Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 343 of 345
Found at i:102083139 original size:93 final size:93
Alignment explanation
Indices: 102083027--102083197 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
102083017 GCCCATAAGT
** * *
102083027 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCATATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
102083092 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
102083120 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
*
102083185 CGAGTTCGGATGC
66 CGAGCTCGGATGC
102083198 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:102084677 original size:21 final size:21
Alignment explanation
Indices: 102084627--102084680 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
102084617 AAAATAGGGC
* * *
102084627 ACACGCCCATATGGAATGGTA
1 ACACGCCCGTGTGGAAGGGTA
102084648 ACACGCCCGTGTGGAAGGGTA
1 ACACGCCCGTGTGGAAGGGTA
102084669 ACACGCCCGTGT
1 ACACGCCCGTGT
102084681 CCCACACCCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.30, T:0.17
Consensus pattern (21 bp):
ACACGCCCGTGTGGAAGGGTA
Found at i:102090980 original size:14 final size:15
Alignment explanation
Indices: 102090950--102090996 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
102090940 ATAACTTAAA
102090950 TTTAATATTTAAATT
1 TTTAATATTTAAATT
102090965 TTTAATATTT-AATT
1 TTTAATATTTAAATT
**
102090979 TTTCAGCATTTAAATT
1 TTT-AATATTTAAATT
102090995 TT
1 TT
102090997 CAATTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 7 0.25
15 15 0.54
16 6 0.21
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (15 bp):
TTTAATATTTAAATT
Found at i:102091042 original size:13 final size:13
Alignment explanation
Indices: 102091024--102091049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102091014 TAATATTTTT
102091024 ACTTTTATAATAG
1 ACTTTTATAATAG
102091037 ACTTTTATAATAG
1 ACTTTTATAATAG
102091050 GTAGAAACTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
ACTTTTATAATAG
Found at i:102095185 original size:86 final size:87
Alignment explanation
Indices: 102095095--102095254 Score: 304
Period size: 86 Copynumber: 1.9 Consensus size: 87
102095085 TGATTACAAC
102095095 ATCAACTATATTATAATTATAATTATAACCATAATTAATATATTAATAAATAAAATAAAATAA-A
1 ATCAACTATATTATAATTATAATTATAACCATAATTAATATATTAATAAATAAAATAAAATAATA
102095159 ATAATTATAATTATATTGTATG
66 ATAATTATAATTATATTGTATG
*
102095181 ATCAACTATATTATAATTATAATTATAACCATAATTAATATATTAATAAATAAAATAAAATAATT
1 ATCAACTATATTATAATTATAATTATAACCATAATTAATATATTAATAAATAAAATAAAATAATA
102095246 ATAATTATA
66 ATAATTATA
102095255 TTGTATGACA
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
86 63 0.88
87 9 0.12
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.39
Consensus pattern (87 bp):
ATCAACTATATTATAATTATAATTATAACCATAATTAATATATTAATAAATAAAATAAAATAATA
ATAATTATAATTATATTGTATG
Found at i:102095553 original size:26 final size:26
Alignment explanation
Indices: 102095513--102095565 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
102095503 AATTAAAAAA
*
102095513 TTAATTTAATAATTTATCTATTTGAT
1 TTAATTTAATAATTTATCTAATTGAT
*
102095539 TTAATTTAA-ACATTTATTTAATTGAT
1 TTAATTTAATA-ATTTATCTAATTGAT
102095565 T
1 T
102095566 ATATGTTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (26 bp):
TTAATTTAATAATTTATCTAATTGAT
Found at i:102096969 original size:13 final size:13
Alignment explanation
Indices: 102096951--102096976 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102096941 AGCCAAAAGG
102096951 TCTGACTTTTCAC
1 TCTGACTTTTCAC
102096964 TCTGACTTTTCAC
1 TCTGACTTTTCAC
102096977 CATTTTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.08, T:0.46
Consensus pattern (13 bp):
TCTGACTTTTCAC
Found at i:102100307 original size:30 final size:30
Alignment explanation
Indices: 102100273--102100330 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
102100263 TCACACAATT
102100273 GTGTGCCTAGACTGTGTAAGCCACATGGTC
1 GTGTGCCTAGACTGTGTAAGCCACATGGTC
*
102100303 GTGTGCCTAGGCTGTGTAAGCCACATGG
1 GTGTGCCTAGACTGTGTAAGCCACATGG
102100331 CCAGGTGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.19, C:0.22, G:0.33, T:0.26
Consensus pattern (30 bp):
GTGTGCCTAGACTGTGTAAGCCACATGGTC
Found at i:102100934 original size:66 final size:66
Alignment explanation
Indices: 102100858--102100992 Score: 252
Period size: 66 Copynumber: 2.0 Consensus size: 66
102100848 TATTATATGA
*
102100858 GTTTGATTTGAATTTGCATCATTGTATACACATATCTAATATATATTAAATCTACATCTGCATTG
1 GTTTGATTTGAATTTGCATCATTGCATACACATATCTAATATATATTAAATCTACATCTGCATTG
102100923 G
66 G
*
102100924 GTTTGATTTGAATTTGCATCATTGCATACTCATATCTAATATATATTAAATCTACATCTGCATTG
1 GTTTGATTTGAATTTGCATCATTGCATACACATATCTAATATATATTAAATCTACATCTGCATTG
102100989 G
66 G
102100990 GTT
1 GTT
102100993 GGGATTGTGT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (66 bp):
GTTTGATTTGAATTTGCATCATTGCATACACATATCTAATATATATTAAATCTACATCTGCATTG
G
Found at i:102103486 original size:23 final size:23
Alignment explanation
Indices: 102103446--102103490 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
102103436 AAGTCAAAGG
*
102103446 TATTTTTTTTAATTTAAATTTAA
1 TATTTTTTTTAATATAAATTTAA
102103469 TATTTTATTTTAA-ATAAATTTA
1 TATTTT-TTTTAATATAAATTTA
102103491 TTATCACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTTTTTTTAATATAAATTTAA
Found at i:102108629 original size:37 final size:37
Alignment explanation
Indices: 102108579--102108669 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
102108569 GTGTCGTGGT
* *
102108579 GTGTTATCAGTTGGATTAGCT-TTTTGGAACATTTGGC
1 GTGTTATCGGTTGGATTAGCTCTTAT-GAACATTTGGC
* *
102108616 GTGTTATCGGTTGGATTAGCTCTTATGAGCGTTTGGC
1 GTGTTATCGGTTGGATTAGCTCTTATGAACATTTGGC
*
102108653 ATGTT-TCGGTTGGATTA
1 GTGTTATCGGTTGGATTA
102108670 CTTGTGTACT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
36 12 0.25
37 33 0.69
38 3 0.06
ACGTcount: A:0.16, C:0.11, G:0.30, T:0.43
Consensus pattern (37 bp):
GTGTTATCGGTTGGATTAGCTCTTATGAACATTTGGC
Found at i:102112164 original size:33 final size:31
Alignment explanation
Indices: 102112139--102112231 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
102112129 GAGGATTTGC
102112139 TTGAAAAAGTTTGGCCCTTATTTGAGCATTT
1 TTGAAAAAGTTTGGCCCTTATTTGAGCATTT
* ** *
102112170 TTTAAAAAGTTTGGTTCTTATTTGACCA-TT
1 TTGAAAAAGTTTGGCCCTTATTTGAGCATTT
* *
102112200 TTG-AAAAGTTT-GACCTTCATTTGAGCACTT
1 TTGAAAAAGTTTGGCCCTT-ATTTGAGCATTT
102112230 TT
1 TT
102112232 ATAAATGTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 4 0.08
29 16 0.31
30 8 0.15
31 24 0.46
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (31 bp):
TTGAAAAAGTTTGGCCCTTATTTGAGCATTT
Found at i:102112222 original size:60 final size:59
Alignment explanation
Indices: 102112143--102112276 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 59
102112133 ATTTGCTTGA
* * *
102112143 AAAAGTTTGGCCCTTATTTGAGCA-TTTTTTAAAAAGTTTGGTTCT-TAT-TTGACCATTTTG
1 AAAAGTTT-GACCTTATTTGAGCACTTTTAT-AAAAGTTAGG-TCTATATATT-ACCATTTTG
*
102112203 AAAAGTTTGACCTTCATTTGAGCACTTTTATAAATGTTAGGTCTATATATTACCATTTTG
1 AAAAGTTTGACCTT-ATTTGAGCACTTTTATAAAAGTTAGGTCTATATATTACCATTTTG
*
102112263 AAAACTTTGACCTT
1 AAAAGTTTGACCTT
102112277 TATGTTAGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
59 8 0.12
60 50 0.77
61 7 0.11
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.44
Consensus pattern (59 bp):
AAAAGTTTGACCTTATTTGAGCACTTTTATAAAAGTTAGGTCTATATATTACCATTTTG
Found at i:102112674 original size:18 final size:20
Alignment explanation
Indices: 102112636--102112677 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
102112626 ATAAAAATTC
102112636 AAAAATATATAATCTAGAAA
1 AAAAATATATAATCTAGAAA
*
102112656 AAAAATATA-AAT-TATAAA
1 AAAAATATATAATCTAGAAA
102112674 AAAA
1 AAAA
102112678 TTTACAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 3 0.14
20 9 0.43
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAATATATAATCTAGAAA
Found at i:102112784 original size:19 final size:20
Alignment explanation
Indices: 102112741--102112785 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
102112731 CAAAAAAAAG
*
102112741 TAAAAAGTGTAAAAATTATA
1 TAAAAAGTGTAAAAAATATA
* *
102112761 -AAAAAATGTAAAAAATATT
1 TAAAAAGTGTAAAAAATATA
102112780 TAAAAA
1 TAAAAA
102112786 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
TAAAAAGTGTAAAAAATATA
Found at i:102112787 original size:11 final size:11
Alignment explanation
Indices: 102112759--102112791 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
102112749 GTAAAAATTA
*
102112759 TAAAAAA-ATG
1 TAAAAAATATT
102112769 TAAAAAATATT
1 TAAAAAATATT
102112780 TAAAAAATATT
1 TAAAAAATATT
102112791 T
1 T
102112792 TTTTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
TAAAAAATATT
Found at i:102112974 original size:35 final size:33
Alignment explanation
Indices: 102112883--102112976 Score: 88
Period size: 35 Copynumber: 2.8 Consensus size: 33
102112873 AAAATTTTTC
* *
102112883 AATTTTTATATATTAATT-TG-ATTTTTTAAAAA
1 AATTTATATATATT-ATTATGAATTTTATAAAAA
102112915 AATTATAAGTATATATT-TTA-GAATTTTATAAGAAA
1 AATT-T-A-TATATATTATTATGAATTTTATAA-AAA
102112950 AATTTATATATATTACTTATGAATTTT
1 AATTTATATATATTA-TTATGAATTTT
102112977 TACATTTTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
32 12 0.24
33 5 0.10
34 12 0.24
35 22 0.43
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (33 bp):
AATTTATATATATTATTATGAATTTTATAAAAA
Found at i:102113159 original size:20 final size:20
Alignment explanation
Indices: 102113102--102113160 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
102113092 CAATGTTTTC
*
102113102 TAATATTTAATATTTT-AATT
1 TAATATTT-TTATTTTAAATT
* *
102113122 TTATATTTTTAATTTAAATT
1 TAATATTTTTATTTTAAATT
102113142 TAATATTTTTATTTTAAAT
1 TAATATTTTTATTTTAAAT
102113161 AAATCAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TAATATTTTTATTTTAAATT
Found at i:102119426 original size:6 final size:6
Alignment explanation
Indices: 102119415--102119440 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
102119405 TTTCTCAAAT
102119415 TGGAAA TGGAAA TGGAAA TGGAAA TG
1 TGGAAA TGGAAA TGGAAA TGGAAA TG
102119441 ATTCATTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.19
Consensus pattern (6 bp):
TGGAAA
Found at i:102123331 original size:9 final size:8
Alignment explanation
Indices: 102123301--102123330 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
102123291 GAAAATATAC
102123301 TTTATTTT
1 TTTATTTT
102123309 TTTATTTT
1 TTTATTTT
102123317 TTTATCTTT
1 TTTAT-TTT
102123326 TTTAT
1 TTTAT
102123331 CACAAGTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTATTTT
Found at i:102124891 original size:17 final size:18
Alignment explanation
Indices: 102124871--102124908 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
102124861 AATTTTATGA
*
102124871 ATTTTTTTATAA-TTTTT
1 ATTTTATTATAAGTTTTT
102124888 A-TTTATTATAAGTTTTT
1 ATTTTATTATAAGTTTTT
102124905 ATTT
1 ATTT
102124909 AAATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 9 0.50
17 7 0.39
18 2 0.11
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTATTATAAGTTTTT
Found at i:102124909 original size:17 final size:16
Alignment explanation
Indices: 102124877--102124918 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
102124867 ATGAATTTTT
102124877 TTATAATTTTTATTTA
1 TTATAATTTTTATTTA
102124893 TTATAAGTTTTTATTTA
1 TTATAA-TTTTTATTTA
*
102124910 -AATAATTTT
1 TTATAATTTT
102124919 AAATTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 10 0.42
17 10 0.42
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTATAATTTTTATTTA
Found at i:102132937 original size:13 final size:12
Alignment explanation
Indices: 102132901--102132939 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
102132891 TCCCAGAATT
*
102132901 AAAAAAAAAAGG
1 AAAAAAAAAAGA
102132913 AAAAAAAAAAGA
1 AAAAAAAAAAGA
102132925 AAAAAAGAAAAGA
1 AAAAAA-AAAAGA
102132938 AA
1 AA
102132940 TGAAAAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:102133767 original size:4 final size:4
Alignment explanation
Indices: 102133760--102133803 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
102133750 ATCAACCTAC
102133760 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
102133804 ATATATATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
CTAT
Found at i:102133808 original size:2 final size:2
Alignment explanation
Indices: 102133801--102133825 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
102133791 TCTATCTATC
102133801 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
102133826 TAATTTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:102136110 original size:9 final size:9
Alignment explanation
Indices: 102136096--102136133 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
102136086 CTTGGTAGAA
102136096 TAAAAAAAT
1 TAAAAAAAT
102136105 TAAAAAAA-
1 TAAAAAAAT
102136113 T-AAAAAAT
1 TAAAAAAAT
102136121 T-AAAAAAT
1 TAAAAAAAT
102136129 TAAAA
1 TAAAA
102136134 GAGTAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 6 0.22
8 10 0.37
9 11 0.41
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:102136111 original size:8 final size:8
Alignment explanation
Indices: 102136098--102136133 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
102136088 TGGTAGAATA
102136098 AAAAAATT
1 AAAAAATT
*
102136106 AAAAAAAT
1 AAAAAATT
102136114 AAAAAATT
1 AAAAAATT
102136122 AAAAAATT
1 AAAAAATT
102136130 AAAA
1 AAAA
102136134 GAGTAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (8 bp):
AAAAAATT
Found at i:102138441 original size:23 final size:26
Alignment explanation
Indices: 102138389--102138442 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
102138379 ATAGATTTTA
*
102138389 ATTTTAATATATATATCTATTATATT
1 ATTTTAAAATATATATCTATTATATT
*
102138415 -TTTTAAAATATA-AT-TA-TATGTT
1 ATTTTAAAATATATATCTATTATATT
102138437 ATTTTA
1 ATTTTA
102138443 TTAATTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 5 0.20
23 7 0.28
24 2 0.08
25 11 0.44
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTTTAAAATATATATCTATTATATT
Found at i:102139555 original size:43 final size:43
Alignment explanation
Indices: 102139494--102139579 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
102139484 TAGCACTTAA
102139494 CAGTAAAAATGAATGAAATTTTTAACAGAAAAACTAATTTGAT
1 CAGTAAAAATGAATGAAATTTTTAACAGAAAAACTAATTTGAT
*
102139537 CAGTAAAAATGGATGAAATTTTTAACAGAAAAACTAATTTGAT
1 CAGTAAAAATGAATGAAATTTTTAACAGAAAAACTAATTTGAT
102139580 TTTTAATTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (43 bp):
CAGTAAAAATGAATGAAATTTTTAACAGAAAAACTAATTTGAT
Found at i:102139568 original size:24 final size:24
Alignment explanation
Indices: 102139490--102139569 Score: 66
Period size: 25 Copynumber: 3.5 Consensus size: 24
102139480 ATGTTAGCAC
102139490 TTAACAGTAAAAATGAATGAAATTT
1 TTAACAGTAAAAATG-ATGAAATTT
*
102139515 TTAACAG-AAAAA--CT--AA-TT
1 TTAACAGTAAAAATGATGAAATTT
* *
102139533 TGATCAGTAAAAATGGATGAAATTT
1 TTAACAGTAAAAAT-GATGAAATTT
102139558 TTAACAG-AAAAA
1 TTAACAGTAAAAA
102139570 CTAATTTGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 15
0.67 0.10 0.24
Matches are distributed among these distances:
18 7 0.17
19 7 0.17
21 1 0.02
22 1 0.02
24 12 0.29
25 14 0.33
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (24 bp):
TTAACAGTAAAAATGATGAAATTT
Found at i:102143622 original size:48 final size:48
Alignment explanation
Indices: 102143547--102143750 Score: 210
Period size: 48 Copynumber: 4.2 Consensus size: 48
102143537 CACATTATTT
* * * **
102143547 ATCCATAACGTATTTTAGTCGACAGTTTATCTGCTGGACCAATGGTTC
1 ATCCAAAACGTATCTTAGTCGAAAGTTTATCTGCACGACCAATGGTTC
* * ** * * *
102143595 ATCCAAAATGTATTTTAGTCGGGAGTTTATCTGCACGACTAGTTGTTC
1 ATCCAAAACGTATCTTAGTCGAAAGTTTATCTGCACGACCAATGGTTC
* *
102143643 ATCCAAAACGTATCTTAGTCGATAGTTAATCTGCACGACCAATGGTTC
1 ATCCAAAACGTATCTTAGTCGAAAGTTTATCTGCACGACCAATGGTTC
* * * * * * *
102143691 GTCCAAAACATATCTTAGTTGGAATTTTATCTACACGACCAGTGGTTC
1 ATCCAAAACGTATCTTAGTCGAAAGTTTATCTGCACGACCAATGGTTC
*
102143739 ATCCACAACGTA
1 ATCCAAAACGTA
102143751 CTAGCAGCTT
Statistics
Matches: 127, Mismatches: 29, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 127 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (48 bp):
ATCCAAAACGTATCTTAGTCGAAAGTTTATCTGCACGACCAATGGTTC
Found at i:102143720 original size:96 final size:96
Alignment explanation
Indices: 102143547--102143750 Score: 255
Period size: 96 Copynumber: 2.1 Consensus size: 96
102143537 CACATTATTT
* * * ** ** *
102143547 ATCCATAACGTATTTTAGTCGACAGTTTATCTGCTGGACCAATGGTTCATCCAAAATGTATTTTA
1 ATCCAAAACGTATCTTAGTCGACAGTTAATCTGCACGACCAATGGTTCATCCAAAACATATCTTA
* * * *
102143612 GTCGGGAGTTTATCTGCACGACTAGTTGTTC
66 GTCGGAAGTTTATCTACACGACCAGTGGTTC
* *
102143643 ATCCAAAACGTATCTTAGTCGATAGTTAATCTGCACGACCAATGGTTCGTCCAAAACATATCTTA
1 ATCCAAAACGTATCTTAGTCGACAGTTAATCTGCACGACCAATGGTTCATCCAAAACATATCTTA
* *
102143708 GTTGGAATTTTATCTACACGACCAGTGGTTC
66 GTCGGAAGTTTATCTACACGACCAGTGGTTC
*
102143739 ATCCACAACGTA
1 ATCCAAAACGTA
102143751 CTAGCAGCTT
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (96 bp):
ATCCAAAACGTATCTTAGTCGACAGTTAATCTGCACGACCAATGGTTCATCCAAAACATATCTTA
GTCGGAAGTTTATCTACACGACCAGTGGTTC
Found at i:102144501 original size:55 final size:55
Alignment explanation
Indices: 102144390--102144503 Score: 147
Period size: 55 Copynumber: 2.0 Consensus size: 55
102144380 TCCATTCGCA
* * * * *
102144390 TGAGTATTTGAAATAAGGCCACACGGCCGTGTCGTAGGTCGTGTGTCCACCTGTG
1 TGAGTATTCGAAATAAGGCCACACGGCCGCGTCATAGGTCATGTGTCAACCTGTG
* *
102144445 TGAGTATTCGAAATAGGGCCACACTGCCGCGTCATAGGTCATGTGTCAAACCGTGTG
1 TGAGTATTCGAAATAAGGCCACACGGCCGCGTCATAGGTCATGTGTC-AACC-TGTG
102144502 TG
1 TG
102144504 CATTCAATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 41 0.82
56 3 0.06
57 6 0.12
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (55 bp):
TGAGTATTCGAAATAAGGCCACACGGCCGCGTCATAGGTCATGTGTCAACCTGTG
Found at i:102145800 original size:24 final size:25
Alignment explanation
Indices: 102145768--102145816 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
102145758 GATGAGATAC
*
102145768 CAACCTTTTCA-TTGTTATCCTTTT
1 CAACCTTTTCATTTGATATCCTTTT
102145792 CAACCTTTTCATTTGATATCCTTTT
1 CAACCTTTTCATTTGATATCCTTTT
102145817 TCAGATAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.18, C:0.24, G:0.04, T:0.53
Consensus pattern (25 bp):
CAACCTTTTCATTTGATATCCTTTT
Found at i:102145831 original size:42 final size:41
Alignment explanation
Indices: 102145784--102145887 Score: 154
Period size: 41 Copynumber: 2.5 Consensus size: 41
102145774 TTTCATTGTT
102145784 ATCCTTTTCAACCTTTTCATTTGATATCCTTTTTCAGATAAC
1 ATCCTTTTCAACCTTTTCATTTGATATCC-TTTTCAGATAAC
** * * *
102145826 ATCCTTTTCAATGTCTTCATTTGTTATTCTTTTCAGATAAC
1 ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCAGATAAC
102145867 ATCCTTTTCAACCTTTTCATT
1 ATCCTTTTCAACCTTTTCATT
102145888 GATTCAAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
41 30 0.56
42 24 0.44
ACGTcount: A:0.22, C:0.23, G:0.05, T:0.50
Consensus pattern (41 bp):
ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCAGATAAC
Found at i:102146844 original size:24 final size:24
Alignment explanation
Indices: 102146811--102146885 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
102146801 GATGAGAAAC
*
102146811 CAACCTTTTCATTGCTATACTTTT
1 CAACCTTTTCATTGATATACTTTT
* *
102146835 TAACCTTTTCATTGATATCCTTTT
1 CAACCTTTTCATTGATATACTTTT
* **
102146859 CGACCTTTTCATTTGATACCCTTTT
1 CAACCTTTTCA-TTGATATACTTTT
102146884 CA
1 CA
102146886 GATAACATCA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 30 0.70
25 13 0.30
ACGTcount: A:0.20, C:0.25, G:0.05, T:0.49
Consensus pattern (24 bp):
CAACCTTTTCATTGATATACTTTT
Found at i:102146906 original size:41 final size:40
Alignment explanation
Indices: 102146854--102146952 Score: 135
Period size: 41 Copynumber: 2.5 Consensus size: 40
102146844 CATTGATATC
*
102146854 CTTTTCGACCTTTTCATTTGATACCCTTTTCAGATAACAT
1 CTTTTCAACCTTTTCATTTGATACCCTTTTCAGATAACAT
* ** *
102146894 CATTTTCAACCTTTTCATTTGTTATTCTTTTCGGATAACAT
1 C-TTTTCAACCTTTTCATTTGATACCCTTTTCAGATAACAT
*
102146935 CCTTTCAACCTTTTCATT
1 CTTTTCAACCTTTTCATT
102146953 GATTCGAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 17 0.33
41 35 0.67
ACGTcount: A:0.21, C:0.24, G:0.06, T:0.48
Consensus pattern (40 bp):
CTTTTCAACCTTTTCATTTGATACCCTTTTCAGATAACAT
Found at i:102147279 original size:33 final size:33
Alignment explanation
Indices: 102147237--102147304 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
102147227 TTGATTGTTT
102147237 TATTGATCTAAATAATAATTTCTTTCAATGAAA
1 TATTGATCTAAATAATAATTTCTTTCAATGAAA
*
102147270 TATTGATCTAAATAATAATTTCTTTCAATGGAA
1 TATTGATCTAAATAATAATTTCTTTCAATGAAA
102147303 TA
1 TA
102147305 ATTCAAATAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (33 bp):
TATTGATCTAAATAATAATTTCTTTCAATGAAA
Found at i:102147313 original size:30 final size:32
Alignment explanation
Indices: 102147242--102147313 Score: 103
Period size: 33 Copynumber: 2.3 Consensus size: 32
102147232 TGTTTTATTG
*
102147242 ATCTAAATAATAATTTCTTTCAATGAAATATT
1 ATCTAAATAATAATTTCTTTCAATGAAATAAT
*
102147274 GATCTAAATAATAATTTCTTTCAATGGAATAAT
1 -ATCTAAATAATAATTTCTTTCAATGAAATAAT
102147307 -TC-AAATA
1 ATCTAAATA
102147314 CCTTAATATC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 5 0.14
31 2 0.05
33 30 0.81
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (32 bp):
ATCTAAATAATAATTTCTTTCAATGAAATAAT
Found at i:102147596 original size:25 final size:24
Alignment explanation
Indices: 102147568--102147617 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
102147558 AAAAATCACT
102147568 TAAC-AAAATACTTATATCTAACTAC
1 TAACTAAAATA-TTATATC-AACTAC
**
102147593 TAACTTTAATATTATATCAACTAC
1 TAACTAAAATATTATATCAACTAC
102147617 T
1 T
102147618 TCAAAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 7 0.32
25 11 0.50
26 4 0.18
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (24 bp):
TAACTAAAATATTATATCAACTAC
Found at i:102152162 original size:45 final size:45
Alignment explanation
Indices: 102152111--102152233 Score: 183
Period size: 45 Copynumber: 2.7 Consensus size: 45
102152101 TTTACAGATT
* * * *
102152111 AAAGTTGCTAGTATGGTGTGGATAGACCACTCATTGTTGCAAATA
1 AAAGTTGCTAATACGGTGTGGATAAACCACTCATTATTGCAAATA
*
102152156 AAAGTTGCTAATACGGTGTGGATAAACCACTTATTATTGCAAATA
1 AAAGTTGCTAATACGGTGTGGATAAACCACTCATTATTGCAAATA
* *
102152201 AAAGTTGCTAACACAGTGTGGATAAACCACTCA
1 AAAGTTGCTAATACGGTGTGGATAAACCACTCA
102152234 GTGGTTTAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.28
Consensus pattern (45 bp):
AAAGTTGCTAATACGGTGTGGATAAACCACTCATTATTGCAAATA
Found at i:102152643 original size:15 final size:15
Alignment explanation
Indices: 102152623--102152654 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
102152613 TTGTTTTAGT
102152623 GTGCTTTTCATCCTA
1 GTGCTTTTCATCCTA
102152638 GTGCTTTTCATCCTA
1 GTGCTTTTCATCCTA
102152653 GT
1 GT
102152655 TAGCTGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (15 bp):
GTGCTTTTCATCCTA
Found at i:102154916 original size:122 final size:123
Alignment explanation
Indices: 102154698--102154942 Score: 449
Period size: 122 Copynumber: 2.0 Consensus size: 123
102154688 TATGTAAGAA
102154698 CATTAGGAACTTTGAAGTAACATCTTTCCACGTCCTAGCCAGCTGAAACAAATTAAGAAAAAACC
1 CATTAGGAACTTTGAAGTAACATCTTTCCACGTCCTAGCCAGCTGAAACAAATTAAGAAAAAACC
*
102154763 TAATCAGGTTGATGAACTAGTGGAGAGCCAATTATTGGCTGAAAGACTAGTCAATTAT
66 TAATCAGGTTGATGAACTAGTGGAGAGCCAATCATTGGCTGAAAGACTAGTCAATTAT
102154821 CATTAGGAACTTTGAAGTAACATCTTTCCACGTCCTAG-CAGCTGAAACAAATTAAG-AAAAACA
1 CATTAGGAACTTTGAAGTAACATCTTTCCACGTCCTAGCCAGCTGAAACAAATTAAGAAAAAAC-
*
102154884 CTAATCAGGTTGATGAACTCGTGGAGAGCCAATCATTGGCTGAAAGACTAGTCAATTAT
65 CTAATCAGGTTGATGAACTAGTGGAGAGCCAATCATTGGCTGAAAGACTAGTCAATTAT
102154943 GCTTTACTCT
Statistics
Matches: 119, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
121 6 0.05
122 75 0.63
123 38 0.32
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (123 bp):
CATTAGGAACTTTGAAGTAACATCTTTCCACGTCCTAGCCAGCTGAAACAAATTAAGAAAAAACC
TAATCAGGTTGATGAACTAGTGGAGAGCCAATCATTGGCTGAAAGACTAGTCAATTAT
Found at i:102159058 original size:13 final size:13
Alignment explanation
Indices: 102159037--102159068 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
102159027 GCAAAATCCG
102159037 ATTCAATTAAAAA
1 ATTCAATTAAAAA
*
102159050 ATTCGATTAAAAA
1 ATTCAATTAAAAA
102159063 ATTCAA
1 ATTCAA
102159069 ATTTTGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (13 bp):
ATTCAATTAAAAA
Found at i:102163476 original size:113 final size:113
Alignment explanation
Indices: 102163354--102163570 Score: 371
Period size: 113 Copynumber: 1.9 Consensus size: 113
102163344 ATGATTTAAG
*
102163354 GAAAAAAAATGGTAAAAGAGTGAAAAAAATCAACTTAGAGGTTAAGAAACAAGTCTCTCGCACCA
1 GAAAAAAAATGGTAAAAGAGTGAAAAAAATCAACTTAGAGGCTAAGAAACAAGTCTCTCGCACCA
*
102163419 AGGGAAACTTTGAGCTTGCAAAGACGAGAAGAAAAAAGGTAACAGAGT
66 AGGGAAACTTTAAGCTTGCAAAGACGAGAAGAAAAAAGGTAACAGAGT
* **
102163467 GAAAAAAAATGGTAAAAGAGTGAAAAAAATCAACTTGGAGGCTAAGAAACAAGTCTCTCGCGGCA
1 GAAAAAAAATGGTAAAAGAGTGAAAAAAATCAACTTAGAGGCTAAGAAACAAGTCTCTCGCACCA
* *
102163532 AGGGGAACTTTAAGCTTGCAAAGATGAGAAGAAAAAAGG
66 AGGGAAACTTTAAGCTTGCAAAGACGAGAAGAAAAAAGG
102163571 ATTTGGAGAG
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
113 97 1.00
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.16
Consensus pattern (113 bp):
GAAAAAAAATGGTAAAAGAGTGAAAAAAATCAACTTAGAGGCTAAGAAACAAGTCTCTCGCACCA
AGGGAAACTTTAAGCTTGCAAAGACGAGAAGAAAAAAGGTAACAGAGT
Found at i:102163496 original size:20 final size:21
Alignment explanation
Indices: 102163450--102163495 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
102163440 AGACGAGAAG
*
102163450 AAAAAA-GGTAACAGAGTGAA
1 AAAAAATGGTAAAAGAGTGAA
102163470 AAAAAATGGTAAAAGAGTGAA
1 AAAAAATGGTAAAAGAGTGAA
102163491 AAAAA
1 AAAAA
102163496 TCAACTTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.65, C:0.02, G:0.22, T:0.11
Consensus pattern (21 bp):
AAAAAATGGTAAAAGAGTGAA
Found at i:102170266 original size:15 final size:15
Alignment explanation
Indices: 102170248--102170296 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
102170238 TTTATTAAAA
102170248 AATTTATATTTAATT
1 AATTTATATTTAATT
*
102170263 AATTTATATTTATTTT
1 AATTTATATTTA-ATT
*
102170279 AA-TTATA-TTAAAT
1 AATTTATATTTAATT
102170292 AATTT
1 AATTT
102170297 TTTATACAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 17 0.59
16 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTATATTTAATT
Found at i:102188214 original size:14 final size:14
Alignment explanation
Indices: 102188195--102188222 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
102188185 TCCTCTCTCT
102188195 ATATATATTTTTAA
1 ATATATATTTTTAA
102188209 ATATATATTTTTAA
1 ATATATATTTTTAA
102188223 TCCTGAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATATATTTTTAA
Found at i:102188348 original size:21 final size:21
Alignment explanation
Indices: 102188324--102188363 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
102188314 AACAATAAAG
*
102188324 ATATATTTATATTATTTATAT
1 ATATATATATATTATTTATAT
*
102188345 ATATATATATTTTATTTAT
1 ATATATATATATTATTTAT
102188364 TAAAATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATATATATATTATTTATAT
Found at i:102188405 original size:22 final size:23
Alignment explanation
Indices: 102188363--102188405 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
102188353 ATTTTATTTA
102188363 TTAAAATTTTATATATGTTCATC
1 TTAAAATTTTATATATGTTCATC
* *
102188386 TTAATATTTTTTA-ATGTTCA
1 TTAAAATTTTATATATGTTCA
102188406 CATTATAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (23 bp):
TTAAAATTTTATATATGTTCATC
Found at i:102188777 original size:25 final size:25
Alignment explanation
Indices: 102188730--102188777 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
102188720 CCTCTAAATT
* ***
102188730 TTAATATGTATATTTTTTTTGTGAA
1 TTAATACGTATATTTTAAATGTGAA
102188755 TTAATACGTATATTTTAAATGTG
1 TTAATACGTATATTTTAAATGTG
102188778 TATTTTAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.54
Consensus pattern (25 bp):
TTAATACGTATATTTTAAATGTGAA
Found at i:102189038 original size:3 final size:3
Alignment explanation
Indices: 102189014--102189052 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
102189004 GCCAAAAGTC
* *
102189014 TAT TTT TAT TTT TAT T-T TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
102189053 TTACATTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
TAT
Found at i:102192760 original size:21 final size:19
Alignment explanation
Indices: 102192736--102192776 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
102192726 AAATGTATTC
102192736 ATGTTTAAATTATTGTAGATT
1 ATGTTTAAATTA-TGT-GATT
*
102192757 ATGTTTGAATTATGTGATT
1 ATGTTTAAATTATGTGATT
102192776 A
1 A
102192777 ATGAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 3 0.16
21 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (19 bp):
ATGTTTAAATTATGTGATT
Found at i:102194920 original size:22 final size:22
Alignment explanation
Indices: 102194895--102194937 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
102194885 ACATTACATG
*
102194895 TTATGTATCGAGGCAAGGTCTT
1 TTATGTATCGAGACAAGGTCTT
* *
102194917 TTATGTCTCGAGACTAGGTCT
1 TTATGTATCGAGACAAGGTCT
102194938 CAAGACCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (22 bp):
TTATGTATCGAGACAAGGTCTT
Found at i:102200365 original size:11 final size:12
Alignment explanation
Indices: 102200328--102200358 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
102200318 GAAGCAGGGG
*
102200328 AGAAAAAGAGAA
1 AGAAAAAGGGAA
102200340 AGAAAAAGGGAA
1 AGAAAAAGGGAA
102200352 AGAAAAA
1 AGAAAAA
102200359 TGAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGGGAA
Found at i:102201452 original size:18 final size:18
Alignment explanation
Indices: 102201429--102201469 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
102201419 TAATAAAAAA
102201429 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
102201447 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
102201465 AGAAA
1 AGAAA
102201470 AGAAAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:102201979 original size:20 final size:20
Alignment explanation
Indices: 102201956--102201993 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
102201946 GTTATTAAGT
102201956 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
102201976 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
102201994 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:102202204 original size:16 final size:19
Alignment explanation
Indices: 102202165--102202204 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 19
102202155 GGACTTAATT
102202165 ATTATATTATACTATGTAA
1 ATTATATTATACTATGTAA
*
102202184 GTTATATTA-A-T-TGTAA
1 ATTATATTATACTATGTAA
102202200 ATTAT
1 ATTAT
102202205 TCGTAAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
16 9 0.47
17 1 0.05
18 1 0.05
19 8 0.42
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (19 bp):
ATTATATTATACTATGTAA
Found at i:102202924 original size:22 final size:22
Alignment explanation
Indices: 102202899--102202941 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
102202889 ACATTACATG
*
102202899 TTATGTATCGAGGCAAGGTCTT
1 TTATGTATCGAGACAAGGTCTT
* *
102202921 TTATGTCTCGAGACTAGGTCT
1 TTATGTATCGAGACAAGGTCT
102202942 CAAGACCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (22 bp):
TTATGTATCGAGACAAGGTCTT
Found at i:102205720 original size:21 final size:21
Alignment explanation
Indices: 102205694--102205735 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
102205684 ATTTGGTGCT
102205694 AATTAATAATCTATTAAAAAG
1 AATTAATAATCTATTAAAAAG
102205715 AATTAATAATCTATTAAAAAG
1 AATTAATAATCTATTAAAAAG
102205736 CATATATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
AATTAATAATCTATTAAAAAG
Found at i:102211347 original size:1 final size:1
Alignment explanation
Indices: 102211336--102211367 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
102211326 GCTTTAAATG
*
102211336 TTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
102211368 GCAGATATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:102218462 original size:51 final size:51
Alignment explanation
Indices: 102218407--102218535 Score: 168
Period size: 51 Copynumber: 2.5 Consensus size: 51
102218397 ATGATCTTGA
* * *
102218407 AAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTAATCTTAT
1 AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAG
* ** * *
102218458 AAGATATTATTTTATAAGATTACATATCTTAGATAAGATAGGTAATCTTAG
1 AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAG
* *
102218509 AATATATGATTTTATATTCTTAGAGAT
1 AAGATATGATTTTATAATCTTAGAGAT
102218536 TTGATTGTAG
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.43
Consensus pattern (51 bp):
AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAG
Found at i:102223666 original size:51 final size:51
Alignment explanation
Indices: 102223607--102223731 Score: 169
Period size: 51 Copynumber: 2.5 Consensus size: 51
102223597 TCTTGAAAGG
* * *
102223607 TATGATTTTATAATCTTAGAGATCTTAGATATGATATGTAATCTTATAAGA
1 TATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAGAAGA
* ** * *
102223658 TATTATTTTATAAGATTACATATCTTAGATAAGATAGGTAATCTTAGAAGA
1 TATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAGAAGA
*
102223709 TATGATTTTATATTCTTAGAGAT
1 TATGATTTTATAATCTTAGAGAT
102223732 TTGATTGTAG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.43
Consensus pattern (51 bp):
TATGATTTTATAATCTTAGAGATCTTAGATAAGATAGGTAATCTTAGAAGA
Found at i:102226444 original size:21 final size:20
Alignment explanation
Indices: 102226418--102226479 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
102226408 GATTTTCATA
*
102226418 TTTTATAGTATTTATAAGTTT
1 TTTTATAATATTTATAA-TTT
*
102226439 TTTTATAATTTTTATAA-TT
1 TTTTATAATATTTATAATTT
*
102226458 TTATAT-ATA-TTATAATATT
1 TTTTATAATATTTATAAT-TT
102226477 TTT
1 TTT
102226480 GTTTTTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 6 0.18
18 2 0.06
19 11 0.32
21 15 0.44
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTTATAATATTTATAATTT
Found at i:102226450 original size:9 final size:8
Alignment explanation
Indices: 102226438--102226514 Score: 57
Period size: 9 Copynumber: 8.9 Consensus size: 8
102226428 TTTATAAGTT
102226438 TTTTTATAA
1 TTTTTAT-A
102226447 TTTTTATAA
1 TTTTTAT-A
102226456 TTTTATATA
1 TTTT-TATA
*
102226465 TATTATAATA
1 T-TT-TTATA
* *
102226475 TTTTTGTT
1 TTTTTATA
102226483 TTTTTATA
1 TTTTTATA
102226491 -TTTTATA
1 TTTTTATA
102226498 TTTTTAATTA
1 TTTTT-A-TA
102226508 TTTTTAT
1 TTTTTAT
102226515 GGAAAAATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
7 7 0.12
8 13 0.23
9 19 0.34
10 16 0.29
11 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (8 bp):
TTTTTATA
Found at i:102226459 original size:38 final size:35
Alignment explanation
Indices: 102226400--102226514 Score: 103
Period size: 37 Copynumber: 3.2 Consensus size: 35
102226390 CTAAATCATC
* *
102226400 ATTTATTAGATTTTCATATTTTATAGTAT-TTATAAGT
1 ATTT-TTATATTTTTATATTTTATA-TATATTATAA-T
*
102226437 TTTTTTATAATTTTTATAATTTTATATATATTATAAT
1 ATTTTTAT-ATTTTTAT-ATTTTATATATATTATAAT
* *
102226474 ATTTTTGTTTTTTTATATTTTATAT-T-TT-TAATT
1 ATTTTTATATTTTTATATTTTATATATATTATAA-T
102226507 ATTTTTAT
1 ATTTTTAT
102226515 GGAAAAATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
32 3 0.04
33 10 0.15
34 1 0.01
35 9 0.13
36 10 0.15
37 20 0.30
38 14 0.21
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (35 bp):
ATTTTTATATTTTTATATTTTATATATATTATAAT
Found at i:102226477 original size:19 final size:19
Alignment explanation
Indices: 102226415--102226478 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
102226405 TTAGATTTTC
102226415 ATATTTTATAGTAT-TTATA
1 ATATTTTATA-TATATTATA
* * *
102226434 AGT-TTTTTTATA-ATTTTT
1 A-TATTTTATATATATTATA
102226452 ATAATTTTATATATATTATA
1 AT-ATTTTATATATATTATA
102226472 ATATTTT
1 ATATTTT
102226479 TGTTTTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
17 1 0.03
18 6 0.18
19 20 0.59
20 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
ATATTTTATATATATTATA
Found at i:102227871 original size:15 final size:14
Alignment explanation
Indices: 102227853--102227883 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
102227843 CTTCGAGTCC
102227853 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTT-TT
102227868 TTTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
102227882 TT
1 TT
102227884 AAATTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTTCTTTTTTTT
Found at i:102227985 original size:14 final size:14
Alignment explanation
Indices: 102227949--102227987 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
102227939 TTGTTTCACT
* *
102227949 GAAAATGACTTCCG
1 GAAAATGATTTCCA
*
102227963 GAAAATGATTTCTA
1 GAAAATGATTTCCA
102227977 GAAAATGATTT
1 GAAAATGATTT
102227988 ACTTTATAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCA
Found at i:102228532 original size:16 final size:16
Alignment explanation
Indices: 102228501--102228537 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
102228491 ATGTGAATAA
102228501 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
102228517 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
102228533 TATTA
1 TATTA
102228538 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:102234846 original size:69 final size:69
Alignment explanation
Indices: 102234731--102234865 Score: 198
Period size: 69 Copynumber: 2.0 Consensus size: 69
102234721 GCAAAAGTAA
*
102234731 TAGTTTTTGATGTATCAATCTATAGATAGACAAGTCAAATGCTAGTGTGAAAACAACTCTGATGT
1 TAGTTTTTGATGCATCAATCTATAGATAGACAAGTCAAATGCTAGTGTGAAAACAACTCTGATGT
102234796 TGTT
66 TGTT
* * * * ** *
102234800 TAGTTTTTGATGCATCAGTCTATCGATAGATAAGTCAAATGTTAGTGTGTGAACAACTCTGCTGT
1 TAGTTTTTGATGCATCAATCTATAGATAGACAAGTCAAATGCTAGTGTGAAAACAACTCTGATGT
102234865 T
66 T
102234866 TTAACCAGAG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (69 bp):
TAGTTTTTGATGCATCAATCTATAGATAGACAAGTCAAATGCTAGTGTGAAAACAACTCTGATGT
TGTT
Found at i:102236686 original size:19 final size:20
Alignment explanation
Indices: 102236664--102236705 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
102236654 AAACTAAATA
102236664 TAAAAAAATTCAA-TATTTT
1 TAAAAAAATTCAATTATTTT
* *
102236683 TAAAATAATTTAATTATTTT
1 TAAAAAAATTCAATTATTTT
102236703 TAA
1 TAA
102236706 GGTGGAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAAAAAATTCAATTATTTT
Found at i:102240249 original size:14 final size:14
Alignment explanation
Indices: 102240230--102240264 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
102240220 TGTATGAACT
102240230 TTTTATATTTTTAA
1 TTTTATATTTTTAA
* *
102240244 TTTTATTTTTTTAT
1 TTTTATATTTTTAA
102240258 TTTTATA
1 TTTTATA
102240265 AATTTTGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATATTTTTAA
Found at i:102240980 original size:6 final size:6
Alignment explanation
Indices: 102240969--102240995 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
102240959 ATAATTTAAT
102240969 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
102240996 ATATAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:102241027 original size:9 final size:9
Alignment explanation
Indices: 102241013--102241062 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
102241003 TTTATACAAA
*
102241013 TAATTCAGT
1 TAATTCGGT
102241022 TAATTCGGT
1 TAATTCGGT
* *
102241031 TAATTAGGG
1 TAATTCGGT
102241040 TAATTCGGT
1 TAATTCGGT
102241049 TAATTCGGT
1 TAATTCGGT
102241058 TAATT
1 TAATT
102241063 TTATATGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:102249689 original size:12 final size:12
Alignment explanation
Indices: 102249672--102249697 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
102249662 TACATAAGGG
102249672 TTTTTATTTATT
1 TTTTTATTTATT
102249684 TTTTTATTTATT
1 TTTTTATTTATT
102249696 TT
1 TT
102249698 CAAATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTATTTATT
Found at i:102255639 original size:2 final size:2
Alignment explanation
Indices: 102255634--102255659 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
102255624 GATCACACAA
102255634 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
102255660 TAACGTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102256731 original size:22 final size:22
Alignment explanation
Indices: 102256706--102256747 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
102256696 TCCTTCAAAA
102256706 CAAAA-ATTTTAATTTGTATCCT
1 CAAAATATTTTAATTT-TATCCT
*
102256728 CAAAATTTTTTAATTTTATC
1 CAAAATATTTTAATTTTATC
102256748 TTAGTTCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (22 bp):
CAAAATATTTTAATTTTATCCT
Found at i:102264726 original size:3 final size:3
Alignment explanation
Indices: 102264718--102264752 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
102264708 AACAAGATTA
102264718 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
102264753 AGATTTGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:102276399 original size:21 final size:20
Alignment explanation
Indices: 102276375--102276421 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
102276365 ACTTTTAAAA
102276375 CTTTAACTTTCTTTATATATT
1 CTTTAACTTTCTTTATA-ATT
* *
102276396 CTTTAGATTTTTTTTATAATT
1 CTTTA-ACTTTCTTTATAATT
102276417 -TTTAA
1 CTTTAA
102276422 AAGATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 8 0.35
22 10 0.43
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (20 bp):
CTTTAACTTTCTTTATAATT
Found at i:102282379 original size:34 final size:34
Alignment explanation
Indices: 102282336--102282403 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
102282326 AAATATAAGT
*
102282336 AAATAGAATTAATCTATTTAAGGGCATAAAAAGC
1 AAATAGAATTAATCTATTTAAGGACATAAAAAGC
*
102282370 AAATAGAATTAATCTGTTTAAGGACATAAAAAGC
1 AAATAGAATTAATCTATTTAAGGACATAAAAAGC
102282404 TAAGTCCACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (34 bp):
AAATAGAATTAATCTATTTAAGGACATAAAAAGC
Found at i:102294163 original size:23 final size:24
Alignment explanation
Indices: 102294119--102294165 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
102294109 ATTTATCAAC
*
102294119 TTTTGTAATTTTATTATTTTATTA
1 TTTTGTAATTTTATTATATTATTA
102294143 TTTTG-AATTTT-TTATAATTATTA
1 TTTTGTAATTTTATTAT-ATTATTA
102294166 AGTATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (24 bp):
TTTTGTAATTTTATTATATTATTA
Found at i:102294348 original size:23 final size:26
Alignment explanation
Indices: 102294304--102294351 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 26
102294294 ATCGTACACA
*
102294304 AAATTATTTTTTGAGTTTTTCTTTTT
1 AAATTATTTTTTGAGTTGTTCTTTTT
102294330 AAATT-TTTTTT-A-TTGTTCTTTT
1 AAATTATTTTTTGAGTTGTTCTTTT
102294352 AAAAGAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 1 0.05
25 6 0.29
26 5 0.24
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.71
Consensus pattern (26 bp):
AAATTATTTTTTGAGTTGTTCTTTTT
Found at i:102297402 original size:32 final size:34
Alignment explanation
Indices: 102297338--102297403 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 34
102297328 AAGCCCGCCC
*
102297338 ATATTATTTTTAAATTTTTTTAAAAATATTATATT
1 ATATTATTTTTAAA-TTATTTAAAAATATTATATT
* *
102297373 ATATTATTTTT-AA-TATTTAATAATTTTATAT
1 ATATTATTTTTAAATTATTTAAAAATATTATAT
102297404 CTTTTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 15 0.54
34 2 0.07
35 11 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (34 bp):
ATATTATTTTTAAATTATTTAAAAATATTATATT
Found at i:102297426 original size:27 final size:28
Alignment explanation
Indices: 102297362--102297431 Score: 65
Period size: 27 Copynumber: 2.5 Consensus size: 28
102297352 TTTTTTTAAA
* *
102297362 AATATTATATTATATTATTTTTAATATTT
1 AATA-TATTTTATATTATTTTTAATATTG
102297391 AATA-ATTTTATATCT-TTTTTAATTATTG
1 AATATATTTTATAT-TATTTTTAA-TATTG
*
102297419 AA-ATTTTTTATAT
1 AATATATTTTATAT
102297432 AGTATCTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
27 16 0.46
28 15 0.43
29 4 0.11
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (28 bp):
AATATATTTTATATTATTTTTAATATTG
Found at i:102300403 original size:48 final size:48
Alignment explanation
Indices: 102300315--102300410 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
102300305 AAAAAAAATG
102300315 ATAAATCTTTGCGAGCCAAAGTGAGAACATTATTTGGTATGTGCAAAC
1 ATAAATCTTTGCGAGCCAAAGTGAGAACATTATTTGGTATGTGCAAAC
102300363 ATAAATCTTTGCGAGCCAAAGTGAGAACATTATTTGGTATGTGCAAAC
1 ATAAATCTTTGCGAGCCAAAGTGAGAACATTATTTGGTATGTGCAAAC
102300411 TTTACCTTAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (48 bp):
ATAAATCTTTGCGAGCCAAAGTGAGAACATTATTTGGTATGTGCAAAC
Found at i:102303851 original size:25 final size:25
Alignment explanation
Indices: 102303823--102303875 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
102303813 TAGAATAATA
* *
102303823 AATTTTATTATTATGTAGAATTTAT
1 AATTTTATTAATATGTAAAATTTAT
*
102303848 AATTTTTTTAATATGTAAAATTTAT
1 AATTTTATTAATATGTAAAATTTAT
102303873 AAT
1 AAT
102303876 CTTCTTTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (25 bp):
AATTTTATTAATATGTAAAATTTAT
Found at i:102307165 original size:15 final size:15
Alignment explanation
Indices: 102307141--102307172 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
102307131 ATATCTTAAA
*
102307141 TTCAATACTTAATTT
1 TTCAACACTTAATTT
102307156 TTCAACACTTAATTT
1 TTCAACACTTAATTT
102307171 TT
1 TT
102307173 TTAATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (15 bp):
TTCAACACTTAATTT
Found at i:102307258 original size:20 final size:20
Alignment explanation
Indices: 102307233--102307277 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
102307223 TTAATTATAA
102307233 TTAAAAATAAAAT-ATAATT
1 TTAAAAATAAAATAATAATT
* *
102307252 TTTAAAATAAATTAATAATT
1 TTAAAAATAAAATAATAATT
102307272 TTAAAA
1 TTAAAA
102307278 TTTATATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAAAAATAAAATAATAATT
Found at i:102308307 original size:4 final size:4
Alignment explanation
Indices: 102308298--102308336 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
102308288 TCTTTTTCTT
*
102308298 TGTA TGTA TGTA TGTA TGTA CGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
102308337 GTTTAATACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.49
Consensus pattern (4 bp):
TGTA
Found at i:102310122 original size:2 final size:2
Alignment explanation
Indices: 102310115--102310144 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
102310105 CTTCCCTGAT
*
102310115 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
102310145 CGTACAGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:102317046 original size:20 final size:21
Alignment explanation
Indices: 102316992--102317045 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
102316982 ACTTCTACTA
*
102316992 AAAAAAATTAAAATTATTTTTT
1 AAAAAAA-TAAAATTAATTTTT
102317014 AAAAAAATAAAATTAATTTTT
1 AAAAAAATAAAATTAATTTTT
*
102317035 AAAAAACTAAA
1 AAAAAAATAAA
102317046 TAGATGACGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAAAATAAAATTAATTTTT
Found at i:102323245 original size:18 final size:18
Alignment explanation
Indices: 102323222--102323256 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
102323212 CAAGAACAGA
102323222 AAGCATCAAAATAGTTTC
1 AAGCATCAAAATAGTTTC
*
102323240 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
102323257 GACATATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:102324330 original size:22 final size:24
Alignment explanation
Indices: 102324287--102324330 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
102324277 TTTATAATGT
* *
102324287 TATTTTTAAAATATATATTATCTA
1 TATTTATAAAATATATAATATCTA
102324311 TATTTATAAAA-A-ATAATATC
1 TATTTATAAAATATATAATATC
102324331 AAAAAACCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 1 0.06
24 10 0.56
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (24 bp):
TATTTATAAAATATATAATATCTA
Found at i:102326735 original size:17 final size:18
Alignment explanation
Indices: 102326713--102326747 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
102326703 AATAATATTT
102326713 AAAATTCA-AAAAATATA
1 AAAATTCAGAAAAATATA
102326730 AAAATTCAGGAAAAATAT
1 AAAATTCA-GAAAAATAT
102326748 TAGTATGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (18 bp):
AAAATTCAGAAAAATATA
Found at i:102342243 original size:75 final size:75
Alignment explanation
Indices: 102342124--102342295 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
102342114 CATGGCAAAG
** *
102342124 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
102342183 CCATACTGAGC
65 CCATACCGAGC
102342194 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
102342259 CATACCGAGT
66 CATACCGAGC
***
102342269 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
102342296 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:102342262 original size:35 final size:35
Alignment explanation
Indices: 102342127--102342293 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
102342117 GGCAAAGTGT
* **
102342127 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
102342162 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
102342197 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
102342237 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
102342273 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
102342294 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:102342285 original size:36 final size:35
Alignment explanation
Indices: 102342223--102342293 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
102342213 ATTATCAAAT
* *
102342223 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
102342258 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
102342294 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:102345701 original size:53 final size:53
Alignment explanation
Indices: 102345613--102345763 Score: 196
Period size: 53 Copynumber: 2.8 Consensus size: 53
102345603 CTTACACGGT
* *
102345613 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
* *
102345668 TCACATTATACCGATGCCATAGCCTAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
102345721 TCACATTGCATCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
102345764 GCGCACTTAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
52 1 0.01
53 78 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:102347223 original size:22 final size:22
Alignment explanation
Indices: 102347198--102347252 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
102347188 TTAATTTTAA
*
102347198 TATTATGTA-TACTATTATATTT
1 TATTATCTATTACTATTATA-TT
*
102347220 TATTA-CTATTATTATTATATT
1 TATTATCTATTACTATTATATT
*
102347241 TATTATTTATTA
1 TATTATCTATTA
102347253 GCATTAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTATCTATTACTATTATATT
Found at i:102347258 original size:22 final size:22
Alignment explanation
Indices: 102347211--102347270 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
102347201 TATGTATACT
* **
102347211 ATTATATTTTATTA-CTATTATT
1 ATTATA-TTTATTATTTATTAGC
102347233 ATTATATTTATTATTTATTAGC
1 ATTATATTTATTATTTATTAGC
102347255 ATTAGTA-TTATT-TTTA
1 ATTA-TATTTATTATTTA
102347271 CTTAATACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 11 0.33
22 20 0.61
23 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (22 bp):
ATTATATTTATTATTTATTAGC
Found at i:102347407 original size:12 final size:12
Alignment explanation
Indices: 102347380--102347416 Score: 56
Period size: 12 Copynumber: 2.9 Consensus size: 12
102347370 ATATTTTCAA
102347380 TATTATATATATAG
1 TATTAT-TA-ATAG
102347394 TATTATTAATAG
1 TATTATTAATAG
102347406 TATTATTAATA
1 TATTATTAATA
102347417 TTTTTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 15 0.65
13 2 0.09
14 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (12 bp):
TATTATTAATAG
Found at i:102347667 original size:25 final size:25
Alignment explanation
Indices: 102347612--102347684 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 25
102347602 TTTTTAATAC
**
102347612 TATATTTTTAATACCATATATATTGTG
1 TATATTTTTAATA-C-TATATATTGCA
*
102347639 TATATTCTTAATACTATATATTGCA
1 TATATTTTTAATACTATATATTGCA
102347664 TATATTTTTTAATAACTATAT
1 TATA-TTTTTAAT-ACTATAT
102347685 TATGTATACA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.32
26 8 0.20
27 19 0.47
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (25 bp):
TATATTTTTAATACTATATATTGCA
Found at i:102347692 original size:25 final size:24
Alignment explanation
Indices: 102347612--102347773 Score: 86
Period size: 25 Copynumber: 6.6 Consensus size: 24
102347602 TTTTTAATAC
*
102347612 TATA-TTTTTAATACCATATATATTG
1 TATATTTTTTAATACTATAT-TA-TG
* *
102347637 TGTATATTCTTAATACTATA-TATTG
1 TATAT-TTTTTAATACTATATTA-TG
102347662 CATATATTTTTTAATAACTATATTATG
1 --TATATTTTTTAAT-ACTATATTATG
**
102347689 TATACATTTTACATA-TATATTATG
1 TATATTTTTTA-ATACTATATTATG
* * *
102347713 TATATATATTTTAACATTATA-TATA
1 TATAT-T-TTTTAATACTATATTATG
* *
102347738 TATA-TATAT-ATA-TATATTATG
1 TATATTTTTTAATACTATATTATG
102347759 TATATATTTTTAATA
1 TATAT-TTTTTAATA
102347774 TCACGTTATT
Statistics
Matches: 106, Mismatches: 17, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
20 4 0.04
21 9 0.08
22 2 0.02
23 4 0.04
24 16 0.15
25 27 0.25
26 18 0.17
27 24 0.23
28 2 0.02
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
TATATTTTTTAATACTATATTATG
Found at i:102347698 original size:26 final size:24
Alignment explanation
Indices: 102347627--102347774 Score: 85
Period size: 23 Copynumber: 6.2 Consensus size: 24
102347617 TTTTAATACC
* *
102347627 ATATATATTGTGTAT--ATTCTTA
1 ATATATATTATGTATACATTTTTA
* *
102347649 ATACTATA-TATTGCATATATTTTTTA
1 ATA-TATATTA-TGTATACA-TTTTTA
102347675 ATAACTATATTATGTATACA-TTTTA
1 AT-A-TATATTATGTATACATTTTTA
*
102347700 CATATATATTATGTATATATATTTTA
1 -ATATATATTATGTATACAT-TTTTA
* * * * *
102347726 ACAT-TA-TATATATATATATAT-
1 ATATATATTATGTATACATTTTTA
*
102347747 ATATATATTATGTATATATTTTTA
1 ATATATATTATGTATACATTTTTA
102347771 ATAT
1 ATAT
102347775 CACGTTATTC
Statistics
Matches: 99, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
21 3 0.03
22 8 0.08
23 30 0.30
24 20 0.20
25 10 0.10
26 14 0.14
27 12 0.12
28 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (24 bp):
ATATATATTATGTATACATTTTTA
Found at i:102347708 original size:2 final size:2
Alignment explanation
Indices: 102347701--102347765 Score: 59
Period size: 2 Copynumber: 35.0 Consensus size: 2
102347691 TACATTTTAC
* * *
102347701 AT AT AT AT -T AT GT AT AT AT AT -T TT A- AC AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
102347739 AT AT AT AT AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102347766 TTTTAATATC
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
1 5 0.10
2 47 0.90
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (2 bp):
AT
Found at i:102347717 original size:13 final size:13
Alignment explanation
Indices: 102347680--102347765 Score: 62
Period size: 13 Copynumber: 7.2 Consensus size: 13
102347670 TTTTAATAAC
*
102347680 TATATTATGTATA
1 TATATTATATATA
* *
102347693 CAT-TT-TACATA
1 TATATTATATATA
*
102347704 TATATTATGTATA
1 TATATTATATATA
102347717 TATA-T-T-T-TA
1 TATATTATATATA
*
102347726 -ACATTATATATA
1 TATATTATATATA
102347738 TATA-TATATATA
1 TATATTATATATA
*
102347750 TATATTATGTATA
1 TATATTATATATA
102347763 TAT
1 TAT
102347766 TTTTAATATC
Statistics
Matches: 56, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
8 2 0.04
9 3 0.05
10 2 0.04
11 8 0.14
12 19 0.34
13 22 0.39
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (13 bp):
TATATTATATATA
Found at i:102348038 original size:20 final size:22
Alignment explanation
Indices: 102347985--102348045 Score: 74
Period size: 20 Copynumber: 2.9 Consensus size: 22
102347975 ATATTATTTT
*
102347985 TATT-TTATGTACATACTTTTAA
1 TATTATTATGTATATA-TTTTAA
*
102348007 TATTATTATGTATTTATTTTAA
1 TATTATTATGTATATATTTTAA
102348029 TA-TA-TATGTATATATTT
1 TATTATTATGTATATATTT
102348046 ATGTAGTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.34
21 2 0.06
22 12 0.34
23 9 0.26
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (22 bp):
TATTATTATGTATATATTTTAA
Found at i:102348044 original size:24 final size:22
Alignment explanation
Indices: 102348001--102348047 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
102347991 ATGTACATAC
*
102348001 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTATATATTTA
102348023 TTTTAATATATATGTATATATTTA
1 TTTTAATAT-TAT-TATATATTTA
102348047 T
1 T
102348048 GTAGTATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 3 0.14
24 10 0.45
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTTAATATTATTATATATTTA
Found at i:102348128 original size:24 final size:22
Alignment explanation
Indices: 102348085--102348145 Score: 59
Period size: 24 Copynumber: 2.7 Consensus size: 22
102348075 TTCTAATATG
* * *
102348085 TATATACTATGTAAATATTTTAA
1 TATATATTATGTATACATTTT-A
*
102348108 TACTATATTATGTATACATTTTT
1 TA-TATATTATGTATACATTTTA
*
102348131 TATATATTACGTATA
1 TATATATTATGTATA
102348146 TATATATCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 12 0.38
23 4 0.12
24 16 0.50
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.51
Consensus pattern (22 bp):
TATATATTATGTATACATTTTA
Found at i:102348300 original size:25 final size:25
Alignment explanation
Indices: 102348210--102348300 Score: 101
Period size: 25 Copynumber: 3.5 Consensus size: 25
102348200 CTATATTACT
* *
102348210 TTTTTACATATTATCTTATGTATATA
1 TTTTTA-ATACTATATTATGTATATA
*
102348236 TTTTTTAATAACTATATTATGTATGTA
1 -TTTTTAAT-ACTATATTATGTATATA
** *
102348263 TTTTTAACGCTATATTATGTACATA
1 TTTTTAATACTATATTATGTATATA
102348288 TTTTTAATACTAT
1 TTTTTAATACTAT
102348301 GTATATACCT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
25 25 0.46
26 9 0.17
27 20 0.37
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (25 bp):
TTTTTAATACTATATTATGTATATA
Found at i:102354765 original size:18 final size:18
Alignment explanation
Indices: 102354720--102354765 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
102354710 GATGGGAATG
* *
102354720 GGCATAGACACCGGCACC
1 GGCATAGACACAGGCACA
* *
102354738 GGCGTCGACACAGGCACA
1 GGCATAGACACAGGCACA
102354756 GGCATAGACA
1 GGCATAGACA
102354766 TGGGAGTCAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.30, T:0.07
Consensus pattern (18 bp):
GGCATAGACACAGGCACA
Found at i:102357123 original size:20 final size:20
Alignment explanation
Indices: 102357098--102357135 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
102357088 TTGTTATTTT
*
102357098 TTGAAAGTTGAGTGACTGAA
1 TTGAAAGTTAAGTGACTGAA
102357118 TTGAAAGTTAAGTGACTG
1 TTGAAAGTTAAGTGACTG
102357136 TTTTGTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (20 bp):
TTGAAAGTTAAGTGACTGAA
Found at i:102359814 original size:14 final size:14
Alignment explanation
Indices: 102359795--102359830 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
102359785 TAACTTCAAA
*
102359795 ATTTTTAAAAATTT
1 ATTTTTAAAAAATT
102359809 ATTTTTAAAAAATT
1 ATTTTTAAAAAATT
*
102359823 ATATTTAA
1 ATTTTTAA
102359831 TTGATATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTTTAAAAAATT
Found at i:102359819 original size:15 final size:15
Alignment explanation
Indices: 102359795--102359828 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
102359785 TAACTTCAAA
102359795 ATTTTTAAAAATT-T
1 ATTTTTAAAAATTAT
102359809 ATTTTTAAAAAATTAT
1 ATTTTT-AAAAATTAT
102359825 ATTT
1 ATTT
102359829 AATTGATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 7 0.39
16 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTTAAAAATTAT
Found at i:102369988 original size:16 final size:16
Alignment explanation
Indices: 102369967--102369998 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
102369957 TTTAATGAAT
102369967 TTCTTGTATTCTACAA
1 TTCTTGTATTCTACAA
102369983 TTCTTGTATTCTACAA
1 TTCTTGTATTCTACAA
102369999 CTCCTAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (16 bp):
TTCTTGTATTCTACAA
Found at i:102378334 original size:20 final size:21
Alignment explanation
Indices: 102378309--102378349 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
102378299 ATTTAATTAG
*
102378309 TATTTAAATTTATAT-TTTGT
1 TATTTAAATTAATATCTTTGT
*
102378329 TATTTAGATTAATATCTTTGT
1 TATTTAAATTAATATCTTTGT
102378350 ACTAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.61
Consensus pattern (21 bp):
TATTTAAATTAATATCTTTGT
Found at i:102380057 original size:2 final size:2
Alignment explanation
Indices: 102380052--102380076 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
102380042 ATATACATGC
102380052 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
102380077 GGTTTTCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102382501 original size:16 final size:19
Alignment explanation
Indices: 102382452--102382507 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
102382442 TTTTGTCATA
102382452 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
102382472 TAATATAATGTATT-AT-T-T
1 TAATA-AAT-TATTAATATAT
102382490 TAATAAATTATTTAATAT
1 TAATAAATTA-TTAATAT
102382508 TTCAAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 8 0.26
19 1 0.03
20 6 0.19
21 5 0.16
22 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:102382597 original size:15 final size:15
Alignment explanation
Indices: 102382577--102382634 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
102382567 ATTCAATATT
102382577 AATATTTTAATAATA
1 AATATTTTAATAATA
*
102382592 AATATTTATTACAATTATAA
1 AATA-TT-TT--AATAAT-A
*
102382612 AATATATTAATAATA
1 AATATTTTAATAATA
102382627 AATATTTT
1 AATATTTT
102382635 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
15 12 0.35
16 7 0.21
17 2 0.06
18 2 0.06
19 6 0.18
20 5 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Done.