATC
** *
67047842 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
67047907 GTTATT
66 GTTATC
*
67047913 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
67047938 TGATAAAGCA
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 54 0.61
72 35 0.39
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:67048163 original size:31 final size:31
Alignment explanation
Indices: 67048128--67048222 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
67048118 CGTTTACAGT
67048128 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
67048159 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
67048190 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
67048221 AA
1 AA
67048223 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:67056422 original size:50 final size:48
Alignment explanation
Indices: 67056359--67056613 Score: 151
Period size: 50 Copynumber: 5.4 Consensus size: 48
67056349 TCATCTTGCT
67056359 CCACTACAACTTTAAGGAGATAAGATTCTCTATGGTAGCTTCAATTCGAC
1 CCACTACAACTTTAAGGAGATAAGATT-TCTAT-GTAGCTTCAATTCGAC
* * * *
67056409 CCACTACAACTTTAGAGG-TATAGGA--T-T-TGTAGTTTC-ATCTTG-C
1 CCACTACAACTTTA-AGGAGATAAGATTTCTATGTAGCTTCAAT-TCGAC
* *
67056452 TCCACTACAACTTTAGGGAGATAAGATTCGCTATAGTAGCTTCAA-TCTGAC
1 -CCACTACAACTTTAAGGAGATAAGATT-TCTAT-GTAGCTTCAATTC-GAC
* * * **
67056503 CCACTGCAACTTT-AGGGGTATAAGA--T-T-TGTAACTTC-ATTTTAC
1 CCACTACAACTTTAAGGAG-ATAAGATTTCTATGTAGCTTCAATTCGAC
* * *
67056546 TCCACTGCAACTTTAAAGAGATAAGATTTGCTATGGTAGCTTCAATCCGAC
1 -CCACTACAACTTTAAGGAGATAAGATTT-CTAT-GTAGCTTCAATTCGAC
* * *
67056597 CCATTGCAACTTCAAGG
1 CCACTACAACTTTAAGG
67056614 GTATAGGATT
Statistics
Matches: 155, Mismatches: 26, Indels: 48
0.68 0.11 0.21
Matches are distributed among these distances:
43 8 0.05
44 55 0.35
45 5 0.03
46 3 0.02
47 1 0.01
48 2 0.01
49 6 0.04
50 66 0.43
51 9 0.06
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (48 bp):
CCACTACAACTTTAAGGAGATAAGATTTCTATGTAGCTTCAATTCGAC
Found at i:67056554 original size:44 final size:44
Alignment explanation
Indices: 67056315--67056560 Score: 160
Period size: 44 Copynumber: 5.3 Consensus size: 44
67056305 TCAATCTGAC
* * * * *
67056315 CCACTACAACTTCAGGGGTATAGGAATTGTAACTTCATCTTGCT
1 CCACTACAACTTTAGGGGTATAAGATTTGTAGCTTCATCTTACT
* *
67056359 CCACTACAACTTTAAGGAG-ATAAGATTCTCTATGGTAGCTTCAAT-TCGAC-
1 CCACTACAACTTT-AGGGGTATAAGA---T-T-T-GTAGCTTC-ATCT-TACT
* * * *
67056409 CCACTACAACTTTAGAGGTATAGGATTTGTAGTTTCATCTTGCT
1 CCACTACAACTTTAGGGGTATAAGATTTGTAGCTTCATCTTACT
*
67056453 CCACTACAACTTTAGGGAG-ATAAGATTCGCTATAGTAGCTTCAATCTGAC-
1 CCACTACAACTTTAGGG-GTATAAGA-T---T-T-GTAGCTTC-ATCTTACT
* * *
67056503 CCACTGCAACTTTAGGGGTATAAGATTTGTAACTTCATTTTACT
1 CCACTACAACTTTAGGGGTATAAGATTTGTAGCTTCATCTTACT
*
67056547 CCACTGCAACTTTA
1 CCACTACAACTTTA
67056561 AAGAGATAAG
Statistics
Matches: 158, Mismatches: 22, Indels: 44
0.71 0.10 0.20
Matches are distributed among these distances:
43 8 0.05
44 67 0.42
45 8 0.05
46 2 0.01
47 1 0.01
48 2 0.01
49 7 0.04
50 55 0.35
51 8 0.05
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (44 bp):
CCACTACAACTTTAGGGGTATAAGATTTGTAGCTTCATCTTACT
Found at i:67056592 original size:282 final size:282
Alignment explanation
Indices: 67056177--67057009 Score: 1060
Period size: 282 Copynumber: 3.0 Consensus size: 282
67056167 TACTCCGTTG
* * * * *
67056177 CAACTTCAGGGAGAAAAGATTTGTTATGGTAGCTTCAATCGGACCCACTGCAACTTTAAGGGTAT
1 CAACTTCAGGGAGATAAGATTCGCTATAGTAGCTTCAATCCGACCCACTGCAACTTTAAGGGTAT
* * * * * * * *
67056242 TGGATTTGTAGCTTTATTTTGCCCCATTGCAACTTTAGGGAGATAAGATATGTTATGGTGGTTTC
66 AGGATTTGTAGCTTCATTTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATGGTAGCTTC
* * * * * *
67056307 AATCTGACCCACTACAACTTCAGGGGTATAGGAATTGTAACTTCATCTTGCTCCACTACAACTTT
131 AATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTC
* * * * *
67056372 AAGGAGATAAGATTCTCTATGGTAGCTTCAATTCGACCCACTACAACTTTAGAGGTATAGGATTT
196 AGGGAGATAAGATTCTCTATTGTAGCTTCAATTCAACCCACTACAACTTCAGAGGTACAGGATTT
*
67056437 GTAGTTTCATCTTGCTCCACTA
261 ATAGTTTCATCTTGCTCCACTA
* * *
67056459 CAACTTTAGGGAGATAAGATTCGCTATAGTAGCTTCAATCTGACCCACTGCAACTTTAGGGGTAT
1 CAACTTCAGGGAGATAAGATTCGCTATAGTAGCTTCAATCCGACCCACTGCAACTTTAAGGGTAT
* * * **
67056524 AAGATTTGTAACTTCATTTTACTCCACTGCAACTTTAAAGAGATAAGATTTGCTATGGTAGCTTC
66 AGGATTTGTAGCTTCATTTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATGGTAGCTTC
* *
67056589 AATCCGACCCATTGCAACTTCAAGGGTATAGGATTTGTAGCTTTATCTTGCTCCA-TAACAACTT
131 AATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACT-ACAACTT
* * * * * * *
67056653 CAGGGAAATAAGATTTTTTATTGTAGCGTC-ATTCCAAACCACTACAACTTCAGAGTTACAAGAT
195 CAGGGAGATAAGATTCTCTATTGTAGCTTCAATT-CAACCCACTACAACTTCAGAGGTACAGGAT
* * * * *
67056717 TTCTAGCTTCATCTTGCTGCATTG
259 TTATAGTTTCATCTTGCTCCACTA
* * *
67056741 CAACTTCAGGGAGATAAGATTCGCTATTGTAGCTACAATCCGACCCACTGCAACTTCAAGGGTAT
1 CAACTTCAGGGAGATAAGATTCGCTATAGTAGCTTCAATCCGACCCACTGCAACTTTAAGGGTAT
* * * * *
67056806 AGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTAC
66 AGGATTTGTAGCTTCATTTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATGGTAGCTTC
* *
67056871 AATCCAACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTC
131 AATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTC
* * * *
67056936 AGGGAGATAAGATTCGCTATTGTAGCTTCAA-TCTAACCCATTACAACTTCAGGGGTAGAGGATT
196 AGGGAGATAAGATTCTCTATTGTAGCTTCAATTC-AACCCACTACAACTTCAGAGGTACAGGATT
*
67057000 TATGGTTTCA
260 TATAGTTTCA
67057010 CTGATCTATT
Statistics
Matches: 467, Mismatches: 79, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
281 5 0.01
282 460 0.99
283 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (282 bp):
CAACTTCAGGGAGATAAGATTCGCTATAGTAGCTTCAATCCGACCCACTGCAACTTTAAGGGTAT
AGGATTTGTAGCTTCATTTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATGGTAGCTTC
AATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTC
AGGGAGATAAGATTCTCTATTGTAGCTTCAATTCAACCCACTACAACTTCAGAGGTACAGGATTT
ATAGTTTCATCTTGCTCCACTA
Found at i:67056795 original size:50 final size:50
Alignment explanation
Indices: 67056739--67056989 Score: 214
Period size: 50 Copynumber: 5.3 Consensus size: 50
67056729 CTTGCTGCAT
* *
67056739 TGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTACAATCCGACCCAC
1 TGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTTCAATCTGACCCAC
* *
67056789 TGCAACTTCAAGG-G-TATAG----GAT-TTGTAGCTTC-ATCTTG-CTCCAC
1 TGCAACTTCAGGGAGATA-AGATTCGCTATTGTAGCTTCAATC-TGAC-CCAC
* **
67056833 TGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTACAATCCAACCCAC
1 TGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTTCAATCTGACCCAC
* *
67056883 TGCAACTTCAAGG-G-TATAG----GAT-TTGTAGCTTC-ATCTTG-CTCCAC
1 TGCAACTTCAGGGAGATA-AGATTCGCTATTGTAGCTTCAATC-TGAC-CCAC
* *
67056927 TGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTTCAATCTAACCCAT
1 TGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTTCAATCTGACCCAC
*
67056977 TACAACTTCAGGG
1 TGCAACTTCAGGG
67056990 GTAGAGGATT
Statistics
Matches: 158, Mismatches: 19, Indels: 48
0.70 0.08 0.21
Matches are distributed among these distances:
43 8 0.05
44 51 0.32
45 10 0.06
46 4 0.03
48 4 0.03
49 10 0.06
50 63 0.40
51 8 0.05
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTTCAATCTGACCCAC
Found at i:67056833 original size:44 final size:44
Alignment explanation
Indices: 67056785--67056936 Score: 164
Period size: 44 Copynumber: 3.3 Consensus size: 44
67056775 ACAATCCGAC
67056785 CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCT
* * * ***
67056829 CCACTGCAACTTC-AGGGAGATAAGATTCGCTATTGTAGCTACAATCCAAC-
1 CCACTGCAACTTCAAGGG-TAT-AG----GAT-TTGTAGCTTC-ATCTTGCT
67056879 CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCT
67056923 CCACTGCAACTTCA
1 CCACTGCAACTTCA
67056937 GGGAGATAAG
Statistics
Matches: 86, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
43 8 0.09
44 38 0.44
45 4 0.05
49 4 0.05
50 24 0.28
51 8 0.09
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (44 bp):
CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCT
Found at i:67056974 original size:94 final size:94
Alignment explanation
Indices: 67056140--67057000 Score: 949
Period size: 94 Copynumber: 9.1 Consensus size: 94
67056130 TTGCAATTTT
* * ** * * *
67056140 AGGGATATAGGATTTGTAGC-TCTACCTTACTCCGTTGCAACTTCAGGGAGAAAAGATTTGTTAT
1 AGGG-TATAGGATTTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTAT
* *
67056204 GGTAGCTTCAATCGGACCCACTGCAACTTTA
64 GGTAGCTTCAATCCGACCCACTGCAACTTCA
* * * * * * *
67056235 AGGGTATTGGATTTGTAGCTTTATTTTGCCCCATTGCAACTTTAGGGAGATAAGATAT-GTTATG
1 AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGAT-TCGCTATG
* * * *
67056299 GTGGTTTCAATCTGACCCACTACAACTTCA
65 GTAGCTTCAATCCGACCCACTGCAACTTCA
* * * * * * *
67056329 GGGGTATAGGAATTGTAACTTCATCTTGCTCCACTACAACTTTAAGGAGATAAGATTCTCTATGG
1 AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGG
* * *
67056394 TAGCTTCAATTCGACCCACTACAACTT-T
66 TAGCTTCAATCCGACCCACTGCAACTTCA
* * * *
67056422 AGAGGTATAGGATTTGTAGTTTCATCTTGCTCCACTACAACTTTAGGGAGATAAGATTCGCTATA
1 AG-GGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATG
* *
67056487 GTAGCTTCAATCTGACCCACTGCAACTTTA
65 GTAGCTTCAATCCGACCCACTGCAACTTCA
* * * * * * ** *
67056517 GGGGTATAAGATTTGTAACTTCATTTTACTCCACTGCAACTTTAAAGAGATAAGATTTGCTATGG
1 AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGG
*
67056582 TAGCTTCAATCCGACCCATTGCAACTTCA
66 TAGCTTCAATCCGACCCACTGCAACTTCA
* * * *** *
67056611 AGGGTATAGGATTTGTAGCTTTATCTTGCTCCA-TAACAACTTCAGGGAAATAAGATTTTTTATT
1 AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACT-GCAACTTCAGGGAGATAAGATTCGCTATG
* * * * *
67056675 GTAGCGTCATTCCAAACCACTACAACTTC-
65 GTAGCTTCAATCCGACCCACTGCAACTTCA
* * * * * * *
67056704 AGAGTTACAAGATTTCTAGCTTCATCTTGCTGCATTGCAACTTCAGGGAGATAAGATTCGCTATT
1 AG-GGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATG
*
67056769 GTAGCTACAATCCGACCCACTGCAACTTCA
65 GTAGCTTCAATCCGACCCACTGCAACTTCA
*
67056799 AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTG
1 AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGG
* *
67056864 TAGCTACAATCCAACCCACTGCAACTTCA
66 TAGCTTCAATCCGACCCACTGCAACTTCA
*
67056893 AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTG
1 AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGG
** * *
67056958 TAGCTTCAATCTAACCCATTACAACTTCA
66 TAGCTTCAATCCGACCCACTGCAACTTCA
* *
67056987 GGGGTAGAGGATTT
1 AGGGTATAGGATTT
67057001 ATGGTTTCAC
Statistics
Matches: 651, Mismatches: 106, Indels: 19
0.84 0.14 0.02
Matches are distributed among these distances:
93 5 0.01
94 636 0.98
95 10 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (94 bp):
AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGG
TAGCTTCAATCCGACCCACTGCAACTTCA
Found at i:67059890 original size:30 final size:30
Alignment explanation
Indices: 67059854--67059912 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
67059844 AACAAGTCAA
67059854 GAGTAAATCTG-AACTAAAAGAATTTTTCAG
1 GAGTAAATC-GAAACTAAAAGAATTTTTCAG
67059884 GAGTAAATCGAAACTAAAAGAATTTTTCA
1 GAGTAAATCGAAACTAAAAGAATTTTTCA
67059913 CAAAATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (30 bp):
GAGTAAATCGAAACTAAAAGAATTTTTCAG
Found at i:67061442 original size:23 final size:25
Alignment explanation
Indices: 67061412--67061477 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
67061402 GCCATATAAC
**
67061412 AGGAAGCTCAAGCA-AGCC-ATATT
1 AGGAAGCTCAAAAAGAGCCTATATT
67061435 AGGAAGCTCAAAAAGAGCCTATATT
1 AGGAAGCTCAAAAAGAGCCTATATT
*
67061460 AGGACA-CTCATAAAGAGC
1 AGGA-AGCTCAAAAAGAGC
67061478 TGCGTTTGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 12 0.32
24 4 0.11
25 20 0.54
26 1 0.03
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.17
Consensus pattern (25 bp):
AGGAAGCTCAAAAAGAGCCTATATT
Found at i:67066865 original size:20 final size:20
Alignment explanation
Indices: 67066840--67066881 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
67066830 TCTTATTGTA
67066840 CACACTCGCGATATTTACTT
1 CACACTCGCGATATTTACTT
67066860 CACACTCGCGATATTTACTT
1 CACACTCGCGATATTTACTT
67066880 CA
1 CA
67066882 TTCTCTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (20 bp):
CACACTCGCGATATTTACTT
Found at i:67071585 original size:43 final size:43
Alignment explanation
Indices: 67071406--67071745 Score: 384
Period size: 42 Copynumber: 8.0 Consensus size: 43
67071396 TAGCGGCGTT
* * * *
67071406 ACCAGGACCTTTAACGGC-ATTTTTTATAAAAGCGCCGCTAAAG
1 ACCAGGACCTTTAGCGGCGCTTTTATA-AAAAACGCCGCTAAAG
* * *
67071449 ACCAGGACCTTTAGCGGCGCTCTTAT-AAAAATGCCGCCAAAG
1 ACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAG
* * * *
67071491 GCTAGGACCTTTAGCAGCGCTCTTAT-AAAAACGCCGCTAAAG
1 ACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAG
* *
67071533 ACCAAGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAGAA-
1 ACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTA-AAG
* * *
67071576 ACCAGGACCTTTAGCGGCGCTTTTATAAAAAACACTGCTATAG
1 ACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAG
* * * *
67071619 ACCTGTACTTTTAGTGGCGCTTTTATAAAAAAACGCCGCTAAAG
1 ACCAGGACCTTTAGCGGCGCTTTTAT-AAAAAACGCCGCTAAAG
* *
67071663 ACCAGGACCTTCAGCGGCGCTTTTAT-AAAAACGCCGCTATAG
1 ACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAG
* * * *
67071705 ACCTGTACTTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAA
1 ACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAA
67071746 TTTGCCCAGT
Statistics
Matches: 249, Mismatches: 42, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
42 107 0.43
43 101 0.41
44 41 0.16
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
ACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAG
Found at i:67072657 original size:18 final size:18
Alignment explanation
Indices: 67072625--67072662 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
67072615 TACAATATAG
67072625 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
67072644 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
67072661 TA
1 TA
67072663 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:67083280 original size:41 final size:41
Alignment explanation
Indices: 67083184--67083568 Score: 583
Period size: 41 Copynumber: 9.4 Consensus size: 41
67083174 GTTCTATGAC
* *
67083184 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCT-GGT
* * *
67083226 TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* * *
67083267 TTTTAGCGGCGTTTTACCGAAGGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* * *
67083308 TTTTAGCGGTGTTTTACCCAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* *
67083349 TTTTAGCGGCGTTTTACCCAAAGCACCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
*
67083390 TTTTAGCGGCGTTTTACATAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* **
67083431 TTTTAGCGGCGTTTTACATAAAGCATCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
67083472 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
*
67083513 TTTTAGCGGCGTTTTATCTAAAGCGCCGCTAATGATC-GGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
*
67083553 TTTTAGCTGCGTTTTA
1 TTTTAGCGGCGTTTTA
67083569 GTAAAAACGC
Statistics
Matches: 323, Mismatches: 20, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
40 18 0.06
41 269 0.83
42 36 0.11
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
Found at i:67090033 original size:21 final size:21
Alignment explanation
Indices: 67090009--67090049 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67089999 AAATTTAACA
*
67090009 TCAATTTAATCCATTTCATAC
1 TCAATTTAATCCAATTCATAC
*
67090030 TCAATTTAATTCAATTCATA
1 TCAATTTAATCCAATTCATA
67090050 TCCTAGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.44
Consensus pattern (21 bp):
TCAATTTAATCCAATTCATAC
Found at i:67100143 original size:24 final size:24
Alignment explanation
Indices: 67100111--67100171 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
67100101 GAAGAGCTAA
67100111 AACAGGAAGCTCACT-GAACCATAT
1 AACAGGAAGCTCACTAGAA-CATAT
*
67100135 AACAGGAAGCTCGCTAGAACATAT
1 AACAGGAAGCTCACTAGAACATAT
*
67100159 AATAGGAAGCTCA
1 AACAGGAAGCTCA
67100172 AAACGACTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (24 bp):
AACAGGAAGCTCACTAGAACATAT
Found at i:67102590 original size:12 final size:12
Alignment explanation
Indices: 67102573--67102597 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67102563 ACCATTGTAG
67102573 TCATCTTTTCCA
1 TCATCTTTTCCA
67102585 TCATCTTTTCCA
1 TCATCTTTTCCA
67102597 T
1 T
67102598 TTGTTCCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (12 bp):
TCATCTTTTCCA
Found at i:67106726 original size:85 final size:85
Alignment explanation
Indices: 67106629--67106884 Score: 467
Period size: 85 Copynumber: 3.0 Consensus size: 85
67106619 ACAACAAATA
*
67106629 AAGACAAAATAAGAATAAATAAAAATTATACAAGTGTGAATAAATATAAAACATTAAAATAAAGT
1 AAGACGAAATAAGAATAAATAAAAATTATACAAGTGTGAATAAATATAAAACATTAAAATAAAGT
67106694 GCATAATTGACATTAAACAT
66 GCATAATTGACATTAAACAT
* *
67106714 AAGATGAAATAAGAATAAATAAAAATTATACAAGTGTGAATAAATATAAAACATTAAAATAAAAT
1 AAGACGAAATAAGAATAAATAAAAATTATACAAGTGTGAATAAATATAAAACATTAAAATAAAGT
67106779 GCATAATTGACATTAAACAT
66 GCATAATTGACATTAAACAT
*
67106799 AAGACGAAATAAGAACAAATAAAAATTATACAAGTGTGAATAAATATAAAACATTAAAATAAAGT
1 AAGACGAAATAAGAATAAATAAAAATTATACAAGTGTGAATAAATATAAAACATTAAAATAAAGT
*
67106864 GCATAATTGACATGAAACAT
66 GCATAATTGACATTAAACAT
67106884 A
1 A
67106885 TAAGGTATAA
Statistics
Matches: 164, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 164 1.00
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (85 bp):
AAGACGAAATAAGAATAAATAAAAATTATACAAGTGTGAATAAATATAAAACATTAAAATAAAGT
GCATAATTGACATTAAACAT
Found at i:67109735 original size:16 final size:16
Alignment explanation
Indices: 67109714--67109757 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
67109704 ACATGTAAAC
67109714 AAAGAAGAAA-AAAAGT
1 AAAGAA-AAAGAAAAGT
67109730 AAAGAAAAAGAAAAG-
1 AAAGAAAAAGAAAAGT
67109745 AAA-AAAAAGAAAA
1 AAAGAAAAAGAAAA
67109758 CCGATTCGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 10 0.37
15 6 0.22
16 11 0.41
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (16 bp):
AAAGAAAAAGAAAAGT
Found at i:67112119 original size:43 final size:43
Alignment explanation
Indices: 67111979--67112133 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 43
67111969 ATATCGTACA
* *
67111979 ATGCCAACGTCTCAGACATGGTCTTACATGCT-ATCACATATCG
1 ATGCCAACATCCCAGACATGGTCTTACATG-TAATCACATATCG
* * * * * *
67112022 ATGCC-ACTATCACAGATAGGGTCTTACACG-AATTAAATA-CG
1 ATGCCAAC-ATCCCAGACATGGTCTTACATGTAATCACATATCG
* * ** *
67112063 ATGTCGATGTCCCAAACATGGTCTTACATGTAATCACATATCG
1 ATGCCAACATCCCAGACATGGTCTTACATGTAATCACATATCG
*
67112106 ATGCCAACATCCCAGACGTGGTCTTACA
1 ATGCCAACATCCCAGACATGGTCTTACA
67112134 CAAGAACACA
Statistics
Matches: 84, Mismatches: 23, Indels: 10
0.72 0.20 0.09
Matches are distributed among these distances:
41 22 0.26
42 16 0.19
43 46 0.55
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACATCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:67113708 original size:40 final size:40
Alignment explanation
Indices: 67113634--67113855 Score: 376
Period size: 40 Copynumber: 5.6 Consensus size: 40
67113624 AACCCAAGTA
* *
67113634 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
67113673 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
67113713 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
67113753 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
67113793 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
67113833 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
67113856 CATTCGAATA
Statistics
Matches: 173, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 12 0.07
40 158 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:67117288 original size:2 final size:2
Alignment explanation
Indices: 67117281--67117310 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
67117271 TTAACATTTC
67117281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67117311 CCTATGCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67117840 original size:56 final size:56
Alignment explanation
Indices: 67117768--67118087 Score: 435
Period size: 56 Copynumber: 5.7 Consensus size: 56
67117758 CATACAGGGT
** * *
67117768 CTTACTCTTACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGT
1 CTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATGAAACGTGGA
* * * * * *
67117824 CTTACTCACACTCATATATC-AAAGTCACATATCGATGTCAATGTATGAAACGTAGA
1 CTTACTCGCACACATATATCGGAA-TCACATATCGATGCCAACGTATGAAACGTGGA
* *
67117880 CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGA
1 CTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATGAAACGTGGA
* * * * * *
67117936 CTTACTCGCACACATATATCGGAATCACATATCAATGCTAATGTATTAAATGCGGA
1 CTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATGAAACGTGGA
* * *
67117992 CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTACGAAACGTGGA
1 CTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATGAAACGTGGA
67118048 CTTACTCGCACACATATATCGGAATCACATATCGATGCCA
1 CTTACTCGCACACATATATCGGAATCACATATCGATGCCA
67118088 CATATACTTC
Statistics
Matches: 227, Mismatches: 35, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
55 2 0.01
56 224 0.99
57 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (56 bp):
CTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATGAAACGTGGA
Found at i:67118052 original size:168 final size:168
Alignment explanation
Indices: 67117768--67118087 Score: 487
Period size: 168 Copynumber: 1.9 Consensus size: 168
67117758 CATACAGGGT
** * * *
67117768 CTTACTCTTACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCAC
1 CTTACTCGCACACATATATCGGAATCACATATCAATGCCAACGTATTAAACGCGGACTTACTCAC
* * * *
67117833 ACTCATATATCAAAGTCACATATCGATGTCAATGTATGAAACGTAGACTTACTCGCACACATATA
66 ACACATATATCAAAGTCACATATCGATGCCAACGTACGAAACGTAGACTTACTCGCACACATATA
*
67117898 TCAGAGTCACATATCGATGCCAACGTATGAAACGTGGA
131 TCAGAATCACATATCGATGCCAACGTATGAAACGTGGA
* * * *
67117936 CTTACTCGCACACATATATCGGAATCACATATCAATGCTAATGTATTAAATGCGGACTTACTCGC
1 CTTACTCGCACACATATATCGGAATCACATATCAATGCCAACGTATTAAACGCGGACTTACTCAC
* *
67118001 ACACATATATCAGAGTCACATATCGATGCCAACGTACGAAACGTGGACTTACTCGCACACATATA
66 ACACATATATCAAAGTCACATATCGATGCCAACGTACGAAACGTAGACTTACTCGCACACATATA
*
67118066 TCGGAATCACATATCGATGCCA
131 TCAGAATCACATATCGATGCCA
67118088 CATATACTTC
Statistics
Matches: 135, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
168 135 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (168 bp):
CTTACTCGCACACATATATCGGAATCACATATCAATGCCAACGTATTAAACGCGGACTTACTCAC
ACACATATATCAAAGTCACATATCGATGCCAACGTACGAAACGTAGACTTACTCGCACACATATA
TCAGAATCACATATCGATGCCAACGTATGAAACGTGGA
Found at i:67120099 original size:7 final size:7
Alignment explanation
Indices: 67120087--67120113 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
67120077 ATCAAAAATT
67120087 ATTCATA
1 ATTCATA
67120094 ATTCATA
1 ATTCATA
67120101 ATTCATA
1 ATTCATA
67120108 ATTCAT
1 ATTCAT
67120114 CAACTAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTCATA
Found at i:67120635 original size:14 final size:15
Alignment explanation
Indices: 67120618--67120646 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
67120608 TCACAAAAAT
67120618 TTCACACAT-ATAAA
1 TTCACACATAATAAA
67120632 TTCACACATAATAAA
1 TTCACACATAATAAA
67120647 CACTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:67120776 original size:6 final size:7
Alignment explanation
Indices: 67120760--67120799 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
67120750 ATTCTTTTTC
67120760 AAAAAGA
1 AAAAAGA
67120767 AAAAAGA
1 AAAAAGA
67120774 AAAAAG-
1 AAAAAGA
67120780 AAAAAGA
1 AAAAAGA
67120787 AAAAAGCA
1 AAAAAG-A
67120795 AAAAA
1 AAAAA
67120800 AACACTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.19
7 19 0.61
8 6 0.19
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:67120783 original size:13 final size:14
Alignment explanation
Indices: 67120760--67120799 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
67120750 ATTCTTTTTC
67120760 AAAAAGAAAAAAGA
1 AAAAAGAAAAAAGA
67120774 AAAAAG-AAAAAGA
1 AAAAAGAAAAAAGA
67120787 AAAAAGCAAAAAA
1 AAAAAG-AAAAAA
67120800 AACACTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.54
14 6 0.25
15 5 0.21
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAGA
Found at i:67120785 original size:20 final size:21
Alignment explanation
Indices: 67120760--67120799 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
67120750 ATTCTTTTTC
67120760 AAAAAGAAAAAAG-AAAAAAG
1 AAAAAGAAAAAAGCAAAAAAG
67120780 AAAAAGAAAAAAGCAAAAAA
1 AAAAAGAAAAAAGCAAAAAA
67120800 AACACTTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAAGCAAAAAAG
Found at i:67121181 original size:152 final size:153
Alignment explanation
Indices: 67120945--67121233 Score: 424
Period size: 152 Copynumber: 1.9 Consensus size: 153
67120935 GTTTTCTTTG
* *
67120945 AAAAATTTACTACTTTTCTTAAAAATCAAAGCTTTATTTCAAAATAGTTGAAAAAGATCAAAACT
1 AAAAATTCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAGATCAAAACT
67121010 TTACTTTAAAATTTTAAACTTTTCCTATAAAATGACT-AAAA-AAA-TTTATTTTTAAAAATCTA
66 TTACTTTAAAATTTTAAACTTTTCCTATAAAATGACTAAAAATAAATTTTATTTTT-AAAATCTA
67121072 AACTCTGTTTCTGTTTTTTTGAAA
130 AACTCTGTTTCTGTTTTTTTGAAA
* * ** *
67121096 AAAAATATCACTATTTTTCTTAAAAATCAAAACTTTCTTTTGAAATAGTTGAAAAAGATTAAAAC
1 AAAAAT-TCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAGATCAAAAC
* *
67121161 TTT-GTTTCAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAAATAAATTTTTATTTTTAAAAT
65 TTTACTTT-AAAATTTTAAACTTTTCCTATAAAATGACT-AAAAATAAA-TTTTATTTTTAAAAT
67121225 CTAAACTCT
127 CTAAACTCT
67121234 CTCTTTTTTT
Statistics
Matches: 122, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
151 9 0.07
152 83 0.68
154 4 0.03
155 3 0.02
156 14 0.11
157 9 0.07
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (153 bp):
AAAAATTCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAGATCAAAACT
TTACTTTAAAATTTTAAACTTTTCCTATAAAATGACTAAAAATAAATTTTATTTTTAAAATCTAA
ACTCTGTTTCTGTTTTTTTGAAA
Found at i:67121625 original size:25 final size:26
Alignment explanation
Indices: 67121567--67121625 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
67121557 GTAAAAAAAG
67121567 ATAATAA-TGATATTTAATAATAATA
1 ATAATAATTGATATTTAATAATAATA
*
67121592 ATAATAATTG-TA-TTAATGATAAATA
1 ATAATAATTGATATTTAATAAT-AATA
67121617 ATAATAATT
1 ATAATAATT
67121626 TGGGCCCTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 7 0.23
25 22 0.71
26 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (26 bp):
ATAATAATTGATATTTAATAATAATA
Found at i:67125932 original size:47 final size:45
Alignment explanation
Indices: 67125775--67125945 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 45
67125765 GGTCAGGTGT
* * *
67125775 CGATGCCATGTCCTAGACATCGTCTTACACT-GACACATCTCGT-AGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CACATCTCTTAAGC
* *
67125821 CGATGCATGTCCCAGTCATGTCTTACACTACCTTACATCTC--AAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC--ACATCTCTTAA-GC
* *
67125867 AGAAGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTTAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACATC-TCTTAA-GC
67125913 CGATGCCATGTCCCAGACATGTCTTACACTAGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGC
67125946 TCACACAAGT
Statistics
Matches: 105, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
43 2 0.02
44 15 0.14
45 13 0.12
46 48 0.46
47 27 0.26
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCTTAAGC
Found at i:67128620 original size:30 final size:30
Alignment explanation
Indices: 67128584--67128641 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
67128574 TCCTTAACTC
*
67128584 AAACTTTTTCAAAATTACAATTTTGCCCTT
1 AAACTTTTGCAAAATTACAATTTTGCCCTT
* * *
67128614 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTTGCAAAATTACAATTTTGCCC
67128642 CTAGGCTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCTT
Found at i:67131932 original size:12 final size:12
Alignment explanation
Indices: 67131915--67131940 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
67131905 CTTGGTCACA
67131915 CTCGGGTCGGGT
1 CTCGGGTCGGGT
67131927 CTCGGGTCGGGT
1 CTCGGGTCGGGT
67131939 CT
1 CT
67131941 GGTCTCAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.27, G:0.46, T:0.27
Consensus pattern (12 bp):
CTCGGGTCGGGT
Found at i:67131957 original size:17 final size:17
Alignment explanation
Indices: 67131916--67131957 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
67131906 TTGGTCACAC
* *
67131916 TCGGGTCGGGTCTCGGG
1 TCGGGTCTGGTCTCAGG
67131933 TCGGGTCTGGTCTCAGG
1 TCGGGTCTGGTCTCAGG
67131950 TCGGGTCT
1 TCGGGTCT
67131958 CTGGTCATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.02, C:0.24, G:0.45, T:0.29
Consensus pattern (17 bp):
TCGGGTCTGGTCTCAGG
Found at i:67133226 original size:179 final size:179
Alignment explanation
Indices: 67132925--67133484 Score: 795
Period size: 179 Copynumber: 3.1 Consensus size: 179
67132915 AAGTAGCCCC
* * * * * * *
67132925 ACTGCAACTTCAG-GAAGATAA-GACTTGTAGCTTCAATTTACTCCAATGTAATTTCAGAGTGAT
1 ACTGCAACTTCAGAG-AGATAAGGA-TTGTGGCTTCGATCTGCTCCAATGTAATTTCAGGGAGAA
* * * *
67132988 GAGATTTGTAGCTTCGATCTACTCCACTGGAGCTTAAAGGAGATAAGAATTGATAATTTCAACTT
64 GAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTT
* * * * * *
67133053 GTTCCACTGCAACTTTAAGGAGATAAGGTTTATGTATTTTTATCCTGCTTT
129 GCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTACTCT
*
67133104 ACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCAATGTAATTTCTGGGAGAAGA
1 ACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCAATGTAATTTCAGGGAGAAGA
67133169 GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTTGC
66 GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTTGC
* *
67133234 TCCACTACAACTTCAGGGAGATAAGGTTCGTGTATTTTTATCCTACTCT
131 TCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTACTCT
* * * * *
67133283 ATTGTAACTTCAGAGAGATAAAGATTGTGGCTTCGATCTGTTCCAATGTAATTTCAAGGAGAAGA
1 ACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCAATGTAATTTCAGGGAGAAGA
* * * *
67133348 GATTTGTAGCTTCAATCTACTCTGTTGGAACTTCAAGGAGATAAGAATTGGT-ATTTCAACCTGC
66 GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTTGC
*
67133412 TCCACTGTAACTTCAGGGAGATAAGGTTTGTGTA-TTTTATCCTACTCT
131 TCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTACTCT
*
67133460 ACTGCAAGTTCAGAGAGATAAGGAT
1 ACTGCAACTTCAGAGAGATAAGGAT
67133485 CGGTAATTTC
Statistics
Matches: 342, Mismatches: 37, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
177 35 0.10
178 42 0.12
179 262 0.77
180 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (179 bp):
ACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCAATGTAATTTCAGGGAGAAGA
GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTTGC
TCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTACTCT
Found at i:67133442 original size:88 final size:89
Alignment explanation
Indices: 67133141--67133432 Score: 272
Period size: 88 Copynumber: 3.3 Consensus size: 89
67133131 TGGCTTCGAT
* * * * *
67133141 CTGCTCCAATGTAATTTCTGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAG
1 CTGCTCCAATGTAACTTCAGGGAGAAGAGATTTGTAGCTTCAATCTACTCTGTTGGAACTTCAAG
67133206 GAGATAAGAATTGGTAATTTCAAC
66 GAGATAAGAATTGGTAATTTCAAC
* * ** * * ** * *
67133230 TTGCTCCACTACAACTTCAGGGAGATA-AGGTTCGTGTA-TTTTTATCCTACTCTATTGTAACTT
1 CTGCTCCAATGTAACTTCAGGGAGA-AGAGATT--TGTAGCTTCAAT-CTACTCTGTTGGAACTT
*** * *
67133293 C-AGAGAGATAA-AGATT-GTGGCTTCGAT
62 CAAG-GAGATAAGA-ATTGGTAATTTCAAC
* * *
67133320 CTGTTCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCAATCTACTCTGTTGGAACTTCAAG
1 CTGCTCCAATGTAACTTCAGGGAGAAGAGATTTGTAGCTTCAATCTACTCTGTTGGAACTTCAAG
67133385 GAGATAAGAATTGGT-ATTTCAAC
66 GAGATAAGAATTGGTAATTTCAAC
*
67133408 CTGCTCCACTGTAACTTCAGGGAGA
1 CTGCTCCAATGTAACTTCAGGGAGA
67133433 TAAGGTTTGT
Statistics
Matches: 152, Mismatches: 40, Indels: 23
0.71 0.19 0.11
Matches are distributed among these distances:
88 55 0.36
89 33 0.22
90 36 0.24
91 28 0.18
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (89 bp):
CTGCTCCAATGTAACTTCAGGGAGAAGAGATTTGTAGCTTCAATCTACTCTGTTGGAACTTCAAG
GAGATAAGAATTGGTAATTTCAAC
Found at i:67133472 original size:45 final size:44
Alignment explanation
Indices: 67133185--67133570 Score: 170
Period size: 44 Copynumber: 8.7 Consensus size: 44
67133175 TAGCTTCGAT
* * * *
67133185 CTACTCCGCTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAAC
1 CTACTCCACTGCAACTTCAGGGAGATAAGGATTGGT-ATTTCAAC
* * * * *
67133230 TTGCTCCACTACAACTTCAGGGAGATAAGG-TTCGTGTATTTTTATC
1 CTACTCCACTGCAACTTCAGGGAGATAAGGATT-G-GTA-TTTCAAC
* * * * * ** * *
67133276 CTACTCTATTGTAACTTCAGAGAGATAAAGATT-GTGGCTTCGAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGGATTGGT-ATTTCAAC
** * * * * * * *
67133320 CTGTTCCAATGTAATTTCAAGGAG--AAGAGATTTGTAGCTTCAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAG-GATTGGTA-TTTCAAC
*** * * *
67133364 CTACTCTGTTGGAACTTCAAGGAGATAAGAATTGGTATTTCAAC
1 CTACTCCACTGCAACTTCAGGGAGATAAGGATTGGTATTTCAAC
* * * * *
67133408 CTGCTCCACTGTAACTTCAGGGAGATAAGGTTTGTGTATTTTATC
1 CTACTCCACTGCAACTTCAGGGAGATAAGGATTG-GTATTTCAAC
* * * *
67133453 CTACTCTACTGCAAGTTCAGAGAGATAAGGATCGGTAATTTCAAC
1 CTACTCCACTGCAACTTCAGGGAGATAAGGATTGGT-ATTTCAAC
* ** * * * ** *
67133498 CTGCTCTGCTACAACTTCAGGAAGATAAGG-CTGGTGGCTTCAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGGATTGGT-ATTTCAAC
* *
67133542 CTGCTCCACTGCAACTTTAGGGAGATAAG
1 CTACTCCACTGCAACTTCAGGGAGATAAG
67133571 ATTCACCATA
Statistics
Matches: 249, Mismatches: 80, Indels: 25
0.70 0.23 0.07
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 113 0.45
45 96 0.39
46 32 0.13
47 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (44 bp):
CTACTCCACTGCAACTTCAGGGAGATAAGGATTGGTATTTCAAC
Found at i:67133764 original size:143 final size:143
Alignment explanation
Indices: 67133498--67133865 Score: 497
Period size: 143 Copynumber: 2.6 Consensus size: 143
67133488 TAATTTCAAC
* * * *
67133498 CTGCTCTGCTACAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGG
1 CTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTTAGG
* * * *
67133563 GAGATAAGATTCACCATAATTTGTAGCTTTAATCTGTTCCACTATAACGTTAGGGAAATGAGGTC
66 GAGATAAGATTCACCATAATTTGTAGCTTTAATCTGTTCCACTACAACGTTAGAGAAATAAGATC
67133628 CGCTATC-TTCAGT
131 CGCTATCATT-AGT
* *
67133641 CTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCAACTGCAACTTCAGG
1 CTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTTAGG
* * *
67133706 GAGATAAGATTCACCATAATTTTTAGCTTTAATCTGTTCCACTGCAA-GTTCAGAGAAATAATAT
66 GAGATAAGATTCACCATAATTTGTAGCTTTAATCTGTTCCACTACAACGTT-AGAGAAATAAGAT
* *
67133770 TCGCTGTCATTAGT
130 CCGCTATCATTAGT
* * * ** *
67133784 CTGCTCCGCTGCAACTTCAAGGAGATATGGCTTGTGGCTTCAATCTATTCCACTACAACTTTAGG
1 CTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTTAGG
* *
67133849 GAGATAAAATTCGCCAT
66 GAGATAAGATTCACCAT
67133866 GATGACTTAA
Statistics
Matches: 198, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
142 3 0.02
143 193 0.97
144 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (143 bp):
CTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTTAGG
GAGATAAGATTCACCATAATTTGTAGCTTTAATCTGTTCCACTACAACGTTAGAGAAATAAGATC
CGCTATCATTAGT
Done.