Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 161 of 362
Found at i:52975640 original size:37 final size:37
Alignment explanation
Indices: 52975581--52975718 Score: 213
Period size: 37 Copynumber: 3.7 Consensus size: 37
52975571 AGCTCAGACG
* *
52975581 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
52975618 AAAGCTCTACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
52975655 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
52975692 TACTCTCCACACGTAGTCATCAGGTCT
1 AAATCTCCACACGTAGTCATCGGGTCT
52975719 CACCTGGAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 92 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:52975941 original size:47 final size:47
Alignment explanation
Indices: 52975889--52976263 Score: 572
Period size: 47 Copynumber: 8.0 Consensus size: 47
52975879 TTTCACACTA
* * * *
52975889 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCA-CTACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATC-ACATTG
* *
52975936 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
52975983 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
52976030 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
52976077 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
52976124 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
52976171 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
52976218 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATT
52976264 AAATCCTAAA
Statistics
Matches: 298, Mismatches: 29, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
47 297 1.00
48 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:52975991 original size:94 final size:94
Alignment explanation
Indices: 52975889--52976263 Score: 642
Period size: 94 Copynumber: 4.0 Consensus size: 94
52975879 TTTCACACTA
* * *
52975889 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACTACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
*
52975954 ACATATGCATGCTCACGTTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
* * * *
52975983 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTCATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
* * *
52976048 ATATATGCATGTTCACATTCATCACATAG
66 ACATATGCATGCTCACATTCATCACATTG
52976077 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
52976142 ACATATGCATGCTCACATTCATCACATTG
66 ACATATGCATGCTCACATTCATCACATTG
*
52976171 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
52976236 ACATATGCATGCTCACATTCATCACATT
66 ACATATGCATGCTCACATTCATCACATT
52976264 AAATCCTAAA
Statistics
Matches: 262, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 262 1.00
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.32
Consensus pattern (94 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
ACATATGCATGCTCACATTCATCACATTG
Found at i:52976075 original size:25 final size:25
Alignment explanation
Indices: 52975996--52976075 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
52975986 ATTCGGCCTT
*
52975996 ATCACATATATGCATGCTCACATTC
1 ATCACATATATGCATGTTCACATTC
* * *
52976021 ATCACAT-T-GGCCA--TTCGGC-CTC
1 ATCACATATATG-CATGTTC-ACATTC
52976043 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
52976068 ATCACATA
1 ATCACATA
52976076 GGCCATTCGG
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 11 0.27
23 5 0.12
24 5 0.12
25 20 0.49
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:52991041 original size:13 final size:13
Alignment explanation
Indices: 52991025--52991057 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
52991015 ATTAATTAAA
*
52991025 TTAGTTAATTAGT
1 TTAGATAATTAGT
52991038 TTAGATAATTAGT
1 TTAGATAATTAGT
52991051 TTA-ATAA
1 TTAGATAA
52991058 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:52992602 original size:21 final size:21
Alignment explanation
Indices: 52992578--52992620 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
52992568 GATTTTTCAG
52992578 CGTTGCTACTTGA-ATTTGGAT
1 CGTTGCTACTTGACA-TTGGAT
* *
52992599 CGTTGTTTCTTGACATTGGAT
1 CGTTGCTACTTGACATTGGAT
52992620 C
1 C
52992621 AAGGTGTCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (21 bp):
CGTTGCTACTTGACATTGGAT
Found at i:52996820 original size:13 final size:13
Alignment explanation
Indices: 52996798--52996830 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
52996788 AATGATTTTT
52996798 TTAT-TAAACTAA
1 TTATCTAAACTAA
52996810 TTATCTAAACTAA
1 TTATCTAAACTAA
*
52996823 TTAACTAA
1 TTATCTAA
52996831 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:52999748 original size:6 final size:5
Alignment explanation
Indices: 52999719--52999807 Score: 67
Period size: 6 Copynumber: 16.8 Consensus size: 5
52999709 TATGTCTTTC
* *
52999719 AAAAT AAAAT --AAT AAAATT TAAAT GAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
52999767 AAAAAT AAAAT AAAAT AAAAT AAAAAT AAGAAT -AAAT AAAA
1 -AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAA
52999808 AAAGGAGGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 29 0.42
6 34 0.49
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:52999759 original size:7 final size:6
Alignment explanation
Indices: 52999739--52999802 Score: 71
Period size: 6 Copynumber: 11.2 Consensus size: 6
52999729 AATAAAATTT
* * *
52999739 AAATGA AAATAA AAATCA AAAGAA AAATAA AAAT-A AAAT-A AAAT-A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
52999784 AAATAA AAATAA GAATAA A
1 AAATAA AAATAA AAATAA A
52999803 TAAAAAAAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
5 15 0.30
6 35 0.70
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:52999808 original size:16 final size:16
Alignment explanation
Indices: 52999719--52999802 Score: 75
Period size: 18 Copynumber: 5.1 Consensus size: 16
52999709 TATGTCTTTC
52999719 AAAATAAAAT--AATA
1 AAAATAAAATAAAATA
* *
52999733 AAATTTAAATGAAAATA
1 AAAATAAAAT-AAAATA
*
52999750 AAAATCAAAAGAAAAATA
1 AAAAT-AAAA-TAAAATA
52999768 AAAATAAAATAAAAT-
1 AAAATAAAATAAAATA
52999783 AAAATAAAAATAAGAATA
1 AAAAT-AAAATAA-AATA
52999801 AA
1 AA
52999803 TAAAAAAAGG
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
14 8 0.14
15 5 0.09
16 12 0.21
17 15 0.27
18 16 0.29
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:53005147 original size:13 final size:13
Alignment explanation
Indices: 53005125--53005157 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
53005115 AAGGATTTGT
53005125 TTAT-TAAACTAA
1 TTATCTAAACTAA
53005137 TTATCTAAACTAA
1 TTATCTAAACTAA
*
53005150 TTAACTAA
1 TTATCTAA
53005158 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:53007937 original size:42 final size:42
Alignment explanation
Indices: 53007886--53008129 Score: 303
Period size: 42 Copynumber: 5.8 Consensus size: 42
53007876 AAGGGATATT
* * *
53007886 GGCATCGTATTTGATTTTGTGTAAAACCATGTCTGGGACATC
1 GGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATC
* * * *
53007928 GACATCGTATCTGATTTTC-TATACGACAATGTCTGGGACATC
1 GGCATCGTATCTGA-TTTCGTGTAAGACCATGTCTGGGACATC
* * * *
53007970 GGCATCTTATCTAATTTTC-TGTAAGATCATTTCTGGGACATC
1 GGCATCGTATCTGA-TTTCGTGTAAGACCATGTCTGGGACATC
*
53008012 TGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATC
1 GGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATC
* * *
53008054 GGCATCGTATCTGATTTCATGTAAGACCATGTTTGGGACATA
1 GGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATC
* *
53008096 GGCATCATATCTGATTTCGTGTAAGACCCTGTCT
1 GGCATCGTATCTGATTTCGTGTAAGACCATGTCT
53008130 AAGATAGAGG
Statistics
Matches: 172, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
41 4 0.02
42 165 0.96
43 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (42 bp):
GGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATC
Found at i:53008119 original size:126 final size:126
Alignment explanation
Indices: 53007887--53008121 Score: 339
Period size: 126 Copynumber: 1.9 Consensus size: 126
53007877 AGGGATATTG
* * *
53007887 GCATCGTATTTGATTTTGTGTAAAACCATGTCTGGGACATCGACATCGTATCTGATTTTCTATAC
1 GCATCGTATCTGATTTCGTGTAAAACCATGTCTGGGACATCGACATCGTATCTGATTTTCTATAA
* *
53007952 GACAATGTCTGGGACATCGGCATCTTATCTAATTTTCTGTAAGATCATTTCTGGGACATCT
66 GACAATGTCTGGGACATAGGCATCATATCTAATTTTCTGTAAGATCATTTCTGGGACATCT
* * *
53008013 GCATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGA-TTTCATGTA
1 GCATCGTATCTGATTTCGTGTAAAACCATGTCTGGGACATCGACATCGTATCTGATTTTC-TATA
* * *
53008077 AGACCATGTTTGGGACATAGGCATCATATCTGA-TTTCGTGTAAGA
65 AGACAATGTCTGGGACATAGGCATCATATCTAATTTTC-TGTAAGA
53008122 CCCTGTCTAA
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
125 8 0.08
126 88 0.92
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (126 bp):
GCATCGTATCTGATTTCGTGTAAAACCATGTCTGGGACATCGACATCGTATCTGATTTTCTATAA
GACAATGTCTGGGACATAGGCATCATATCTAATTTTCTGTAAGATCATTTCTGGGACATCT
Found at i:53008142 original size:84 final size:84
Alignment explanation
Indices: 53007905--53008170 Score: 227
Period size: 84 Copynumber: 3.2 Consensus size: 84
53007895 TTTGATTTTG
* * * * * * * **
53007905 TGTAAAACCATG-TCTGGGACATCGACATCGTATCTGATTTTC-TATACGACAATGTCTGGGACA
1 TGTAAGACCATGTTCTGGGACATAGGCATCATATCTGA-TTTCGTGTAAGACCATGTCTAAGACA
**
53007968 TCGGCATCTTATCTAATTTTC-
65 GAGGCATC-TATCTAA-TTTCA
* ** * ** *
53007989 TGTAAGATCAT-TTCTGGGACATCTGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACAT
1 TGTAAGACCATGTTCTGGGACATAGGCATCATATCTGATTTCGTGTAAGACCATGTCTAAGACAG
* *
53008053 CGGCATCGTATCTGATTTCA
66 AGGCATC-TATCTAATTTCA
* *
53008073 TGTAAGACCATGTT-TGGGACATAGGCATCATATCTGATTTCGTGTAAGACCCTGTCTAAGATAG
1 TGTAAGACCATGTTCTGGGACATAGGCATCATATCTGATTTCGTGTAAGACCATGTCTAAGACAG
* *
53008137 AGGCATCAATACTAAATTACA
66 AGGCATCTAT-CT-AATTTCA
53008158 TGTAAGACCATGT
1 TGTAAGACCATGT
53008171 CCAGGATGTC
Statistics
Matches: 154, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
83 10 0.06
84 124 0.81
85 20 0.13
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (84 bp):
TGTAAGACCATGTTCTGGGACATAGGCATCATATCTGATTTCGTGTAAGACCATGTCTAAGACAG
AGGCATCTATCTAATTTCA
Found at i:53015074 original size:42 final size:41
Alignment explanation
Indices: 53015008--53015260 Score: 292
Period size: 42 Copynumber: 6.0 Consensus size: 41
53014998 GTTTCTAAAG
*
53015008 GGACATCGACATCGTATTTGATTTTGTGTAAGACCATGTCT
1 GGACATCGACATCGTATCTGATTTTGTGTAAGACCATGTCT
* * *
53015049 GCGACATCAACATCGTATCTAATTTTCTGTAAGACCATGTCT
1 G-GACATCGACATCGTATCTGATTTTGTGTAAGACCATGTCT
* * * *
53015091 GGGACATTGGCATCGTATCTGATTTTGAGTAAGGCCATGTCT
1 -GGACATCGACATCGTATCTGATTTTGTGTAAGACCATGTCT
53015133 AGGACATC-AGCATCGTATCTGATTTTGTGTAAGACCATGTCT
1 -GGACATCGA-CATCGTATCTGATTTTGTGTAAGACCATGTCT
* * * * *
53015175 GGGACATCGGCATCGGATCTTATTTCGTGTAAGTCCATGTCT
1 -GGACATCGACATCGTATCTGATTTTGTGTAAGACCATGTCT
* * * *
53015217 AGGACATCGACATCATATCTAATTTCGTGTAAGACCACGTCT
1 -GGACATCGACATCGTATCTGATTTTGTGTAAGACCATGTCT
53015259 GG
1 GG
53015261 GACGTCGGCA
Statistics
Matches: 179, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
41 3 0.02
42 175 0.98
43 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (41 bp):
GGACATCGACATCGTATCTGATTTTGTGTAAGACCATGTCT
Found at i:53015148 original size:84 final size:84
Alignment explanation
Indices: 53015007--53015271 Score: 347
Period size: 84 Copynumber: 3.2 Consensus size: 84
53014997 TGTTTCTAAA
* * *
53015007 GGGACATCGACATCGTATTTGATTTTGTGTAAGACCATGTCT-GCGACATCAACATCGTATCTAA
1 GGGACATCGGCATCGTATCTGATTTTGTGTAAGACCATGTCTAG-GACATCAGCATCGTATCTAA
53015071 TTTTCTGTAAGACCATGTCT
65 TTTTCTGTAAGACCATGTCT
* * * *
53015091 GGGACATTGGCATCGTATCTGATTTTGAGTAAGGCCATGTCTAGGACATCAGCATCGTATCTGAT
1 GGGACATCGGCATCGTATCTGATTTTGTGTAAGACCATGTCTAGGACATCAGCATCGTATCTAAT
*
53015156 TTTGTGTAAGACCATGTCT
66 TTTCTGTAAGACCATGTCT
* * * * *
53015175 GGGACATCGGCATCGGATCTTATTTCGTGTAAGTCCATGTCTAGGACATC-GACATCATATCTAA
1 GGGACATCGGCATCGTATCTGATTTTGTGTAAGACCATGTCTAGGACATCAG-CATCGTATCTAA
*
53015239 -TTTCGTGTAAGACCACGTCT
65 TTTTC-TGTAAGACCATGTCT
*
53015259 GGGACGTCGGCAT
1 GGGACATCGGCAT
53015272 TGTACCCGTT
Statistics
Matches: 159, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
83 4 0.03
84 154 0.97
85 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (84 bp):
GGGACATCGGCATCGTATCTGATTTTGTGTAAGACCATGTCTAGGACATCAGCATCGTATCTAAT
TTTCTGTAAGACCATGTCT
Found at i:53015236 original size:126 final size:126
Alignment explanation
Indices: 53015008--53015241 Score: 328
Period size: 126 Copynumber: 1.9 Consensus size: 126
53014998 GTTTCTAAAG
* *
53015008 GGACATCGACATCGTATTTGATTTTGTGTAAGACCATGTCTGCGACATCAACATCGTATCTAATT
1 GGACATCGACATCGTATCTGATTTTGTGTAAGACCATGTCTGCGACATCAACATCGGATCTAATT
* * * * *
53015073 TTCTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTTTGAGTAAGGCCATGTCTA
66 TTCTGTAAGACCATGTCTAGGACATCGACATCATATCTAATTTTGAGTAAGGCCATGTCTA
* ** *
53015134 GGACATC-AGCATCGTATCTGATTTTGTGTAAGACCATGTCTGGGACATCGGCATCGGATCTTA-
1 GGACATCGA-CATCGTATCTGATTTTGTGTAAGACCATGTCTGCGACATCAACATCGGATCTAAT
*
53015197 TTTCGTGTAAGTCCATGTCTAGGACATCGACATCATATCTAATTT
65 TTTC-TGTAAGACCATGTCTAGGACATCGACATCATATCTAATTT
53015242 CGTGTAAGAC
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
125 5 0.05
126 89 0.95
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (126 bp):
GGACATCGACATCGTATCTGATTTTGTGTAAGACCATGTCTGCGACATCAACATCGGATCTAATT
TTCTGTAAGACCATGTCTAGGACATCGACATCATATCTAATTTTGAGTAAGGCCATGTCTA
Found at i:53019592 original size:31 final size:31
Alignment explanation
Indices: 53019514--53019594 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
53019504 CTCAGCAGAT
*
53019514 ACTGGGCCGAAGCCTTCACATTATTCATATC
1 ACTGGGCCGAAGCCTTTACATTATTCATATC
* *
53019545 ACTGGGCTGAAGCCTTTTCATTATTCATATC
1 ACTGGGCCGAAGCCTTTACATTATTCATATC
53019576 ACTGGGCCGAAGCCTTTAC
1 ACTGGGCCGAAGCCTTTAC
53019595 TGTAACGATA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTACATTATTCATATC
Found at i:53019832 original size:25 final size:26
Alignment explanation
Indices: 53019804--53019857 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
53019794 GCCTAGCCTC
* * *
53019804 TTTTAAT-AACTGGGGCGAAAGCCCT
1 TTTTAATAAACTAGGACAAAAGCCCT
*
53019829 TTTTGATAAACTAGGACAAAAGCCCT
1 TTTTAATAAACTAGGACAAAAGCCCT
53019855 TTT
1 TTT
53019858 CGGTAAACTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (26 bp):
TTTTAATAAACTAGGACAAAAGCCCT
Found at i:53019877 original size:25 final size:26
Alignment explanation
Indices: 53019811--53019882 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
53019801 CTCTTTTAAT
* *
53019811 AACTGGGGCGAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
* * *
53019837 AACTAGGACAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
53019863 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
53019883 GCACTTCCTC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 10 0.26
26 28 0.74
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:53025359 original size:42 final size:42
Alignment explanation
Indices: 53025115--53025358 Score: 362
Period size: 42 Copynumber: 5.8 Consensus size: 42
53025105 TTTCTAAAGT
*
53025115 GACATCGACATCGTATCTGATTTTGTGTAAGACCATGTCTGG
1 GACATCGACATCGTATCTGATTTCGTGTAAGACCATGTCTGG
* *
53025157 GACATCGGCATCGTATCTGATTTTGTGTAAGACCATGTCTGG
1 GACATCGACATCGTATCTGATTTCGTGTAAGACCATGTCTGG
* *
53025199 GACATTGGCATCGTATCTGATTTCGTGTAAGACCATGTCTGG
1 GACATCGACATCGTATCTGATTTCGTGTAAGACCATGTCTGG
* * * * *
53025241 GACATCGGCATCATATCAGATTTCGTGTAAGACCAAGTTTGG
1 GACATCGACATCGTATCTGATTTCGTGTAAGACCATGTCTGG
* *
53025283 AACATCGACATCGTATCTGATTTCGTGTAAGACCCTGTCTGG
1 GACATCGACATCGTATCTGATTTCGTGTAAGACCATGTCTGG
* *
53025325 GACATCGACATCATATCTAATTTCGTGTAAGACC
1 GACATCGACATCGTATCTGATTTCGTGTAAGACC
53025359 CCGATACTGA
Statistics
Matches: 184, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 184 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (42 bp):
GACATCGACATCGTATCTGATTTCGTGTAAGACCATGTCTGG
Found at i:53029151 original size:53 final size:53
Alignment explanation
Indices: 53029071--53029276 Score: 171
Period size: 53 Copynumber: 3.8 Consensus size: 53
53029061 TTCCTTTTTA
* * *
53029071 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * * * * *
53029124 AGCTCACCATTGTCATGCCTTGGCATGGTCTTGCATGGGATCTTTGCCTTATTG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TG
** * * * * * * *
53029178 TATTTTATCAATGCCATGTCTTGAAATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* * *
53029233 AACTTACCAATGTCATGCCTTGGCATGGTCTTAC-TTGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
53029277 AAACCCTAAT
Statistics
Matches: 115, Mismatches: 35, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
53 49 0.43
54 30 0.26
55 36 0.31
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.39
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:53032422 original size:31 final size:31
Alignment explanation
Indices: 53032387--53032453 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
53032377 ACGTACTAAC
*
53032387 TGATATAATATGGTCACTAGTACATAGAACT
1 TGATATAATATAGTCACTAGTACATAGAACT
* *
53032418 TGATATAATATAGTCACTGGTACATAGTACT
1 TGATATAATATAGTCACTAGTACATAGAACT
53032449 TGATA
1 TGATA
53032454 CTTCAAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (31 bp):
TGATATAATATAGTCACTAGTACATAGAACT
Found at i:53035734 original size:43 final size:43
Alignment explanation
Indices: 53035609--53035771 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 43
53035599 TGGAAAGCTC
* * *
53035609 GTACAATGCTAACGTCCTAGACGTGGTCTTACATGT-AATCAA
1 GTACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAA
* * *
53035651 ATATCGATGCC-ACAGTCCCAGACAG-GGTCTTACAC-AAAATCAA
1 GTA-CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCAA
* *
53035694 GTACGATGCCAACGTCCCAGACGTGGTTTTACACGTAAATCATAA
1 GTACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATC--AA
* * *
53035739 GT-CAACGCCAACGTCCTAGATGTGGTCTTACAC
1 GTACAATGCCAACGTCCCAGACGTGGTCTTACAC
53035772 AATAACACAT
Statistics
Matches: 98, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.30
43 37 0.38
44 27 0.28
45 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
GTACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAA
Found at i:53043225 original size:43 final size:42
Alignment explanation
Indices: 53043154--53043317 Score: 136
Period size: 43 Copynumber: 3.8 Consensus size: 42
53043144 CGAAAAGCTC
* ** *
53043154 ATACGATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCACTGTCCCAGACAAGGTCTTACACGTAATCAA
*
53043196 ATATTGATGCCACTGTCCCAGACAAGGTCTTACACGTAATCAA
1 ATA-CGATGCCACTGTCCCAGACAAGGTCTTACACGTAATCAA
* *** *
53043239 GTACGATGCCAAC-GTCCCAGATGTGGTCTTACAAGTAAATCATA
1 ATACGATGCC-ACTGTCCCAGACAAGGTCTTACACGT-AATCA-A
* **
53043283 AGT-CGATGCCAAC-GTCCCAAACGTGGTCTTACACG
1 A-TACGATGCC-ACTGTCCCAGACAAGGTCTTACACG
53043318 ATAACACATA
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 28 0.27
43 43 0.42
44 30 0.29
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (42 bp):
ATACGATGCCACTGTCCCAGACAAGGTCTTACACGTAATCAA
Found at i:53058578 original size:28 final size:28
Alignment explanation
Indices: 53058515--53058637 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
53058505 ATATTAAGTC
*
53058515 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
53058542 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
53058570 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53058598 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
53058627 CGCACACTTAG
1 CGCACACTTAG
53058638 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53063365 original size:46 final size:48
Alignment explanation
Indices: 53063259--53063378 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 48
53063249 TGTCTTCGAC
** * *
53063259 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAA
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAA
* * * *
53063307 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAA
*
53063353 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
53063379 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 26 0.42
47 1 0.02
48 35 0.56
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAA
Found at i:53072396 original size:28 final size:28
Alignment explanation
Indices: 53072333--53072455 Score: 169
Period size: 28 Copynumber: 4.4 Consensus size: 28
53072323 ATATTAAGTC
53072333 CGCACA-TTCAGTGCTATATAATC-AACT
1 CGCACACTT-AGTGCTATATAATCAAACT
53072360 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
53072388 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53072416 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
53072445 CGCACACTTAG
1 CGCACACTTAG
53072456 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 20 0.23
28 51 0.59
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53084491 original size:21 final size:21
Alignment explanation
Indices: 53084445--53084493 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
53084435 TGCAGAGTTC
* * *
53084445 ACACACCCGTGTGGTCTAGGG
1 ACACGCCCGTGTGATCTAAGG
53084466 ACACGCCCGTGTGATCCTAAGG
1 ACACGCCCGTGTGAT-CTAAGG
53084488 -CACGCC
1 ACACGCC
53084494 TGTACTACAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.16
Consensus pattern (21 bp):
ACACGCCCGTGTGATCTAAGG
Found at i:53089184 original size:40 final size:41
Alignment explanation
Indices: 53089125--53089276 Score: 202
Period size: 40 Copynumber: 3.8 Consensus size: 41
53089115 CATTTGAATG
* * *
53089125 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
53089165 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* *
53089205 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
53089245 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
53089277 TTGTGGTTAT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
40 97 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:53095396 original size:53 final size:53
Alignment explanation
Indices: 53095309--53095521 Score: 252
Period size: 53 Copynumber: 4.0 Consensus size: 53
53095299 TCATGGCACT
53095309 GAAGAACCATATCATGTAAGA-TCGTAACTAGTGGGTTATGACATCATAT-GAGAA
1 GAAG-ACCATATCATGTAAGACT-GTAACTAGTGGGTTATGACATCATATGGA-AA
* *
53095363 GAAGACCATATCATGTAAGACTGTAATTGGTGGGTTATGACATCATATGGAAA
1 GAAGACCATATCATGTAAGACTGTAACTAGTGGGTTATGACATCATATGGAAA
* * * * *
53095416 GAAGACCATAT-AGTGTGAGACTATAACTAGTGGATTATGGCATCATAGGGAAA
1 GAAGACCATATCA-TGTAAGACTGTAACTAGTGGGTTATGACATCATATGGAAA
* * * * * *
53095469 GAATACCATATAATGTAAGACTGTAATTGGTGGGTCATAACATCATATGGAAA
1 GAAGACCATATCATGTAAGACTGTAACTAGTGGGTTATGACATCATATGGAAA
53095522 ATTTTAGGAA
Statistics
Matches: 136, Mismatches: 19, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
52 1 0.01
53 127 0.93
54 8 0.06
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (53 bp):
GAAGACCATATCATGTAAGACTGTAACTAGTGGGTTATGACATCATATGGAAA
Found at i:53111086 original size:6 final size:6
Alignment explanation
Indices: 53111075--53111130 Score: 112
Period size: 6 Copynumber: 9.3 Consensus size: 6
53111065 TCCTCCTATC
53111075 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
53111123 TTTTTA TT
1 TTTTTA TT
53111131 ATTTCCTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:53116239 original size:44 final size:44
Alignment explanation
Indices: 53116176--53116263 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
53116166 AATAGAGAAT
53116176 AAATTTAAGGCTTTCAAATTATTATTTATAACAAAATTATTAAA
1 AAATTTAAGGCTTTCAAATTATTATTTATAACAAAATTATTAAA
53116220 AAATTTAAGGCTTTCAAATTATTATTTATAACAAAATTATTAAA
1 AAATTTAAGGCTTTCAAATTATTATTTATAACAAAATTATTAAA
53116264 GTTCATAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (44 bp):
AAATTTAAGGCTTTCAAATTATTATTTATAACAAAATTATTAAA
Found at i:53122461 original size:23 final size:24
Alignment explanation
Indices: 53122431--53122481 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
53122421 GGCAATGAAT
53122431 ACCTCAAAAGAACTTTT-AATTAG-
1 ACCTCAAAAGAA-TTTTCAATTAGC
53122454 ACCTCAAAAGAATTTTCAATTAGC
1 ACCTCAAAAGAATTTTCAATTAGC
53122478 ACCT
1 ACCT
53122482 ATAATCCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 4 0.15
23 18 0.69
24 4 0.15
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (24 bp):
ACCTCAAAAGAATTTTCAATTAGC
Found at i:53131303 original size:26 final size:26
Alignment explanation
Indices: 53131273--53131325 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
53131263 CCAAGATAAT
**
53131273 GTGAAGCCCTAGTCAGAGTGGAGGCA
1 GTGAAGCCCTAGTCAGAGCAGAGGCA
*
53131299 GTGAAGTCCTAGTCAGAGCAGAGGCA
1 GTGAAGCCCTAGTCAGAGCAGAGGCA
53131325 G
1 G
53131326 AACATTATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.38, T:0.15
Consensus pattern (26 bp):
GTGAAGCCCTAGTCAGAGCAGAGGCA
Found at i:53132857 original size:20 final size:21
Alignment explanation
Indices: 53132829--53132867 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
53132819 ATATTTTATC
*
53132829 TTTATTATTTTATT-TTGACT
1 TTTAATATTTTATTGTTGACT
53132849 TTTAATATTTTATTGTTGA
1 TTTAATATTTTATTGTTGA
53132868 TGTAGCACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTAATATTTTATTGTTGACT
Found at i:53134152 original size:32 final size:32
Alignment explanation
Indices: 53134116--53134180 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
53134106 TGTATGCATT
* *
53134116 TTAGCATTTTAATAGTTAATGGATTATGGGCA
1 TTAGCATTTTAATAATTAATGGATGATGGGCA
53134148 TTAGCATTTTAATAATTAATGGATGATGGGCA
1 TTAGCATTTTAATAATTAATGGATGATGGGCA
53134180 T
1 T
53134181 GGTAAGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (32 bp):
TTAGCATTTTAATAATTAATGGATGATGGGCA
Found at i:53135691 original size:26 final size:26
Alignment explanation
Indices: 53135662--53135714 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
53135652 TTTACAGTTT
53135662 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
53135688 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
53135714 T
1 T
53135715 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:53140271 original size:12 final size:12
Alignment explanation
Indices: 53140254--53140287 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
53140244 AAAACCCTAG
53140254 TTTTTCCTTTTC
1 TTTTTCCTTTTC
53140266 TTTTT-CTTTTC
1 TTTTTCCTTTTC
53140277 TTCTTTCCTTT
1 TT-TTTCCTTT
53140288 CCCCCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 8 0.40
13 4 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:53140389 original size:3 final size:3
Alignment explanation
Indices: 53140381--53140418 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
53140371 ATTAGTTAAC
53140381 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
53140419 ATATCTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:53140479 original size:23 final size:24
Alignment explanation
Indices: 53140413--53140482 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 24
53140403 ATAATAATAA
53140413 TAATAAATATCTATTTACTTA-AAATG
1 TAATAAATA-CTA-TTA-TTACAAATG
53140439 TAATTAAATA-TATATATTACAAATG
1 TAA-TAAATACTAT-TATTACAAATG
53140464 T-ATAAATACTATTATTACA
1 TAATAAATACTATTATTACA
53140483 TTTGTATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
23 13 0.32
24 8 0.20
25 10 0.25
26 3 0.08
27 6 0.15
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (24 bp):
TAATAAATACTATTATTACAAATG
Found at i:53140837 original size:5 final size:5
Alignment explanation
Indices: 53140829--53140881 Score: 74
Period size: 5 Copynumber: 11.0 Consensus size: 5
53140819 TATTTATTTC
* *
53140829 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -T-AT ATAAT TTAAC
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
53140877 ATAAT
1 ATAAT
53140882 TAAATTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 38 0.90
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:53143826 original size:43 final size:42
Alignment explanation
Indices: 53143739--53143829 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 42
53143729 ATCTCATATA
* * ** * *
53143739 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATAGCCCAGATATGGTCTTACACGAAATCAAATAACG
*
53143781 ATGCCGATAGCCCAGCTATGGTCTTACACGAAATCAAATAACG
1 ATGCC-ATAGCCCAGATATGGTCTTACACGAAATCAAATAACG
53143824 ATGCCA
1 ATGCCA
53143830 ATGTCCTAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 6 0.15
43 35 0.85
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACACGAAATCAAATAACG
Found at i:53145605 original size:41 final size:41
Alignment explanation
Indices: 53145468--53145694 Score: 266
Period size: 41 Copynumber: 5.6 Consensus size: 41
53145458 CGATTCTTAA
* * *
53145468 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * *
53145507 CCACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
*
53145548 CACTGGCTCAAAAGCCCTTCAAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* *
53145589 CACTGGCTCAAAAGCCCTTCGTAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* * * *
53145630 CACTAGCTCAAAAGCCCATCGTAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
53145671 CACTGGCTCAAAAGCCCTTC-AAAC
1 CACTGGCTCAAAAGCCCTTCGAAAC
53145695 CCAAGCTCGG
Statistics
Matches: 161, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
40 45 0.28
41 113 0.70
43 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:53155938 original size:37 final size:37
Alignment explanation
Indices: 53155874--53155947 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
53155864 TTACAAGCCA
53155874 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATGACAAC
*
53155911 AAATCATTATAAGCCA-ATACAT-TTGGCTAATGACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATGACAAC
53155948 GACATCGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
36 4 0.12
37 28 0.85
38 1 0.03
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATGACAAC
Found at i:53174815 original size:27 final size:27
Alignment explanation
Indices: 53174785--53174989 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
53174775 ATATTGAGTC
* * * *
53174785 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
53174812 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53174839 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
53174867 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
53174894 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
53174921 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
53174948 CACACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53174975 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53174990 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 131 0.85
28 24 0.15
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:53176533 original size:24 final size:24
Alignment explanation
Indices: 53176501--53176548 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
53176491 TCCTCCCTTA
*
53176501 TTTTATTCA-TCCTTTTTTTTTCT
1 TTTTATTCACTCCTTTTATTTTCT
*
53176524 TTTTAATTCACTTCTTTTATTTTCT
1 TTTT-ATTCACTCCTTTTATTTTCT
53176549 AATCTACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 5 0.24
25 12 0.57
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTATTCACTCCTTTTATTTTCT
Found at i:53183070 original size:27 final size:27
Alignment explanation
Indices: 53183040--53183243 Score: 241
Period size: 27 Copynumber: 7.6 Consensus size: 27
53183030 ATATTGAGTC
* * * *
53183040 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
53183067 CGCACAATTAGTGCTACGTAATC-AAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53183093 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
53183121 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
53183148 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
53183175 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53183202 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53183229 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53183244 GTACAATTTA
Statistics
Matches: 153, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 22 0.14
27 107 0.70
28 24 0.16
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:53184784 original size:24 final size:24
Alignment explanation
Indices: 53184752--53184799 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
53184742 TCCTCCCTTA
*
53184752 TTTTATTCA-TCCTTTTTTTTTCT
1 TTTTATTCACTCCTTTTATTTTCT
*
53184775 TTTTAATTCACTTCTTTTATTTTCT
1 TTTT-ATTCACTCCTTTTATTTTCT
53184800 AATCTACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 5 0.24
25 12 0.57
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTATTCACTCCTTTTATTTTCT
Found at i:53193685 original size:46 final size:46
Alignment explanation
Indices: 53193612--53193783 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
53193602 TAGGGTTTAA
* * * * *
53193612 TATTACTGTATTGTCAAGTCCATAACACATGCAAGAGCTTAGAACC
1 TATTCCTGTATTCTCAAGTCCACAACACATGCATGAGCTTGGAACC
** * *
53193658 TAAACCTGTATTCTCGAGTCCGCAACACATGCATGAGCTTGGAACC
1 TATTCCTGTATTCTCAAGTCCACAACACATGCATGAGCTTGGAACC
* * * *
53193704 TATTCCTGTATTCTCGAGTCCACAACATATGTATGAGCTTGGAACT
1 TATTCCTGTATTCTCAAGTCCACAACACATGCATGAGCTTGGAACC
*
53193750 TATTCTTGTATTCTCAAGTCAGCAACAACACATG
1 TATTCCTGTATTCTCAAGTC--C-ACAACACATG
53193784 TAGGAGCTCA
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
46 95 0.90
48 1 0.01
49 9 0.09
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (46 bp):
TATTCCTGTATTCTCAAGTCCACAACACATGCATGAGCTTGGAACC
Found at i:53196811 original size:18 final size:19
Alignment explanation
Indices: 53196788--53196827 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
53196778 TTCAAGCACC
53196788 GTTTTTAA-TGATTTTTAT
1 GTTTTTAAGTGATTTTTAT
**
53196806 GTTTTTAAGTTTTTTTTAT
1 GTTTTTAAGTGATTTTTAT
53196825 GTT
1 GTT
53196828 AATCTAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.70
Consensus pattern (19 bp):
GTTTTTAAGTGATTTTTAT
Found at i:53197686 original size:68 final size:68
Alignment explanation
Indices: 53197549--53197702 Score: 191
Period size: 68 Copynumber: 2.3 Consensus size: 68
53197539 GCAGATTCTC
* * *
53197549 CACAGCTTGTGTGAGCAACACCATGTAGCTTACATTCCAACCCATAACTCGTGTAAGGAGGCCCG
1 CACAGCTTGTGTGAGCAACACCATGTAGCTTACATTCCAACCCACAACTCGTGTAAGCAGGCCCA
53197614 TTT
66 TTT
* * * * * ***
53197617 CACAGCTTGTGTGAGCTACATCATGTAGCTTACATTTCGACCCACAACTCGTGTGAGCAGTTGCA
1 CACAGCTTGTGTGAGCAACACCATGTAGCTTACATTCCAACCCACAACTCGTGTAAGCAGGCCCA
53197682 TTT
66 TTT
* *
53197685 CATAGCTCGTGTGAGCAA
1 CACAGCTTGTGTGAGCAA
53197703 TGATGTAAAG
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 72 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (68 bp):
CACAGCTTGTGTGAGCAACACCATGTAGCTTACATTCCAACCCACAACTCGTGTAAGCAGGCCCA
TTT
Found at i:53199473 original size:2 final size:2
Alignment explanation
Indices: 53199468--53199523 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
53199458 TTTTTTATTG
*
53199468 CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
53199510 CC CT CT CT CT CT CT
1 CT CT CT CT CT CT CT
53199524 TTTTACTCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:53204219 original size:20 final size:20
Alignment explanation
Indices: 53204158--53204219 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
53204148 TTATAAAGAC
* *
53204158 GTAAGAAAATTATAAAAAAAT
1 GTAAAAAAATTAT-AAAAATT
* **
53204179 GTAAATAAA-TATAAATTTT
1 GTAAAAAAATTATAAAAATT
53204198 GTAAAAAAATTATAAAAATT
1 GTAAAAAAATTATAAAAATT
53204218 GT
1 GT
53204220 TGTACCAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
19 12 0.38
20 13 0.41
21 7 0.22
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (20 bp):
GTAAAAAAATTATAAAAATT
Found at i:53204449 original size:21 final size:21
Alignment explanation
Indices: 53204425--53204490 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
53204415 TGTAAATGAT
*
53204425 TTTTATAAATTTTTTTTCTAA
1 TTTTATAAATTTTTTTTATAA
*
53204446 TTTTA-AATATTTTTTATTAAAA
1 TTTTATAA-ATTTTTT-TTATAA
*
53204468 TTTAAT-AA-TTTTTTTATAA
1 TTTTATAAATTTTTTTTATAA
53204487 TTTT
1 TTTT
53204491 TATTGATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
19 8 0.22
20 7 0.19
21 13 0.35
22 9 0.24
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTATAAATTTTTTTTATAA
Found at i:53204460 original size:20 final size:19
Alignment explanation
Indices: 53204430--53204490 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 19
53204420 ATGATTTTTA
53204430 TAAAT-TTTTTTTCTAATTT
1 TAAATATTTTTTT-TAATTT
*
53204449 TAAATATTTTTTATTAAAATT
1 TAAATATTTTTT-TT-AATTT
53204470 T-AATAATTTTTTTATAATTT
1 TAAAT-ATTTTTTT-TAATTT
53204490 T
1 T
53204491 TATTGATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 5 0.14
20 16 0.46
21 14 0.40
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TAAATATTTTTTTTAATTT
Found at i:53204918 original size:5 final size:5
Alignment explanation
Indices: 53204908--53204932 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
53204898 CTTCGCGTTC
53204908 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
53204933 AGTTTACGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:53206918 original size:91 final size:91
Alignment explanation
Indices: 53206803--53206979 Score: 232
Period size: 90 Copynumber: 1.9 Consensus size: 91
53206793 CAATTGAGTG
* * * * *
53206803 AAAAAAGTCAGGAGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGACTTTTTGATGCACTTTGAA
1 AAAAAAGTCAAGAGCTTAATTGCTTTATTAGAAAAAGTTTGAGGG-CCTTTTAATGCACTTTGAA
* *
53206868 AGTTCAAGTA-CTCAATTGAGTACTAAA
65 AGTTAAAATATC-CAATTGAGTACTAAA
* * *
53206895 AAAAAAGT-AAGAGCTTAATTGCTTTATTAGAAATAGTTTGAGGGCCTTTTAATGTATTTTGAAA
1 AAAAAAGTCAAGAGCTTAATTGCTTTATTAGAAAAAGTTTGAGGGCCTTTTAATGCACTTTGAAA
53206959 GTTAAAATATCCAATTGAGTA
66 GTTAAAATATCCAATTGAGTA
53206980 AAAAGAGTAT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
90 33 0.45
91 33 0.45
92 8 0.11
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.36
Consensus pattern (91 bp):
AAAAAAGTCAAGAGCTTAATTGCTTTATTAGAAAAAGTTTGAGGGCCTTTTAATGCACTTTGAAA
GTTAAAATATCCAATTGAGTACTAAA
Found at i:53207499 original size:17 final size:18
Alignment explanation
Indices: 53207479--53207525 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
53207469 TTAATTCCAA
53207479 TATATATTTTTAAAT-TT
1 TATATATTTTTAAATATT
*
53207496 TATAT-TATTTAAAATATT
1 TATATAT-TTTTAAATATT
53207514 TATATATTTTTA
1 TATATATTTTTA
53207526 CAAATATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 12 0.48
18 11 0.44
19 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATATTTTTAAATATT
Found at i:53207521 original size:20 final size:19
Alignment explanation
Indices: 53207492--53207532 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
53207482 ATATTTTTAA
53207492 ATTTTATATTATTTA-AAAT
1 ATTTTATATT-TTTACAAAT
53207511 ATTTATATATTTTTACAAAT
1 ATTT-TATATTTTTACAAAT
53207531 AT
1 AT
53207533 AATGATATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTATATTTTTACAAAT
Found at i:53208035 original size:17 final size:19
Alignment explanation
Indices: 53207998--53208036 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
53207988 AATCTAGTAT
*
53207998 ATTATTTGTTTTTTATATA
1 ATTATTTGTTCTTTATATA
53208017 ATTATTT-TTCTTT-TATA
1 ATTATTTGTTCTTTATATA
53208034 ATT
1 ATT
53208037 TTTAACCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 5 0.26
19 7 0.37
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (19 bp):
ATTATTTGTTCTTTATATA
Found at i:53209757 original size:15 final size:15
Alignment explanation
Indices: 53209737--53209767 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53209727 GTCATGTAAG
53209737 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
53209752 TGAAAGGTCTAGAGT
1 TGAAAGGTCAAGAGT
53209767 T
1 T
53209768 ATATTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:53209958 original size:17 final size:17
Alignment explanation
Indices: 53209925--53209963 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
53209915 TAAGCTTTTG
53209925 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
53209942 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
53209959 ATTTT
1 ATTTT
53209964 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:53210729 original size:15 final size:15
Alignment explanation
Indices: 53210705--53210734 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53210695 TGGAGATCGA
*
53210705 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
53210720 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
53210735 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:53214115 original size:15 final size:15
Alignment explanation
Indices: 53214095--53214125 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53214085 GTCATGTAAG
53214095 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
53214110 TGAAAGGTCTAGAGT
1 TGAAAGGTCAAGAGT
53214125 T
1 T
53214126 ATATTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:53214316 original size:17 final size:17
Alignment explanation
Indices: 53214283--53214321 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
53214273 TAAGCTTTTG
53214283 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
53214300 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
53214317 ATTTT
1 ATTTT
53214322 CCACAGGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:53219044 original size:75 final size:75
Alignment explanation
Indices: 53218921--53219071 Score: 241
Period size: 75 Copynumber: 2.0 Consensus size: 75
53218911 AAATGAAAAC
* * * *
53218921 TAAGATTATTCCCTTATTAATAGAGAAGACAAATGAAAATTTAGAAAAAGGAATTATATTCTTTC
1 TAAGATTATTCACTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAAGAAATTATATTATTTC
53218986 CAAAAGAATA
66 CAAAAGAATA
*
53218996 TAAGATTATTCACTTATTAATAGAGAAGTCAAATTG-AAAGTTAGAAAAAGAAATTATATTATTT
1 TAAGATTATTCACTTATTAATAGAGAAGACAAA-TGAAAAGTTAGAAAAAGAAATTATATTATTT
53219060 CCAAAAGAATA
65 CCAAAAGAATA
53219071 T
1 T
53219072 TAATTTCCAT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
75 68 0.97
76 2 0.03
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (75 bp):
TAAGATTATTCACTTATTAATAGAGAAGACAAATGAAAAGTTAGAAAAAGAAATTATATTATTTC
CAAAAGAATA
Found at i:53219295 original size:138 final size:138
Alignment explanation
Indices: 53219047--53219603 Score: 850
Period size: 138 Copynumber: 4.0 Consensus size: 138
53219037 TAGAAAAAGA
*
53219047 AATTATATT-ATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTA
1 AATTATATTCA-TTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTA
* *
53219111 ATAAAACTGTTTATATTAATAAATTCGGTAAAATATATACTATTAATATTTTGTATGAATCAAAT
65 ATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
*
53219176 TTATATATT
130 TCATATATT
*
53219185 AATTATATTCATTCCAAAAGAATATTAATTTCCATGTCTTTTGTATTTTGACCAAAATTAATTAA
1 AATTATATTCATTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* *
53219250 TATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
53219315 CATATATT
131 CATATATT
* *
53219323 AATTATATTCTTTCCAAAA-AATATTAATTTCCACGTCTTTTATATTTTGA-CAGAAATTAATTA
1 AATTATATTCATTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCA-AAATTAATTA
* * *
53219386 ATATAATTGTTTATATTAATAAATTCGGTCAAATGTATATACAATTAATATTTTATATGAATCAA
65 ATATAACTGTTTATATTAATAAATTCGGT-AAA-ATATATACAATTAATATTTTGTATGAATCAA
53219451 ATTCATATATT
128 ATTCATATATT
* * * * *
53219462 AACTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTAACCGAAATTAATTAA
1 AATTATATTCATTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* * * * *
53219527 TTTAATTGTTTATATTAATAAATTTGGTAAAATGTATACAATTAATATTTTGTATAAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
53219592 CTTATATT
131 CATATATT
53219600 AATT
1 AATT
53219604 TTATCTATGT
Statistics
Matches: 385, Mismatches: 28, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
136 2 0.01
137 65 0.17
138 190 0.49
139 62 0.16
140 65 0.17
141 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTATATTCATTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:53219559 original size:277 final size:276
Alignment explanation
Indices: 53219047--53219603 Score: 900
Period size: 277 Copynumber: 2.0 Consensus size: 276
53219037 TAGAAAAAGA
* *
53219047 AATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTTGACAGAAATTAATTAA
* *
53219112 TAAAACTGTTTATATTAATAAATTCGGTAAAATATATACTATTAATATTTTGTATGAATCAAATT
66 TAAAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATGAATCAAATT
* * * *
53219177 TATATATTAATTATATTCATTCCAAAAGAATATTAATTTCCATGTCTTTTGTATTTTGACCAAAA
131 CATATATTAACTATATTCATTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCAAAA
*
53219242 TTAATTAATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGA
196 TTAATTAATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATAA
53219307 ATCAAATTCATATATT
261 ATCAAATTCATATATT
*
53219323 AATTATATTCTTTCCAAAA-AATATTAATTTCCACGTCTTTTATATTTTGACAGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTTGACAGAAATTAATTAA
* * *
53219387 TATAATTGTTTATATTAATAAATTCGGTCAAATGTATATACAATTAATATTTTATATGAATCAAA
66 TAAAACTGTTTATATTAATAAATTCGGT-AAA-ATATATACAATTAATATTTTATATGAATCAAA
* * *
53219452 TTCATATATTAACTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTAACCGA
129 TTCATATATTAACTATATTCATTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCAA
* * * *
53219517 AATTAATTAATTTAATTGTTTATATTAATAAATTTGGTAAAATGTATACAATTAATATTTTGTAT
194 AATTAATTAATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTAT
*
53219582 AAATCAAATTCTTATATT
259 AAATCAAATTCATATATT
53219600 AATT
1 AATT
53219604 TTATCTATGT
Statistics
Matches: 258, Mismatches: 21, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
275 69 0.27
276 21 0.08
277 168 0.65
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (276 bp):
AATTATATTATTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTTGACAGAAATTAATTAA
TAAAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATGAATCAAATT
CATATATTAACTATATTCATTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCAAAA
TTAATTAATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATAA
ATCAAATTCATATATT
Found at i:53220978 original size:26 final size:26
Alignment explanation
Indices: 53220949--53220999 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
53220939 AAGAAAAATT
* * *
53220949 AGAATGTTACAATTAAATTAAAAAAA
1 AGAATATTAAAATTAAAATAAAAAAA
53220975 AGAATATTAAAATTAAAATAAAAAA
1 AGAATATTAAAATTAAAATAAAAAA
53221000 TGGATAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (26 bp):
AGAATATTAAAATTAAAATAAAAAAA
Found at i:53223444 original size:29 final size:29
Alignment explanation
Indices: 53223412--53223467 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
53223402 AATGGTGACG
*
53223412 AACAGATTCGGGCTTCAAGGGATGACACA
1 AACAGATTCGGGCTTCAAGGGACGACACA
53223441 AACAGATTCGGGCTTCAAGGGACGACA
1 AACAGATTCGGGCTTCAAGGGACGACA
53223468 ATCTCGACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.29, T:0.16
Consensus pattern (29 bp):
AACAGATTCGGGCTTCAAGGGACGACACA
Found at i:53224351 original size:32 final size:32
Alignment explanation
Indices: 53224310--53224375 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
53224300 ATACCTAGGA
53224310 AAGAATCTGCTTAAATTCCATTTGTCACTACC
1 AAGAATCTGCTTAAATTCCATTTGTCACTACC
*
53224342 AAGAATCTGCTTAAATTTCATTTGTCACTACC
1 AAGAATCTGCTTAAATTCCATTTGTCACTACC
53224374 AA
1 AA
53224376 TCTAAATTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (32 bp):
AAGAATCTGCTTAAATTCCATTTGTCACTACC
Found at i:53227109 original size:28 final size:28
Alignment explanation
Indices: 53227037--53227111 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
53227027 CTAAATATGG
53227037 CACTTAGTGTGCGAAATATTAAGAATGA
1 CACTTAGTGTGCGAAATATTAAGAATGA
* *
53227065 CACTTAGTGTGCCAAATATTGAGAATGA
1 CACTTAGTGTGCGAAATATTAAGAATGA
*
53227093 CACTTAGTGTGTGAAATAT
1 CACTTAGTGTGCGAAATAT
53227112 CGAATGATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTAAGAATGA
Found at i:53233031 original size:16 final size:15
Alignment explanation
Indices: 53233008--53233042 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
53232998 TACTTTAGCC
53233008 ATTTATTTTATTGCA
1 ATTTATTTTATTGCA
*
53233023 ATTTAATTTTATTTCA
1 ATTT-ATTTTATTGCA
53233039 ATTT
1 ATTT
53233043 TGTTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (15 bp):
ATTTATTTTATTGCA
Found at i:53241761 original size:18 final size:18
Alignment explanation
Indices: 53241738--53241784 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
53241728 TAAATTTTTA
*
53241738 TTTATTTTTATTTTTATC
1 TTTATTTTTATTTTTAAC
* *
53241756 TTTATTTATCTTTTTAAC
1 TTTATTTTTATTTTTAAC
53241774 -TTACTTTTTAT
1 TTTA-TTTTTAT
53241785 CCTATTTCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTTATTTTTAAC
Found at i:53243695 original size:21 final size:20
Alignment explanation
Indices: 53243671--53243709 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
53243661 ATAGAAGAGT
*
53243671 AAAAAGAGCGAGAAACGGGCC
1 AAAAAGAGAGA-AAACGGGCC
*
53243692 AAAAATAGAGAAAACGGG
1 AAAAAGAGAGAAAACGGG
53243710 TCAACGTGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.54, C:0.13, G:0.31, T:0.03
Consensus pattern (20 bp):
AAAAAGAGAGAAAACGGGCC
Found at i:53245291 original size:39 final size:39
Alignment explanation
Indices: 53245237--53245314 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
53245227 ATAGAATTTC
53245237 TCGATTTAGCTATAAAGAGAAGTTGAGTTCGTGATTCAT
1 TCGATTTAGCTATAAAGAGAAGTTGAGTTCGTGATTCAT
53245276 TCGATTTAGCTATAAAGAGAAGTTGAGTTCGTGATTCAT
1 TCGATTTAGCTATAAAGAGAAGTTGAGTTCGTGATTCAT
53245315 CAGGCTGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (39 bp):
TCGATTTAGCTATAAAGAGAAGTTGAGTTCGTGATTCAT
Found at i:53246832 original size:28 final size:28
Alignment explanation
Indices: 53246786--53246895 Score: 118
Period size: 28 Copynumber: 4.0 Consensus size: 28
53246776 TTATGTACAG
** *
53246786 CACTTAGTGTGCGGGATA-TCAAATATGA
1 CACTTAGTGTGCGAAATATTCAGA-ATGA
* *
53246814 CACTTAGCGTGCGAAATATTGAGAATGA
1 CACTTAGTGTGCGAAATATTCAGAATGA
* * *
53246842 CACTTAGTGTGCGAGATATTGAGAATGG
1 CACTTAGTGTGCGAAATATTCAGAATGA
53246870 CACTTAGTGTGCGAAATA-TC-GAATGA
1 CACTTAGTGTGCGAAATATTCAGAATGA
53246896 TTCAACAAGC
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.07
27 1 0.01
28 61 0.87
29 3 0.04
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTCAGAATGA
Found at i:53250570 original size:38 final size:39
Alignment explanation
Indices: 53250501--53250666 Score: 216
Period size: 38 Copynumber: 4.3 Consensus size: 39
53250491 GGATGATAAG
*
53250501 GAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAG-CACTATA-TCCGGGCTAAGTCCC
53250541 GAAGGCATTTGTGCTAG-ACTA-ATTCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGCACTATA-TCCGGGCTAAGTCCC
* *
53250579 GAAGGCATTTGTGCAAGTTACTATATCCGGGCT--GTCCC
1 GAAGGCATTTGTGCTAG-CACTATATCCGGGCTAAGTCCC
*
53250617 GAAGGCATTTGTGCGAGCCACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAG-CACTATATCCGGGCTAAGTCCC
53250657 GAAGGCATTT
1 GAAGGCATTT
53250667 AAGCGAGTAG
Statistics
Matches: 117, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
38 72 0.62
40 44 0.38
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (39 bp):
GAAGGCATTTGTGCTAGCACTATATCCGGGCTAAGTCCC
Found at i:53250646 original size:78 final size:77
Alignment explanation
Indices: 53250501--53250666 Score: 239
Period size: 78 Copynumber: 2.1 Consensus size: 77
53250491 GGATGATAAG
* *
53250501 GAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGACTAATTC
1 GAAGGCATTTGTGCAAGTGACTAATTCCGGGCT-AGTCCCGAAGGCATTTGTGCGAGACTAATTC
53250566 CGGGCTAAGTCCC
65 CGGGCTAAGTCCC
*
53250579 GAAGGCATTTGTGCAAGTTACT-ATATCCGGGCT-GTCCCGAAGGCATTTGTGCGAGCCACT-AT
1 GAAGGCATTTGTGCAAGTGACTAAT-TCCGGGCTAGTCCCGAAGGCATTTGTGCGAG--ACTAAT
53250641 ATCCGGGCTAAGTCCC
63 -TCCGGGCTAAGTCCC
53250657 GAAGGCATTT
1 GAAGGCATTT
53250667 AAGCGAGTAG
Statistics
Matches: 81, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
76 21 0.26
77 4 0.05
78 56 0.69
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (77 bp):
GAAGGCATTTGTGCAAGTGACTAATTCCGGGCTAGTCCCGAAGGCATTTGTGCGAGACTAATTCC
GGGCTAAGTCCC
Found at i:53250681 original size:40 final size:40
Alignment explanation
Indices: 53250501--53250700 Score: 211
Period size: 38 Copynumber: 5.1 Consensus size: 40
53250491 GGATGATAAG
*
53250501 GAAGGCATTTGTGCTAG-TGACTA-ATTCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGCT-ACTATA-TCCGGGCTAAGTCCC
*
53250541 GAAGGCATTTGTGCTAG--ACTA-ATTCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGCTACTATA-TCCGGGCTAAGTCCC
* *
53250579 GAAGGCATTTGTGCAAGTTACTATATCCGGGCT--GTCCC
1 GAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCC
*
53250617 GAAGGCATTTGTGCGAGCCACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCC
** * * *
53250657 GAAGGCATTTAAGCGAG-TAGCTATATTC-GGTTAAATCCC
1 GAAGGCATTTGTGCGAGCTA-CTATATCCGGGCTAAGTCCC
53250696 GAAGG
1 GAAGG
53250701 TACTTGGTTT
Statistics
Matches: 144, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
38 72 0.50
39 15 0.10
40 56 0.39
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCC
Found at i:53258421 original size:40 final size:40
Alignment explanation
Indices: 53258366--53258567 Score: 265
Period size: 40 Copynumber: 5.1 Consensus size: 40
53258356 GGATGATAAG
*
53258366 GAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCCC
*
53258406 GAAGGCATTTGTGCTA--GACTA-ATTCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCCC
*
53258444 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCC
53258484 GAAGGCATTTGTGCGAGCT-ACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCCC
* * *
53258524 GAAGGCATTTGAGCGAGT-AGCTATATCC-GGTTAAATCCC
1 GAAGGCATTTGTGCGAGTGA-CTATATCCGGGCTAAGTCCC
53258563 GAAGG
1 GAAGG
53258568 TACTTGGTTT
Statistics
Matches: 152, Mismatches: 5, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
38 37 0.24
39 16 0.11
40 97 0.64
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCC
Found at i:53258495 original size:78 final size:79
Alignment explanation
Indices: 53258366--53258567 Score: 279
Period size: 78 Copynumber: 2.6 Consensus size: 79
53258356 GGATGATAAG
* * *
53258366 GAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGACTA-AT
1 GAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-CTACAT
53258429 -TCCGGGCTAAGTCCC
64 ATCCGGGCTAAGTCCC
53258444 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATA
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTAC-ATA
53258509 TCCGGGCTAAGTCCC
65 TCCGGGCTAAGTCCC
* * *
53258524 GAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 GAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
53258568 TACTTGGTTT
Statistics
Matches: 113, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
77 3 0.03
78 52 0.46
79 19 0.17
80 39 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACATAT
CCGGGCTAAGTCCC
Found at i:53262553 original size:64 final size:64
Alignment explanation
Indices: 53262472--53262655 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
53262462 AGACATTATG
* * *
53262472 ATGTAGCTAGGTCGCATGGGTGATACCATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACCATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
53262536 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACC-A-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
53262601 AA
63 AA
* * * *
53262603 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACCATGTGTACACCATGTAG-ACAAGAGAGC
53262656 CGAACTATAT
Statistics
Matches: 100, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
65 2 0.02
66 20 0.20
67 31 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACCATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53262589 original size:67 final size:64
Alignment explanation
Indices: 53262448--53262601 Score: 182
Period size: 67 Copynumber: 2.3 Consensus size: 64
53262438 CATCATGTGT
* * * *
53262448 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACCATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCATGAGGACACCATG
53262513 TAG
62 TAG
* * *
53262516 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACC-A-TG-AGGACACCATGT
53262581 AG
63 AG
53262583 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
53262602 AACTGGCTAG
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
64 24 0.32
65 4 0.05
66 4 0.05
67 30 0.40
68 13 0.17
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACCATGAGGACACCATGTAG
Found at i:53265880 original size:20 final size:21
Alignment explanation
Indices: 53265855--53265902 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
53265845 GAAAAATAAA
53265855 AAGAAGAAAAGG-AAATTAGG
1 AAGAAGAAAAGGAAAATTAGG
*
53265875 AAGAAG-AAAGGAAAATTGGG
1 AAGAAGAAAAGGAAAATTAGG
*
53265895 AAAAAGAA
1 AAGAAGAA
53265903 GGAAAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 18 0.75
21 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.08
Consensus pattern (21 bp):
AAGAAGAAAAGGAAAATTAGG
Found at i:53265909 original size:20 final size:20
Alignment explanation
Indices: 53265862--53265908 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
53265852 AAAAAGAAGA
*
53265862 AAAGG-AAATTAGGAAGAAG
1 AAAGGAAAATTAGGAAAAAG
*
53265881 AAAGGAAAATTGGGAAAAAG
1 AAAGGAAAATTAGGAAAAAG
53265901 -AAGGAAAA
1 AAAGGAAAA
53265909 AAAGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.62, C:0.00, G:0.30, T:0.09
Consensus pattern (20 bp):
AAAGGAAAATTAGGAAAAAG
Found at i:53272580 original size:37 final size:37
Alignment explanation
Indices: 53272527--53272666 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
53272517 CGAATAGTCC
*
53272527 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
53272564 CCACATGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
53272601 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
53272638 CCACACGTAGTCATCGGGTCTTACTCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
53272667 ATATATTTCC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:53272893 original size:48 final size:48
Alignment explanation
Indices: 53272839--53273338 Score: 901
Period size: 48 Copynumber: 10.4 Consensus size: 48
53272829 GCCGAATCAC
* *
53272839 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
53272887 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
*
53272935 TAGCCATTCGGCTTTACCACGTATCCATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
*
53272983 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
*
53273031 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
*
53273079 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
*
53273127 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
53273175 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
*
53273223 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
* * *
53273271 TAGTCATTCGGCTTTACTACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
53273319 TAGCCATTCGGCTTTACCAC
1 TAGCCATTCGGCTTTACCAC
53273339 ACACATATAT
Statistics
Matches: 441, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 441 1.00
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.35
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAT
Found at i:53277938 original size:35 final size:35
Alignment explanation
Indices: 53277899--53277971 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
53277889 GGTATGTGAT
53277899 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
53277934 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
53277969 ATA
1 ATA
53277972 AAGAATGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTGATCTGACGAGA
Found at i:53279801 original size:40 final size:39
Alignment explanation
Indices: 53279730--53279845 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 39
53279720 TATATAATTA
* ** **
53279730 TTTCCATATAACTGATTCATATAATTGTTTCGTTTATCTGT
1 TTTCC-TATAACTGATTTATATAATCATTTCGCATATCT-T
53279771 TTTCCTATAACTGATTTATATAATCATTTCGCATATCTT
1 TTTCCTATAACTGATTTATATAATCATTTCGCATATCTT
* ** *
53279810 TTTCTATATAACCAATTCT-TATAATCATTTCCCATA
1 TTTC-CTATAACTGATT-TATATAATCATTTCGCATA
53279846 ACCAATTCAT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
39 5 0.08
40 53 0.83
41 6 0.09
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.48
Consensus pattern (39 bp):
TTTCCTATAACTGATTTATATAATCATTTCGCATATCTT
Found at i:53279832 original size:13 final size:13
Alignment explanation
Indices: 53279811--53279862 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
53279801 GCATATCTTT
53279811 TTCTATATAACCAA
1 TTCT-TATAACCAA
* *
53279825 TTCTTATAATCAT
1 TTCTTATAACCAA
**
53279838 TTCCCATAACCAA
1 TTCTTATAACCAA
*
53279851 TTCATATAACCA
1 TTCTTATAACCA
53279863 TTTTGTATAG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
13 26 0.87
14 4 0.13
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.37
Consensus pattern (13 bp):
TTCTTATAACCAA
Found at i:53287831 original size:40 final size:40
Alignment explanation
Indices: 53287757--53288006 Score: 285
Period size: 40 Copynumber: 6.3 Consensus size: 40
53287747 TCTTCGGAAT
* * * * *
53287757 TTAG-CCGGATATAACCACAAGCAGAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
* * *
53287796 TTAGCCCGG-TTATATCAACTCGCACCAA-TGCCTTC-GGTC
1 TTAGCCCGGATAAAATC-ACTAGCA-CAATTGCCTTCGGGTC
53287835 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
* *
53287875 TTAACCCGGATAAAATCACTAGCACAATTGCCTTTGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
* * * * * *
53287915 TTAACCCGGGT-ATAGCAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTC
*
53287955 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
53287995 TTAGCCCGGATA
1 TTAGCCCGGATA
53288007 TCATTCAAAT
Statistics
Matches: 178, Mismatches: 25, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
38 3 0.02
39 36 0.20
40 134 0.75
41 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
Found at i:53287992 original size:120 final size:119
Alignment explanation
Indices: 53287761--53288006 Score: 366
Period size: 119 Copynumber: 2.1 Consensus size: 119
53287751 CGGAATTTAG
* * * * * *
53287761 CCGGATATAACCACAAGCAGAAATGCCTTCGGGTCTTAGCCCGGTTATATCAACTCGCACCAATG
1 CCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATG
*
53287826 CCTTCGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAAC
66 CCTTCGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAAC
* * * * *
53287880 CCGGATAAAATCACTAGCACAATTGCCTTTGGGTCTTAACCCGGGTATAGCAACTTGCACAAATG
1 CCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATG
*
53287945 CCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGC
66 CCTTC-GGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAAC
53288000 CCGGATA
1 CCGGATA
53288007 TCATTCAAAT
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
119 59 0.52
120 54 0.48
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (119 bp):
CCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATG
CCTTCGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAAC
Found at i:53290127 original size:28 final size:28
Alignment explanation
Indices: 53290037--53290186 Score: 223
Period size: 27 Copynumber: 5.4 Consensus size: 28
53290027 ATATTAAGTC
*
53290037 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
53290064 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
53290091 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
53290119 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53290147 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
53290176 CGCACACTTAG
1 CGCACACTTAG
53290187 CGCCAATCTC
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 49 0.43
28 49 0.43
29 16 0.14
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53290140 original size:55 final size:56
Alignment explanation
Indices: 53290037--53290186 Score: 223
Period size: 55 Copynumber: 2.7 Consensus size: 56
53290027 ATATTAAGTC
* *
53290037 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
53290091 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
* * * *
53290147 CGCACACTTAGTGCTGTACAATTTAAACCCGCACACTTAG
1 CGCACACTTAGTGCTATATAA-TCAAACTCGCACACTTAG
53290187 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
54 22 0.25
55 26 0.30
56 23 0.26
57 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (56 bp):
CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:53299521 original size:40 final size:40
Alignment explanation
Indices: 53299395--53299641 Score: 308
Period size: 40 Copynumber: 6.3 Consensus size: 40
53299385 TCTTCGGAAT
* * *
53299395 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
53299434 TTAGCCCGGAT---ATAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
*
53299470 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
53299510 TTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
53299550 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
53299590 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
53299630 TTAGCCCGGATA
1 TTAGCCCGGATA
53299642 TCATTCAAAT
Statistics
Matches: 181, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
36 15 0.08
37 17 0.09
39 25 0.14
40 121 0.67
41 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:53299619 original size:120 final size:116
Alignment explanation
Indices: 53299399--53299641 Score: 378
Period size: 120 Copynumber: 2.1 Consensus size: 116
53299389 CGGAATTTAG
* * *
53299399 CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACTCGCACAAATGCCT
1 CCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATACAACTCGCACAAATGCCT
*
53299464 TCGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAAC
66 TCGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAAC
* * *
53299515 CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATG
1 CCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCC-GG-ATA-CAACTCGCACAAATG
*
53299580 CCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGC
63 CCTTC-GGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAAC
53299635 CCGGATA
1 CCGGATA
53299642 TCATTCAAAT
Statistics
Matches: 115, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
116 37 0.32
117 2 0.02
118 3 0.03
119 19 0.17
120 54 0.47
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (116 bp):
CCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATACAACTCGCACAAATGCCT
TCGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAAC
Found at i:53307008 original size:15 final size:15
Alignment explanation
Indices: 53306988--53307032 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
53306978 TATGATATTG
53306988 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
53307003 TATCTTGGATTTCTC
1 TATCTTGGATTTCTT
*
53307018 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
53307033 AACTCTGGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:53309956 original size:43 final size:43
Alignment explanation
Indices: 53309888--53309969 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
53309878 GAATTAAGCA
53309888 ATCCGAGATCGTTGAGCGGTCTGAGTTCATCATGGATGCTAGC
1 ATCCGAGATCGTTGAGCGGTCTGAGTTCATCATGGATGCTAGC
* * * **
53309931 ATCCGAGCTCGTTGAGTGGTTTGAGTTCATTGTGGATGC
1 ATCCGAGATCGTTGAGCGGTCTGAGTTCATCATGGATGC
53309970 GATGCTTGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (43 bp):
ATCCGAGATCGTTGAGCGGTCTGAGTTCATCATGGATGCTAGC
Found at i:53310418 original size:150 final size:150
Alignment explanation
Indices: 53310147--53310450 Score: 536
Period size: 150 Copynumber: 2.0 Consensus size: 150
53310137 ACGGGTATTG
* * * *
53310147 ATATGTAATGGATGTGATGAAAGTCCCGAGAAGGGCATGTTAGGAGGTATGGTTATATGATATAC
1 ATATGGAATGAATGTGATGAAAGTCCCGAGAAGGGCATGTTAAGAGGTATGATTATATGATATAC
*
53310212 TACGATGAGCACAGGTATGTACGCTAAATTCATGAGTAATACTTTGGTGAATGATGACTTGTGAT
66 TACGATGAGCACAAGTATGTACGCTAAATTCATGAGTAATACTTTGGTGAATGATGACTTGTGAT
*
53310277 GAGGAAGCATCTGTATGTGT
131 GAGGAAGCATATGTATGTGT
*
53310297 ATATGGAATGAATGTGATGAAAGTCCTGAGAAGGGCATGTTAAGAGGTATGATTATATGATATAC
1 ATATGGAATGAATGTGATGAAAGTCCCGAGAAGGGCATGTTAAGAGGTATGATTATATGATATAC
53310362 TACGATGAGCACAAGTATGTACGCTAAATTCATGAGTAATACTTTGGTGAATGATGACTTGTGAT
66 TACGATGAGCACAAGTATGTACGCTAAATTCATGAGTAATACTTTGGTGAATGATGACTTGTGAT
*
53310427 GGGGAAGCATATGTATGTGT
131 GAGGAAGCATATGTATGTGT
53310447 ATAT
1 ATAT
53310451 ATATGATAAA
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
150 146 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (150 bp):
ATATGGAATGAATGTGATGAAAGTCCCGAGAAGGGCATGTTAAGAGGTATGATTATATGATATAC
TACGATGAGCACAAGTATGTACGCTAAATTCATGAGTAATACTTTGGTGAATGATGACTTGTGAT
GAGGAAGCATATGTATGTGT
Found at i:53311959 original size:21 final size:21
Alignment explanation
Indices: 53311933--53311975 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
53311923 GTGAGGGTTT
*
53311933 ATAGTTGACTAAGGCTTGGAA
1 ATAGTTGACCAAGGCTTGGAA
53311954 ATAGTTGACCAAGGCTTGGAA
1 ATAGTTGACCAAGGCTTGGAA
53311975 A
1 A
53311976 ATACCCTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.26
Consensus pattern (21 bp):
ATAGTTGACCAAGGCTTGGAA
Found at i:53324763 original size:17 final size:16
Alignment explanation
Indices: 53324726--53324770 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
53324716 GGCATTATAT
*
53324726 TAAAATAAAAAAATAG
1 TAAAATAACAAAATAG
*
53324742 TAAAATAACAAAATGG
1 TAAAATAACAAAATAG
*
53324758 TGAAAAGAACAAA
1 T-AAAATAACAAA
53324771 GCTTGTCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (16 bp):
TAAAATAACAAAATAG
Found at i:53326742 original size:78 final size:78
Alignment explanation
Indices: 53326597--53326752 Score: 224
Period size: 78 Copynumber: 2.0 Consensus size: 78
53326587 GCATGATATT
* * * *
53326597 TGGAAACATATTCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAACATATCCGGACTTGAGGTCC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAACATATCCGGACCTAAAGTCC
53326662 GCAGGCTTCGTGC
66 GCAGGCTTCGTGC
* * *
53326675 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGG-AATATATCTGGGCCTAAAGTCC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAACATATCCGGACCTAAAGT-C
*
53326739 CGCAGGCTTTGTGC
65 CGCAGGCTTCGTGC
53326753 CAGTAACTGG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
77 14 0.20
78 55 0.80
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (78 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAACATATCCGGACCTAAAGTCC
GCAGGCTTCGTGC
Found at i:53326746 original size:39 final size:39
Alignment explanation
Indices: 53326597--53326718 Score: 226
Period size: 39 Copynumber: 3.1 Consensus size: 39
53326587 GCATGATATT
*
53326597 TGGAAACATATTCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
53326636 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTTCGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
53326675 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
53326714 TGGAA
1 TGGAA
53326719 TATATCTGGG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.23, C:0.24, G:0.31, T:0.22
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
Found at i:53336732 original size:8 final size:8
Alignment explanation
Indices: 53336709--53336746 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
53336699 AAAAATGAAT
53336709 AGAAATGG
1 AGAAATGG
*
53336717 TGGAAATGG
1 -AGAAATGG
53336726 AGAAATGG
1 AGAAATGG
53336734 AGAAATGG
1 AGAAATGG
53336742 A-AAAT
1 AGAAAT
53336747 TAATTGGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 4 0.15
8 16 0.59
9 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.34, T:0.16
Consensus pattern (8 bp):
AGAAATGG
Found at i:53338540 original size:23 final size:23
Alignment explanation
Indices: 53338513--53338558 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
53338503 GTTAACCATA
*
53338513 GTTTAATTGATGATAATGTCCCT
1 GTTTAATTGATGACAATGTCCCT
53338536 GTTTAATTGATGACAATGTCCCT
1 GTTTAATTGATGACAATGTCCCT
53338559 ACATTGTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.41
Consensus pattern (23 bp):
GTTTAATTGATGACAATGTCCCT
Found at i:53343298 original size:19 final size:19
Alignment explanation
Indices: 53343264--53343302 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
53343254 GTTAGAATTA
*
53343264 TTATTCTTAGAAAATAGAAT
1 TTATACTTAGAAAATA-AAT
53343284 TTATACTTA-AAAATAAAT
1 TTATACTTAGAAAATAAAT
53343302 T
1 T
53343303 CTCACTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 8 0.44
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
TTATACTTAGAAAATAAAT
Found at i:53347943 original size:21 final size:21
Alignment explanation
Indices: 53347917--53347969 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
53347907 AGGTAAGGGA
53347917 CACGGGCGTGTCCCCAAAGCC
1 CACGGGCGTGTCCCCAAAGCC
53347938 CACGGGCGTGTCCCCAAAGCC
1 CACGGGCGTGTCCCCAAAGCC
53347959 CACGGGCGTGT
1 CACGGGCGTGT
53347970 GCATTGCCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.17, C:0.40, G:0.32, T:0.11
Consensus pattern (21 bp):
CACGGGCGTGTCCCCAAAGCC
Found at i:53350477 original size:48 final size:48
Alignment explanation
Indices: 53350364--53350694 Score: 237
Period size: 48 Copynumber: 6.9 Consensus size: 48
53350354 ATACTAGGGT
* * * * * **
53350364 TATGAGAGCTAGTGTAAAACCATGTCTGGGACAT-ACATCAGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATATA
* * * * *
53350411 TATGTGAGCCATTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATATA
* * * **
53350459 TATAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATATA
* * * * * * *
53350507 CATGTGGGCTAGTGTCAGACCATGTTTGGAACATGGCATTGGCACCGATA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCA--TATA
* *
53350557 TATGAGAGCTAGTGTAAGACCATGTCTGG-----GGCATTGGCCT-TGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATAT-A
* * * * * * *
53350600 CAT-AGGGGCTAATGTAAGACCATGTTTGGAACATGGCATTGACACCGATA
1 TATGA-GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCA--TATA
* *
53350650 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCAT
53350695 CTTACCCTTT
Statistics
Matches: 215, Mismatches: 55, Indels: 27
0.72 0.19 0.09
Matches are distributed among these distances:
42 2 0.01
43 24 0.11
45 9 0.04
47 28 0.13
48 90 0.42
50 60 0.28
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATATA
Found at i:53350625 original size:93 final size:93
Alignment explanation
Indices: 53350364--53350679 Score: 368
Period size: 93 Copynumber: 3.3 Consensus size: 93
53350354 ATACTAGGGT
* * * * * * *
53350364 TATGAGAGCTAGTGTAAAACCATGTCTGGGACATACATCAGCCTCGATATGTGAGCCATTGTAAG
1 TATGAGAGCTAGTGTAAGACCATGTCTGGG----GCATCGGCCTCGACATGTGGGCTAATGTAAG
* **
53350429 ACCATGTTTGGAACATGGCATCGGCA--TTTA
62 ACCATGTTTGGAACATGGCATTGGCACCGATA
* * *
53350459 TATAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGGGCTAGTGTCA
1 TATGAGAGCTAGTGTAAGACCATGTCT-GG----GGCATCGGCCTCGACATGTGGGCTAATGTAA
53350524 GACCATGTTTGGAACATGGCATTGGCACCGATA
61 GACCATGTTTGGAACATGGCATTGGCACCGATA
* *
53350557 TATGAGAGCTAGTGTAAGACCATGTCTGGGGCATTGGCCTTGACATAG-GGGCTAATGTAAGACC
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGGCATCGGCCTCGACAT-GTGGGCTAATGTAAGACC
*
53350621 ATGTTTGGAACATGGCATTGACACCGATA
65 ATGTTTGGAACATGGCATTGGCACCGATA
*
53350650 TATGAGAGCCAGTGTAAGACCATGTCTGGG
1 TATGAGAGCTAGTGTAAGACCATGTCTGGG
53350680 ACATGGCATC
Statistics
Matches: 194, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
93 86 0.44
94 1 0.01
95 25 0.13
96 51 0.26
97 2 0.01
98 28 0.14
100 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (93 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGGGCATCGGCCTCGACATGTGGGCTAATGTAAGACCA
TGTTTGGAACATGGCATTGGCACCGATA
Found at i:53354170 original size:24 final size:24
Alignment explanation
Indices: 53354143--53354195 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
53354133 CGTGAAGTCA
53354143 TTGTCAATATTTTTGCATTGAATT
1 TTGTCAATATTTTTGCATTGAATT
** *
53354167 TTGTCTGTATTTTTGCATTGGATT
1 TTGTCAATATTTTTGCATTGAATT
53354191 TTGTC
1 TTGTC
53354196 TGCATTTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (24 bp):
TTGTCAATATTTTTGCATTGAATT
Found at i:53354196 original size:24 final size:24
Alignment explanation
Indices: 53354150--53354203 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
53354140 TCATTGTCAA
53354150 TATTTTTGCATTGAATTTTGTCTG
1 TATTTTTGCATTGAATTTTGTCTG
*
53354174 TATTTTTGCATTGGATTTTGTCTG
1 TATTTTTGCATTGAATTTTGTCTG
*
53354198 CATTTT
1 TATTTT
53354204 AGACTTGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.15, C:0.09, G:0.17, T:0.59
Consensus pattern (24 bp):
TATTTTTGCATTGAATTTTGTCTG
Found at i:53354538 original size:20 final size:19
Alignment explanation
Indices: 53354511--53354562 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
53354501 AATTAGAAAA
53354511 AAAATTCAAAATAATTTTC
1 AAAATTCAAAATAATTTTC
* * *
53354530 ATAAGTTCAAAACAATTTTT
1 A-AAATTCAAAATAATTTTC
53354550 AAAATTCAAAATA
1 AAAATTCAAAATA
53354563 TTTATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTC
Found at i:53354754 original size:16 final size:16
Alignment explanation
Indices: 53354735--53354765 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53354725 TTGAAAAAGT
53354735 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
53354751 TTTCAAATTTATATG
1 TTTCAAATATATATG
53354766 CTCTAACATG
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:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:53354880 original size:21 final size:20
Alignment explanation
Indices: 53354827--53354885 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
53354817 AATTTTTTTA
53354827 ATTTAACTCGAA--CAATTTC
1 ATTTAACTC-AACTCAATTTC
* *
53354846 ATTTAATTCGACTCGAATTTC
1 ATTTAACTCAACTC-AATTTC
*
53354867 ATTTCACTCAACTCAATTT
1 ATTTAACTCAACTCAATTT
53354886 GAAAAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 8 0.25
20 6 0.19
21 17 0.53
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTTAACTCAACTCAATTTC
Found at i:53358070 original size:291 final size:291
Alignment explanation
Indices: 53357546--53358114 Score: 1041
Period size: 291 Copynumber: 2.0 Consensus size: 291
53357536 GTACGCACCG
*
53357546 AGCAATGTATAATAAGAAACTCAATTTCTACAAAGGATTTCTAGAGTAATACTTTATAGAATAAT
1 AGCAATGTATAACAAGAAACTCAATTTCTACAAAGGATTTCTAGAGTAATACTTTATAGAATAAT
*
53357611 CTAATAATATTAGAAAATGAAGAAAGGAAAGAAAGAATATTAGAATTTGTTGGTGTATTTTCCAA
66 CTAATAATATTAGAAAATAAAGAAAGGAAAGAAAGAATATTAGAATTTGTTGGTGTATTTTCCAA
*
53357676 ATGAAATCTCATTCCTATTTATAGGAATTTTCATGTCTCTTCATATAGACATCTTTCAATAGGTG
131 ATGAAATCTCATTCCTATTTATAGGAATTTTCATGTCTCTTCATAGAGACATCTTTCAATAGGTG
53357741 TCTTTCTGAATAATAATGTCTTTAAAATAAACACATAATTATTCATTTAATATTATAACTATTTA
196 TCTTTCTGAATAATAATGTCTTTAAAATAAACACATAATTATTCATTTAATATTATAACTATTTA
53357806 AATAATATTATTTAAATAAGTATACGCATTA
261 AATAATATTATTTAAATAAGTATACGCATTA
*
53357837 AGCAATGTATAACAAGAAACTCAATTTTTACAAAGGATTTCT-GCAGTAATACTTTATAGAATAA
1 AGCAATGTATAACAAGAAACTCAATTTCTACAAAGGATTTCTAG-AGTAATACTTTATAGAATAA
* *
53357901 TCTAATAATATTAGAAAATAAAGGAAGGAAATAAAGAATATTAGAATTTGTTGGTGTATTTTCCA
65 TCTAATAATATTAGAAAATAAAGAAAGGAAAGAAAGAATATTAGAATTTGTTGGTGTATTTTCCA
*
53357966 AATGAAATCTCATTCCTATTTATAGGAATTTTCATGTCTCTTTATAGAGACATCTTTCAATAGGT
130 AATGAAATCTCATTCCTATTTATAGGAATTTTCATGTCTCTTCATAGAGACATCTTTCAATAGGT
*
53358031 GTCTTTCTGAATAATAATGTCTTTAAAATAAACACATAATTATTTATTTAATATTATAACTATTT
195 GTCTTTCTGAATAATAATGTCTTTAAAATAAACACATAATTATTCATTTAATATTATAACTATTT
*
53358096 AAATATTATTATTTAAATA
260 AAATAATATTATTTAAATA
53358115 GTTATTATTC
Statistics
Matches: 268, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
290 1 0.00
291 267 1.00
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (291 bp):
AGCAATGTATAACAAGAAACTCAATTTCTACAAAGGATTTCTAGAGTAATACTTTATAGAATAAT
CTAATAATATTAGAAAATAAAGAAAGGAAAGAAAGAATATTAGAATTTGTTGGTGTATTTTCCAA
ATGAAATCTCATTCCTATTTATAGGAATTTTCATGTCTCTTCATAGAGACATCTTTCAATAGGTG
TCTTTCTGAATAATAATGTCTTTAAAATAAACACATAATTATTCATTTAATATTATAACTATTTA
AATAATATTATTTAAATAAGTATACGCATTA
Found at i:53358121 original size:15 final size:14
Alignment explanation
Indices: 53358069--53358123 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
53358059 TAAACACATA
53358069 ATTATTTATTT-AAT
1 ATTA-TTATTTAAAT
53358083 ATTATAACTATTTAAAT
1 ATTAT---TATTTAAAT
53358100 ATTATTATTTAAAT
1 ATTATTATTTAAAT
53358114 AGTTATTATT
1 A-TTATTATT
53358124 CTTTTTCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.03
14 14 0.39
15 8 0.22
16 5 0.14
17 8 0.22
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (14 bp):
ATTATTATTTAAAT
Found at i:53369925 original size:23 final size:22
Alignment explanation
Indices: 53369894--53369939 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
53369884 TCCTTATTCT
53369894 AATATACTAAAAGATAAAAAAA
1 AATATACTAAAAGATAAAAAAA
* * *
53369916 AATATTACTAGAATATAAATAAA
1 AATA-TACTAAAAGATAAAAAAA
53369939 A
1 A
53369940 CTTATCTGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (22 bp):
AATATACTAAAAGATAAAAAAA
Found at i:53373736 original size:19 final size:18
Alignment explanation
Indices: 53373714--53373753 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
53373704 TGAATAAAAC
53373714 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
53373733 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
53373751 TTA
1 TTA
53373754 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Done.