Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 212 of 318
Found at i:66893834 original size:11 final size:11
Alignment explanation
Indices: 66893804--66893857 Score: 67
Period size: 11 Copynumber: 5.1 Consensus size: 11
66893794 AACACTGATA
66893804 CACATGATATG
1 CACATGATATG
*
66893815 -ACGTGATATG
1 CACATGATATG
66893825 CACATGATATG
1 CACATGATATG
**
66893836 -TTATGATATG
1 CACATGATATG
66893846 CACATGATATG
1 CACATGATATG
66893857 C
1 C
66893858 TATGATATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 17 0.49
11 18 0.51
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (11 bp):
CACATGATATG
Found at i:66894948 original size:41 final size:41
Alignment explanation
Indices: 66894891--66894972 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
66894881 GTGACACATC
* * *
66894891 AGATTCGGCCATAACGTCT-GGGCTGGGTTTGGGGTGTTACA
1 AGATTCAGCCATAACGTCTAGGTC-GGGTTTGAGGTGTTACA
66894932 AGATTCAGCCATAACGTCTAGGTCGGGTTTGAGGTGTTACA
1 AGATTCAGCCATAACGTCTAGGTCGGGTTTGAGGTGTTACA
66894973 TTTAGTGGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 34 0.92
42 3 0.08
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (41 bp):
AGATTCAGCCATAACGTCTAGGTCGGGTTTGAGGTGTTACA
Found at i:66904601 original size:22 final size:22
Alignment explanation
Indices: 66904560--66904601 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
66904550 CCACATGGAA
*
66904560 TGTAAGGCTGGACGGAGTAGAG
1 TGTAAGGATGGACGGAGTAGAG
66904582 TGTAGAGGATGGACGG-GTAG
1 TGTA-AGGATGGACGGAGTAG
66904602 GATTTCTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.26, C:0.07, G:0.48, T:0.19
Consensus pattern (22 bp):
TGTAAGGATGGACGGAGTAGAG
Found at i:66904677 original size:34 final size:34
Alignment explanation
Indices: 66904629--66904694 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
66904619 CTGTTACTGT
* *
66904629 TACTGAAATGGGCTAAGGCTCACACTGATACTAA
1 TACTGAAATGGGCTAAGGCCCAAACTGATACTAA
* *
66904663 TACTGTAATTGGCTAAGGCCCAAACTGATACT
1 TACTGAAATGGGCTAAGGCCCAAACTGATACT
66904695 GGACTTTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAAACTGATACTAA
Found at i:66932552 original size:40 final size:39
Alignment explanation
Indices: 66932466--66932642 Score: 178
Period size: 40 Copynumber: 4.5 Consensus size: 39
66932456 CGGATGATAA
* * * * *
66932466 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * * * * *
66932506 CTGGGCTATGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
*
66932546 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
*
66932586 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTTTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
66932626 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
66932643 ATACTTGGGT
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 96 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:66932604 original size:80 final size:80
Alignment explanation
Indices: 66932466--66932642 Score: 223
Period size: 80 Copynumber: 2.2 Consensus size: 80
66932456 CGGATGATAA
* * * * * *
66932466 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTAAATCTGGGCTATGTCTCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAAATCCGGGCTAAGACCCGAAGGCATTTA
*
66932531 TGCTAGTGATTATAT
66 TGCGAGTGATTATAT
* * *
66932546 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAAATCCGGGCTAAGACCCGAAGGCATTTA
**
66932611 TGCGAGTTTTTATAT
66 TGCGAGTGATTATAT
66932626 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
66932643 ATACTTGGGT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 70 0.83
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAAATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGTGATTATAT
Found at i:66932910 original size:22 final size:22
Alignment explanation
Indices: 66932870--66932911 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
66932860 GAATGTGCAT
*
66932870 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
66932892 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
66932912 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:66935699 original size:9 final size:9
Alignment explanation
Indices: 66935685--66935812 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
66935675 ATGTATTAGT
66935685 TAAGTTATG
1 TAAGTTATG
66935694 TAAGTTGTTATG
1 TAA---GTTATG
*
66935706 TACGTTATG
1 TAAGTTATG
*
66935715 TGAGTTATG
1 TAAGTTATG
*
66935724 TAAATTATG
1 TAAGTTATG
66935733 TAAGTTATG
1 TAAGTTATG
*
66935742 TGAGTTATG
1 TAAGTTATG
66935751 TAAGTTGTTATG
1 TAA---GTTATG
*
66935763 TAAATTATG
1 TAAGTTATG
*
66935772 TAAGTTATA
1 TAAGTTATG
*
66935781 TGAGTTATG
1 TAAGTTATG
66935790 TAAGTTATG
1 TAAGTTATG
* *
66935799 TAATTTATT
1 TAAGTTATG
66935808 TAAGT
1 TAAGT
66935813 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:66935812 original size:57 final size:57
Alignment explanation
Indices: 66935685--66935812 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
66935675 ATGTATTAGT
** * *
66935685 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
66935742 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
66935799 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
66935813 AATGATCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:66936649 original size:235 final size:236
Alignment explanation
Indices: 66936238--66936714 Score: 805
Period size: 235 Copynumber: 2.0 Consensus size: 236
66936228 TTGAAAATAA
*
66936238 ATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA
1 ATTAAGGTTATATAAATATTCAATAGTAAATGAGCACGATAGAACTTTTTTCAAGTCTTTTTGAA
*
66936303 TTTTTTAAGATTCATCATACGTGGCGTTGTTACAACTAGGGAGGATCCATTATATCTTACAGCTC
66 TCTTTTAAGATTCATCATACGTGGCGTTGTTACAACTAGGGAGGATCCATTATATCTTACAGCTC
* *
66936368 GATATAAGGCAACCCGTTAGGTTTCCAGCCTATATACTTTGAATC-TTTAAAATAAGGTTGGAGA
131 GATATAAGGCAACCCATCAGGTTTCCAGCCTATATACTTTGAATCATTTAAAATAAGGTTGGAGA
*
66936432 GAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGGT
196 GAAGGTCAACTATTGTTGTAATTTTAATGGACAAGCAAGGT
66936473 ATTAAGGTTATATAAATATTCAATAGTAAATGAGCACGATAGAACTTTTTTCAAGTCTTTTTG-A
1 ATTAAGGTTATATAAATATTCAATAGTAAATGAGCACGATAGAACTTTTTTCAAGTCTTTTTGAA
*
66936537 TACTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
66 T-CTTTTAAGATTCATCATACGTGGCGTTGTTACAACTAGGGAGGATCCATTATATCTTACAGCT
66936602 CGATATAAGGCAACCCATCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAA
130 CGATATAAGGCAACCCATCAGGTTTCCAGCCTATATACTTTGAATC--------ATTTAAAATAA
66936667 GGTTGGAGAGAAGGTCAACTATTGTTGTAATTTTAATGGACAAGCAAG
187 GGTTGGAGAGAAGGTCAACTATTGTTGTAATTTTAATGGACAAGCAAG
66936715 CTACATGGTA
Statistics
Matches: 226, Mismatches: 6, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
234 2 0.01
235 167 0.74
244 57 0.25
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (236 bp):
ATTAAGGTTATATAAATATTCAATAGTAAATGAGCACGATAGAACTTTTTTCAAGTCTTTTTGAA
TCTTTTAAGATTCATCATACGTGGCGTTGTTACAACTAGGGAGGATCCATTATATCTTACAGCTC
GATATAAGGCAACCCATCAGGTTTCCAGCCTATATACTTTGAATCATTTAAAATAAGGTTGGAGA
GAAGGTCAACTATTGTTGTAATTTTAATGGACAAGCAAGGT
Found at i:66936749 original size:10 final size:10
Alignment explanation
Indices: 66936734--66936761 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
66936724 AATAAAATTA
66936734 ATTCATACTT
1 ATTCATACTT
66936744 ATTCATACTT
1 ATTCATACTT
66936754 ATTCATAC
1 ATTCATAC
66936762 CTTGATTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.46
Consensus pattern (10 bp):
ATTCATACTT
Found at i:66939746 original size:12 final size:13
Alignment explanation
Indices: 66939729--66939760 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
66939719 TAGGGTTAGG
66939729 GGGGAAA-TTTTA
1 GGGGAAAGTTTTA
66939741 GGGGAAAGTTTTA
1 GGGGAAAGTTTTA
66939754 GGGGAAA
1 GGGGAAA
66939761 AACACTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.34, C:0.00, G:0.41, T:0.25
Consensus pattern (13 bp):
GGGGAAAGTTTTA
Found at i:66940303 original size:18 final size:18
Alignment explanation
Indices: 66940269--66940303 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
66940259 TTGATTTATT
*
66940269 TAATATATAATTTAAAAA
1 TAATATATAATTAAAAAA
66940287 TAATATA-AATTAAAAAA
1 TAATATATAATTAAAAAA
66940304 CAATCAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATATATAATTAAAAAA
Found at i:66940481 original size:26 final size:26
Alignment explanation
Indices: 66940416--66940490 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
66940406 AAGAATTAGA
** *
66940416 TAAAATTTGAAATAATGAAAATTATT
1 TAAAATTTGAAATCTTGAAATTTATT
66940442 TAAAATTTGAAATCTTGAAATTTATT
1 TAAAATTTGAAATCTTGAAATTTATT
*
66940468 CT-AAATTTGAAATCTTTAAATTT
1 -TAAAATTTGAAATCTTGAAATTT
66940491 TTAAATTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 43 0.98
27 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (26 bp):
TAAAATTTGAAATCTTGAAATTTATT
Found at i:66941427 original size:31 final size:31
Alignment explanation
Indices: 66941386--66941449 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
66941376 CCTTTTCATA
66941386 TTTCACATTTCATAACACTGGGCCAAAGCCT
1 TTTCACATTTCATAACACTGGGCCAAAGCCT
* ** *
66941417 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCACATTTCATAACACTGGGCCAAAGCCT
66941448 TT
1 TT
66941450 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCACATTTCATAACACTGGGCCAAAGCCT
Found at i:66941747 original size:25 final size:24
Alignment explanation
Indices: 66941657--66941761 Score: 162
Period size: 25 Copynumber: 4.4 Consensus size: 24
66941647 CTGGAGACCT
66941657 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
66941681 AG-CCTTTTAATAACT-GGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
66941703 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
66941727 AGCCCTTTATCATAACTGGGGCATA
1 AGCCCTTT-TAATAACTGGGGCATA
66941752 AGCCCTTTTA
1 AGCCCTTTTA
66941762 CACTTCCTCC
Statistics
Matches: 75, Mismatches: 2, Indels: 8
0.88 0.02 0.09
Matches are distributed among these distances:
21 5 0.07
22 15 0.20
23 14 0.19
24 18 0.24
25 23 0.31
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:66941834 original size:20 final size:20
Alignment explanation
Indices: 66941809--66941875 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
66941799 TTATGAATAC
66941809 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
66941829 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
66941849 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
66941869 ACCATGT
1 ATCATGT
66941876 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:66941840 original size:11 final size:11
Alignment explanation
Indices: 66941809--66941864 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
66941799 TTATGAATAC
66941809 ATCATGTGCAT
1 ATCATGTGCAT
*
66941820 ATCA--TACAT
1 ATCATGTGCAT
66941829 ATCATGTGCAT
1 ATCATGTGCAT
*
66941840 ATCA--TACAT
1 ATCATGTGCAT
*
66941849 GTCATGTGCAT
1 ATCATGTGCAT
66941860 ATCAT
1 ATCAT
66941865 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:66952035 original size:24 final size:23
Alignment explanation
Indices: 66951964--66952092 Score: 179
Period size: 24 Copynumber: 5.4 Consensus size: 23
66951954 NNNNNNNNCT
66951964 AGCCTCTTTTAATAACTAGGGCA-A
1 AGCC-CTTTTAATAACT-GGGCATA
66951988 AGCCCTTTTAATAACTGGGCATA
1 AGCCCTTTTAATAACTGGGCATA
66952011 AGCCCTTTTAATAACTTGGGCATA
1 AGCCCTTTTAATAAC-TGGGCATA
*
66952035 AGCCCTTTATCATAACTGGGCATA
1 AGCCCTTT-TAATAACTGGGCATA
* *
66952059 AGCCCTTTATCATAACTGGGGATA
1 AGCCCTTT-TAATAACTGGGCATA
66952083 AGCCCTTTTA
1 AGCCCTTTTA
66952093 CACTTCCTCC
Statistics
Matches: 99, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
22 5 0.05
23 29 0.29
24 59 0.60
25 6 0.06
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (23 bp):
AGCCCTTTTAATAACTGGGCATA
Found at i:66952167 original size:20 final size:20
Alignment explanation
Indices: 66952142--66952180 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
66952132 TATGAATACA
66952142 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
66952162 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
66952181 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:66952186 original size:20 final size:20
Alignment explanation
Indices: 66952143--66952187 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
66952133 ATGAATACAT
**
66952143 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
66952163 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
66952183 CATGT
1 CATGT
66952188 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:66953996 original size:15 final size:14
Alignment explanation
Indices: 66953958--66954035 Score: 59
Period size: 15 Copynumber: 5.4 Consensus size: 14
66953948 CCATACCCTT
*
66953958 TAAACCCCAAACCA
1 TAAACCCTAAACCA
*
66953972 TAAATACCTAAACCA
1 TAAA-CCCTAAACCA
* *
66953987 TGAAACCCTAACCCC
1 T-AAACCCTAAACCA
*
66954002 TAAACCTTAAACC-
1 TAAACCCTAAACCA
**
66954015 CCAACCCTTAAACCA
1 TAAACCC-TAAACCA
66954030 TAAACC
1 TAAACC
66954036 AAAATCTCTA
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
13 4 0.08
14 20 0.42
15 21 0.44
16 3 0.06
ACGTcount: A:0.45, C:0.38, G:0.01, T:0.15
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:66954015 original size:21 final size:21
Alignment explanation
Indices: 66953978--66954035 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
66953968 ACCATAAATA
* *
66953978 CCTAAACCATGAAACCCTAACC
1 CCTAAACC-TTAAACCCCAACC
66954000 CCTAAACCTTAAACCCCAACC
1 CCTAAACCTTAAACCCCAACC
* *
66954021 CTTAAACCATAAACC
1 CCTAAACCTTAAACC
66954036 AAAATCTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 24 0.75
22 8 0.25
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.16
Consensus pattern (21 bp):
CCTAAACCTTAAACCCCAACC
Found at i:66954023 original size:14 final size:15
Alignment explanation
Indices: 66953996--66954028 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
66953986 ATGAAACCCT
66953996 AACCCCTAAACCTTA
1 AACCCCTAAACCTTA
*
66954011 AACCCC-AACCCTTA
1 AACCCCTAAACCTTA
66954025 AACC
1 AACC
66954029 ATAAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.15
Consensus pattern (15 bp):
AACCCCTAAACCTTA
Found at i:66954122 original size:42 final size:41
Alignment explanation
Indices: 66954066--66954147 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
66954056 CATTAGCTCA
** *
66954066 TAAACCATAAACCCCTTTCCCATGTCCCCTTAACCATTAAT
1 TAAACCATAAACCCCTAACCCATATCCCCTTAACCATTAAT
* * *
66954107 TAAACCCATTAACCCCTAACCCCTATCCCTTTAACCATTAA
1 TAAA-CCATAAACCCCTAACCCATATCCCCTTAACCATTAA
66954148 ACCCATAACC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.33, C:0.38, G:0.01, T:0.28
Consensus pattern (41 bp):
TAAACCATAAACCCCTAACCCATATCCCCTTAACCATTAAT
Found at i:66954169 original size:29 final size:28
Alignment explanation
Indices: 66954112--66954200 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 28
66954102 TTAATTAAAC
* *
66954112 CCATT-AACCCCTAACCCCTATCCCTTTAA
1 CCATTAAACCCATAACCCATA-CCC-TTAA
66954141 CCATTAAACCCATAACCCATGACCCTTAA
1 CCATTAAACCCATAACCCAT-ACCCTTAA
*
66954170 TCC-TTAAACCCATAATCCATAACCCTTAA
1 -CCATTAAACCCATAACCCAT-ACCCTTAA
66954199 CC
1 CC
66954201 TTTACCCACT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
28 2 0.04
29 33 0.62
30 17 0.32
31 1 0.02
ACGTcount: A:0.34, C:0.40, G:0.01, T:0.25
Consensus pattern (28 bp):
CCATTAAACCCATAACCCATACCCTTAA
Found at i:66954763 original size:40 final size:39
Alignment explanation
Indices: 66954719--66954812 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 39
66954709 TGTTTTTCAA
66954719 AAAACGCCGCTAATGCTCAACCTATAGCGACGTTTGTTAT-
1 AAAACGCCGCTAATGCTCAACCTATAGCGACGTTT-TT-TG
* * * * *
66954759 AAAACGCCTCTAATACTCAACCTTTAGTGGCGTTTTTTG
1 AAAACGCCGCTAATGCTCAACCTATAGCGACGTTTTTTG
*
66954798 AAAATGCCGCTAATG
1 AAAACGCCGCTAATG
66954813 AAACTAAGGA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
38 1 0.02
39 14 0.31
40 30 0.67
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (39 bp):
AAAACGCCGCTAATGCTCAACCTATAGCGACGTTTTTTG
Found at i:66954944 original size:41 final size:38
Alignment explanation
Indices: 66954899--66955030 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 38
66954889 TTGAGCATTT
66954899 GCGGCGTTTTTTATAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTTA-AAAA-CGCCGCTAATG-TCGATCTATA
**
66954940 GCGGCGCTTTTAGAAAAACGCCGCTAATGTCCGATCTATA
1 GCGGCG-TTTTTTAAAAACGCCGCTAATGT-CGATCTATA
* * * * *
66954980 GTGGCGTTTGTTTAGAAACGCCGCTAATGTTGAACTCTA
1 GCGGCGTTT-TTTAAAAACGCCGCTAATGTCGATCTATA
*
66955019 GCGGTGTTTTTT
1 GCGGCGTTTTTT
66955031 GTTCAAACGC
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
38 3 0.04
39 17 0.22
40 42 0.55
41 10 0.13
42 5 0.06
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (38 bp):
GCGGCGTTTTTTAAAAACGCCGCTAATGTCGATCTATA
Found at i:66966763 original size:39 final size:39
Alignment explanation
Indices: 66966704--66966799 Score: 147
Period size: 39 Copynumber: 2.4 Consensus size: 39
66966694 TAGAATCGAA
*
66966704 ATAGTAAAACTACTCTTATTCACCCTCTACTTCCTATAAT
1 ATAG-AAAACTACTCCTATTCACCCTCTACTTCCTATAAT
*
66966744 ATAGAAAACTATTCCTATTCACCCTCTACTTCCTATAAT
1 ATAGAAAACTACTCCTATTCACCCTCTACTTCCTATAAT
* *
66966783 TTAGAGAACTACTCCTA
1 ATAGAAAACTACTCCTA
66966800 AAATAAATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 47 0.92
40 4 0.08
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.35
Consensus pattern (39 bp):
ATAGAAAACTACTCCTATTCACCCTCTACTTCCTATAAT
Found at i:66968669 original size:21 final size:20
Alignment explanation
Indices: 66968622--66968661 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
66968612 TCGAAAATCT
*
66968622 AAAAGAGAAAAGTAAACAGAG
1 AAAAGAGAAAAG-AAAAAGAG
66968643 AAAAGAGAAAA-AAAAAGAG
1 AAAAGAGAAAAGAAAAAGAG
66968662 GAAGAAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.72, C:0.03, G:0.23, T:0.03
Consensus pattern (20 bp):
AAAAGAGAAAAGAAAAAGAG
Found at i:66971009 original size:21 final size:20
Alignment explanation
Indices: 66970975--66971013 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
66970965 ATGTGCAATT
66970975 TGAATTTTCTTGATAGATTA
1 TGAATTTTCTTGATAGATTA
*
66970995 TGAATGTTTGTTGATAGAT
1 TGAAT-TTTCTTGATAGAT
66971014 ATATAGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (20 bp):
TGAATTTTCTTGATAGATTA
Found at i:66972199 original size:12 final size:12
Alignment explanation
Indices: 66972170--66972199 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
66972160 ATTTTGAGTC
66972170 ATTTTGGTAATG
1 ATTTTGGTAATG
66972182 -TTTTGGTAATG
1 ATTTTGGTAATG
66972193 ATTTTGG
1 ATTTTGG
66972200 CCATTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (12 bp):
ATTTTGGTAATG
Found at i:66973630 original size:22 final size:22
Alignment explanation
Indices: 66973590--66973631 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
66973580 AGGACCAATT
*
66973590 TGTAAAAATGTTATAAAATGTG
1 TGTAAAAATGTGATAAAATGTG
* *
66973612 TGTAAAAGTGTGATTAAATG
1 TGTAAAAATGTGATAAAATG
66973632 AAAAATGTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (22 bp):
TGTAAAAATGTGATAAAATGTG
Found at i:66974152 original size:42 final size:42
Alignment explanation
Indices: 66974092--66974253 Score: 184
Period size: 42 Copynumber: 3.8 Consensus size: 42
66974082 AGGGTTACTA
* *
66974092 AGACTACGTGTAAGACCATATCTGGGATATGGCATC-AGTATG
1 AGACTTCGTGTAAGACCATATCTAGGATATGGCATCGA-TATG
* * *
66974134 AGACTTCGTGTAAAACCATGTCTAAGATATGGCATCGATATG
1 AGACTTCGTGTAAGACCATATCTAGGATATGGCATCGATATG
* * * *
66974176 AGACTTCGTGTAAGACCATAGCTAGGCTATTAGAATCGATATG
1 AGACTTCGTGTAAGACCATATCTAGGATA-TGGCATCGATATG
* *
66974219 AGA-TTACATGTAAGACCATATCTGGGATATGGCAT
1 AGACTT-CGTGTAAGACCATATCTAGGATATGGCAT
66974254 TGGTATCGTA
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 65 0.66
43 34 0.34
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (42 bp):
AGACTTCGTGTAAGACCATATCTAGGATATGGCATCGATATG
Found at i:66981351 original size:21 final size:20
Alignment explanation
Indices: 66981323--66981361 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
66981313 ATATGTACTT
*
66981323 TGAAGCTTCTTGATAGATTA
1 TGAAGCTTATTGATAGATTA
66981343 TGAATGCTTATTGATAGAT
1 TGAA-GCTTATTGATAGAT
66981362 ATACAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (20 bp):
TGAAGCTTATTGATAGATTA
Found at i:66983229 original size:45 final size:44
Alignment explanation
Indices: 66983173--66983309 Score: 211
Period size: 45 Copynumber: 3.0 Consensus size: 44
66983163 TGTAACCTAA
66983173 GTCAGAGAGTTACACGGGATCAGACACAGGCTGGGACATGGCCAT
1 GTCAGAGAGTTACACGGG-TCAGACACAGGCTGGGACATGGCCAT
* *
66983218 GTCAGAAAGTTACACAGGGTCAGACACGGGCTGGGACATGGCCAT
1 GTCAGAGAGTTACAC-GGGTCAGACACAGGCTGGGACATGGCCAT
* *
66983263 GTCAGAGAGTTACACGGGGTCGGACATAGGCTGGGACATGGCCAT
1 GTCAGAGAGTTACAC-GGGTCAGACACAGGCTGGGACATGGCCAT
66983308 GT
1 GT
66983310 GCTCCCATTT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 81 0.96
46 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.35, T:0.17
Consensus pattern (44 bp):
GTCAGAGAGTTACACGGGTCAGACACAGGCTGGGACATGGCCAT
Found at i:66985751 original size:93 final size:93
Alignment explanation
Indices: 66985592--66985762 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
66985582 GGATGGTTGA
* *
66985592 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGTCCGAACTCGTTGAGT
66985657 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
66985685 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGTCC-GAACTCGTTGAG
66985749 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
66985763 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66985765 original size:46 final size:45
Alignment explanation
Indices: 66985596--66985767 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 45
66985586 GGTTGAGCAT
* * *
66985596 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
66985641 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCAT
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--C-G
66985689 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
66985734 CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
66985768 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 59 0.56
47 28 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:66993711 original size:68 final size:64
Alignment explanation
Indices: 66993601--66993853 Score: 210
Period size: 68 Copynumber: 3.9 Consensus size: 64
66993591 ATACAAATAG
* ** * * * *
66993601 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAG
66993664 ATTA
62 A-TA
* *
66993668 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
66993733 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
66993798 TA
63 TA
* * * *
66993800 AAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
66993854 CGAACTATAT
Statistics
Matches: 153, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 3 0.02
66 23 0.15
67 35 0.23
68 46 0.30
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:66993751 original size:64 final size:64
Alignment explanation
Indices: 66993670--66993853 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
66993660 AGACATTATG
* * *
66993670 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
66993734 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
66993799 AA
63 AA
* * *
66993801 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
66993854 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:67004069 original size:7 final size:6
Alignment explanation
Indices: 67004043--67004067 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
67004033 TTTAGCAAAA
67004043 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
67004068 TAAACTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:67008966 original size:27 final size:26
Alignment explanation
Indices: 67008935--67009113 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 26
67008925 TAAATTGTAC
67008935 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
67008962 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* * *
67008988 ATGCACTAAGTGTGTGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
67009016 GGCACTAAGTGTGCGAGATTCGACTATGT
1 AGCACTAAGTGTGC--GATT-GACTATGT
* *
67009045 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
67009072 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
67009099 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
67009114 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
27 99 0.79
28 7 0.06
29 20 0.16
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:67008996 original size:54 final size:54
Alignment explanation
Indices: 67008935--67009113 Score: 184
Period size: 54 Copynumber: 3.3 Consensus size: 54
67008925 TAAATTGTAC
* *
67008935 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
* * ** *
67008990 -GCACTAAGTGTGTGAATTGACCATGCGGCACTAAGTGTGCGAGATTCGACTATG-T
1 AGCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGA-ATT-GAATATGAT
* * * *
67009045 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
*
67009099 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
67009114 GGCTCAATAT
Statistics
Matches: 103, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
54 54 0.52
55 9 0.09
56 40 0.39
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
Found at i:67009104 original size:83 final size:82
Alignment explanation
Indices: 67008932--67009114 Score: 217
Period size: 83 Copynumber: 2.2 Consensus size: 82
67008922 GATTAAATTG
* *
67008932 TACAGCACTAAGTGTGC-GATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTA
1 TACAGCACTAAGTGTGCGGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTA
*
67008996 AGTGTGTGAATTGACCA
66 AGTGTGCGAATTGACCA
* * ** *
67009013 TGCGGCACTAAGTGTGCGAGATTCGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCG-GATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
67009077 TAAGTGTGCGAGTTGATTA
64 TAAGTGTGCGAATTGACCA
* *
67009096 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
67009115 GCTCAATATA
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 15 0.18
82 2 0.02
83 67 0.80
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (82 bp):
TACAGCACTAAGTGTGCGGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTA
AGTGTGCGAATTGACCA
Found at i:67009124 original size:27 final size:27
Alignment explanation
Indices: 67009017--67009124 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
67009007 TGACCATGCG
* * *
67009017 GCACTAAGTGTGCGAGATTCGACTATGTA
1 GCACTAAGTGTGCGAG-CTC-AATATATA
** * * **
67009046 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
67009073 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
67009100 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
67009125 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 50 0.75
28 2 0.03
29 15 0.22
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:67017087 original size:27 final size:26
Alignment explanation
Indices: 67017056--67017234 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 26
67017046 TAAATTGTAC
67017056 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
67017083 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
67017109 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
67017137 GGCACTAAGTGTGCGAGATTCGACTATGT
1 AGCACTAAGTGTGC--GATT-GACTATGT
* *
67017166 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
67017193 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
67017220 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
67017235 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 17, Indels: 14
0.81 0.11 0.09
Matches are distributed among these distances:
27 101 0.79
28 7 0.05
29 20 0.16
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:67017117 original size:54 final size:54
Alignment explanation
Indices: 67017056--67017234 Score: 193
Period size: 54 Copynumber: 3.3 Consensus size: 54
67017046 TAAATTGTAC
* *
67017056 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
* ** *
67017111 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGATTCGACTATG-T
1 AGCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGA-ATT-GAATATGAT
* * * *
67017166 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
*
67017220 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
67017235 GGCTCAATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
54 55 0.52
55 9 0.09
56 41 0.39
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
Found at i:67017225 original size:83 final size:82
Alignment explanation
Indices: 67017053--67017235 Score: 226
Period size: 83 Copynumber: 2.2 Consensus size: 82
67017043 GATTAAATTG
* *
67017053 TACAGCACTAAGTGTGC-GATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTA
1 TACAGCACTAAGTGTGCGGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTA
67017117 AGTGTGCGAATTGACCA
66 AGTGTGCGAATTGACCA
* * ** *
67017134 TGCGGCACTAAGTGTGCGAGATTCGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCG-GATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
67017198 TAAGTGTGCGAGTTGATTA
64 TAAGTGTGCGAATTGACCA
* *
67017217 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
67017236 GCTCAATATA
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 15 0.18
82 2 0.02
83 68 0.80
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (82 bp):
TACAGCACTAAGTGTGCGGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTA
AGTGTGCGAATTGACCA
Found at i:67017245 original size:27 final size:27
Alignment explanation
Indices: 67017138--67017245 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
67017128 TGACCATGCG
* * *
67017138 GCACTAAGTGTGCGAGATTCGACTATGTA
1 GCACTAAGTGTGCGAG-CTC-AATATATA
** * * **
67017167 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
67017194 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
67017221 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
67017246 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 50 0.75
28 2 0.03
29 15 0.22
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:67021423 original size:41 final size:40
Alignment explanation
Indices: 67021356--67021439 Score: 91
Period size: 41 Copynumber: 2.1 Consensus size: 40
67021346 ATATTGATTA
67021356 TGAATATATGTGTATTGAGAAAAATATGATTATT-ATAAAAT
1 TGAATATATGTGTATTGAGAAAAATAT-A-TATTCATAAAAT
* * * *
67021397 TGAATATATGTTTATATGTG-ATAATATATATTCATGAAAT
1 TGAATATATGTGTAT-TGAGAAAAATATATATTCATAAAAT
67021437 TGA
1 TGA
67021440 GACATTGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
39 4 0.11
40 10 0.27
41 20 0.54
42 3 0.08
ACGTcount: A:0.43, C:0.01, G:0.14, T:0.42
Consensus pattern (40 bp):
TGAATATATGTGTATTGAGAAAAATATATATTCATAAAAT
Found at i:67042969 original size:31 final size:32
Alignment explanation
Indices: 67042934--67042993 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
67042924 AACATCTAAT
67042934 AAATATCTTTT-ACTAATTAATA-ATAAATTTA
1 AAATATCTTTTCACTAATT-ATACATAAATTTA
67042965 AAATATCTTTTCACTAATTATACATAAAT
1 AAATATCTTTTCACTAATTATACATAAAT
67042994 AATACAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (32 bp):
AAATATCTTTTCACTAATTATACATAAATTTA
Found at i:67046966 original size:48 final size:48
Alignment explanation
Indices: 67046914--67047096 Score: 233
Period size: 48 Copynumber: 3.8 Consensus size: 48
67046904 CTCGCACACT
* * * * *
67046914 AAGTGTTAATATCATGACCTGAAGCCAACTCAATGTATCTCGCACCGG
1 AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTTGCACCCG
* *
67046962 AAGTGCTAATACCATGGCCCGAAGCCAAATCAATGTATCTTGCACCCG
1 AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTTGCACCCG
* * **
67047010 AAGTGCTAATATTATGGCCCGAAGCCAAATCAATGTATCTTGCACTTG
1 AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTTGCACCCG
* *
67047058 AAGTGCTAATATCAT-AGCCTGAAACCAAATCAATGTATC
1 AAGTGCTAATATCATGA-CCCGAAGCCAAATCAATGTATC
67047097 CCGTAATGAC
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTTGCACCCG
Found at i:67047086 original size:96 final size:96
Alignment explanation
Indices: 67046914--67047096 Score: 258
Period size: 96 Copynumber: 1.9 Consensus size: 96
67046904 CTCGCACACT
* * * *
67046914 AAGTGTTAATATCATGACCTGAAGCCAACTCAATGTATCTCGCACCGGAAGTGCTAATACCATGG
1 AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTCGCACCGGAAGTGCTAATACCATAG
*
67046979 CCCGAAGCCAAATCAATGTATCTTGCACCCG
66 CCCGAAACCAAATCAATGTATCTTGCACCCG
* * * ** *
67047010 AAGTGCTAATATTATGGCCCGAAGCCAAATCAATGTATCTTGCACTTGAAGTGCTAATATCATAG
1 AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTCGCACCGGAAGTGCTAATACCATAG
*
67047075 CCTGAAACCAAATCAATGTATC
66 CCCGAAACCAAATCAATGTATC
67047097 CCGTAATGAC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 75 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (96 bp):
AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTCGCACCGGAAGTGCTAATACCATAG
CCCGAAACCAAATCAATGTATCTTGCACCCG
Found at i:67048348 original size:24 final size:24
Alignment explanation
Indices: 67048320--67048371 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
67048310 TTAGTAGGTC
* *
67048320 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
67048344 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
67048368 AAAT
1 AAAT
67048372 CTTCTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:67050312 original size:24 final size:24
Alignment explanation
Indices: 67050284--67050335 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
67050274 TTAGTAGGTC
* *
67050284 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
67050308 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
67050332 AAAT
1 AAAT
67050336 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:67054402 original size:21 final size:21
Alignment explanation
Indices: 67054376--67054417 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
67054366 ATCCGGAAGG
67054376 AGCATCTCAAGAAGTTTCTAT
1 AGCATCTCAAGAAGTTTCTAT
67054397 AGCATCTCAAGAAGTTTCTAT
1 AGCATCTCAAGAAGTTTCTAT
67054418 CTTAAGAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (21 bp):
AGCATCTCAAGAAGTTTCTAT
Found at i:67061712 original size:11 final size:11
Alignment explanation
Indices: 67061696--67061727 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
67061686 TCAACACTTC
67061696 TCCCCCACCAT
1 TCCCCCACCAT
67061707 TCCCCCACCAT
1 TCCCCCACCAT
*
67061718 TCCACCACCA
1 TCCCCCACCA
67061728 CTTGCCACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.22, C:0.62, G:0.00, T:0.16
Consensus pattern (11 bp):
TCCCCCACCAT
Found at i:67061842 original size:14 final size:14
Alignment explanation
Indices: 67061823--67061886 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
67061813 ATATTATTTA
67061823 TTTCTTTTCTCTCT
1 TTTCTTTTCTCTCT
*
67061837 TTTCTTTCCTCTCT
1 TTTCTTTTCTCTCT
* *
67061851 TTTATTTTATC-CT
1 TTTCTTTTCTCTCT
* *
67061864 TTTCATTTCATTTCT
1 TTTCTTTTC-TCTCT
*
67061879 CTTCTTTT
1 TTTCTTTT
67061887 GACTTAAATA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
13 8 0.21
14 22 0.58
15 8 0.21
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTCTTTTCTCTCT
Found at i:67061886 original size:28 final size:28
Alignment explanation
Indices: 67061824--67061886 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
67061814 TATTATTTAT
* * *
67061824 TTCTTTTCTCTCTTTTCTTTCCTCTCTT
1 TTCTTTTATCTCTTTTCTTTCATCTCTC
* *
67061852 TTATTTTATC-CTTTTCATTTCATTTCTC
1 TTCTTTTATCTCTTTTC-TTTCATCTCTC
67061880 TTCTTTT
1 TTCTTTT
67061887 GACTTAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.68
Consensus pattern (28 bp):
TTCTTTTATCTCTTTTCTTTCATCTCTC
Found at i:67072420 original size:17 final size:17
Alignment explanation
Indices: 67072384--67072423 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
67072374 ACTAAAAATA
**
67072384 GGCCCACACGCTTGTAT
1 GGCCCACACGCTTACAT
*
67072401 GGCCCACACGCTTACCT
1 GGCCCACACGCTTACAT
67072418 GGCCCA
1 GGCCCA
67072424 GCCAATATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.17, C:0.42, G:0.23, T:0.17
Consensus pattern (17 bp):
GGCCCACACGCTTACAT
Found at i:67073317 original size:8 final size:8
Alignment explanation
Indices: 67073304--67073332 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
67073294 TTAAGTAAAA
67073304 ATTATTAT
1 ATTATTAT
67073312 ATTATTAT
1 ATTATTAT
67073320 ATTATTAT
1 ATTATTAT
67073328 ATTAT
1 ATTAT
67073333 ATTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTATTAT
Found at i:67073324 original size:13 final size:13
Alignment explanation
Indices: 67073306--67073341 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
67073296 AAGTAAAAAT
67073306 TATTATATTATTA
1 TATTATATTATTA
67073319 TATTAT-TATATTA
1 TATTATAT-TATTA
67073332 TATTATATTA
1 TATTATATTA
67073342 ATTAAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 1 0.05
13 19 0.90
14 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:67073422 original size:23 final size:23
Alignment explanation
Indices: 67073396--67073443 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
67073386 GGTAATAATA
67073396 ATGTAAATGTGTAATAAATATAT
1 ATGTAAATGTGTAATAAATATAT
* * *
67073419 ATGTACATTTGTAATACATATAT
1 ATGTAAATGTGTAATAAATATAT
67073442 AT
1 AT
67073444 TTATTTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (23 bp):
ATGTAAATGTGTAATAAATATAT
Found at i:67073531 original size:4 final size:4
Alignment explanation
Indices: 67073524--67073609 Score: 52
Period size: 4 Copynumber: 20.8 Consensus size: 4
67073514 AAAAGAAACA
*
67073524 AAAG AAAG AAAG AAAG AAAAG GAAG AACAG AATAG AAACG AAA- AAA-
1 AAAG AAAG AAAG AAAG -AAAG AAAG AA-AG AA-AG AAA-G AAAG AAAG
* ** *
67073570 AAGG GGAG AAAG AAAG AAAAG AAA- AAGGG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG -AAAG AAAG AA-AG AAAG AAAG AAA
67073610 AGGGAGAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
3 7 0.11
4 35 0.55
5 22 0.34
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:67073537 original size:17 final size:17
Alignment explanation
Indices: 67073515--67073555 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
67073505 TAAATAAACA
67073515 AAAGAAACAAAAGAAAG
1 AAAGAAACAAAAGAAAG
* *
67073532 AAAGAAAGAAAAGGAAG
1 AAAGAAACAAAAGAAAG
67073549 AACAGAA
1 AA-AGAA
67073556 TAGAAACGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.73, C:0.05, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAGAAACAAAAGAAAG
Found at i:67073579 original size:24 final size:23
Alignment explanation
Indices: 67073530--67073611 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 23
67073520 AACAAAAGAA
* *
67073530 AGAAAGAAAGAAAAGGAAGAA--C
1 AGAAAGAAAGAAAA-GAAAAAGGG
*
67073552 AGAATAGAAACGAAAA-AAAAGGGG
1 AGAA-AGAAA-GAAAAGAAAAAGGG
67073576 AGAAAGAAAGAAAAGAAAAA-GG
1 AGAAAGAAAGAAAAGAAAAAGGG
67073598 -GAAAGAAAGAAAAG
1 AGAAAGAAAGAAAAG
67073612 GGAGAAATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
21 14 0.27
22 14 0.27
23 14 0.27
24 9 0.18
ACGTcount: A:0.68, C:0.02, G:0.28, T:0.01
Consensus pattern (23 bp):
AGAAAGAAAGAAAAGAAAAAGGG
Found at i:67073608 original size:16 final size:16
Alignment explanation
Indices: 67073581--67073614 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
67073571 AGGGGAGAAA
67073581 GAAAGAAAAGAAAAAGG
1 GAAAGAAAAG-AAAAGG
67073598 GAAAG-AAAGAAAAGG
1 GAAAGAAAAGAAAAGG
67073613 GA
1 GA
67073615 GAAATTAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 4 0.24
17 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAGAAAAGG
Found at i:67073618 original size:17 final size:18
Alignment explanation
Indices: 67073580--67073618 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
67073570 AAGGGGAGAA
67073580 AGAAAGAAAAGAAAAAGG
1 AGAAAGAAAAGAAAAAGG
*
67073598 -GAAAG-AAAGAAAAGGG
1 AGAAAGAAAAGAAAAAGG
67073614 AGAAA
1 AGAAA
67073619 TTAGGGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAAGAAAAAGG
Found at i:67074526 original size:40 final size:39
Alignment explanation
Indices: 67074474--67074589 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 39
67074464 CCTTCTCAAG
*
67074474 AATTAAAAGTGAATAGGATTTATTCCTAATTCACTAAAAGA
1 AATT-AAAGTGAATAGGATTTATTCCTGATTCACTAAAA-A
* *
67074515 AATTAAAGTGAATAGGATTTAATCCTGATTCACTAGAAA
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
* * * *
67074554 TATATAAAGTGGATAGGATTTGTTCTTGATTCACTA
1 AAT-TAAAGTGAATAGGATTTATTCCTGATTCACTA
67074590 TGGTAACTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.05
40 59 0.89
41 4 0.06
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (39 bp):
AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
Found at i:67077037 original size:7 final size:7
Alignment explanation
Indices: 67077025--67077069 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
67077015 TTGGAAAGCC
67077025 TTTTTAT
1 TTTTTAT
67077032 TTTTTAT
1 TTTTTAT
67077039 TTTTTAT
1 TTTTTAT
67077046 TTTATT-T
1 TTT-TTAT
*
67077053 TGTTTTGT
1 T-TTTTAT
67077061 TTTTTAT
1 TTTTTAT
67077068 TT
1 TT
67077070 AGTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.11, C:0.00, G:0.04, T:0.84
Consensus pattern (7 bp):
TTTTTAT
Found at i:67088268 original size:5 final size:5
Alignment explanation
Indices: 67088258--67088289 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
67088248 TTGTGTGTTC
67088258 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
67088290 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:67088272 original size:9 final size:9
Alignment explanation
Indices: 67088258--67088288 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
67088248 TTGTGTGTTC
67088258 TTTATTTTA
1 TTTATTTTA
67088267 TTTATTTTA
1 TTTATTTTA
67088276 TTTTATTTTA
1 -TTTATTTTA
67088286 TTT
1 TTT
67088289 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:67092717 original size:5 final size:5
Alignment explanation
Indices: 67092707--67092747 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
67092697 TTGTGTGTTC
67092707 TTTAT TTTA- TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
67092748 TCACAAATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 8 0.24
5 26 0.76
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:67092721 original size:9 final size:9
Alignment explanation
Indices: 67092707--67092746 Score: 71
Period size: 9 Copynumber: 4.3 Consensus size: 9
67092697 TTGTGTGTTC
67092707 TTTATTTTA
1 TTTATTTTA
67092716 TTTATTTTA
1 TTTATTTTA
67092725 TTTATTTTA
1 TTTATTTTA
67092734 TTTTATTTTA
1 -TTTATTTTA
67092744 TTT
1 TTT
67092747 TTCACAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 21 0.70
10 9 0.30
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTATTTTA
Found at i:67092726 original size:14 final size:14
Alignment explanation
Indices: 67092707--67092746 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
67092697 TTGTGTGTTC
67092707 TTTATTTTATTTAT
1 TTTATTTTATTTAT
67092721 TTTA-TTTATTTTAT
1 TTTATTTTA-TTTAT
67092735 TTTATTTTATTT
1 TTTATTTTATTT
67092747 TTCACAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.17
14 16 0.67
15 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTATTTTATTTAT
Found at i:67102391 original size:26 final size:26
Alignment explanation
Indices: 67102362--67102414 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
67102352 ATTTTTCTAT
67102362 AAAAAAATTAAACAATA-ATAAAATAA
1 AAAAAAATTAAA-AATATATAAAATAA
* *
67102388 AAAAATATTAAAAATATATAAACTAA
1 AAAAAAATTAAAAATATATAAAATAA
67102414 A
1 A
67102415 TATTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (26 bp):
AAAAAAATTAAAAATATATAAAATAA
Found at i:67102402 original size:9 final size:9
Alignment explanation
Indices: 67102361--67102466 Score: 63
Period size: 9 Copynumber: 10.8 Consensus size: 9
67102351 TATTTTTCTA
*
67102361 TAAAAAAAT
1 TAAAAATAT
*
67102370 TAAACAATAA
1 TAAA-AATAT
67102380 T-AAAATA-
1 TAAAAATAT
*
67102387 AAAAAATAT
1 TAAAAATAT
67102396 TAAAAATAT
1 TAAAAATAT
67102405 ATAAACTAAATAT
1 -T-AA--AAATAT
67102418 TAAAAATATT
1 TAAAAATA-T
67102428 TAAATTAACTAT
1 TAAA--AA-TAT
67102440 TAAAAATATT
1 TAAAAATA-T
67102450 ATAAAAATAT
1 -TAAAAATAT
*
67102460 AAAAAAT
1 TAAAAAT
67102467 CTAATAAATT
Statistics
Matches: 79, Mismatches: 5, Indels: 26
0.72 0.05 0.24
Matches are distributed among these distances:
8 10 0.13
9 27 0.34
10 14 0.18
11 12 0.15
12 8 0.10
13 8 0.10
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
TAAAAATAT
Found at i:67102403 original size:22 final size:23
Alignment explanation
Indices: 67102378--67102425 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
67102368 ATTAAACAAT
67102378 AATAAAATAAA-AAAATATTAAA
1 AATAAAATAAACAAAATATTAAA
* *
67102400 AAT-ATATAAACTAAATATTAAA
1 AATAAAATAAACAAAATATTAAA
67102422 AATA
1 AATA
67102426 TTTAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
AATAAAATAAACAAAATATTAAA
Found at i:67102426 original size:22 final size:22
Alignment explanation
Indices: 67102390--67102454 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
67102380 TAAAATAAAA
67102390 AAATATTAAAAATATATAAACT
1 AAATATTAAAAATATATAAACT
* *
67102412 AAATATTAAAAATATTTAAATT
1 AAATATTAAAAATATATAAACT
*
67102434 AACTATTAAAAATATTATAAA
1 AAATATTAAAAATA-TATAAA
67102455 AATATAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
22 33 0.87
23 5 0.13
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATATTAAAAATATATAAACT
Found at i:67103012 original size:9 final size:9
Alignment explanation
Indices: 67103000--67103135 Score: 62
Period size: 9 Copynumber: 14.3 Consensus size: 9
67102990 TTATGACTTT
67103000 TTTTAATAA
1 TTTTAATAA
*
67103009 TTTTCATAA
1 TTTTAATAA
*
67103018 GTTTATATCAA
1 TTTTA-AT-AA
*
67103029 TTTTAATCA
1 TTTTAATAA
*
67103038 TTTTAATCA
1 TTTTAATAA
*
67103047 TTTTATAGAA
1 TTTTA-ATAA
*
67103057 TTTTAATACGT
1 TTTTAATA--A
*
67103068 TTTTATAAAA
1 TTTTA-ATAA
67103078 TTTTAA-ATA
1 TTTTAATA-A
*
67103087 TTTTGAATATG
1 TTTT-AATA-A
*
67103098 TTTTACTAA
1 TTTTAATAA
67103107 TTTT-AT-A
1 TTTTAATAA
*
67103114 TTTTTATAA
1 TTTTAATAA
*
67103123 CTTTTTATAA
1 -TTTTAATAA
67103133 TTT
1 TTT
67103136 ATTAGATTTT
Statistics
Matches: 100, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
7 5 0.05
8 4 0.04
9 42 0.42
10 30 0.30
11 17 0.17
12 2 0.02
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.57
Consensus pattern (9 bp):
TTTTAATAA
Found at i:67103034 original size:29 final size:28
Alignment explanation
Indices: 67103000--67103064 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
67102990 TTATGACTTT
*
67103000 TTTTAATAATTTTCATAAGTTTATATCAA
1 TTTTAATAATTTTAATAAGTTTATA-CAA
* * * *
67103029 TTTTAATCATTTTAATCATTTTATAGAA
1 TTTTAATAATTTTAATAAGTTTATACAA
67103057 TTTTAATA
1 TTTTAATA
67103065 CGTTTTTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (28 bp):
TTTTAATAATTTTAATAAGTTTATACAA
Found at i:67103059 original size:19 final size:21
Alignment explanation
Indices: 67103037--67103083 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
67103027 AATTTTAATC
*
67103037 ATTTTAAT-C-ATTTTATAGA
1 ATTTTAATACGATTTTATAAA
*
67103056 ATTTTAATACGTTTTTATAAA
1 ATTTTAATACGATTTTATAAA
67103077 ATTTTAA
1 ATTTTAA
67103084 ATATTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.33
20 1 0.04
21 15 0.62
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
ATTTTAATACGATTTTATAAA
Found at i:67103120 original size:8 final size:8
Alignment explanation
Indices: 67103093--67103215 Score: 52
Period size: 8 Copynumber: 14.0 Consensus size: 8
67103083 AATATTTTGA
67103093 ATATGTTTT
1 ATAT-TTTT
*
67103102 ACTAATTTT
1 A-TATTTTT
67103111 ATATTTTT
1 ATATTTTT
67103119 ATAACTTTTT
1 AT-A-TTTTT
67103129 ATAATTTATT
1 AT-ATTT-TT
*
67103139 AGATTTTTT
1 ATA-TTTTT
67103148 ATATTTTT
1 ATATTTTT
*
67103156 ATAAAATTATAT
1 AT---ATT-TTT
* *
67103168 CTATTTTC
1 ATATTTTT
67103176 ATATTTTT
1 ATATTTTT
*
67103184 A-ATATTT
1 ATATTTTT
*
67103191 A-ATGATCTT
1 ATAT--TTTT
67103200 ATATTTTT
1 ATATTTTT
67103208 ATATTTTT
1 ATATTTTT
67103216 TTCTAATTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
7 8 0.09
8 34 0.39
9 21 0.24
10 19 0.22
11 3 0.03
12 3 0.03
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (8 bp):
ATATTTTT
Found at i:67103518 original size:29 final size:28
Alignment explanation
Indices: 67103485--67103563 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 28
67103475 TCTATGTGCT
*
67103485 CTTTTAAATTTTAAAATTTAGTCTCTATA
1 CTTTT-AATTTTAAAATCTAGTCTCTATA
*
67103514 CTTTT-ATTTCTAGAAATCTAGTCTCTCTA
1 CTTTTAATTT-TA-AAATCTAGTCTCTATA
* *
67103543 TTTTTAGATTTCAAAATCTAG
1 CTTTTA-ATTTTAAAATCTAG
67103564 ATTCAACTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
27 4 0.10
28 2 0.05
29 31 0.74
30 1 0.02
31 4 0.10
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.49
Consensus pattern (28 bp):
CTTTTAATTTTAAAATCTAGTCTCTATA
Found at i:67105214 original size:18 final size:18
Alignment explanation
Indices: 67105191--67105227 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
67105181 AAATTCTTAT
67105191 AACTAGGAATTTTAACAA
1 AACTAGGAATTTTAACAA
**
67105209 AACTAGGGGTTTTAACAA
1 AACTAGGAATTTTAACAA
67105227 A
1 A
67105228 CACGTTGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (18 bp):
AACTAGGAATTTTAACAA
Found at i:67106061 original size:143 final size:143
Alignment explanation
Indices: 67105803--67106088 Score: 527
Period size: 143 Copynumber: 2.0 Consensus size: 143
67105793 GTTAGTCACT
*
67105803 GACCATGCGTATGTAACTCATGTGCTTTGAAATAAGTGGAGGCTTATGCTCTAAAGATGATCAAG
1 GACCATGCATATGTAACTCATGTGCTTTGAAATAAGTGGAGGCTTATGCTCTAAAGATGATCAAG
*
67105868 CCGATAGTTAGTACATTGGGTACATGACTTTTGTATGGCATGACTTTACTAGCAACAATGGAATT
66 CCGATAGTTAGTACATTGGGTACATGACTTGTGTATGGCATGACTTTACTAGCAACAATGGAATT
67105933 CATAGCTCAATTA
131 CATAGCTCAATTA
67105946 GACCATGCATATGTAACTCATGTGCTTTGAAATAAGTGGAGGCTTATGCTCTAAAGATGATCAAG
1 GACCATGCATATGTAACTCATGTGCTTTGAAATAAGTGGAGGCTTATGCTCTAAAGATGATCAAG
* * *
67106011 CCGATAGTTGGTACGTTGGGTACATGACTTGTGTATGGCATGACTTTACTAGCAACAGTGGAATT
66 CCGATAGTTAGTACATTGGGTACATGACTTGTGTATGGCATGACTTTACTAGCAACAATGGAATT
67106076 CATAGCTCAATTA
131 CATAGCTCAATTA
67106089 AAGAGTTAAC
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 138 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (143 bp):
GACCATGCATATGTAACTCATGTGCTTTGAAATAAGTGGAGGCTTATGCTCTAAAGATGATCAAG
CCGATAGTTAGTACATTGGGTACATGACTTGTGTATGGCATGACTTTACTAGCAACAATGGAATT
CATAGCTCAATTA
Found at i:67108353 original size:51 final size:51
Alignment explanation
Indices: 67108293--67108466 Score: 287
Period size: 51 Copynumber: 3.4 Consensus size: 51
67108283 TTTGAGTACT
*
67108293 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTA
* * * *
67108344 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAG-CTTAGCTACTCTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
67108394 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTA
67108445 TCTGATCAGTGACAAGTGATAA
1 TCTGATCAGTGACAAGTGATAA
67108467 ATGTGATTAG
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 45 0.40
51 67 0.60
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (51 bp):
TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:67113016 original size:72 final size:72
Alignment explanation
Indices: 67112931--67113074 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
67112921 GAAATCGTGC
67112931 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
1 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
67112996 CGTATGA
66 CGTATGA
*
67113003 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTTTCAA
1 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
67113068 CGTATGA
66 CGTATGA
67113075 GCTTTTGGAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (72 bp):
CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
CGTATGA
Found at i:67118865 original size:38 final size:38
Alignment explanation
Indices: 67118814--67118890 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
67118804 TAATCCAAAA
67118814 TTACATAATATTAAATTCCAACTCAAATCACAATCAAT
1 TTACATAATATTAAATTCCAACTCAAATCACAATCAAT
67118852 TTACATAATATTAAATTCCAACTCAAATCACAATCAAT
1 TTACATAATATTAAATTCCAACTCAAATCACAATCAAT
67118890 T
1 T
67118891 ACAAAGCCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (38 bp):
TTACATAATATTAAATTCCAACTCAAATCACAATCAAT
Found at i:67122751 original size:34 final size:34
Alignment explanation
Indices: 67122708--67122777 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
67122698 TGCTTATTAT
67122708 ATGTAAAACTTATTATTTTATGATATTATATGAA
1 ATGTAAAACTTATTATTTTATGATATTATATGAA
67122742 ATGTAAAACTTATTATTTTATGATATTATATGAA
1 ATGTAAAACTTATTATTTTATGATATTATATGAA
67122776 AT
1 AT
67122778 AACGAAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (34 bp):
ATGTAAAACTTATTATTTTATGATATTATATGAA
Found at i:67123627 original size:26 final size:26
Alignment explanation
Indices: 67123598--67123681 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
67123588 TGATACAAAT
** *
67123598 TGATAATATGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
67123624 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
67123650 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
67123676 TGATAA
1 TGATAA
67123682 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:67125353 original size:27 final size:26
Alignment explanation
Indices: 67125304--67125417 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 26
67125294 GAGGAAGCGT
* * *
67125304 TCTGGTGGCTATGCTACAAATATCTGA
1 TCTGGTGGCTCTGCCAC-ATTATCTGA
*
67125331 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAT-TATCTGA
*
67125358 TCTGGTGGCTCTGCCATGATTATCTGTA
1 TCTGGTGGCTCTGCCA-CATTATCTG-A
* * *
67125386 TCTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACATTATCTGA
67125412 TCTGGT
1 TCTGGT
67125418 AGCCATGCTG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.39
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACATTATCTGA
Found at i:67135551 original size:9 final size:9
Alignment explanation
Indices: 67135528--67135562 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
67135518 CTCTCTATTT
*
67135528 TCTCTAAAC
1 TCTCTCAAC
67135537 TCTCTCAAC
1 TCTCTCAAC
*
67135546 TCTCTCAAT
1 TCTCTCAAC
67135555 TCTCTCAA
1 TCTCTCAA
67135563 ATTTTGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:67135788 original size:10 final size:10
Alignment explanation
Indices: 67135773--67135798 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
67135763 AGTTTTTAAA
67135773 ATTTTAAAAT
1 ATTTTAAAAT
67135783 ATTTTAAAAT
1 ATTTTAAAAT
67135793 ATTTTA
1 ATTTTA
67135799 TTTTGTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:67140242 original size:26 final size:26
Alignment explanation
Indices: 67140213--67140295 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
67140203 TTGGATCACC
67140213 AATAAATCATTAGTTTTGGTCTACGA
1 AATAAATCATTAGTTTTGGTCTACGA
* ** ** *
67140239 AATAAA-AAGAATGGATTGGATC-AC-C
1 AATAAATCATTA-GTTTTGG-TCTACGA
67140264 AATAAATCATTAGTTTTGGTCTACGA
1 AATAAATCATTAGTTTTGGTCTACGA
67140290 AATAAA
1 AATAAA
67140296 AAGGATGGGT
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 2 0.05
25 15 0.38
26 21 0.52
27 2 0.05
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (26 bp):
AATAAATCATTAGTTTTGGTCTACGA
Found at i:67140275 original size:51 final size:51
Alignment explanation
Indices: 67140201--67140303 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
67140191 TTTTAGGTGT
67140201 GATTGGATCACCAATAAATCATTAGTTTTGGTCTACGAAATAAAAAGAATG
1 GATTGGATCACCAATAAATCATTAGTTTTGGTCTACGAAATAAAAAGAATG
*
67140252 GATTGGATCACCAATAAATCATTAGTTTTGGTCTACGAAATAAAAAGGATG
1 GATTGGATCACCAATAAATCATTAGTTTTGGTCTACGAAATAAAAAGAATG
67140303 G
1 G
67140304 GTTTGGGAGT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (51 bp):
GATTGGATCACCAATAAATCATTAGTTTTGGTCTACGAAATAAAAAGAATG
Found at i:67140282 original size:25 final size:25
Alignment explanation
Indices: 67140203--67140282 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
67140193 TTAGGTGTGA
67140203 TTGGATCACCAATAAATCATTAGTT
1 TTGGATCACCAATAAATCATTAGTT
* * ** **
67140228 TTGG-TCTACGAAATAAA-AAGAATGGA
1 TTGGATC-AC-CAATAAATCATTA-GTT
67140254 TTGGATCACCAATAAATCATTAGTT
1 TTGGATCACCAATAAATCATTAGTT
67140279 TTGG
1 TTGG
67140283 TCTACGAAAT
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 2 0.05
25 19 0.50
26 15 0.39
27 2 0.05
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (25 bp):
TTGGATCACCAATAAATCATTAGTT
Found at i:67140977 original size:23 final size:23
Alignment explanation
Indices: 67140920--67140977 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
67140910 ATACAATTAG
* *
67140920 ACATATAAATATATACAAAACAA
1 ACATATATATATATAAAAAACAA
** *
67140943 ATGTA-ATAATATATAAAAAATAA
1 ACATATAT-ATATATAAAAAACAA
67140966 ACATATATATAT
1 ACATATATATAT
67140978 CAAACAAACA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
22 1 0.04
23 23 0.88
24 2 0.08
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (23 bp):
ACATATATATATATAAAAAACAA
Found at i:67141294 original size:5 final size:5
Alignment explanation
Indices: 67141286--67141363 Score: 52
Period size: 5 Copynumber: 15.0 Consensus size: 5
67141276 ACTATAGAGA
* * * * *
67141286 ATAAT ATAAT ATCAT ATAAT ATAAT AAAAAT TTAAT -TACAT ATAAT TTAAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATA-AT ATAAT ATAAT
67141337 AGTAA- ATAAT AATAGAT ATAAT ATAAT
1 A-TAAT ATAAT -ATA-AT ATAAT ATAAT
67141364 GGACAATAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
4 5 0.09
5 36 0.62
6 15 0.26
7 2 0.03
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:67141321 original size:26 final size:27
Alignment explanation
Indices: 67141248--67141331 Score: 77
Period size: 26 Copynumber: 3.1 Consensus size: 27
67141238 AGAAAATATT
67141248 TAAT-TAAT-AAAATATTAATAATACATA
1 TAATATAATAAAAAT-TTAAT-ATACATA
* * * *
67141275 TACTATAGAGAATAATATAATAT-CATA
1 TAATATA-ATAAAAATTTAATATACATA
67141302 TAATATAATAAAAATTTAAT-TACATA
1 TAATATAATAAAAATTTAATATACATA
67141328 TAAT
1 TAAT
67141332 TTAAAAGTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
25 1 0.02
26 18 0.40
27 13 0.29
28 4 0.09
29 5 0.11
30 4 0.09
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (27 bp):
TAATATAATAAAAATTTAATATACATA
Found at i:67143734 original size:205 final size:206
Alignment explanation
Indices: 67143259--67144136 Score: 1361
Period size: 205 Copynumber: 4.3 Consensus size: 206
67143249 TAAATCTGCT
* * *
67143259 TCTTCGATTTGTTCCTCGTAAACACAAGTATGCTAAATCATCTTGGATCTGCTTCAGTATAAACA
1 TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
* ** * * * * *
67143324 TCTGGAGGTTAGATCTGCTATGTATATGCTATTCGTCGAA-ATGGAGATGCCAGACTTCGATTT-
66 TCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGATTTG
* * *
67143387 TTCTCTGACAATACAGAGATGCCAAATCATATTAGATTTGCTTCATCGCAAACACGTGGAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
67143452 AATCAGCTATG
196 AATCAGCTATG
*
67143463 TCTTTGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
1 TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
* * * * *
67143528 TCTGAAGGCCAGATCTACTATGTATCTGTTCGCCGTCGAATATGGAGACTCCAAACTTTGATTTG
66 TCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGATTTG
* *
67143593 TTCTTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGGAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
67143658 AATCAGCTATG
196 AATCAGCTATG
* *
67143669 TCTTTGATTTGTT-CTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
1 TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
* * *
67143733 TCTGAAGACCAGATCTGCTATGTATCTGCTTTCCATCGAATATGGAGACGCCAAACTTCGATTTG
66 TCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGATTTG
* *
67143798 TTCTCTGACAATACAGAGATACCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
67143863 AATCAGCTATG
196 AATCAGCTATG
* * * *
67143874 AT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTAGATCTACTTCAGTCTAATC
1 -TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
* *
67143938 ATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAA-TTTGATTT
65 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGATTT
* *
67144002 GTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTTAAAGCC
130 GTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCC
67144067 AAATCAGCTATG
195 AAATCAGCTATG
*
67144079 TCTTCGATTTGTTCCTTGTAAACACAAGGATGTCAAATCATCTTGGATCTTGCTTCAG
1 TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATC-TGCTTCAG
67144137 CCAGATCTAC
Statistics
Matches: 619, Mismatches: 49, Indels: 10
0.91 0.07 0.01
Matches are distributed among these distances:
204 93 0.15
205 335 0.54
206 191 0.31
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (206 bp):
TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
TCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGATTTG
TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
AATCAGCTATG
Found at i:67144099 original size:411 final size:410
Alignment explanation
Indices: 67143259--67144136 Score: 1386
Period size: 411 Copynumber: 2.1 Consensus size: 410
67143249 TAAATCTGCT
* * *
67143259 TCTTCGATTTGTTCCTCGTAAACACAAGTATGCTAAATCATCTTGGATCTGCTTCAGTATAAACA
1 TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
* *** * * *
67143324 TCTGGAGGTTAGATCTGCTATGTATATGCTATTCGTCGAAATGGAGATGCCAGACTTCGATTTTT
66 TCTGAAGACCAGATCTGCTATGTATATGCTATTCATCGAAATGGAGACGCCAAACTTCGATTTTT
* *
67143389 CTCTGACAATACAGAGATGCCAAATCATATTAGATTTGCTTCATCGCAAACACGTGGAAGCCAAA
131 CTCTGACAATACAGAGATACCAAATCATATTAGATTTGCTTCATCGCAAACACGTGAAAGCCAAA
* * *
67143454 TCAGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCA
196 TCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTAGATCTACTTCA
* *
67143519 GTATAAACATCTGAAGGCCAGATCTACTATGTATCTGTTCGCCGTCGAATATGGAGACTCCAAAC
261 GTATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCGCCGTCGAATATGGAGACGCCAAAC
*
67143584 TTTGATTTGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACG
326 TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACG
*
67143649 TGGAAGCCAAATCAGCTATG
391 TGAAAGCCAAATCAGCTATG
* *
67143669 TCTTTGATTTGTT-CTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
1 TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
*
67143733 TCTGAAGACCAGATCTGCTATGTATCTGCT-TTCCATCGAATATGGAGACGCCAAACTTCGATTT
66 TCTGAAGACCAGATCTGCTATGTATATGCTATT-CATCGAA-ATGGAGACGCCAAACTTCGATTT
* * *
67143797 GTTCTCTGACAATACAGAGATACCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCC
129 -TTCTCTGACAATACAGAGATACCAAATCATATTAGATTTGCTTCATCGCAAACACGTGAAAGCC
67143862 AAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTAGATCTAC
193 AAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTAGATCTAC
* * * * *
67143926 TTCAGTCTAATCATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCC
257 TTCAGTATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCGCCGTCGAATATGGAGACGCC
*
67143991 AAA-TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAG
322 AAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAA
*
67144055 CACGTTAAAGCCAAATCAGCTATG
387 CACGTGAAAGCCAAATCAGCTATG
*
67144079 TCTTCGATTTGTTCCTTGTAAACACAAGGATGTCAAATCATCTTGGATCTTGCTTCAG
1 TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATC-TGCTTCAG
67144137 CCAGATCTAC
Statistics
Matches: 427, Mismatches: 35, Indels: 10
0.90 0.07 0.02
Matches are distributed among these distances:
408 2 0.00
409 78 0.18
410 126 0.30
411 212 0.50
412 9 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (410 bp):
TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
TCTGAAGACCAGATCTGCTATGTATATGCTATTCATCGAAATGGAGACGCCAAACTTCGATTTTT
CTCTGACAATACAGAGATACCAAATCATATTAGATTTGCTTCATCGCAAACACGTGAAAGCCAAA
TCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTAGATCTACTTCA
GTATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCGCCGTCGAATATGGAGACGCCAAAC
TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACG
TGAAAGCCAAATCAGCTATG
Found at i:67155736 original size:23 final size:23
Alignment explanation
Indices: 67155679--67155736 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
67155669 ATACAATTAG
* *
67155679 ACATATAAATATATACAAAACAA
1 ACATATATATATATAAAAAACAA
** *
67155702 ATGTA-ATAATATATAAAAAATAA
1 ACATATAT-ATATATAAAAAACAA
67155725 ACATATATATAT
1 ACATATATATAT
67155737 CAAACAAACA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
22 1 0.04
23 23 0.88
24 2 0.08
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (23 bp):
ACATATATATATATAAAAAACAA
Found at i:67156058 original size:5 final size:5
Alignment explanation
Indices: 67156050--67156126 Score: 59
Period size: 5 Copynumber: 15.0 Consensus size: 5
67156040 ACTATAGAGA
* * * * *
67156050 ATAAT ATAAT ATCAT ATAAT ATAAT AAAAT TTAAT -TACAT ATAAT TTAAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT
67156100 AGTAA- ATAAT AATAGAT ATAAT ATAAT
1 A-TAAT ATAAT -ATA-AT ATAAT ATAAT
67156127 GGACAATAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
4 5 0.09
5 40 0.69
6 11 0.19
7 2 0.03
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:67160345 original size:28 final size:28
Alignment explanation
Indices: 67160312--67160370 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
67160302 TTGGCATTTA
*
67160312 GTAATCACCTAAATGATATGTCATTGGC
1 GTAATCACCTAAATGATATGTCATTAGC
*
67160340 GTAATCACCTATATGATATGTCATTAGC
1 GTAATCACCTAAATGATATGTCATTAGC
67160368 GTA
1 GTA
67160371 CTGAGTCTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (28 bp):
GTAATCACCTAAATGATATGTCATTAGC
Found at i:67164498 original size:30 final size:30
Alignment explanation
Indices: 67164464--67164524 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
67164454 AATATCCATG
67164464 ATCCATAAACATTTCACAATTTCATAACAT
1 ATCCATAAACATTTCACAATTTCATAACAT
67164494 ATCCATAAACATTTCACAATTTCATAACAT
1 ATCCATAAACATTTCACAATTTCATAACAT
67164524 A
1 A
67164525 CTTAACATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (30 bp):
ATCCATAAACATTTCACAATTTCATAACAT
Found at i:67165416 original size:20 final size:19
Alignment explanation
Indices: 67165377--67165416 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
67165367 TAATTAGTTT
**
67165377 TAAATTAAACTTAATTTAA
1 TAAATTAAACTTAAACTAA
67165396 TAAATTAAAACTTAAACTAA
1 TAAATT-AAACTTAAACTAA
67165416 T
1 T
67165417 TAAGCTAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATTAAACTTAAACTAA
Found at i:67166291 original size:88 final size:86
Alignment explanation
Indices: 67166151--67166340 Score: 249
Period size: 88 Copynumber: 2.2 Consensus size: 86
67166141 CAGAAAAAGC
* * *
67166151 AATTAAGCCCCTAC--TTTTTTTTGCATTCATTTGGGTACTTGAACTTTCAAAATGAATCAAAAA
1 AATTAAGCCCCTACTTTTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGAATCAAAAA
* * *
67166214 GGCCCTCAAACCTTTTTAAAAAT
66 GACCCTCAAA-C-TTTAAAAAAA
* * * *
67166237 AATTACGCCCCTACTTTTTTTTTTACACTCAATTGGGTACTTGAACTTTTAAAATGCATCAAAAC
1 AATTAAGCCCCTACTTTTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGAATCAAAAA
*
67166302 TACCCTCAAACTTTAAAAAAA
66 GACCCTCAAACTTTAAAAAAA
67166323 AATTAAGCCCCTACTTTT
1 AATTAAGCCCCTACTTTT
67166341 ATTAAAGATT
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
86 38 0.42
87 1 0.01
88 51 0.57
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (86 bp):
AATTAAGCCCCTACTTTTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGAATCAAAAA
GACCCTCAAACTTTAAAAAAA
Found at i:67166836 original size:55 final size:56
Alignment explanation
Indices: 67166732--67166853 Score: 140
Period size: 55 Copynumber: 2.2 Consensus size: 56
67166722 AGGGGTCATT
* * * *
67166732 AATTTTTATGATTTTTATAAAATTTTACAATTTTTTATTTTTTACAATTTTTAT-TA
1 AATTTTAATAATTTTTATAAAATTTTACAATTTATTATTTATTACAATTTTT-TCTA
* ** *
67166788 AATTTTAATAATTTTTCTAAAA-TTTATTATTTATTATTTATTATAATTTTTTCTA
1 AATTTTAATAATTTTTATAAAATTTTACAATTTATTATTTATTACAATTTTTTCTA
*
67166843 ATTTTTAATAA
1 AATTTTAATAA
67166854 GAGCAGAGGC
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
54 1 0.02
55 36 0.64
56 19 0.34
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (56 bp):
AATTTTAATAATTTTTATAAAATTTTACAATTTATTATTTATTACAATTTTTTCTA
Found at i:67167004 original size:87 final size:85
Alignment explanation
Indices: 67166861--67167073 Score: 234
Period size: 87 Copynumber: 2.5 Consensus size: 85
67166851 TAAGAGCAGA
* * ** * *
67166861 GGCTTAATTACTTTTTTGAAAAATTTTGA-GTTTTTTTGATGCATTTTGAAAGTTCAAATACCT-
1 GGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTTTTTAATGCATTTTGAAAATTCAAAT-CCTC
* *
67166924 AGTTGAGTG-AAAAAAAGCAG
65 AATTGAGTGAAAAAAAAGAAG
* * * *
67166944 GAGCTTAATTGTTTTTTTTAAAGAAGTTTGAGGGCCTTTTTAATGCATTTTGAAAATTCAAGTGC
1 G-GCTTAATTGCTTTTTTGAAA-AAGTTTGAGGG-CTTTTTAATGCATTTTGAAAATTCAAATCC
67167009 TCAATTGAGTGCAAAAAAAAAAGAAG
63 TCAATTGAGTG---AAAAAAAAGAAG
67167035 GGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTTTTTA
1 GGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTTTTTA
67167074 CACCATTAAG
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
83 1 0.01
84 17 0.16
85 7 0.07
86 3 0.03
87 32 0.30
88 7 0.07
89 11 0.10
90 18 0.17
91 11 0.10
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (85 bp):
GGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTTTTTAATGCATTTTGAAAATTCAAATCCTCA
ATTGAGTGAAAAAAAAGAAG
Found at i:67169072 original size:26 final size:26
Alignment explanation
Indices: 67169043--67169197 Score: 82
Period size: 26 Copynumber: 6.2 Consensus size: 26
67169033 ATATAATAGA
67169043 AAGCTCACAAAGAGCCATTAATCAGG
1 AAGCTCACAAAGAGCCATTAATCAGG
67169069 AAGCTCACAAATG-GCCTATT-A-C--G
1 AAGCTCACAAA-GAGCC-ATTAATCAGG
* * * *
67169092 AAGCTTATC--CGGGCAATATAAT-AGG
1 AAGCTCA-CAAAGAGCCAT-TAATCAGG
*
67169117 AAGCTCA-TAAGAGCCA-TAATCAGG
1 AAGCTCACAAAGAGCCATTAATCAGG
* **** *
67169141 AAGTTCACAAAGAATTTTTAATCAAG
1 AAGCTCACAAAGAGCCATTAATCAGG
67169167 AAGCTCACAAAGAGCC-TTCAATCAGG
1 AAGCTCACAAAGAGCCATT-AATCAGG
67169193 -AGCTC
1 AAGCTC
67169198 CAGATAGCCA
Statistics
Matches: 95, Mismatches: 19, Indels: 31
0.66 0.13 0.21
Matches are distributed among these distances:
21 3 0.03
22 3 0.03
23 12 0.13
24 10 0.11
25 23 0.24
26 40 0.42
27 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (26 bp):
AAGCTCACAAAGAGCCATTAATCAGG
Found at i:67174806 original size:46 final size:47
Alignment explanation
Indices: 67174740--67174865 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 47
67174730 CACATTGTCA
* * *
67174740 CACATCACACACCGAAGCCATAGCCC-TGCCATGGTCTTACACGG-AT
1 CACATAACATACCGATGCCATAGCCCAT-CCATGGTCTTACACGGAAT
* * *
67174786 CACATAACATACCGATGCCATATCCCATCTATGGTCTTATACGGAAT
1 CACATAACATACCGATGCCATAGCCCATCCATGGTCTTACACGGAAT
67174833 CACATTATCACATCACACCGATGCCATAGCCCA
1 CACA-TA--ACAT---ACCGATGCCATAGCCCA
67174866 GTTGTGGTCT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
46 36 0.55
47 7 0.11
48 2 0.03
50 4 0.06
53 16 0.25
ACGTcount: A:0.31, C:0.34, G:0.13, T:0.21
Consensus pattern (47 bp):
CACATAACATACCGATGCCATAGCCCATCCATGGTCTTACACGGAAT
Found at i:67174926 original size:52 final size:52
Alignment explanation
Indices: 67174784--67174950 Score: 192
Period size: 52 Copynumber: 3.2 Consensus size: 52
67174774 TCTTACACGG
* * *
67174784 ATCACATAACATACCGATGCCATATCCCATCTATGGTCTTATACGGAATCACATT
1 ATCACAT--CATACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGCACA-T
* * * * *
67174839 ATCACATCACACCGATGCCATAGCCCAGTTGTGGTCTTATACGGGAA-CACAA
1 ATCACATCATACCGATGCCATAACCCAGCTATGGTCTTATAC-GGAAGCACAT
** *
67174891 ATCACATTGTACCGATGCCATAACCTAGCTATGGTCTTATACGGAAGCACAT
1 ATCACATCATACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGCACAT
67174943 ATCACATC
1 ATCACATC
67174951 TTTTCCGTCA
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
51 4 0.04
52 46 0.48
53 34 0.36
54 4 0.04
55 7 0.07
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (52 bp):
ATCACATCATACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGCACAT
Found at i:67177627 original size:28 final size:28
Alignment explanation
Indices: 67177583--67177636 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
67177573 CTTATATTAT
* *
67177583 TATATTTTATTTAAATA-AGTTTTAATC
1 TATATTTGATTTAAATATAATTTTAATC
*
67177610 TATATCTTGATTTTAATATAATTTTAA
1 TATAT-TTGATTTAAATATAATTTTAA
67177637 ATTAATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 10 0.45
29 7 0.32
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (28 bp):
TATATTTGATTTAAATATAATTTTAATC
Found at i:67181330 original size:19 final size:19
Alignment explanation
Indices: 67181294--67181332 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
67181284 TATTATTAAT
**
67181294 ATATTTATAATTGTAATAA
1 ATATTTATAATTAAAATAA
*
67181313 ATATTTATTATTAAAATAA
1 ATATTTATAATTAAAATAA
67181332 A
1 A
67181333 ATTAAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:67191402 original size:29 final size:29
Alignment explanation
Indices: 67191339--67191406 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
67191329 TAATCAACCG
*
67191339 CGCACACGTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
67191368 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
67191397 CGCACACTTA
1 CGCACACTTA
67191407 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:67191518 original size:174 final size:174
Alignment explanation
Indices: 67191228--67191555 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
67191218 AACTCAAGGT
* * *
67191228 ACTTACCTTTTCCGTTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
67191293 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACGTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACGTAGTGCCATGC
67191358 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
67191402 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
67191467 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACGTAGTGCCATGC
67191532 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
67191556 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACGTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:67191549 original size:29 final size:30
Alignment explanation
Indices: 67191515--67191586 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
67191505 ATCAACCGCG
*
67191515 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
67191544 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
67191573 CACACTTAGTGCCA
1 CACACTTAGTGCCA
67191587 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:67199532 original size:29 final size:29
Alignment explanation
Indices: 67199470--67199536 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
67199460 AATCAACCGT
67199470 GCACACTTAGTGCCATGCACTTTAAACTC
1 GCACACTTAGTGCCATGCACTTTAAACTC
* **
67199499 ACACACTTAGTGCCATGCA-TTTCAAGTTC
1 GCACACTTAGTGCCATGCACTTT-AAACTC
67199528 GCACACTTA
1 GCACACTTA
67199537 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCACTTTAAACTC
Found at i:67199650 original size:174 final size:174
Alignment explanation
Indices: 67199358--67199685 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
67199348 AACTCAAGGT
* *
67199358 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
**
67199423 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGTGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
67199488 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
67199532 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
67199597 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
67199662 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
67199686 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Done.