Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 36 of 292
Found at i:9659125 original size:40 final size:40
Alignment explanation
Indices: 9659074--9659151 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
9659064 ACACACCATC
*
9659074 TGGGGACAAAATCGACCCACCCATCCCTGCACACCATATA
1 TGGGGACAAAATCGACCCACCCATCCCTACACACCATATA
* *
9659114 TGGGGATAAAATCGACCCATCCATCCCTACACACCATA
1 TGGGGACAAAATCGACCCACCCATCCCTACACACCATA
9659152 AGGTACTGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.33, C:0.36, G:0.14, T:0.17
Consensus pattern (40 bp):
TGGGGACAAAATCGACCCACCCATCCCTACACACCATATA
Found at i:9662672 original size:11 final size:11
Alignment explanation
Indices: 9662656--9662696 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
9662646 TTGTTTCTCC
9662656 CTATTTTGCTA
1 CTATTTTGCTA
*
9662667 CTATTTTACTA
1 CTATTTTGCTA
* *
9662678 TTATGTTGCTA
1 CTATTTTGCTA
9662689 CTATTTTG
1 CTATTTTG
9662697 TTATTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:9662946 original size:12 final size:11
Alignment explanation
Indices: 9662916--9662948 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
9662906 TATATATTTT
9662916 AAAATAATATA
1 AAAATAATATA
9662927 AAAATAATATA
1 AAAATAATATA
9662938 AAAATTAATAT
1 AAAA-TAATAT
9662949 GGGCGGGTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAATAATATA
Found at i:9666992 original size:40 final size:40
Alignment explanation
Indices: 9666945--9667022 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
9666935 ATACACCATG
* **
9666945 TGGGGATAAAATTGACCCACCCATCCCTGTACACCATATA
1 TGGGGATAAAATCGACCCACCCATCCCTACACACCATATA
*
9666985 TGGGGATAAAATCGACCCATCCATCCCTACACACCATA
1 TGGGGATAAAATCGACCCACCCATCCCTACACACCATA
9667023 AGGTACTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.33, C:0.32, G:0.14, T:0.21
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCATCCCTACACACCATATA
Found at i:9669771 original size:62 final size:59
Alignment explanation
Indices: 9669660--9669776 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
9669650 ATCACTTTAA
* * *
9669660 TATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAATCT
*
9669719 TATTAAAATAATAGAATATTTATCTACAAGATAAACATTGGATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA--T-CAAGATAAACATTAGATTAAATTTAATATTAA
9669777 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 20 0.39
61 1 0.02
62 30 0.59
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAATCT
Found at i:9669847 original size:37 final size:37
Alignment explanation
Indices: 9669787--9669857 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
9669777 GATAATCACT
*
9669787 TTAATATTAAATTAATAAAAAACTATTAAGATAAATA
1 TTAATATTAAATTAATAAAAAACTATTAAAATAAATA
**
9669824 TTAA-ATTAAATTTAATATTAAACTATTAAAATAA
1 TTAATATTAAA-TTAATAAAAAACTATTAAAATAA
9669858 TACTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 6 0.20
37 24 0.80
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (37 bp):
TTAATATTAAATTAATAAAAAACTATTAAAATAAATA
Found at i:9678875 original size:12 final size:12
Alignment explanation
Indices: 9678858--9678882 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9678848 AAAACCTAAC
9678858 TTTTTTTAAATT
1 TTTTTTTAAATT
9678870 TTTTTTTAAATT
1 TTTTTTTAAATT
9678882 T
1 T
9678883 CAGTAAAAAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTTAAATT
Found at i:9680671 original size:22 final size:24
Alignment explanation
Indices: 9680628--9680671 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
9680618 TGATAATATG
9680628 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
9680652 TTTTGA-ATAA-AATTTAAAGT
1 TTTTGATATAACAAATTAAAGT
9680672 TGAAATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:9681569 original size:3 final size:3
Alignment explanation
Indices: 9681561--9681589 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9681551 ATTTTGGATG
9681561 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9681590 TTGTATGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9683745 original size:28 final size:28
Alignment explanation
Indices: 9683645--9683746 Score: 82
Period size: 28 Copynumber: 3.5 Consensus size: 28
9683635 ACTTGTAATA
* *
9683645 GGGCTACGGCCCAGATTAATATTGATAT
1 GGGCTAAGGCCCAGATAAATATTGATAT
* * *
9683673 GGGCT-AGGCCCAGTATACTCTGATACTG-TAAG
1 GGGCTAAGGCCCAG-ATA----AATATTGAT-AT
*
9683705 GGGCTATGGCCCAGATAAATATTGATAT
1 GGGCTAAGGCCCAGATAAATATTGATAT
9683733 GGGCTAAGGCCCAG
1 GGGCTAAGGCCCAG
9683747 TTAACTCTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
27 7 0.12
28 26 0.46
29 1 0.02
31 1 0.02
32 14 0.25
33 7 0.12
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATAAATATTGATAT
Found at i:9685850 original size:46 final size:47
Alignment explanation
Indices: 9685785--9686017 Score: 240
Period size: 46 Copynumber: 4.9 Consensus size: 47
9685775 TTATCTTTGA
* * * * *
9685785 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
**
9685831 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
* * *
9685877 CACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TT--T-TCA---TGT
* * *
9685931 CATGGTACCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
*
9685977 CA-GTTTGCCATGGTATCTCTCAACCATGGTCTTACACATTT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
9686018 CATATCAGAG
Statistics
Matches: 158, Mismatches: 18, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
45 5 0.03
46 104 0.66
47 2 0.01
48 1 0.01
49 3 0.02
50 2 0.01
51 3 0.02
52 1 0.01
54 37 0.23
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGT
Found at i:9686011 original size:100 final size:100
Alignment explanation
Indices: 9685838--9686025 Score: 315
Period size: 100 Copynumber: 1.9 Consensus size: 100
9685828 TGTCATGTTG
** * *
9685838 CCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTCTCAACCA
9685903 TGGTCTTACACATTTCATATCAGGTTGCCATGGTA
66 TGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
9685938 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GTTTGCCATGGTATCTCTCAACC
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACG-CTGCCATGGTATCTCTCAACC
9686002 ATGGTCTTACACATTTCATATCAG
65 ATGGTCTTACACATTTCATATCAG
9686026 AGAGCACACT
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
99 1 0.01
100 81 0.99
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (100 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTCTCAACCA
TGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:9689032 original size:27 final size:29
Alignment explanation
Indices: 9688985--9689050 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 29
9688975 CTTAACAAAT
*
9688985 TTTA-ATATTTTTTGTAAATTTTTTAA-AA
1 TTTATATATTTTTTGTAAA-TTTATAATAA
*
9689013 TTTATATATTTTTT-T-CATTTATAATAA
1 TTTATATATTTTTTGTAAATTTATAATAA
9689040 TTTATAT-TTTT
1 TTTATATATTTT
9689051 GTAATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 10 0.29
27 10 0.29
28 5 0.15
29 9 0.26
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTATATATTTTTTGTAAATTTATAATAA
Found at i:9689133 original size:9 final size:9
Alignment explanation
Indices: 9689115--9689177 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
9689105 TATGTTTATA
*
9689115 ATTTTCTTT
1 ATTTTTTTT
9689124 ATTTTTTTT
1 ATTTTTTTT
9689133 ATTTTTTTCT
1 ATTTTTTT-T
*
9689143 ATTTTTTATG
1 ATTTTTT-TT
**
9689153 ATTTTTCAT
1 ATTTTTTTT
*
9689162 ATTTTTATTG
1 ATTTTT-TTT
9689172 ATTTTT
1 ATTTTT
9689178 AATGATTATA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
9 22 0.51
10 20 0.47
11 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:9689149 original size:17 final size:19
Alignment explanation
Indices: 9689127--9689177 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
9689117 TTTCTTTATT
*
9689127 TTTTTTAT-TTTTTTC-TA
1 TTTTTTATGATTTTTCATA
9689144 TTTTTTATGATTTTTCATA
1 TTTTTTATGATTTTTCATA
9689163 -TTTTTATTGATTTTT
1 TTTTTTA-TGATTTTT
9689178 AATGATTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 8 0.27
18 12 0.40
19 10 0.33
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTTTTATGATTTTTCATA
Found at i:9689156 original size:10 final size:9
Alignment explanation
Indices: 9689093--9689167 Score: 55
Period size: 9 Copynumber: 8.3 Consensus size: 9
9689083 TTAAAAATAC
9689093 TTTTATATT
1 TTTTATATT
* *
9689102 TTATATGTT
1 TTTTATATT
* *
9689111 TATAAT-TT
1 TTTTATATT
*
9689119 TCTTTATTTT
1 T-TTTATATT
9689129 TTTTAT-TT
1 TTTTATATT
*
9689137 TTTTCTATT
1 TTTTATATT
9689146 TTTTATGATT
1 TTTTAT-ATT
*
9689156 TTTCATATT
1 TTTTATATT
9689165 TTT
1 TTT
9689168 ATTGATTTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
8 10 0.19
9 31 0.60
10 11 0.21
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.75
Consensus pattern (9 bp):
TTTTATATT
Found at i:9689157 original size:19 final size:19
Alignment explanation
Indices: 9689109--9689177 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 19
9689099 ATTTTATATG
*
9689109 TTTATAATTTTCTT-TATTT
1 TTTATGATTTT-TTCTATTT
*
9689128 TTT-TTATTTTTTTCTATTT
1 TTTATGA-TTTTTTCTATTT
9689147 TTTATGA-TTTTTC-ATATT
1 TTTATGATTTTTTCTAT-TT
9689165 TTTATTGATTTTT
1 TTTA-TGATTTTT
9689178 AATGATTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
17 2 0.05
18 16 0.38
19 18 0.43
20 6 0.14
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTATGATTTTTTCTATTT
Found at i:9692618 original size:30 final size:31
Alignment explanation
Indices: 9692578--9692636 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
9692568 TTTTTTAAAG
* *
9692578 CTAAATTTAATC-TCAACCTTTTAAAAAGCA
1 CTAAAATTAATCATCAACCTATTAAAAAGCA
9692608 CTAAAATTAATCATCAACCTATTAAAAAG
1 CTAAAATTAATCATCAACCTATTAAAAAG
9692637 TGTCAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (31 bp):
CTAAAATTAATCATCAACCTATTAAAAAGCA
Found at i:9693131 original size:15 final size:15
Alignment explanation
Indices: 9693111--9693139 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9693101 GCAGAGTTGG
9693111 GTTGATGACAAAAGA
1 GTTGATGACAAAAGA
9693126 GTTGATGACAAAAG
1 GTTGATGACAAAAG
9693140 TATATAGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.21
Consensus pattern (15 bp):
GTTGATGACAAAAGA
Found at i:9697483 original size:35 final size:35
Alignment explanation
Indices: 9697425--9697577 Score: 252
Period size: 35 Copynumber: 4.3 Consensus size: 35
9697415 AATCATATCT
9697425 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
9697462 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
9697497 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* * *
9697532 TATAAGATTGTATCATATCTAAGATTCCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
9697568 TCTAAGATTG
1 TCTAAGATTG
9697578 CATATCATTG
Statistics
Matches: 111, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
35 87 0.78
36 14 0.13
37 10 0.09
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:9698707 original size:206 final size:207
Alignment explanation
Indices: 9697978--9698900 Score: 1505
Period size: 207 Copynumber: 4.5 Consensus size: 207
9697968 AAATCTGCTT
* *
9697978 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGT-GTAAACA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA-TCGTAAACA
* * *
9698042 CGCGAAAGCCAAATCAGCTCTGTCTTCGATTTGCTCCTTGTAAGCACAAGGATA-CCAAACCATC
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGA-AGCCAAACCATC
* * ** * *
9698106 TTGGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCGAAT
129 TTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAAT
9698170 ATGGAGACGCCAAA
194 ATGGAGACGCCAAA
* *
9698184 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
9698249 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGGACAA-GAATGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGAA-GCCAAACCATCT
9698313 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
130 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
*
9698378 TGGAGACACCAAA
195 TGGAGACGCCAAA
* * * *
9698391 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGGTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
9698456 GTGAAAGCAAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGAAGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGAAGCCAAACCATCTT
* * *
9698521 GGATTTTGCTTCAGTATAAACATCTGAAGGCCAGATCTTCTATGTGTCTGCCTTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
9698586 GGAGAC-CCAAA
196 GGAGACGCCAAA
* *
9698597 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
9698662 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGAAGCCAAACCATCTT
*
9698727 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
9698792 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
9698804 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
9698869 GTGAAAGCCAAATCAGCTATGTCTTCGATTTG
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTG
9698901 CTCTCCATTG
Statistics
Matches: 674, Mismatches: 37, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
204 1 0.00
205 2 0.00
206 314 0.47
207 354 0.53
208 3 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGAAGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:9698745 original size:413 final size:413
Alignment explanation
Indices: 9697978--9698903 Score: 1534
Period size: 413 Copynumber: 2.2 Consensus size: 413
9697968 AAATCTGCTT
* **
9697978 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGTGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * *
9698043 GCGAAAGCCAAATCAGCTCTGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATACCAAACCATCTT
* * **
9698108 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGTCCTCCGTCGAATATG
9698173 GAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
196 GAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
* *
9698238 AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGGACAAGAATGC
261 AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGC
*
9698303 CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCT
326 CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCT
9698368 CCGTCGAATATGGAGACACCAAA
391 CCGTCGAATATGGAGACACCAAA
* *
9698391 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGGTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* *
9698456 GTGAAAGCAAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGA-AGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATA-CCAAACCATCT
* * *
9698520 TGGATTTTGCTTCAGTATAAACATCTGAAGGCCAGATCTTCTATGTGTCTG-CCTTCCGTCGAAT
130 TGGA-TCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGTCC-TCCGTCGAAT
* *
9698584 ATGGAGAC-CCAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGC
193 ATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGC
* * *
9698648 TTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGA
258 TTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAA
9698713 TGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGC
323 TGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGC
*
9698778 CCTCCGTCGAATATGGAGACGCCAAA
388 CCTCCGTCGAATATGGAGACACCAAA
** * *
9698804 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
9698869 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
9698904 TCCATTGAAT
Statistics
Matches: 476, Mismatches: 34, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
412 1 0.00
413 418 0.88
414 57 0.12
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (413 bp):
CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATACCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGTCCTCCGTCGAATATG
GAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTC
AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGC
CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCT
CCGTCGAATATGGAGACACCAAA
Found at i:9699150 original size:43 final size:42
Alignment explanation
Indices: 9699026--9699152 Score: 111
Period size: 43 Copynumber: 3.0 Consensus size: 42
9699016 CTATACTTTA
* * *
9699026 ACCTGTTACCTTACTGCTTAGGGGTTTAAGGCGC--ATCTTCG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCGAAT-TTTG
* * *
9699067 ATCTGCT-CCACTACTGCTTAGGGAGA-TAAGATC-CGCAATTTTG
1 ACCTGTTACC-CTACTGCTTAGGG-GATTAAG-GCGCG-AATTTTG
9699110 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCTGAATTTTG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC-GAATTTTG
9699153 TAATTTTCAA
Statistics
Matches: 67, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
40 2 0.03
41 22 0.33
42 5 0.07
43 33 0.49
44 5 0.07
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (42 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCGAATTTTG
Found at i:9700090 original size:1 final size:1
Alignment explanation
Indices: 9700084--9700153 Score: 77
Period size: 1 Copynumber: 70.0 Consensus size: 1
9700074 GGCCTCTCCA
* * * * * * *
9700084 TTTTTTTTTTTTTCTTTTTTTTCTTTTTCTCTTTTTTTTTCTTTTTTTTTTCTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9700149 TTTTT
1 TTTTT
9700154 GAAATAGAAG
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:9700101 original size:9 final size:9
Alignment explanation
Indices: 9700084--9700152 Score: 88
Period size: 9 Copynumber: 7.6 Consensus size: 9
9700074 GGCCTCTCCA
9700084 TTTTT-TTT
1 TTTTTCTTT
9700092 TTTTTCTTT
1 TTTTTCTTT
9700101 TTTTTCTTT
1 TTTTTCTTT
9700110 TTCTCTT-TTT
1 TT-T-TTCTTT
*
9700120 TTTTCTTTTT
1 TTTT-TCTTT
9700130 TTTTTCTTT
1 TTTTTCTTT
9700139 TTTTTCTTT
1 TTTTTCTTT
9700148 TTTTT
1 TTTTT
9700153 TGAAATAGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
8 6 0.11
9 34 0.62
10 13 0.24
11 2 0.04
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:9700121 original size:30 final size:30
Alignment explanation
Indices: 9700085--9700153 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
9700075 GCCTCTCCAT
*
9700085 TTTTTTTTTTTTCTTTTTTTTC-TTTTTCTC
1 TTTTTTTTTCTT-TTTTTTTTCTTTTTTCTC
*
9700115 TTTTTTTTTCTTTTTTTTTTCTTTTTTTTC
1 TTTTTTTTTCTTTTTTTTTTCTTTTTTCTC
9700145 TTTTTTTTT
1 TTTTTTTTT
9700154 GAAATAGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 9 0.25
30 27 0.75
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (30 bp):
TTTTTTTTTCTTTTTTTTTTCTTTTTTCTC
Found at i:9705945 original size:35 final size:35
Alignment explanation
Indices: 9705887--9706004 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
9705877 AATCATATCT
9705887 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
9705924 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
9705959 TCTAAGATTGTATCATATCTAAGATTCCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
9705995 TCTAAGATTG
1 TCTAAGATTG
9706005 CATATCATTG
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 53 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:9712231 original size:35 final size:35
Alignment explanation
Indices: 9712172--9712289 Score: 182
Period size: 35 Copynumber: 3.3 Consensus size: 35
9712162 AATCATATCT
9712172 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
*
9712209 TCTAAGATTGTATCATACCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
9712244 TCTAAGATTGTATCATATCTAAGATTCCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
9712280 TCTAAGATTG
1 TCTAAGATTG
9712290 CATATCATTG
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
35 51 0.67
36 15 0.20
37 10 0.13
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:9714491 original size:17 final size:17
Alignment explanation
Indices: 9714471--9714503 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9714461 TTAAATTGAC
9714471 ATTTAA-AAATAATTATA
1 ATTTAATAAA-AATTATA
9714488 ATTTAATAAAAATTAT
1 ATTTAATAAAAATTAT
9714504 GATAATTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAATAAAAATTATA
Found at i:9714665 original size:18 final size:18
Alignment explanation
Indices: 9714642--9714676 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9714632 GTTGTGATAA
9714642 TTATAATTATAAGTTAAT
1 TTATAATTATAAGTTAAT
*
9714660 TTATAATTATTAGTTAA
1 TTATAATTATAAGTTAA
9714677 AAAAGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
TTATAATTATAAGTTAAT
Found at i:9717461 original size:40 final size:39
Alignment explanation
Indices: 9717411--9717624 Score: 232
Period size: 40 Copynumber: 5.4 Consensus size: 39
9717401 GATTGTCTTT
* * *
9717411 GGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTC
1 GGGACTTAGCCCGGTT-TAGTAACTCGCACAAATGCCTTC
* *
9717451 GGGAATTAGCCCGGATTAGTAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGTTTAGTAACTCGCACAAATGCCTTC
* * *
9717490 GGGACTTAACCCGATTTTGGTAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCG-GTTTAGTAACTCGCACAAATGCCTTC
* *
9717530 GGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGCCTTC
* ** * *
9717570 GGGAATT-GACCCGGATTTAGCCACTTAGCACAAAAGCCTTC
1 GGGACTTAG-CCCGG-TTTAGTAAC-TCGCACAAATGCCTTC
9717611 GGGACTTAGCCCGG
1 GGGACTTAGCCCGG
9717625 ACATCATTCG
Statistics
Matches: 149, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.21
40 91 0.61
41 25 0.17
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
GGGACTTAGCCCGGTTTAGTAACTCGCACAAATGCCTTC
Found at i:9728743 original size:40 final size:40
Alignment explanation
Indices: 9728677--9728827 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
9728667 AAATTGAATG
* * *
9728677 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
9728716 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
9728756 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
9728796 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
9728828 ACGTGATTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:9728841 original size:40 final size:40
Alignment explanation
Indices: 9728713--9728843 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
9728703 TATGCTGGAA
* * *
9728713 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
9728753 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
9728793 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
9728833 ATTATATCCGG
1 ATTATATCCGG
9728844 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:9733030 original size:44 final size:40
Alignment explanation
Indices: 9732946--9733081 Score: 119
Period size: 42 Copynumber: 3.1 Consensus size: 40
9732936 GTTGGTATTA
* *
9732946 ATCTGAATTATCGTGTAAGACCGTGTCTGGGACACAGGCATCG
1 ATCTG-ATT-TCGTTTAAGACCATGTCTGGGACAC-GGCATCG
* *
9732989 ATTTGAAATTTACGTTTAAGACTATGTCTGGGACATCGGCATCG
1 ATCTG--ATTT-CGTTTAAGACCATGTCTGGGACA-CGGCATCG
* * *
9733033 TATCTGATTTCGTTTAAGACCCTGTCTAGGACAGAGGCATCG
1 -ATCTGATTTCGTTTAAGACCATGTCTGGGACA-CGGCATCG
9733075 ATACTGA
1 AT-CTGA
9733082 ATTACATGTA
Statistics
Matches: 78, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.03
42 31 0.40
43 9 0.12
44 31 0.40
45 5 0.06
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (40 bp):
ATCTGATTTCGTTTAAGACCATGTCTGGGACACGGCATCG
Found at i:9733065 original size:42 final size:41
Alignment explanation
Indices: 9732946--9733084 Score: 136
Period size: 44 Copynumber: 3.2 Consensus size: 41
9732936 GTTGGTATTA
* *
9732946 ATCTGAATTATCGTGTAAGACCGTGTCTGGGACACAGGCATCG
1 ATCTGAATT-TCGTTTAAGACCATGTCTGGGACAC-GGCATCG
* *
9732989 ATTTGAAATTTACGTTTAAGACTATGTCTGGGACATCGGCATCG
1 ATCTG-AATTT-CGTTTAAGACCATGTCTGGGACA-CGGCATCG
* * *
9733033 TATCTG-ATTTCGTTTAAGACCCTGTCTAGGACAGAGGCATCG
1 -ATCTGAATTTCGTTTAAGACCATGTCTGGGACA-CGGCATCG
9733075 ATACTGAATT
1 AT-CTGAATT
9733085 ACATGTAAGA
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
41 2 0.03
42 30 0.38
43 12 0.15
44 31 0.39
45 5 0.06
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (41 bp):
ATCTGAATTTCGTTTAAGACCATGTCTGGGACACGGCATCG
Found at i:9745761 original size:16 final size:16
Alignment explanation
Indices: 9745742--9745772 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9745732 GGCTTTTAGG
9745742 CATTTCAGCTTTTCAT
1 CATTTCAGCTTTTCAT
*
9745758 CATTTCGGCTTTTCA
1 CATTTCAGCTTTTCA
9745773 GCTTTTGCCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.26, G:0.10, T:0.48
Consensus pattern (16 bp):
CATTTCAGCTTTTCAT
Found at i:9749934 original size:44 final size:43
Alignment explanation
Indices: 9749885--9750032 Score: 124
Period size: 43 Copynumber: 3.4 Consensus size: 43
9749875 TGGGTTATTG
9749885 TGTAAGACCATGTCTGGGATGTTGGCATTGACTTATGATTTACA
1 TGTAAGACCATGTCTGGGATGTTGGCATTGA-TTATGATTTACA
*** * * * *
9749929 TGTAAGACCACCACTGGGATGTTGCCATCGTATT-TTATTTACG
1 TGTAAGACCATGTCTGGGATGTTGGCATTG-ATTATGATTTACA
* * * *
9749972 TGTAAGATCATGTGTGGGACGTTGGCGTCAT-ATTA-GATTT-CA
1 TGTAAGACCATGTCTGGGATGTTGGCAT--TGATTATGATTTACA
*
9750014 TGTAAGACCCTGTCTGGGA
1 TGTAAGACCATGTCTGGGA
9750033 CAGTGATCAC
Statistics
Matches: 79, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
42 17 0.22
43 34 0.43
44 27 0.34
45 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGATGTTGGCATTGATTATGATTTACA
Found at i:9770910 original size:78 final size:80
Alignment explanation
Indices: 9770775--9770956 Score: 237
Period size: 78 Copynumber: 2.3 Consensus size: 80
9770765 TCGAATGATG
* * *
9770775 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGTATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGCGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
9770840 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * **
9770854 TTCCGGGCTAAG-CCCGAAGGCATTGCGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGCGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
9770916 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
9770933 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
9770957 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.57
79 27 0.30
80 11 0.12
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGCGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:9770965 original size:40 final size:39
Alignment explanation
Indices: 9770776--9770958 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
9770766 CGAATGATGT
* *
9770776 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
9770815 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
9770856 CCGGGCTAAG-CCCGAAGGCA-TTGCGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9770893 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
9770934 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
9770959 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 24 0.20
39 18 0.15
40 70 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:9776265 original size:44 final size:40
Alignment explanation
Indices: 9776151--9776271 Score: 116
Period size: 42 Copynumber: 2.9 Consensus size: 40
9776141 GTAATTCAGT
* * *
9776151 ATCGATGCCTCTGTCCCAGACAGGGTCTTATACGAAATCAG
1 ATCGATG-CTGTGTCCCAGACACGGTCTTATACGAAATCAA
* *
9776192 ATACGATGCCGATGTCCCAGACATGGTCTTATACGTAAATTTCAA
1 AT-CGATGCTG-TGTCCCAGACACGGTCTTATACG-AAA--TCAA
* *
9776237 ATCGATGCATGTGTCCCAGACACAGTCTTACACGA
1 ATCGATGC-TGTGTCCCAGACACGGTCTTATACGA
9776272 TAATTCAGAC
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
41 3 0.05
42 27 0.41
43 4 0.06
44 26 0.39
45 6 0.09
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (40 bp):
ATCGATGCTGTGTCCCAGACACGGTCTTATACGAAATCAA
Found at i:9776265 original size:86 final size:87
Alignment explanation
Indices: 9776121--9776280 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 87
9776111 AATGCCAACA
* * * * ** *
9776121 TCCCAGACCTGGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCAGACAGGGTCTTATACGA
1 TCCCAGACATGGTCTTACACGTAATTCAGAATCGATGCATCTGTCCCAGACACAGTCTTACACGA
9776186 -AA-TCAGATACGATGCCGATG
66 TAATTCAGATACGATGCCGATG
* *
9776206 TCCCAGACATGGTCTTATACGTAAATTTCA-AATCGATGCATGTGTCCCAGACACAGTCTTACAC
1 TCCCAGACATGGTCTTACACGT-AA-TTCAGAATCGATGCATCTGTCCCAGACACAGTCTTACAC
9776270 GATAATTCAGA
64 GATAATTCAGA
9776281 CTAATACCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
85 19 0.31
86 32 0.52
87 6 0.10
88 5 0.08
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (87 bp):
TCCCAGACATGGTCTTACACGTAATTCAGAATCGATGCATCTGTCCCAGACACAGTCTTACACGA
TAATTCAGATACGATGCCGATG
Found at i:9786278 original size:43 final size:42
Alignment explanation
Indices: 9786231--9786391 Score: 135
Period size: 42 Copynumber: 3.7 Consensus size: 42
9786221 AATGCCAACA
* * *
9786231 TCCCAGACCTGGTCTTACATGTAATTCAGTATCGATGCCTCTG
1 TCCCAGACATGGTCTTACACGTAATTCAG-ATCGATGCCTATG
* * * * *
9786274 TCCCAAACAGGGTCTTAAACG-AAATCAGATACGATGCCGATG
1 TCCCAGACATGGTCTTACACGTAATTCAGAT-CGATGCCTATG
* *
9786316 TCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTGTG
1 TCCCAGACATGGTCTTACACGT-AA-TTCAGATCGATGCCTATG
* * * * *
9786360 TCTCAAACACGGTCTTACCCTATAATTCAGAT
1 TCCCAGACATGGTCTTACAC-GTAATTCAGAT
9786392 TAATACCAAC
Statistics
Matches: 92, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 2 0.02
42 33 0.36
43 22 0.24
44 29 0.32
45 6 0.07
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGTAATTCAGATCGATGCCTATG
Found at i:9791574 original size:27 final size:26
Alignment explanation
Indices: 9791544--9791602 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 26
9791534 ATTTACTAAA
9791544 ATACCCTTAAGTATG-AAAATTACCATT
1 ATACCCTT-AG-ATGCAAAATTACCATT
*
9791571 ATACCCTTAGGTGCAAAATTACCATT
1 ATACCCTTAGATGCAAAATTACCATT
9791597 ATACCC
1 ATACCC
9791603 CTAGGGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 2 0.07
26 20 0.67
27 8 0.27
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (26 bp):
ATACCCTTAGATGCAAAATTACCATT
Found at i:9791786 original size:27 final size:28
Alignment explanation
Indices: 9791711--9791796 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 28
9791701 GAGGAAGCGT
* *
9791711 TCTGGTGGCTCTGCCACAAATATATG-A
1 TCTGGTGGCTCTGTCACAAATATCTGTA
9791738 TCTGGTGGCTCTGTCACAAATATCTGTA
1 TCTGGTGGCTCTGTCACAAATATCTGTA
**
9791766 TCTGGTGATTCTGTCAC-AATATCTGT-
1 TCTGGTGGCTCTGTCACAAATATCTGTA
9791792 TCTGG
1 TCTGG
9791797 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
26 5 0.09
27 33 0.61
28 16 0.30
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (28 bp):
TCTGGTGGCTCTGTCACAAATATCTGTA
Found at i:9794066 original size:28 final size:28
Alignment explanation
Indices: 9794035--9794089 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
9794025 CTAGTGAGAA
9794035 TATATAACATGATAATCATATATTTGAG
1 TATATAACATGATAATCATATATTTGAG
9794063 TATATAACATGATAATCATATATTTGA
1 TATATAACATGATAATCATATATTTGA
9794090 AATCAAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (28 bp):
TATATAACATGATAATCATATATTTGAG
Found at i:9794502 original size:21 final size:22
Alignment explanation
Indices: 9794462--9794502 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9794452 GACGAAGTAC
* *
9794462 AATATTATTTAACTACATAAAT
1 AATATAATTTAACTAAATAAAT
9794484 AATATAATTT-ACTAAATAA
1 AATATAATTTAACTAAATAA
9794503 TTACATGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (22 bp):
AATATAATTTAACTAAATAAAT
Found at i:9795180 original size:11 final size:11
Alignment explanation
Indices: 9795164--9795188 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9795154 GAATGTTTAT
9795164 AAAATTAAATA
1 AAAATTAAATA
9795175 AAAATTAAATA
1 AAAATTAAATA
9795186 AAA
1 AAA
9795189 TAAGAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATTAAATA
Found at i:9795189 original size:16 final size:17
Alignment explanation
Indices: 9795165--9795199 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
9795155 AATGTTTATA
*
9795165 AAATTAAATAA-AAATT
1 AAATAAAATAAGAAATT
9795181 AAATAAAATAAGAAATT
1 AAATAAAATAAGAAATT
9795198 AA
1 AA
9795200 CCTTTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AAATAAAATAAGAAATT
Found at i:9803068 original size:5 final size:5
Alignment explanation
Indices: 9803058--9803148 Score: 66
Period size: 5 Copynumber: 18.2 Consensus size: 5
9803048 AAGCTACACC
* *
9803058 TTTTA TTTTA TTTTA TTTTA -TTTA TTACTA TTTGTTA TATTA -TTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA -TT-TTA TTTTA TTTTA
* *
9803104 TTTT- TGTTT- TTCTA -ATTA TTTTA TTTTA TTTTA TTTTA TTCTTA T
1 TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA T
9803149 ACTTATATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
4 12 0.17
5 46 0.67
6 7 0.10
7 4 0.06
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:9807457 original size:41 final size:41
Alignment explanation
Indices: 9807412--9807529 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
9807402 TGAAAGATAA
9807412 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
9807453 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
9807483 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
9807524 ATGTAG
1 ATGTAG
9807530 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:9807468 original size:71 final size:71
Alignment explanation
Indices: 9807380--9807543 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
9807370 GAGATGTATC
9807380 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
9807445 AGGACA
66 AGGACA
9807451 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
9807516 AGGACA
66 AGGACA
9807522 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
9807544 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:9815024 original size:41 final size:41
Alignment explanation
Indices: 9814979--9815096 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
9814969 TGAAAGATAA
9814979 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
9815020 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
9815050 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
9815091 ATGTAG
1 ATGTAG
9815097 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:9815035 original size:71 final size:71
Alignment explanation
Indices: 9814947--9815110 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
9814937 GAGATGTATC
9814947 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
9815012 AGGACA
66 AGGACA
9815018 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
9815083 AGGACA
66 AGGACA
9815089 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
9815111 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:9822197 original size:29 final size:29
Alignment explanation
Indices: 9822126--9822255 Score: 138
Period size: 29 Copynumber: 4.6 Consensus size: 29
9822116 ACCTCTACAT
* *
9822126 ACATGCATATGGCCCACTAGGCCCAA-TC
1 ACATTCATATGGCCCATTAGGCCCAATTC
** * **
9822154 TTATTTATATGGCCCATCCGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * *
9822183 ACGTTCTTATGGCCCATTAGGCGCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
9822212 ACATTCATATGGCCCATTAGGCCCAA-TC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* *
9822240 TCATTTATATGGCCCA
1 ACATTCATATGGCCCA
9822256 AATCACATTA
Statistics
Matches: 81, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
28 35 0.43
29 46 0.57
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAATTC
Found at i:9822266 original size:19 final size:19
Alignment explanation
Indices: 9822231--9822268 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9822221 TGGCCCATTA
*
9822231 GGCCCAATCTCATTTATAT
1 GGCCCAATCACATTTATAT
9822250 GGCCCAAATCACA-TTATAT
1 GGCCC-AATCACATTTATAT
9822269 TCATGCTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
GGCCCAATCACATTTATAT
Found at i:9822382 original size:19 final size:19
Alignment explanation
Indices: 9822336--9822373 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9822326 TATGGCCCAA
* *
9822336 TAGCCCA-TCGGGCCTATT
1 TAGCCCATTCTGGCCAATT
9822354 TAGCCCATTCTGGCCAATT
1 TAGCCCATTCTGGCCAATT
9822373 T
1 T
9822374 GGCCTATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (19 bp):
TAGCCCATTCTGGCCAATT
Found at i:9822505 original size:8 final size:8
Alignment explanation
Indices: 9822488--9822518 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
9822478 ACTTTTGACT
*
9822488 TTTCGACA
1 TTTCGGCA
9822496 TTTCGGCA
1 TTTCGGCA
9822504 TTTCGGCA
1 TTTCGGCA
9822512 TTTCGGC
1 TTTCGGC
9822519 TTTTGCCGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.39
Consensus pattern (8 bp):
TTTCGGCA
Found at i:9829951 original size:28 final size:28
Alignment explanation
Indices: 9829920--9830043 Score: 110
Period size: 29 Copynumber: 4.4 Consensus size: 28
9829910 ACATAAATGC
9829920 ATATGGCCCA-CTAGGCCCAATCTCATTT
1 ATATGGCCCATC-AGGCCCAATCTCATTT
* * *
9829948 ATATGGCCCATCCGACCTAAT-TCACGTTCT
1 ATATGGCCCATCAGGCCCAATCTCA--TT-T
* * *
9829978 -TATAGCCCATCAGGCCCAATTCACATTC
1 ATATGGCCCATCAGGCCCAA-TCTCATTT
* *
9830006 ATATGGCCCATTAGGCCCAATCTTATTT
1 ATATGGCCCATCAGGCCCAATCTCATTT
9830034 ATATGGCCCA
1 ATATGGCCCA
9830044 AATCACATTA
Statistics
Matches: 75, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
27 3 0.04
28 31 0.41
29 37 0.49
30 2 0.03
31 2 0.03
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAATCTCATTT
Found at i:9834289 original size:15 final size:15
Alignment explanation
Indices: 9834269--9834298 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9834259 AAATCAAATC
9834269 TCAATAAAAAGGGAG
1 TCAATAAAAAGGGAG
9834284 TCAATAAAAAGGGAG
1 TCAATAAAAAGGGAG
9834299 AAATTCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.27, T:0.13
Consensus pattern (15 bp):
TCAATAAAAAGGGAG
Found at i:9835377 original size:6 final size:6
Alignment explanation
Indices: 9835366--9835405 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
9835356 TTAGAACATG
*
9835366 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAC AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
9835406 GGGAAAGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:9841530 original size:29 final size:27
Alignment explanation
Indices: 9841469--9841531 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
9841459 AATGCCTTGT
9841469 TGGTGTGTTTGGGAAGATATGATATAC
1 TGGTGTGTTTGGGAAGATATGATATAC
* *
9841496 TGGTGTGTTTGGGAGGCTAT-ATTATAC
1 TGGTGTGTTTGGGAAGATATGA-TATAC
9841523 TGGTGTGTT
1 TGGTGTGTT
9841532 ATGGAGGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.19, C:0.05, G:0.35, T:0.41
Consensus pattern (27 bp):
TGGTGTGTTTGGGAAGATATGATATAC
Found at i:9848977 original size:12 final size:12
Alignment explanation
Indices: 9848931--9848979 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
9848921 AACTATTTGG
9848931 CTATATCAACAA
1 CTATATCAACAA
9848943 CTATGA-C-A-AA
1 CTAT-ATCAACAA
9848953 -TATATCAACAA
1 CTATATCAACAA
*
9848964 CTATATCAATAA
1 CTATATCAACAA
9848976 CTAT
1 CTAT
9848980 TTATACATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
8 1 0.03
9 4 0.13
10 3 0.10
11 3 0.10
12 19 0.61
13 1 0.03
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (12 bp):
CTATATCAACAA
Found at i:9856792 original size:13 final size:13
Alignment explanation
Indices: 9856774--9856799 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9856764 AAGCACTTGT
9856774 ACACGGGCGTGTC
1 ACACGGGCGTGTC
9856787 ACACGGGCGTGTC
1 ACACGGGCGTGTC
9856800 CCTGTCAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:9861663 original size:47 final size:46
Alignment explanation
Indices: 9861590--9861944 Score: 197
Period size: 47 Copynumber: 7.6 Consensus size: 46
9861580 TGATTTGTGT
*
9861590 GCCAGTGTAAGACATGTCTGGAACATGCTTCAGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGA
* * * * * *
9861636 GCCATTGTAAGACCATGTCTGGGACATGGCATC-GGCATCCA-GACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCTTCAGCCA--CATTATGAGA
* *
9861684 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGA
* * * * * ** *
9861730 GCCAGTTTAAAACCATGTCTGGGACATGGCATCA-ACATAGAAATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCTTCAGCCACA-TTATGAGA
* * * * ** * *
9861778 GCCAGAGTAAGACATGTCTAGGACATGCATT-GGCCTCGACAAAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGC-TTCAGCCAC-ATTATGAGA
* * * * * * * * *
9861825 GCCAGTGTAAGGCGTGTCTAGGACATGCATCGGCTA-A-GA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATG-AGA
*
9861869 GCTAGTGTAAGACATGTCTGGGACATGCATT-AG-CACGTATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGC-TTCAGCCAC--AT-TATGAGA
9861917 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
9861945 GCATCGACAA
Statistics
Matches: 230, Mismatches: 57, Indels: 41
0.70 0.17 0.12
Matches are distributed among these distances:
43 2 0.01
44 26 0.11
45 3 0.01
46 32 0.14
47 98 0.43
48 51 0.22
49 18 0.08
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGA
Found at i:9861754 original size:94 final size:92
Alignment explanation
Indices: 9861588--9861950 Score: 351
Period size: 94 Copynumber: 3.9 Consensus size: 92
9861578 GGTGATTTGT
* * * * *
9861588 GTGCCAGTGTAAGACATGTCTGGAACATGC-TTCAGCCACATTATGAGAGCCATTGTAAGACCAT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATT-AGCCATATTATGAGAGCCAGTGTAAAACCAT
*
9861652 GTCTGGGACATGGCATCGGCATCCAGACGA
65 GTCTGGGACATGGCATCGGCAT-AAGA-GA
* *
9861682 GGGCTAGTGTAAGACATGTCTGGGACATGC-TTCAGCCATATTATGAGAGCCAGTTTAAAACCAT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATT-AGCCATATTATGAGAGCCAGTGTAAAACCAT
** *
9861746 GTCTGGGACATGGCATCAACATAGAAATGA
65 GTCTGGGACATGGCATCGGCATA-AGA-GA
* * * * ** * * ** *
9861776 GTGCCAGAGTAAGACATGTCTAGGACATGCATTGGCC-TCGACAAAGATAGCCAGTGT-AAGGCG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCAT--ATTATGAGAGCCAGTGTAAAACCA
* *
9861839 TGTCTAGGACAT-GCATCGGC-TAAGAGTT
64 TGTCTGGGACATGGCATCGGCATAAGAG-A
* *
9861867 GTGCTAGTGTAAGACATGTCTGGGACATGCATTAGCACGTATATATGAGAGCCAGTGTAAGACCA
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATTAGC-CATAT-TATGAGAGCCAGTGTAAAACCA
9861932 TGTCTGGGACATGGCATCG
64 TGTCTGGGACATGGCATCG
9861951 ACAATGTATC
Statistics
Matches: 216, Mismatches: 43, Indels: 20
0.77 0.15 0.07
Matches are distributed among these distances:
90 1 0.00
91 35 0.16
92 15 0.07
93 21 0.10
94 130 0.60
95 14 0.06
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (92 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCATATTATGAGAGCCAGTGTAAAACCATG
TCTGGGACATGGCATCGGCATAAGAGA
Found at i:9868049 original size:29 final size:29
Alignment explanation
Indices: 9867958--9868089 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
9867948 TACTCGATTT
** * *
9867958 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* * *** * *
9867987 CTCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
9868016 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
9868045 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
9868074 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
9868090 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 83 0.98
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:9875205 original size:29 final size:29
Alignment explanation
Indices: 9875171--9875302 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
9875161 TACTCGATTT
** * *
9875171 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
9875200 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
9875229 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
9875258 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
9875287 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
9875303 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:9876315 original size:40 final size:39
Alignment explanation
Indices: 9876161--9876357 Score: 264
Period size: 40 Copynumber: 5.2 Consensus size: 39
9876151 ACACCAAGTA
* * *
9876161 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
* *
9876200 TCTTCGGGAC-TAGCCCGG-T-TA-TAGTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
*
9876235 CCTTCGGGACTTAGCCCGGATATAG--CTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
9876272 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
9876312 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
9876352 CCTTCG
1 CCTTCG
9876358 TTATCATCCA
Statistics
Matches: 141, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
35 21 0.15
36 8 0.06
37 38 0.27
38 5 0.04
39 12 0.09
40 57 0.40
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:9876315 original size:77 final size:73
Alignment explanation
Indices: 9876161--9876357 Score: 245
Period size: 77 Copynumber: 2.6 Consensus size: 73
9876151 ACACCAAGTA
* * * * *
9876161 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATGTCTTCGGGACTAGCCCGGTTATAGT
1 CCTTCGGGACTTAGCCCGGATATAG--ACTCGCACAAATGCCTTCGGGACTAGCCCGGTTATACT
9876225 CGCACAAATG
64 CGCACAAATG
*
9876235 CCTTCGGGACTTAGCCCGGATATAG-CTCGCACAAACGCCTTCGGGACTTAGCCCGGATATAGTA
1 CCTTCGGGACTTAGCCCGGATATAGACTCGCACAAATGCCTTCGGGAC-TAGCCCGG-T-TA-T-
9876299 ACTCGCACAAATG
61 ACTCGCACAAATG
9876312 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCG
1 CCTTCGGGACTTAGCCCGGATATAG--ACTCGCACAAATGCCTTCG
9876358 TTATCATCCA
Statistics
Matches: 107, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
72 19 0.18
73 8 0.07
74 13 0.12
75 12 0.11
76 1 0.01
77 37 0.35
80 17 0.16
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (73 bp):
CCTTCGGGACTTAGCCCGGATATAGACTCGCACAAATGCCTTCGGGACTAGCCCGGTTATACTCG
CACAAATG
Found at i:9884517 original size:732 final size:732
Alignment explanation
Indices: 9883202--9884520 Score: 1655
Period size: 732 Copynumber: 1.8 Consensus size: 732
9883192 TTCATTTAAA
* **
9883202 ATTTTCAGACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAAC
1 ATTTCCAGACAAGCTGGAAAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAAC
* * * * *
9883267 TCAAAAAAAAGTTCCATAAATTTTTCCTGAAACTAGACTCATATGTCCATCTACAAATTTTTTTC
66 TCAAAAAAAAGTTCCATAAATTTTCCCTGAAACTAGACTCATATATCCATCCACAAATTTATTTA
* * * * *
9883332 TAAAATTTTTGGTCAAGCCAATTAGTATAGTTTATTAGTTAAAGTCTCCCCTATTTCAGGGTTCG
131 TAAAATTTTTGGTCAAGCCAATTAGTACAGTTTATTAGTTAAAGTCACCCATATTACAGGGGTCG
* * * * * * *
9883397 ACTGCTCTGACCTTCATGTATTACGACTTATATATCTTCCTGTAAAGGGCTTCATTACTTATGCC
196 ACTACACTGACCTTCACGCATTACAACTTATATATCTTCCTGTAAAGGGCTTCAATACTGATGCC
** * *
9883462 GTTTGTTTCTAACGAAGGTAGACTCAAAATGGAATCTATACATATATGGAATGACATATAATTAT
261 GTTTGTTTCTAACGAAACTAGACTCAAAATGGAATCTACACATATAAGGAATGACATATAATTAT
* * * * *
9883527 CTCTGGTTAATTTATAGTGAATTTCCAAATTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTG
326 CTCTGGATAATTTATAGTAAATTTCCAAAGTCAGATCAGGGGACCCAGAAACCGCTCTGGCCCTG
* * *
9883592 TTCCACGAAAACTTAAATATCTCTTAAAATACGACTCATATGATCATTTCGTTTCTTCCATGTGA
391 TTCCACGAAAACTTAAATATCTCTCAAAATACGACTCATATGATCATTTCGTTACTTCCATATGA
* * * * * *
9883657 AATTAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCATTCCTAATATTTTT
456 AAATAGACTCATCAAGGTTCGATTACATAACTTATTCACAATTTAATACCATTCCTAATAATTTT
** * *
9883722 AGTGATTTTTCTAATCCACACCACTGCTGCTGTCAGCATCTGTTTTTAAGGTAAACTTTACCTAT
521 AGTGATTTTTCTAATCCACACCACTGCAACTGGCAGCATCTGTTTTTAAGGTAAACCTTACCTAT
9883787 TTCATGGTTTTCCATGAATCAACTAGAATTTGTCATACAAAGCACCAAAATGATCATGATTGTAA
586 TTCATGGTTTTCCATGAATCAACTAGAATTTGTCATACAAAGCACCAAAATGATCATGATTGTAA
9883852 CACCCCAAACCCGAGACCATCGCCGGTGTCGGACACGAGGGGTTAACGAGACAAATCCTCTTAAA
651 CACCCCAAACCCGAGACCATCGCCGGTGTCGGACACGAGGGGTTAACGAGACAAATCCTCTTAAA
9883917 GTACCGACCAATTTGGC
716 GTACCGACCAATTTGGC
* * * *
9883934 ATTTCCAGACAGGCTGGAAAACTGCGTCACTGTCGCCTTAAAAATCATATCTTGAGTTTCAAAAC
1 ATTTCCAGACAAGCTGGAAAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAAC
* ** ** ** ***
9883999 TC-AGAAACTGATTCTGTAAATTTTCCCTGAATTTAGACTCATATATCCATCCATGGATTTATTT
66 TCAAAAAAAAG-TTCCATAAATTTTCCCTGAAACTAGACTCATATATCCATCCACAAATTTATTT
* *** * * *
9884063 ATAGAATTTTTGGTTGGGCCGATTGGTACAGTTTATTAGTTAAAGTCACCCATGTTACAGGGGTC
130 ATAAAATTTTTGGTCAAGCCAATTAGTACAGTTTATTAGTTAAAGTCACCCATATTACAGGGGTC
* * * * *
9884128 GACTACACTGACCTTCGCGCGTTACAACTTGA-ATATC-TCTCTGTACAGGGCTTTAATACTGGT
195 GACTACACTGACCTTCACGCATTACAACTT-ATATATCTTC-CTGTAAAGGGCTTCAATACTGAT
* * * * *
9884191 GCCGTTTGTTTCTAATGAAACTAGACTCAAAATGGAATCTGCACATATAAGGCATGACTTCTAAT
258 GCCGTTTGTTTCTAACGAAACTAGACTCAAAATGGAATCTACACATATAAGGAATGACATATAAT
* * * * *
9884256 TCTTTCTGGATAATTTATAGTAAATTTTCAAAGTC-GCGTCAGGGGACCCAGAAACCGTTCTGGC
323 TATCTCTGGATAATTTATAGTAAATTTCCAAAGTCAG-ATCAGGGGACCCAGAAACCGCTCTGGC
* * *** * * *
9884320 CCTG-TCTCACGAGAACTTTAATATCTCTCGGTATACTG-TTCATATGATCGTTTCGTTACTTTC
387 CCTGTTC-CACGAAAACTTAAATATCTCTCAAAATAC-GACTCATATGATCATTTCGTTACTTCC
* * * *
9884383 ATATGAAAATAGACTCGTCAAGGTTCGTTTGCATAACTTATTCACAATTTAATACCCTTCCTACA
450 ATATGAAAATAGACTCATCAAGGTTCGATTACATAACTTATTCACAATTTAATACCATTCCTA-A
* ** **
9884448 -AATTTTGGTGATTTTTC-ACATCCACGTCACTGCAACTGGCAGCATCTGTTTTTAAGGTAGGCC
514 TAATTTTAGTGATTTTTCTA-ATCCACACCACTGCAACTGGCAGCATCTGTTTTTAAGGTAAACC
9884511 TTACCTATTT
578 TTACCTATTT
9884521 TGTAGTTTCC
Statistics
Matches: 484, Mismatches: 95, Indels: 16
0.81 0.16 0.03
Matches are distributed among these distances:
731 11 0.02
732 470 0.97
733 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (732 bp):
ATTTCCAGACAAGCTGGAAAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAAC
TCAAAAAAAAGTTCCATAAATTTTCCCTGAAACTAGACTCATATATCCATCCACAAATTTATTTA
TAAAATTTTTGGTCAAGCCAATTAGTACAGTTTATTAGTTAAAGTCACCCATATTACAGGGGTCG
ACTACACTGACCTTCACGCATTACAACTTATATATCTTCCTGTAAAGGGCTTCAATACTGATGCC
GTTTGTTTCTAACGAAACTAGACTCAAAATGGAATCTACACATATAAGGAATGACATATAATTAT
CTCTGGATAATTTATAGTAAATTTCCAAAGTCAGATCAGGGGACCCAGAAACCGCTCTGGCCCTG
TTCCACGAAAACTTAAATATCTCTCAAAATACGACTCATATGATCATTTCGTTACTTCCATATGA
AAATAGACTCATCAAGGTTCGATTACATAACTTATTCACAATTTAATACCATTCCTAATAATTTT
AGTGATTTTTCTAATCCACACCACTGCAACTGGCAGCATCTGTTTTTAAGGTAAACCTTACCTAT
TTCATGGTTTTCCATGAATCAACTAGAATTTGTCATACAAAGCACCAAAATGATCATGATTGTAA
CACCCCAAACCCGAGACCATCGCCGGTGTCGGACACGAGGGGTTAACGAGACAAATCCTCTTAAA
GTACCGACCAATTTGGC
Found at i:9885268 original size:40 final size:40
Alignment explanation
Indices: 9885223--9885390 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
9885213 CGGAATACAA
*
9885223 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
9885263 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
9885303 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
9885343 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
9885383 CCGGATAT
1 CCGGATAT
9885391 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:9885363 original size:80 final size:80
Alignment explanation
Indices: 9885223--9885390 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
9885213 CGGAATACAA
* * *
9885223 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
9885288 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
9885303 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
9885366 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
9885383 CCGGATAT
1 CCGGATAT
9885391 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:9893279 original size:40 final size:40
Alignment explanation
Indices: 9893234--9893401 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
9893224 CGGAATACAA
*
9893234 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
9893274 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
9893314 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
9893354 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
9893394 CCGGATAT
1 CCGGATAT
9893402 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:9893374 original size:80 final size:80
Alignment explanation
Indices: 9893234--9893401 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
9893224 CGGAATACAA
* * *
9893234 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
9893299 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
9893314 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
9893377 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
9893394 CCGGATAT
1 CCGGATAT
9893402 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:9895791 original size:40 final size:40
Alignment explanation
Indices: 9895684--9895927 Score: 377
Period size: 40 Copynumber: 6.2 Consensus size: 40
9895674 AAACCAAGTA
* * * *
9895684 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
9895723 TCTTCGGGAC-TAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
9895762 CCTTCGGGACTTAGCCCGGATATACTAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
9895802 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
9895842 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
9895882 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
9895922 CCTTCG
1 CCTTCG
9895928 TTATCATCCA
Statistics
Matches: 188, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
38 3 0.02
39 37 0.20
40 148 0.79
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:9911321 original size:41 final size:40
Alignment explanation
Indices: 9911154--9911332 Score: 223
Period size: 40 Copynumber: 4.5 Consensus size: 40
9911144 ACTCGATTGT
* * * * * *
9911154 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
9911194 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
9911234 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * * * * *
9911274 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTGGTAAC-TCGCACAAATGC
*
9911315 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
9911333 ATACCATTCG
Statistics
Matches: 122, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
40 97 0.80
41 25 0.20
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
Found at i:9917978 original size:40 final size:40
Alignment explanation
Indices: 9917913--9917988 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
9917903 TGCGGTACCT
* *
9917913 TATGGTGTGTAGGGTTGGATAGGTCGATTATATCCCAATA
1 TATGGTGTGCAGGGATGGATAGGTCGATTATATCCCAATA
* * *
9917953 TATGGTGTGCAGGGATGGGTGGGTCGATTTTATCCC
1 TATGGTGTGCAGGGATGGATAGGTCGATTATATCCC
9917989 CACATGGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.20, C:0.12, G:0.34, T:0.34
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATAGGTCGATTATATCCCAATA
Found at i:9922805 original size:51 final size:51
Alignment explanation
Indices: 9922733--9922888 Score: 177
Period size: 51 Copynumber: 3.2 Consensus size: 51
9922723 ACATGTAACA
* * *
9922733 CATCCATAATGAACTCAGACCACTTAACGAGCTCGGATGCTACATGCATCG
1 CATCCATCATGAACTCGGACCACTTAACGAGCTCAGATGCTACATGCATCG
* *
9922784 CATCCATCATGAACACGGACCACTCAACGAGCTCAGATGCT-CA--CATC-
1 CATCCATCATGAACTCGGACCACTTAACGAGCTCAGATGCTACATGCATCG
*
9922831 CAT--A--ATGAACTCGGACCAC-TAGACGAGCTCAGATGTTACATGCATCG
1 CATCCATCATGAACTCGGACCACTTA-ACGAGCTCAGATGCTACATGCATCG
*
9922878 TATCCATCATG
1 CATCCATCATG
9922889 TTCATAACAT
Statistics
Matches: 87, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
42 1 0.01
43 28 0.32
44 2 0.02
45 1 0.01
46 4 0.05
47 5 0.06
48 4 0.05
49 1 0.01
50 2 0.02
51 39 0.45
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (51 bp):
CATCCATCATGAACTCGGACCACTTAACGAGCTCAGATGCTACATGCATCG
Found at i:9922846 original size:43 final size:43
Alignment explanation
Indices: 9922784--9922865 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
9922774 ACATGCATCG
*
9922784 CATCCATCATGAACACGGACCACTCA-ACGAGCTCAGATGCTCA
1 CATCCATAATGAACACGGACCACT-AGACGAGCTCAGATGCTCA
*
9922827 CATCCATAATGAACTCGGACCACTAGACGAGCTCAGATG
1 CATCCATAATGAACACGGACCACTAGACGAGCTCAGATG
9922866 TTACATGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.33, C:0.32, G:0.18, T:0.17
Consensus pattern (43 bp):
CATCCATAATGAACACGGACCACTAGACGAGCTCAGATGCTCA
Found at i:9925786 original size:40 final size:40
Alignment explanation
Indices: 9925709--9925884 Score: 268
Period size: 40 Copynumber: 4.4 Consensus size: 40
9925699 AAACCAAGTA
* *
9925709 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
9925748 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
9925788 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
9925828 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
9925868 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
9925885 AGTTATCATC
Statistics
Matches: 128, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
39 15 0.12
40 113 0.88
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:9928466 original size:2 final size:2
Alignment explanation
Indices: 9928461--9928509 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
9928451 TATTTCCCGC
* * *
9928461 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AC AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9928503 AT AT AT A
1 AT AT AT A
9928510 ACCATAATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:9928484 original size:16 final size:16
Alignment explanation
Indices: 9928463--9928509 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
9928453 TTTCCCGCAT
9928463 ATATATATATATATAC
1 ATATATATATATATAC
*
9928479 ATATATATATATACAC
1 ATATATATATATATAC
9928495 ATATATATATATATA
1 ATATATATATATATA
9928510 ACCATAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATATATATATAC
Found at i:9929552 original size:46 final size:44
Alignment explanation
Indices: 9929494--9929663 Score: 187
Period size: 46 Copynumber: 3.7 Consensus size: 44
9929484 CATCTTGTAA
* * *
9929494 CCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCCTGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTT-CAT-ATGAGG
* * *
9929540 CCGATGCATGTCCCAGACATGTCTTACACTAGCATTCATTTCAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC-TTCATAT-GAGG
* *
9929586 CCGATGCAATGTCCCAAACATGGTCTTACACTAGCTCTCATAATGTGG
1 CCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCT-TCAT-ATGAGG
*
9929634 CCGATGCATGTCCGAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
9929664 GGCGCACATA
Statistics
Matches: 106, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.01
46 53 0.50
47 26 0.25
48 25 0.24
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTTCATATGAGG
Found at i:9929598 original size:138 final size:140
Alignment explanation
Indices: 9929412--9929666 Score: 327
Period size: 138 Copynumber: 1.8 Consensus size: 140
9929402 CTGATGTATT
* * * **
9929412 TCCCAAACATGTCTTACACTAGCACACATATCCGAGTCGAAGCCATGTCCCGGACATGGTCTTAC
1 TCCCAAACATGTCTTACACTAGCACACATATCCAAGCCGAAGCAATGTCCCAAACATGGTCTTAC
**
9929477 ACT-G-ACACATCTTGTAACCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCCTGAGG
66 ACTAGCACACATAATGTAACCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCCTGAGG
9929540 CCGATGCATG
131 CCGATGCATG
* ** * *
9929550 TCCCAGACATGTCTTACACTAGCATTCAT-TTCAATGCCGATGCAATGTCCCAAACATGGTCTTA
1 TCCCAAACATGTCTTACACTAGCACACATATCCAA-GCCGAAGCAATGTCCCAAACATGGTCTTA
* * ** *
9929614 CACTAGCTCTCATAATGTGGCCGATGCATGTCCGAGACATGTCTTACACTGGC
65 CACTAGCACACATAATGTAACCGATGCATGTCCCAGACATGTCTTACACTGGC
9929667 GCACATATCA
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
137 3 0.03
138 54 0.56
139 1 0.01
140 39 0.40
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (140 bp):
TCCCAAACATGTCTTACACTAGCACACATATCCAAGCCGAAGCAATGTCCCAAACATGGTCTTAC
ACTAGCACACATAATGTAACCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCCTGAGG
CCGATGCATG
Found at i:9929636 original size:94 final size:92
Alignment explanation
Indices: 9929494--9929663 Score: 243
Period size: 94 Copynumber: 1.8 Consensus size: 92
9929484 CATCTTGTAA
* * * **
9929494 CCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCCTGAGGCCGATGCATGTCCCAGACA
1 CCGATGCATGTCCCAAACATGTCTTACACTAGCTTACATAATGAGGCCGATGCATGTCCCAGACA
9929559 TGTCTTACACTAGCATTCATTTCAATG
66 TGTCTTACACTAGCATTCATTTCAATG
* *
9929586 CCGATGCAATGTCCCAAACATGGTCTTACACTAGCTCT-CATAATGTGGCCGATGCATGTCCGAG
1 CCGATGC-ATGTCCCAAACAT-GTCTTACACTAGCT-TACATAATGAGGCCGATGCATGTCCCAG
9929650 ACATGTCTTACACT
63 ACATGTCTTACACT
9929664 GGCGCACATA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 7 0.10
93 12 0.18
94 48 0.71
95 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
CCGATGCATGTCCCAAACATGTCTTACACTAGCTTACATAATGAGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCATTCATTTCAATG
Found at i:9932374 original size:51 final size:52
Alignment explanation
Indices: 9932291--9932397 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 52
9932281 CTACCTCATA
* *
9932291 ACATGTAACACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCT-
1 ACATGTAACACATCCATAATGAACTCGAACCACTCAACGAGCTCAGATGCTC
* * * * *
9932342 ACATGTATCGCATCCATCATGAACTTGAACCACTCAATGAGCTCAGATGCTC
1 ACATGTAACACATCCATAATGAACTCGAACCACTCAACGAGCTCAGATGCTC
9932394 ACAT
1 ACAT
9932398 CCATAATGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 44 0.92
52 4 0.08
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (52 bp):
ACATGTAACACATCCATAATGAACTCGAACCACTCAACGAGCTCAGATGCTC
Found at i:9932417 original size:43 final size:43
Alignment explanation
Indices: 9932352--9932433 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
9932342 ACATGTATCG
* * *
9932352 CATCCATCATGAACTTGAACCACTCA-ATGAGCTCAGATGCTCA
1 CATCCATAATGAACTCGAACCACT-AGATGAACTCAGATGCTCA
*
9932395 CATCCATAATGAACTCGGACCACTAGATGAACTCAGATG
1 CATCCATAATGAACTCGAACCACTAGATGAACTCAGATG
9932434 TTACATGCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (43 bp):
CATCCATAATGAACTCGAACCACTAGATGAACTCAGATGCTCA
Found at i:9937666 original size:29 final size:29
Alignment explanation
Indices: 9937633--9937706 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
9937623 GTGACGAGAT
9937633 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
9937662 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
9937691 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
9937707 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:9937722 original size:29 final size:29
Alignment explanation
Indices: 9937690--9937765 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
9937680 CTGGAAATAT
* *
9937690 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
9937719 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
9937748 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
9937766 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:9937733 original size:58 final size:58
Alignment explanation
Indices: 9937633--9937765 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
9937623 GTGACGAGAT
* * * * * *
9937633 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
9937691 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
9937749 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
9937766 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:9943997 original size:155 final size:153
Alignment explanation
Indices: 9943771--9944061 Score: 352
Period size: 155 Copynumber: 1.9 Consensus size: 153
9943761 CATTAGCGGC
* * * * *
9943771 GCTTTTTCAAAAAAGCCGCTAAAATTTTAAGCAAGACGACGTCGTTTTACATAAGCTTCATTGGC
1 GCTTTTTCAAAAAAGCCGCTAAAATTTTAAACAAAACGACATCGTTTTACATAAGCTTCAATGAC
* * * * *
9943836 AGTAGCGGTGTTTTCCCAAAAACGCCGTAACAGATCAAACTTTAGTGGCGTTTTTAG-AAAAAAC
66 AGTAGCGGCGCTTTCCCAAAAACGCCGCAACAGATCAAACTTTAGCGGCATTTTT-GTAAAAAAC
9943900 GCCGCTAGAGTTCTGCCTTTTGCG
130 GCCGCTAGAGTTCTGCCTTTTGCG
* * *
9943924 GCTTTTTTAGAAAAATGCCGCT-AAATTGTTAAACAAAACGACATCGTTTTATATGAGCTTCAAT
1 GCTTTTTCA-AAAAA-GCCGCTAAAATT-TTAAACAAAACGACATCGTTTTACATAAGCTTCAAT
* * * * **
9943988 GACATTAGCGGCGCTTTCCTAAAAACGCCGCAATAGCTCGCACTTTAGCGGCATTTTTGTAAAAA
63 GACAGTAGCGGCGCTTTCCCAAAAACGCCGCAACAGATCAAACTTTAGCGGCATTTTTGTAAAAA
*
9944053 ACGTCGCTA
128 ACGCCGCTA
9944062 TAGGTCGCAT
Statistics
Matches: 114, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
153 8 0.07
154 11 0.10
155 95 0.83
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (153 bp):
GCTTTTTCAAAAAAGCCGCTAAAATTTTAAACAAAACGACATCGTTTTACATAAGCTTCAATGAC
AGTAGCGGCGCTTTCCCAAAAACGCCGCAACAGATCAAACTTTAGCGGCATTTTTGTAAAAAACG
CCGCTAGAGTTCTGCCTTTTGCG
Found at i:9944107 original size:42 final size:42
Alignment explanation
Indices: 9944008--9944108 Score: 111
Period size: 41 Copynumber: 2.5 Consensus size: 42
9943998 GCGCTTTCCT
*
9944008 AAAAACGCCGC-AATAGCTCGCACTTTAGCGGCATTTTTGTA
1 AAAAACGCCGCTAATAGGTCGCACTTTAGCGGCATTTTTGTA
* *
9944049 AAAAACGTCGCT-ATAGGTCGCA-TAATTAGCGGCATTTTT-TT
1 AAAAACGCCGCTAATAGGTCGCACT--TTAGCGGCATTTTTGTA
**
9944090 GTAAACGCCGCTAATAGGT
1 AAAAACGCCGCTAATAGGT
9944109 TAAGGCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
40 1 0.02
41 29 0.58
42 20 0.40
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (42 bp):
AAAAACGCCGCTAATAGGTCGCACTTTAGCGGCATTTTTGTA
Found at i:9944838 original size:25 final size:24
Alignment explanation
Indices: 9944788--9944839 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
9944778 TAACTTATTT
**
9944788 TTTAAATGAATTTAAAATTTTCTA
1 TTTAAATGAATTTAAAATTTAATA
* *
9944812 TTTAAACTGATTTTTAAATTTAATA
1 TTTAAA-TGAATTTAAAATTTAATA
9944837 TTT
1 TTT
9944840 TTATAGGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
TTTAAATGAATTTAAAATTTAATA
Found at i:9945071 original size:14 final size:14
Alignment explanation
Indices: 9945054--9945083 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9945044 GTGTTTTAAA
9945054 GTTTATTATTTAGG
1 GTTTATTATTTAGG
9945068 GTTTATTATTTAGG
1 GTTTATTATTTAGG
9945082 GT
1 GT
9945084 CTAAGATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (14 bp):
GTTTATTATTTAGG
Found at i:9945123 original size:8 final size:7
Alignment explanation
Indices: 9945108--9945182 Score: 89
Period size: 7 Copynumber: 10.4 Consensus size: 7
9945098 TTTAGTGATA
9945108 TTAGGGT
1 TTAGGGT
9945115 TTAAGGGT
1 TT-AGGGT
*
9945123 TTAAGGT
1 TTAGGGT
*
9945130 TTAGGGG
1 TTAGGGT
9945137 TTAGGAGT
1 TTAGG-GT
9945145 TTAGGGGT
1 TTA-GGGT
*
9945153 TAAGGGT
1 TTAGGGT
9945160 TTAGGG-
1 TTAGGGT
9945166 TTAGGGT
1 TTAGGGT
9945173 TTAGGGT
1 TTAGGGT
9945180 TTA
1 TTA
9945183 AGAGGATAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
6 6 0.10
7 35 0.60
8 15 0.26
9 2 0.03
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (7 bp):
TTAGGGT
Found at i:9945132 original size:15 final size:14
Alignment explanation
Indices: 9945112--9945184 Score: 76
Period size: 15 Copynumber: 5.1 Consensus size: 14
9945102 GTGATATTAG
*
9945112 GGTTTAAGGGTTTAA
1 GGTTT-AGGGGTTAA
*
9945127 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAA
9945141 GAGTTTAGGGGTTAA
1 G-GTTTAGGGGTTAA
*
9945156 GGGTTTA-GGGTTAG
1 -GGTTTAGGGGTTAA
*
9945170 GGTTTAGGGTTTAA
1 GGTTTAGGGGTTAA
9945184 G
1 G
9945185 AGGATAGAGG
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
13 6 0.12
14 20 0.41
15 22 0.45
16 1 0.02
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (14 bp):
GGTTTAGGGGTTAA
Found at i:9945207 original size:162 final size:162
Alignment explanation
Indices: 9945018--9945321 Score: 599
Period size: 162 Copynumber: 1.9 Consensus size: 162
9945008 TTTATATGGG
9945018 TTAAGAGGATAGAGGATAGGGGTTTAGTGTTTTAAAGTTTATTATTTAGGGTTTATTATTTAGGG
1 TTAAGAGGATAGAGGATAGGGGTTTAGTGTTTTAAAGTTTATTATTTAGGGTTTATTATTTAGGG
*
9945083 TCTAAGATATTAGTGTTTAGTGATATTAGGGTTTAAGGGTTTAAGGTTTAGGGGTTAGGAGTTTA
66 TCTAAGATATTAGTGTTTAGTAATATTAGGGTTTAAGGGTTTAAGGTTTAGGGGTTAGGAGTTTA
9945148 GGGGTTAAGGGTTTAGGGTTAGGGTTTAGGGT
131 GGGGTTAAGGGTTTAGGGTTAGGGTTTAGGGT
9945180 TTAAGAGGATAGAGGATAGGGGTTTAGTGTTTTAAAGTTTATTATTTAGGGTTTATTATTTAGGG
1 TTAAGAGGATAGAGGATAGGGGTTTAGTGTTTTAAAGTTTATTATTTAGGGTTTATTATTTAGGG
9945245 TCTAAGATATTAGTGTTTAGTAATATTAGGGTTTAAGGGTTTAAGGTTTAGGGGTTAGGAGTTTA
66 TCTAAGATATTAGTGTTTAGTAATATTAGGGTTTAAGGGTTTAAGGTTTAGGGGTTAGGAGTTTA
9945310 GGGGTTAAGGGT
131 GGGGTTAAGGGT
9945322 CAATGGTTTA
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
162 141 1.00
ACGTcount: A:0.26, C:0.01, G:0.33, T:0.41
Consensus pattern (162 bp):
TTAAGAGGATAGAGGATAGGGGTTTAGTGTTTTAAAGTTTATTATTTAGGGTTTATTATTTAGGG
TCTAAGATATTAGTGTTTAGTAATATTAGGGTTTAAGGGTTTAAGGTTTAGGGGTTAGGAGTTTA
GGGGTTAAGGGTTTAGGGTTAGGGTTTAGGGT
Found at i:9945233 original size:14 final size:14
Alignment explanation
Indices: 9945216--9945245 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9945206 GTGTTTTAAA
9945216 GTTTATTATTTAGG
1 GTTTATTATTTAGG
9945230 GTTTATTATTTAGG
1 GTTTATTATTTAGG
9945244 GT
1 GT
9945246 CTAAGATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (14 bp):
GTTTATTATTTAGG
Found at i:9945285 original size:8 final size:7
Alignment explanation
Indices: 9945270--9945312 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
9945260 TTTAGTAATA
9945270 TTAGGGT
1 TTAGGGT
9945277 TTAAGGGT
1 TT-AGGGT
*
9945285 TTAAGGT
1 TTAGGGT
*
9945292 TTAGGGG
1 TTAGGGT
9945299 TTAGGAGT
1 TTAGG-GT
9945307 TTAGGG
1 TTAGGG
9945313 GTTAAGGGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 17 0.57
8 13 0.43
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (7 bp):
TTAGGGT
Found at i:9945445 original size:21 final size:21
Alignment explanation
Indices: 9945419--9945477 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
9945409 GGTTAATTAA
* * *
9945419 GGTTTAGGGTCTAGGGTTTGG
1 GGTTTATGGTATAGGGTTTAG
* **
9945440 GGTTTATGGTTTATAGTTTAG
1 GGTTTATGGTATAGGGTTTAG
9945461 GGTTTATGGTATAGGGT
1 GGTTTATGGTATAGGGT
9945478 CAGGGTCTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.15, C:0.02, G:0.39, T:0.44
Consensus pattern (21 bp):
GGTTTATGGTATAGGGTTTAG
Found at i:9945754 original size:14 final size:14
Alignment explanation
Indices: 9945737--9945774 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
9945727 GGGCTTATGG
*
9945737 TTTGGGGTTTGGGA
1 TTTGGGGTTTGAGA
9945751 TTTGGGGTTTGAGA
1 TTTGGGGTTTGAGA
*
9945765 TTTAGGGTTT
1 TTTGGGGTTT
9945775 AGTGTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (14 bp):
TTTGGGGTTTGAGA
Found at i:9946725 original size:24 final size:24
Alignment explanation
Indices: 9946695--9946740 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
9946685 GTCAGGTAAC
9946695 TTTAATTTCTAAGTCTCTGTTTCT
1 TTTAATTTCTAAGTCTCTGTTTCT
9946719 TTTAATTTCTAAGTCTCTGTTT
1 TTTAATTTCTAAGTCTCTGTTT
9946741 ACAAATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.09, T:0.59
Consensus pattern (24 bp):
TTTAATTTCTAAGTCTCTGTTTCT
Found at i:9947515 original size:24 final size:23
Alignment explanation
Indices: 9947462--9947521 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
9947452 TGAAAATCGA
**
9947462 ATTATAATAATGTTATACTATCTT
1 ATTATAAT-ATGTTATAAAATCTT
*
9947486 ATTTATAATATGTTATGAAAATTTT
1 A-TTATAATATGTTAT-AAAATCTT
9947511 ATTATAATATG
1 ATTATAATATG
9947522 CTTTGGTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 18 0.58
25 13 0.42
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (23 bp):
ATTATAATATGTTATAAAATCTT
Found at i:9951288 original size:23 final size:23
Alignment explanation
Indices: 9951234--9951399 Score: 278
Period size: 23 Copynumber: 7.1 Consensus size: 23
9951224 CCTAGCCTCT
*
9951234 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
9951257 TTTTAATAACTGGGGCATGAGCTC
1 -TTTAATAACTGGGGCATAAGCCC
9951281 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
9951304 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
9951327 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
9951351 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
9951374 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
9951397 TTT
1 TTT
9951400 TGCACTTCCT
Statistics
Matches: 134, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
23 92 0.69
24 42 0.31
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:9951288 original size:47 final size:46
Alignment explanation
Indices: 9951234--9951399 Score: 278
Period size: 47 Copynumber: 3.6 Consensus size: 46
9951224 CCTAGCCTCT
* * *
9951234 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATGAGCTC
1 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
9951281 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
*
9951327 TTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
9951374 TTTAATAACTGGGGCATAAGCCCTTT
1 TTTAATAACTGGGGCATAAGCCCTTT
9951400 TGCACTTCCT
Statistics
Matches: 113, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
46 46 0.41
47 67 0.59
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
Found at i:9951401 original size:70 final size:70
Alignment explanation
Indices: 9951234--9951401 Score: 300
Period size: 70 Copynumber: 2.4 Consensus size: 70
9951224 CCTAGCCTCT
* * * *
9951234 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATGAGCTCTTTAATAACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
9951299 AGCCC
66 AGCCC
9951304 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
9951369 AGCCC
66 AGCCC
9951374 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
9951402 CACTTCCTCC
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 94 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (70 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
AGCCC
Found at i:9951472 original size:9 final size:9
Alignment explanation
Indices: 9951458--9951514 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
9951448 ATCTCATGTG
9951458 CATATCATA
1 CATATCATA
*
9951467 CATATCATGTG
1 CATATCA--TA
9951478 CATATCATA
1 CATATCATA
* *
9951487 CATGTCATGTG
1 CATATCA--TA
9951498 CATATCATA
1 CATATCATA
9951507 CATATCAT
1 CATATCAT
9951515 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:9951474 original size:20 final size:20
Alignment explanation
Indices: 9951446--9951516 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
9951436 GCATTTATGA
*
9951446 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
9951466 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
9951486 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
9951506 ACATATCATGT
1 ACATATCATGT
9951517 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:9951481 original size:11 final size:11
Alignment explanation
Indices: 9951451--9951505 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
9951441 TATGAACATC
9951451 TCATGTGCATA
1 TCATGTGCATA
*
9951462 TCA--TACATA
1 TCATGTGCATA
9951471 TCATGTGCATA
1 TCATGTGCATA
* *
9951482 TCA--TACATG
1 TCATGTGCATA
9951491 TCATGTGCATA
1 TCATGTGCATA
9951502 TCAT
1 TCAT
9951506 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:9952846 original size:27 final size:27
Alignment explanation
Indices: 9952815--9953071 Score: 277
Period size: 27 Copynumber: 9.6 Consensus size: 27
9952805 GGGCATTTTA
* *
9952815 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAATG
* * *
9952842 ATAATTCTGTAAGTCAAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAATG
* *
9952869 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCAAGGGTAAAATG
*
9952896 GTAATTCTGTAAATCGAA-GGTAAAACG
1 GTAATTCTGTAAATC-AAGGGTAAAATG
* *
9952923 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAATG
* * *
9952950 ATAATTATGTAAATC-GGGGTAAAATG
1 GTAATTCTGTAAATCAAGGGTAAAATG
* * * *
9952976 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAATG
* * *
9953003 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAATG
* *
9953030 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-AAGGGTAAAATG
9953057 GTAATTCTGTAAATC
1 GTAATTCTGTAAATC
9953072 GAGAGTACTT
Statistics
Matches: 196, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
26 24 0.12
27 170 0.87
28 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAATG
Found at i:9953007 original size:134 final size:135
Alignment explanation
Indices: 9952816--9953074 Score: 387
Period size: 134 Copynumber: 1.9 Consensus size: 135
9952806 GGCATTTTAG
* * * *
9952816 TAATTTTGTAAATCAAGGGTAAAATAATAATTCTGTAAGTCAAGGGTAAAATAGTAATTCTATAA
1 TAATTATGTAAATCAAGGGTAAAATAATAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
*
9952881 ATCGAGGGTAAAATGGTAATTCTGTAAA-TCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTA
66 ATCGAGGGTAAAATAGTAATTCTGTAAACT-GAAGGTAAAACGGTAATTCTGTAAATCGAGGGTA
9952945 AAACGA
130 AAACGA
* ** * * *
9952951 TAATTATGTAAATC-GGGGTAAAATGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATAA
1 TAATTATGTAAATCAAGGGTAAAATAATAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
*
9953015 ATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAG
66 ATCGAGGGTAAAATAGTAATTCTGTAAACTGAAGGTAAAACGGTAATTCTGTAAATCGAG
9953075 AGTACTTTGG
Statistics
Matches: 111, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
134 97 0.87
135 14 0.13
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (135 bp):
TAATTATGTAAATCAAGGGTAAAATAATAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
ATCGAGGGTAAAATAGTAATTCTGTAAACTGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
AACGA
Found at i:9953070 original size:54 final size:54
Alignment explanation
Indices: 9952813--9953074 Score: 323
Period size: 54 Copynumber: 4.9 Consensus size: 54
9952803 AAGGGCATTT
* * *** * *
9952813 TAGTAATTTTGTAAATCAAGGGTAAAATAATAATTCTGTAAGTCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* * *
9952867 TAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAAGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
** * *
9952921 CGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCG-GGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* * * *
9952974 TGGTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
9953028 TAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAG
1 TAGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAG
9953075 AGTACTTTGG
Statistics
Matches: 179, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
52 1 0.01
53 44 0.25
54 133 0.74
55 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (54 bp):
TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:9954907 original size:15 final size:15
Alignment explanation
Indices: 9954887--9954915 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9954877 GGAGTAGACC
9954887 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
9954902 AGGTACGTTTTATT
1 AGGTACGTTTTATT
9954916 TCAAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:9961275 original size:21 final size:21
Alignment explanation
Indices: 9961249--9961296 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
9961239 TCAACTTAGA
*
9961249 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
*
9961270 GCGGAGGCAGCAGTGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
9961291 GCGGAG
1 GCGGAG
9961297 CAGAACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.58, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:9961653 original size:43 final size:42
Alignment explanation
Indices: 9961588--9961702 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 42
9961578 ATTGGGCAAA
* * * *
9961588 TTAGCGGCG-TTTTTCAAAAGCGCTACTAAAAGTGCTGGTCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCACTAAAAATCCTGGTCT
* *
9961629 TTAGCGGCTTTTTTTTAAAAAGCGCCGCTAAAAATCCTGGTCT
1 TTAGCGGC-GTTTTTTAAAAAGCGCCACTAAAAATCCTGGTCT
*
9961672 TTAGCGGCGTTTTTTAAGAAAGCGCCGCTAA
1 TTAGCGGCGTTTTTTAA-AAAGCGCCACTAA
9961703 TTTTACCAGC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
41 8 0.12
42 8 0.12
43 48 0.75
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCACTAAAAATCCTGGTCT
Found at i:9970659 original size:16 final size:15
Alignment explanation
Indices: 9970637--9970669 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9970627 CATCCCACCT
9970637 TTATATA-ATTTTTA
1 TTATATATATTTTTA
*
9970651 TTATATATATTTTTG
1 TTATATATATTTTTA
9970666 TTAT
1 TTAT
9970670 TAAATCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTATATATATTTTTA
Found at i:9972793 original size:34 final size:34
Alignment explanation
Indices: 9972750--9972817 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
9972740 GTAATGGCAC
9972750 TATTCTTTTTCGTGGCCCTTAGTTTGGAAAGATG
1 TATTCTTTTTCGTGGCCCTTAGTTTGGAAAGATG
9972784 TATTCTTTTTCGTGGCCCTTAGTTTGGAAAGATG
1 TATTCTTTTTCGTGGCCCTTAGTTTGGAAAGATG
9972818 AACATGTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.44
Consensus pattern (34 bp):
TATTCTTTTTCGTGGCCCTTAGTTTGGAAAGATG
Found at i:9975736 original size:35 final size:35
Alignment explanation
Indices: 9975697--9975775 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 35
9975687 AAAATCAGTT
*
9975697 AGATGTAGAATCGGGCCTAAGCCCATCACAGATAC
1 AGATGCAGAATCGGGCCTAAGCCCATCACAGATAC
* * * *
9975732 AGATGCATACTTGGGCCTAAGCCCATCTCAGATAC
1 AGATGCAGAATCGGGCCTAAGCCCATCACAGATAC
9975767 AGATGCAGA
1 AGATGCAGA
9975776 TATACAGATC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (35 bp):
AGATGCAGAATCGGGCCTAAGCCCATCACAGATAC
Found at i:9994302 original size:24 final size:24
Alignment explanation
Indices: 9994273--9994334 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
9994263 TTTAAAAATT
9994273 ATTTTAAAGAATTAAAAATA-TAAA
1 ATTTTAAA-AATTAAAAATATTAAA
* * *
9994297 ATTTT-AAATTTTAAAATATTTAA
1 ATTTTAAAAATTAAAAATATTAAA
9994320 ATTTTAAAAAATTAA
1 ATTTT-AAAAATTAA
9994335 TTAAATGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
22 9 0.30
23 10 0.33
24 5 0.17
25 6 0.20
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
ATTTTAAAAATTAAAAATATTAAA
Found at i:9994318 original size:16 final size:15
Alignment explanation
Indices: 9994293--9994328 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
9994283 ATTAAAAATA
9994293 TAAAATTTTAAATTT
1 TAAAATTTTAAATTT
9994308 TAAAATATTTAAATTT
1 TAAAAT-TTTAAATTT
9994324 TAAAA
1 TAAAA
9994329 AATTAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAAATTTTAAATTT
Done.