Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 25 of 143
Found at i:7456122 original size:59 final size:59
Alignment explanation
Indices: 7455740--7456136 Score: 312
Period size: 59 Copynumber: 6.7 Consensus size: 59
7455730 AAACTTCTTT
* ** * * *
7455740 AAAATTACATTTTTCACCCTGAAACTTTTAACAATTACA-TTCTGA-CCTCGAAACTTCCA
1 AAAATTACATTTTTGACCCTG-AACTTCCAAAAATTCCATTTTTGACCCT-GAAACTTCCA
* * * *
7455799 AAAATTACA-TTTTGACCCTGAAACTTCAAAAAATT--ATATTTTGTCCCTTAAACTTTCA
1 AAAATTACATTTTTGACCCTG-AACTTCCAAAAATTCCAT-TTTTGACCCTGAAACTTCCA
* * * ** * * *
7455857 AAACTTCCATTTTTAACCCTGAAACTTCTTAAAATTACATTTTT-ACCCCCT-AAATTTCTA
1 AAAATTACATTTTTGACCCTG-AACTTCCAAAAATTCCATTTTTGA--CCCTGAAACTTCCA
* ** ** * * *
7455917 AAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTATATTTTTAACCCTAAAACTTCTA
1 AAAATTACATTTTTGA-CCCTGAACTTCCAAAAATTCCATTTTTGACCCTGAAACTTCCA
* * *
7455977 AAAATTATATTTTT-ACCCTCGAACTTCCAAAAATTCCATTTTTGA-CCTCGAAACTTTCT
1 AAAATTACATTTTTGACCCT-GAACTTCCAAAAATTCCATTTTTGACCCT-GAAACTTCCA
*
7456036 AAAATTACATTTTT-ACCCTCAACCTTCCAAAAATTCCATTTTTGACCCTGAAACTTCCA
1 AAAATTACATTTTTGACCCTGAA-CTTCCAAAAATTCCATTTTTGACCCTGAAACTTCCA
* * *
7456095 AAAATTTCATTTTTGACCAC-GAACTTCCAAGAATACCATTTT
1 AAAATTACATTTTTGACC-CTGAACTTCCAAAAATTCCATTTT
7456137 ACCCCCGAGA
Statistics
Matches: 277, Mismatches: 44, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
56 1 0.00
58 49 0.18
59 145 0.52
60 71 0.26
61 11 0.04
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.37
Consensus pattern (59 bp):
AAAATTACATTTTTGACCCTGAACTTCCAAAAATTCCATTTTTGACCCTGAAACTTCCA
Found at i:7456178 original size:27 final size:27
Alignment explanation
Indices: 7456120--7456181 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
7456110 ACCACGAACT
7456120 TCCAAGAATACCATTTTACCCCCGAGAG
1 TCCAA-AATACCATTTTACCCCCGAGAG
*
7456148 TCCAAAATTACCATTTT-GCCCCGAGCA-
1 TCCAAAA-TACCATTTTACCCCCGAG-AG
7456175 TCCAAAA
1 TCCAAAA
7456182 AGCCTCATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 16 0.52
28 15 0.48
ACGTcount: A:0.34, C:0.32, G:0.11, T:0.23
Consensus pattern (27 bp):
TCCAAAATACCATTTTACCCCCGAGAG
Found at i:7456182 original size:28 final size:28
Alignment explanation
Indices: 7456120--7456182 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
7456110 ACCACGAACT
*
7456120 TCCAAGAATACCATTTTACCCCCGAGAG
1 TCCAAAAATACCATTTTACCCCCGAGAG
* *
7456148 TCCAAAATTACCATTTT-GCCCCGAGCA-
1 TCCAAAAATACCATTTTACCCCCGAG-AG
7456175 TCCAAAAA
1 TCCAAAAA
7456183 GCCTCATTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.35, C:0.32, G:0.11, T:0.22
Consensus pattern (28 bp):
TCCAAAAATACCATTTTACCCCCGAGAG
Found at i:7463526 original size:7 final size:7
Alignment explanation
Indices: 7463514--7463543 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
7463504 CTATCAAATT
7463514 TTAAACC
1 TTAAACC
7463521 TTAAACC
1 TTAAACC
*
7463528 CTAAACC
1 TTAAACC
7463535 TTAAACC
1 TTAAACC
7463542 TT
1 TT
7463544 TATCATCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (7 bp):
TTAAACC
Found at i:7464773 original size:12 final size:12
Alignment explanation
Indices: 7464738--7464777 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
7464728 GAACACGACC
7464738 CGAACCGTTGACT
1 CGAACCGTTGA-T
* *
7464751 TGAATCGTTGAT
1 CGAACCGTTGAT
7464763 CGAACCGTTGAT
1 CGAACCGTTGAT
7464775 CGA
1 CGA
7464778 CCAGATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (12 bp):
CGAACCGTTGAT
Found at i:7467566 original size:109 final size:108
Alignment explanation
Indices: 7467266--7467600 Score: 472
Period size: 110 Copynumber: 3.0 Consensus size: 108
7467256 AAATCAAATT
* *
7467266 GCCTAATTGCTAAAATGAAGAGTAAAACTAAACCTAAAAAAAAAAATCAAAACTCACCAACTTCC
1 GCCTAATTGCTAAAATGGAGAGTAAAACTAAA-CT----TAAAAAATCAAAACTCACCAACTTCC
* * * *
7467331 TAAAACAAGCAGAGAAAAAAGGGAAAATTTTGATTGAATCATATATTTA
61 TAAAACAAACAGAGAAAAAAGGGAAAA-TTTAATCGAATCATATATTCA
* *
7467380 GCCTAATTGCTAAAATGTAGAGTAAAACTAAACTTAAGAAAATCAAAATTCACCAACTTCCTAAA
1 GCCTAATTGCTAAAATGGAGAGTAAAACTAAACTTAA-AAAATCAAAACTCACCAACTTCCTAAA
* *
7467445 ATAAACAGAGAAAAAAGGAGCAAATTTAATCGAATCATATATTCA
65 ACAAACAGAGAAAAAAGG-GAAAATTTAATCGAATCATATATTCA
* *
7467490 GCCTAATTGCTAAAATGGAGAGTAGAATTAAACTTAAAAAATCAAAACTCACCAACTTCCTAAAA
1 GCCTAATTGCTAAAATGGAGAGTAAAACTAAACTTAAAAAATCAAAACTCACCAACTTCCTAAAA
*
7467555 CAAACAGAGAAAAAAGGGATAAATTCAATCGAATCATATATTCA
66 CAAACAGAGAAAAAAGGGA-AAATTTAATCGAATCATATATTCA
7467599 GC
1 GC
7467601 ATAAGCAAAA
Statistics
Matches: 202, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
108 1 0.00
109 70 0.35
110 94 0.47
111 4 0.02
113 2 0.01
114 31 0.15
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (108 bp):
GCCTAATTGCTAAAATGGAGAGTAAAACTAAACTTAAAAAATCAAAACTCACCAACTTCCTAAAA
CAAACAGAGAAAAAAGGGAAAATTTAATCGAATCATATATTCA
Found at i:7479723 original size:73 final size:73
Alignment explanation
Indices: 7479635--7479790 Score: 285
Period size: 73 Copynumber: 2.1 Consensus size: 73
7479625 GTGTTTAAAT
*
7479635 TTCGGTTAAACAACCGAACTAATTCGATTAATCGAATTAATTTAATCGAAGTCGGTTAATCATTT
1 TTCGGTTAACCAACCGAACTAATTCGATTAATCGAATTAATTTAATCGAAGTCGGTTAATCATTT
7479700 TTTGAAAG
66 TTTGAAAG
* *
7479708 TTCGGTTAACCAACCGAATTAATTCGATTAATCGAATTAATTTGATCGAAGTCGGTTAATCATTT
1 TTCGGTTAACCAACCGAACTAATTCGATTAATCGAATTAATTTAATCGAAGTCGGTTAATCATTT
7479773 TTTGAAAG
66 TTTGAAAG
7479781 TTCGGTTAAC
1 TTCGGTTAAC
7479791 GGTTAATTCG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 80 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (73 bp):
TTCGGTTAACCAACCGAACTAATTCGATTAATCGAATTAATTTAATCGAAGTCGGTTAATCATTT
TTTGAAAG
Found at i:7481293 original size:17 final size:17
Alignment explanation
Indices: 7481271--7481304 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7481261 TTATATATGA
7481271 ATTTGGTAATTAAATTT
1 ATTTGGTAATTAAATTT
**
7481288 ATTTGGTCTTTAAATTT
1 ATTTGGTAATTAAATTT
7481305 GGAGTTCATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (17 bp):
ATTTGGTAATTAAATTT
Found at i:7482955 original size:6 final size:6
Alignment explanation
Indices: 7482935--7482979 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
7482925 TTTAATTGAT
* *
7482935 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AC TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
7482980 TCAAATTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 8 0.24
6 25 0.76
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:7482957 original size:17 final size:17
Alignment explanation
Indices: 7482935--7482978 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
7482925 TTTAATTGAT
*
7482935 TTTAAATTTATTTTAAA
1 TTTAAATTTACTTTAAA
7482952 TTTAAATTTACTTTAAA
1 TTTAAATTTACTTTAAA
7482969 TTTAAATTTA
1 TTTAAATTTA
7482979 ATCAAATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAAATTTACTTTAAA
Found at i:7484843 original size:29 final size:29
Alignment explanation
Indices: 7484796--7484927 Score: 149
Period size: 30 Copynumber: 4.4 Consensus size: 29
7484786 AAACTACCCA
* *
7484796 AAAATTATATTTTGACCCTAAAACTTTTT
1 AAAATTACATTTTGACCCCAAAACTTTTT
* *
7484825 GAAAATTACATTTT-ACCCTAAAACTTTCTA
1 -AAAATTACATTTTGACCCCAAAACTTT-TT
** *
7484855 AAAATTACATTTCAACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTT-T
*
7484885 AAAATTATATTTTGACCCCAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTT-T
7484915 AAAATTACATTTT
1 AAAATTACATTTT
7484928 TCCCCTGATT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
29 26 0.29
30 63 0.71
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCAAAACTTTTT
Found at i:7484947 original size:89 final size:88
Alignment explanation
Indices: 7484796--7484970 Score: 214
Period size: 89 Copynumber: 2.0 Consensus size: 88
7484786 AAACTACCCA
* *
7484796 AAAATTATATTTTGACCCTAAAACTTTTTGAAAATTACATTTTACCCTAAAACTTTCTAAAAATT
1 AAAATTATATTTTGACCCCAAAACTTTTTGAAAATTACATTTTACCCT-AAACTTTCCAAAAATT
7484861 A-CATTTCAACCCCAAAACTTTTCC
65 ACCATTT-AACCCCAAAACTTTTCC
* *
7484885 AAAATTATATTTTGACCCCAAAACTTTTCT-AAAATTACATTTTTCCCCT-GA-TTTCACCAAAA
1 AAAATTATATTTTGACCCCAAAACTTTT-TGAAAATTACA-TTTTACCCTAAACTTT--CCAAAA
* *
7484947 ATTACCATTTTACCCCTAAACTTT
62 ATTACCATTTAACCCCAAAACTTT
7484971 CTAAAATCCC
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
87 3 0.04
88 1 0.01
89 57 0.76
90 14 0.19
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (88 bp):
AAAATTATATTTTGACCCCAAAACTTTTTGAAAATTACATTTTACCCTAAACTTTCCAAAAATTA
CCATTTAACCCCAAAACTTTTCC
Found at i:7484998 original size:59 final size:60
Alignment explanation
Indices: 7484934--7485374 Score: 650
Period size: 59 Copynumber: 7.5 Consensus size: 60
7484924 TTTTTCCCCT
*
7484934 GATTTCACCAAAAATTACCATTTTACCCCT-AAACTTTCTAAAATCCCATTTTTAACC-C
1 GATTTCACCAAAAATTACCATTTTACCCCTCAAACTTTCCAAAATCCCATTTTTAACCTC
* * *
7484992 TAATTTCACCAAAAATTACCATTTTA-CCCTCGAACTTTCCAAAATCCCATTTTTAACCCC
1 -GATTTCACCAAAAATTACCATTTTACCCCTCAAACTTTCCAAAATCCCATTTTTAACCTC
7485052 GATTTCACCAAAAATTACCATTTTA-CCCTCAAACTTTCCAAAATCCCATTTTTAACCTC
1 GATTTCACCAAAAATTACCATTTTACCCCTCAAACTTTCCAAAATCCCATTTTTAACCTC
7485111 GATTTCACCAAAAATTACCATTTTACCCC-CAAACTTTCCAAAATCCCATTTTTAACCTC
1 GATTTCACCAAAAATTACCATTTTACCCCTCAAACTTTCCAAAATCCCATTTTTAACCTC
* *
7485170 GATTTCACCAAAAATTACCATTTTA-CCCTCGAACTTTCCAAAATTCCA-TTTTAACCTC
1 GATTTCACCAAAAATTACCATTTTACCCCTCAAACTTTCCAAAATCCCATTTTTAACCTC
* *
7485228 GATTTCATCAAAAATTACCATTTTACCCC-CAAACTTTCCAAAATTCCATTTTTAACCTC
1 GATTTCACCAAAAATTACCATTTTACCCCTCAAACTTTCCAAAATCCCATTTTTAACCTC
** * * *
7485287 GATTTCACCAAAAATTAATATTTTA-CCCTCAAATTTTCCAAAATTCCC-TTTTTGACCCC
1 GATTTCACCAAAAATTACCATTTTACCCCTCAAACTTTCCAAAA-TCCCATTTTTAACCTC
* * *
7485346 GATTTCACCGAAAGTTACCATTTTGCCCC
1 GATTTCACCAAAAATTACCATTTTACCCC
7485375 CGTGAGTCCA
Statistics
Matches: 351, Mismatches: 22, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
58 62 0.18
59 279 0.79
60 10 0.03
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (60 bp):
GATTTCACCAAAAATTACCATTTTACCCCTCAAACTTTCCAAAATCCCATTTTTAACCTC
Found at i:7485056 original size:118 final size:118
Alignment explanation
Indices: 7484885--7485375 Score: 672
Period size: 118 Copynumber: 4.2 Consensus size: 118
7484875 AAACTTTTCC
* * * **
7484885 AAAATTA-TATTTTGACCCCAAAACTTTTCTAAAATTACATTTTT--CCCCTGATTTCACCAAAA
1 AAAATTACCATTTT-ACCCCCAAAC-TTTCCAAAATCCCATTTTTAACCCC-GATTTCACCAAAA
* *
7484947 ATTACCATTTTACCC-CTAAACTTTCTAAAATCCCATTTTTAACC-CTAATTTCACCA
63 ATTACCATTTTACCCTC-AAACTTTCCAAAATCCCATTTTTAACCTC-GATTTCACCA
* *
7485003 AAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
7485068 ACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCA
66 ACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCA
*
7485121 AAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
* * *
7485186 ACCATTTTACCCTCGAACTTTCCAAAATTCCA-TTTTAACCTCGATTTCATCA
66 ACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCA
* *
7485238 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
** * * * *
7485303 AATATTTTACCCTCAAATTTTCCAAAATTCCC-TTTTTGACCCCGATTTCACCG
66 ACCATTTTACCCTCAAACTTTCCAAAA-TCCCATTTTTAACCTCGATTTCACCA
* *
7485356 AAAGTTACCATTTTGCCCCC
1 AAAATTACCATTTTACCCCC
7485376 GTGAGTCCAA
Statistics
Matches: 339, Mismatches: 27, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
117 122 0.36
118 206 0.61
119 11 0.03
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (118 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
ACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCA
Found at i:7485263 original size:176 final size:176
Alignment explanation
Indices: 7484885--7485369 Score: 699
Period size: 176 Copynumber: 2.7 Consensus size: 176
7484875 AAACTTTTCC
* * * * **
7484885 AAAATTA-TATTTTGACCCCAAAACTTTTCTAAAATTACATTTTTCCCCT-GATTTCACCAAAAA
1 AAAATTACCATTTT-ACCCCCAAAC-TTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAA
* * *
7484948 TTACCATTTTACCCCTAAACTTTCTAAAATCCCATTTTTAACCCTAATTTCACCAAAAATTACCA
64 TTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCC-GATTTCACCAAAAATTACCA
7485013 TTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
128 TTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* *
7485062 AAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
7485127 ACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACCATT
66 ACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACC-CGATTTCACCAAAAATTACCATT
* * *
7485192 TTACCCTCGAACTTTCCAAAATTCCA-TTTTAACCTCGATTTCATCA
130 TTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
7485238 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
** * * * * *
7485303 AATATTTTACCCTCAAATTTTCCAAAATTCCC-TTTTTGACCCCGATTTCACCGAAAGTTACCAT
66 ACCATTTTACCCCCAAACTTTCCAAAA-TCCCATTTTT-AACCCGATTTCACCAAAAATTACCAT
7485367 TTT
129 TTT
7485370 GCCCCCGTGA
Statistics
Matches: 280, Mismatches: 23, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
176 151 0.54
177 123 0.44
178 6 0.02
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (176 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
ACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCGATTTCACCAAAAATTACCATTT
TACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
Found at i:7492016 original size:17 final size:17
Alignment explanation
Indices: 7491984--7492015 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7491974 CATATTTAAA
7491984 ATTATAAAAAATAAAAT
1 ATTATAAAAAATAAAAT
7492001 ATTAT-AAAAATAAAA
1 ATTATAAAAAATAAAA
7492016 AAACAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
ATTATAAAAAATAAAAT
Found at i:7492104 original size:16 final size:17
Alignment explanation
Indices: 7492067--7492121 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
7492057 AAATGTGTAA
*
7492067 AAAAAT-AAAAATTATT
1 AAAAATGAAAAAATATT
*
7492083 ATAAATGAAAAAATA-T
1 AAAAATGAAAAAATATT
7492099 AAAAATTGAAAAAA-ATT
1 AAAAA-TGAAAAAATATT
7492116 GAAAAA
1 -AAAAA
7492122 AATCAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 11 0.34
17 16 0.50
18 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAAATGAAAAAATATT
Found at i:7492112 original size:10 final size:10
Alignment explanation
Indices: 7492099--7492124 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7492089 GAAAAAATAT
7492099 AAAAATTGAA
1 AAAAATTGAA
7492109 AAAAATTGAA
1 AAAAATTGAA
7492119 AAAAAT
1 AAAAAT
7492125 CAGTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (10 bp):
AAAAATTGAA
Found at i:7492168 original size:28 final size:29
Alignment explanation
Indices: 7492128--7492192 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
7492118 AAAAAATCAG
**
7492128 TTTCTATAATTTTTGTAA-TTTTAATGAT
1 TTTCTATAATTTTTAAAATTTTTAATGAT
7492156 TTTCTATAATTTTTAAAATTTTTAATGAT
1 TTTCTATAATTTTTAAAATTTTTAATGAT
*
7492185 TTTATATA
1 TTTCTATA
7492193 TAAATCTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 16 0.48
29 17 0.52
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (29 bp):
TTTCTATAATTTTTAAAATTTTTAATGAT
Found at i:7493823 original size:2 final size:2
Alignment explanation
Indices: 7493816--7493841 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7493806 TGTTCAGGAG
7493816 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
7493842 GTTTTTACTT
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:7495090 original size:4 final size:4
Alignment explanation
Indices: 7495081--7495110 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
7495071 ACATGCCTAC
7495081 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
7495111 AATAATATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:7495438 original size:21 final size:21
Alignment explanation
Indices: 7495414--7495454 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7495404 TTGTTATCCT
7495414 TGCTGTCA-ATGGCAATGGCAA
1 TGCTG-CACATGGCAATGGCAA
*
7495435 TGCTGCACATGGCATTGGCA
1 TGCTGCACATGGCAATGGCA
7495455 CTGGCACTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (21 bp):
TGCTGCACATGGCAATGGCAA
Found at i:7496711 original size:31 final size:29
Alignment explanation
Indices: 7496676--7496741 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
7496666 ATTAAAATTA
*
7496676 TACATGAATTATAGTTTAATGTACAATTGTT
1 TACATGAATTATAATTT--TGTACAATTGTT
* * * *
7496707 TACATAAATTTTAATTTTGTGCAGTTGTT
1 TACATGAATTATAATTTTGTACAATTGTT
7496736 TACATG
1 TACATG
7496742 CTTTTCGAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
29 15 0.52
31 14 0.48
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.47
Consensus pattern (29 bp):
TACATGAATTATAATTTTGTACAATTGTT
Found at i:7507422 original size:7 final size:7
Alignment explanation
Indices: 7507378--7507405 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
7507368 ATTATACTTG
7507378 TTAAAAA
1 TTAAAAA
7507385 TTAAAAA
1 TTAAAAA
7507392 TTAAAAA
1 TTAAAAA
7507399 TTAAAAA
1 TTAAAAA
7507406 AGCTTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:7507677 original size:24 final size:25
Alignment explanation
Indices: 7507631--7507678 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
7507621 GTAACTAATA
7507631 TAATTTTACCATTAATTAATATATT
1 TAATTTTACCATTAATTAATATATT
* *
7507656 TAATTTTACTA-TAATTATTATAT
1 TAATTTTACCATTAATTAATATAT
7507679 CCATTTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (25 bp):
TAATTTTACCATTAATTAATATATT
Found at i:7514930 original size:31 final size:31
Alignment explanation
Indices: 7514893--7514957 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
7514883 TAAAATGATT
*
7514893 ATTAAATTATTTAAAAGTTTTCATTTAAGTC
1 ATTAAATTATTTAAAAGTTTTCATTCAAGTC
* *
7514924 ATTAAATTATTTGAAAGTTTTTATTCAAGTC
1 ATTAAATTATTTAAAAGTTTTCATTCAAGTC
7514955 ATT
1 ATT
7514958 GGAAGATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (31 bp):
ATTAAATTATTTAAAAGTTTTCATTCAAGTC
Found at i:7516781 original size:30 final size:30
Alignment explanation
Indices: 7516747--7516845 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 30
7516737 AAGCTCCAGA
*
7516747 GGTCAAATCAGAAGTTTCGGAAAATTTGGG
1 GGTCAAATCAGAAGTTTCGGAAAATTTAGG
* ** * *
7516777 GGTCATATTGGAATTTTTGGAAAATTTAGG
1 GGTCAAATCAGAAGTTTCGGAAAATTTAGG
* * **
7516807 GGTCAAAAT-TGAAATTTTTAGAAAATTTAGG
1 GGTC-AAATCAG-AAGTTTCGGAAAATTTAGG
7516838 GGTCAAAT
1 GGTCAAAT
7516846 TAAATTTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
30 33 0.57
31 25 0.43
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.33
Consensus pattern (30 bp):
GGTCAAATCAGAAGTTTCGGAAAATTTAGG
Found at i:7516855 original size:30 final size:30
Alignment explanation
Indices: 7516766--7516893 Score: 147
Period size: 31 Copynumber: 4.3 Consensus size: 30
7516756 AGAAGTTTCG
* * * *
7516766 GAAAATTTGGGGGTCATATTGGAATTTTTG
1 GAAAATTTAGGGGTCAAATTGAAATTTTTA
7516796 GAAAATTTAGGGGTCAAAATTGAAATTTTTA
1 GAAAATTTAGGGGTC-AAATTGAAATTTTTA
7516827 GAAAATTTAGGGGTCAAATT-AAATTTTTTTA
1 GAAAATTTAGGGGTCAAATTGAAA--TTTTTA
7516858 -AAAATTTA-GGGTCAAATTTG-AATTTTTA
1 GAAAATTTAGGGGTCAAA-TTGAAATTTTTA
*
7516886 AAAAATTT
1 GAAAATTT
7516894 GAAAGTCAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
28 6 0.07
29 18 0.20
30 31 0.35
31 33 0.38
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (30 bp):
GAAAATTTAGGGGTCAAATTGAAATTTTTA
Found at i:7516903 original size:30 final size:28
Alignment explanation
Indices: 7516767--7516893 Score: 119
Period size: 30 Copynumber: 4.2 Consensus size: 28
7516757 GAAGTTTCGG
* * **
7516767 AAAATTTGGGGGTCATATTGGAATTTTTGG
1 AAAATTT-AGGGTCAAATT-GAATTTTTAA
*
7516797 AAAATTTAGGGGTCAAAATTGAAATTTTTAG
1 AAAATTTA-GGGTC-AAATTG-AATTTTTAA
* *
7516828 AAAATTTAGGGGTCAAATTAAATTTTTTTA
1 AAAATTTA-GGGTCAAATTGAA-TTTTTAA
7516858 AAAATTTAGGGTCAAATTTGAATTTTTAA
1 AAAATTTAGGGTCAAA-TTGAATTTTTAA
7516887 AAAATTT
1 AAAATTT
7516894 GAAAGTCAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
29 23 0.27
30 35 0.42
31 26 0.31
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.40
Consensus pattern (28 bp):
AAAATTTAGGGTCAAATTGAATTTTTAA
Found at i:7518370 original size:45 final size:45
Alignment explanation
Indices: 7518301--7518402 Score: 152
Period size: 45 Copynumber: 2.3 Consensus size: 45
7518291 TTCTTGTAGC
*
7518301 TTCAATTTGCCCCTCTATAACTTTAGGGGT-AAAAGATTGGATTAT
1 TTCAATTTGCCCCTCTATAACTTTAGGAGTAAAAAG-TTGGATTAT
* *
7518346 TTCAATTTGCCCCTCTATAGCTTTAGGAGTAAAAAGTTGGATTGT
1 TTCAATTTGCCCCTCTATAACTTTAGGAGTAAAAAGTTGGATTAT
*
7518391 TTCAATCTGCCC
1 TTCAATTTGCCC
7518403 TATAGTCGGG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 47 0.90
46 5 0.10
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (45 bp):
TTCAATTTGCCCCTCTATAACTTTAGGAGTAAAAAGTTGGATTAT
Found at i:7518576 original size:50 final size:50
Alignment explanation
Indices: 7518481--7518604 Score: 131
Period size: 50 Copynumber: 2.5 Consensus size: 50
7518471 CCTTGTGACT
* * * * * *
7518481 TCAAACTGCCCCTCTACAGCTTTAGGTGAATGAAATTCACTATTGCGGCT
1 TCAATCTGCCCCTCTACAGCTTTAAGTAAATGAAATTCACCATTGCGACG
* * **
7518531 TCATTCTGCCCCTCTACAGCTTTAAGTAAATGAGATTTGCCATTGCGACG
1 TCAATCTGCCCCTCTACAGCTTTAAGTAAATGAAATTCACCATTGCGACG
* **
7518581 TCAATCCGTTCCTCTACAGCTTTA
1 TCAATCTGCCCCTCTACAGCTTTA
7518605 GGGGTATAGG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (50 bp):
TCAATCTGCCCCTCTACAGCTTTAAGTAAATGAAATTCACCATTGCGACG
Found at i:7518765 original size:39 final size:40
Alignment explanation
Indices: 7518657--7518785 Score: 165
Period size: 39 Copynumber: 3.3 Consensus size: 40
7518647 TAACTTTAAT
* *
7518657 GGTAAAAGATTAGATTGCTTCAATCTG-CCTCACGGTCAA
1 GGTAAAAGATTAGATTGCTTCAATCTGCCCTCATGGTCAG
* * *
7518696 GGTAAAAGATCTGGATTACTTCAATCTGCCCTC-TGGTTAG
1 GGTAAAAGAT-TAGATTGCTTCAATCTGCCCTCATGGTCAG
* *
7518736 GGTAAAAGATTTGATGGCTTCAATCTGCCC-CATGGTCAG
1 GGTAAAAGATTAGATTGCTTCAATCTGCCCTCATGGTCAG
7518775 GGTAAAAGATT
1 GGTAAAAGATT
7518786 CGAAGTTGTA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 44 0.56
40 29 0.37
41 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (40 bp):
GGTAAAAGATTAGATTGCTTCAATCTGCCCTCATGGTCAG
Found at i:7518938 original size:50 final size:50
Alignment explanation
Indices: 7518840--7518984 Score: 150
Period size: 50 Copynumber: 2.9 Consensus size: 50
7518830 TCATCTTTGT
* * * * * *
7518840 GACTTCAATCTACCCCTTTACAGCTTTAGGTGAATGAGATTCGCCATTGC
1 GACTTCATTCTGCCCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTGC
7518890 -AGCTTCATTCTGCCCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTGC
1 GA-CTTCATTCTGCCCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTGC
* * * * **
7518940 GACTTTAATT-TGCACCTCCACAGCTTTAGGAGTAAAAGATTTGTC
1 GAC-TTCATTCTGCCCCTCTACAGCTTTAGGTGTATGAGATTTGTC
7518985 GTTCTATCGC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
49 1 0.01
50 73 0.91
51 6 0.08
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (50 bp):
GACTTCATTCTGCCCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTGC
Found at i:7530744 original size:30 final size:29
Alignment explanation
Indices: 7530681--7530849 Score: 209
Period size: 29 Copynumber: 5.7 Consensus size: 29
7530671 AAATCAAAAG
* * * *
7530681 TTTTAGAAAATTTAGGAGTTAAATTGGAA
1 TTTTTGAAAATTTAGGGGTCAAATTTGAA
7530710 TTTTTGAAAATTTAGGGGTCAAATTTGAAA
1 TTTTTGAAAATTTAGGGGTCAAATTTG-AA
7530740 TTTTTGGAAAATTTAGGGGT-AATATTTGAA
1 TTTTT-GAAAATTTAGGGGTCAA-ATTTGAA
7530770 TTTTTAGAAAATTT-GGGGTCAAATTTGAA
1 TTTTT-GAAAATTTAGGGGTCAAATTTGAA
*
7530799 TTTTTGAAATATTTA-AGGTCAAATTTGAA
1 TTTTTGAAA-ATTTAGGGGTCAAATTTGAA
*
7530828 TTTTTGAAAAATTTAGAGGTCA
1 TTTTTG-AAAATTTAGGGGTCA
7530850 GAATATAATT
Statistics
Matches: 126, Mismatches: 6, Indels: 15
0.86 0.04 0.10
Matches are distributed among these distances:
28 4 0.03
29 68 0.54
30 35 0.28
31 19 0.15
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (29 bp):
TTTTTGAAAATTTAGGGGTCAAATTTGAA
Found at i:7530750 original size:60 final size:57
Alignment explanation
Indices: 7530681--7530849 Score: 214
Period size: 60 Copynumber: 2.9 Consensus size: 57
7530671 AAATCAAAAG
* *
7530681 TTTTAGAAAATTTAGGAGTTAAATTGGAATTTTTGAAAATTTAGGGGTCAAATTTGAAA
1 TTTTTGAAAATTTAGG-GTTAAATTTGAATTTTTGAAAATTTAGGGGTCAAATTTG-AA
*
7530740 TTTTTGGAAAATTTAGGGGTAATATTTGAATTTTTAGAAAATTT-GGGGTCAAATTTGAA
1 TTTTT-GAAAATTTAGGGTTAA-ATTTGAATTTTT-GAAAATTTAGGGGTCAAATTTGAA
* * *
7530799 TTTTTGAAATATTTAAGGTCAAATTTGAATTTTTGAAAAATTTAGAGGTCA
1 TTTTTGAAA-ATTTAGGGTTAAATTTGAATTTTTG-AAAATTTAGGGGTCA
7530850 GAATATAATT
Statistics
Matches: 97, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
57 1 0.01
58 23 0.24
59 30 0.31
60 35 0.36
61 8 0.08
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (57 bp):
TTTTTGAAAATTTAGGGTTAAATTTGAATTTTTGAAAATTTAGGGGTCAAATTTGAA
Found at i:7531805 original size:10 final size:10
Alignment explanation
Indices: 7531776--7531808 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
7531766 TTATTTATTT
*
7531776 AATAAATAAT
1 AATAAATAAA
7531786 AATAAATAAA
1 AATAAATAAA
7531796 AATAAATAAA
1 AATAAATAAA
7531806 AAT
1 AAT
7531809 TTGAATTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AATAAATAAA
Found at i:7535929 original size:30 final size:30
Alignment explanation
Indices: 7535869--7536054 Score: 180
Period size: 30 Copynumber: 6.2 Consensus size: 30
7535859 AAAAAAACCA
* * ** *
7535869 GGTCAAACTTGAATTTTTAGAAGCTCTAGG
1 GGTCAAATTTGAATTTTTGGAAAATTTAGG
*** *
7535899 GGTCAAATCAAAAGTTTTGGAAAATTTAGG
1 GGTCAAATTTGAATTTTTGGAAAATTTAGG
* * *
7535929 GGTTAAAATTGAAATTTTTGAAAAATTTAGG
1 GGTCAAATTTG-AATTTTTGGAAAATTTAGG
* *
7535960 GGT-AATATTTGAATTTTTAGAAAATTT-TG
1 GGTCAA-ATTTGAATTTTTGGAAAATTTAGG
*
7535989 GGTCAAATTTGAATTTTTGGAAAATTGA-G
1 GGTCAAATTTGAATTTTTGGAAAATTTAGG
* *
7536018 GGTCAAATTTGAATTTTTGAAAAATTTAGA
1 GGTCAAATTTGAATTTTTGGAAAATTTAGG
7536048 GGTCAAA
1 GGTCAAA
7536055 ACATAAATTT
Statistics
Matches: 126, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
29 50 0.40
30 52 0.41
31 24 0.19
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (30 bp):
GGTCAAATTTGAATTTTTGGAAAATTTAGG
Found at i:7535998 original size:29 final size:28
Alignment explanation
Indices: 7535913--7536054 Score: 151
Period size: 29 Copynumber: 4.8 Consensus size: 28
7535903 AAATCAAAAG
* * *
7535913 TTTTGGAAAATTTAGGGGTTAAAATTGAAA
1 TTTTTGAAAATTTA-GGGTCAAATTTG-AA
7535943 TTTTTGAAAAATTTAGGGGT-AATATTTGAA
1 TTTTTG-AAAATTTA-GGGTCAA-ATTTGAA
*
7535973 TTTTTAGAAAATTTTGGGTCAAATTTGAA
1 TTTTT-GAAAATTTAGGGTCAAATTTGAA
*
7536002 TTTTTGGAAAATTGAGGGTCAAATTTGAA
1 TTTTT-GAAAATTTAGGGTCAAATTTGAA
7536031 TTTTTGAAAAATTTAGAGGTCAAA
1 TTTTTG-AAAATTTAG-GGTCAAA
7536055 ACATAAATTT
Statistics
Matches: 99, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.01
29 50 0.51
30 30 0.30
31 18 0.18
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.40
Consensus pattern (28 bp):
TTTTTGAAAATTTAGGGTCAAATTTGAA
Found at i:7537004 original size:10 final size:10
Alignment explanation
Indices: 7536975--7537007 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
7536965 TTATTTATTT
*
7536975 AATAAATAAT
1 AATAAATAAA
7536985 AATAAATAAA
1 AATAAATAAA
7536995 AATAAATAAA
1 AATAAATAAA
7537005 AAT
1 AAT
7537008 TTGAATTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AATAAATAAA
Found at i:7540127 original size:26 final size:27
Alignment explanation
Indices: 7540098--7540148 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
7540088 AGTTTAGCAT
* * *
7540098 TGCTTTTGAGAAATG-TTTTTAAAATG
1 TGCTTTGGAAAAATGATTTTGAAAATG
7540124 TGCTTTGGAAAAATGATTTTGAAAA
1 TGCTTTGGAAAAATGATTTTGAAAA
7540149 ATACTTTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (27 bp):
TGCTTTGGAAAAATGATTTTGAAAATG
Found at i:7543632 original size:30 final size:29
Alignment explanation
Indices: 7543536--7543641 Score: 86
Period size: 30 Copynumber: 3.4 Consensus size: 29
7543526 GCGTAATCTT
**
7543536 AAAATAATAAATTTTTAATTTAGAGATTTTTTA
1 AAAATAATAAAAATTTAATTTA-A-A--TTTTA
* * *
7543569 ATTAATAATAATAAAATTACATTTTAATTTTA
1 A-AAATAATAA-AAATTTA-ATTTAAATTTTA
7543601 AAAATAATAAAAATTTAATTTAAACTTTTA
1 AAAATAATAAAAATTTAATTTAAA-TTTTA
*
7543631 AAAATTATAAA
1 AAAATAATAAA
7543642 GATATAAATT
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
29 6 0.10
30 21 0.35
31 8 0.13
32 6 0.10
33 1 0.02
34 9 0.15
35 5 0.08
36 4 0.07
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
AAAATAATAAAAATTTAATTTAAATTTTA
Found at i:7547427 original size:22 final size:20
Alignment explanation
Indices: 7547397--7547437 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
7547387 TGATGTGGAA
7547397 TATTTTTAAAGAAATCTAATT
1 TATTTTTAAA-AAATCTAATT
*
7547418 TATTATTTAAATAATCTAAT
1 TATT-TTTAAAAAATCTAAT
7547438 AAAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
TATTTTTAAAAAATCTAATT
Found at i:7547522 original size:20 final size:20
Alignment explanation
Indices: 7547483--7547524 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7547473 ATACATTAGA
*
7547483 TTAAAAAAATAACTGTTAAT
1 TTAAAAAAATAAATGTTAAT
7547503 TTAAATAAAATAAATG-TAAT
1 TTAAA-AAAATAAATGTTAAT
7547523 TT
1 TT
7547525 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAAAAAAATAAATGTTAAT
Found at i:7549204 original size:17 final size:15
Alignment explanation
Indices: 7549182--7549215 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
7549172 TTCATACTAT
7549182 TTCATTTTCATTATAAA
1 TTCATTTTC-TTA-AAA
7549199 TTCATTTTCTTAAAA
1 TTCATTTTCTTAAAA
7549214 TT
1 TT
7549216 AAATAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 3 0.18
17 9 0.53
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (15 bp):
TTCATTTTCTTAAAA
Found at i:7549668 original size:12 final size:13
Alignment explanation
Indices: 7549651--7549687 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
7549641 ATCATTAATA
7549651 AATAAACGAG-TT
1 AATAAACGAGCTT
*
7549663 AATAAATGAGCTT
1 AATAAACGAGCTT
7549676 -ATAAACGAGCTT
1 AATAAACGAGCTT
7549688 GTTCATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 20 0.91
13 2 0.09
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (13 bp):
AATAAACGAGCTT
Found at i:7556948 original size:9 final size:10
Alignment explanation
Indices: 7556930--7556958 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
7556920 CATTTCTCTT
7556930 TTTCTATTCA
1 TTTCTATTCA
7556940 TTT-TATTCA
1 TTTCTATTCA
7556949 TTTCTATTCA
1 TTTCTATTCA
7556959 AACATGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTCTATTCA
Found at i:7561507 original size:77 final size:77
Alignment explanation
Indices: 7561411--7561568 Score: 228
Period size: 77 Copynumber: 2.1 Consensus size: 77
7561401 CTTCAAACCA
*
7561411 ATTGCATCAATAAGACACTTCACTTGC-CGCAACGATCCTCAAGTGTACACTCTAGCTCATTGCC
1 ATTGCATCAATAAGACACTTCACTTGCTC-CAACAATCCTCAAGTGTACACTCTAGCTCATTGCC
* * *
7561475 TGTAGGAGCCTTC
65 TATAGCAACCTTC
* * * *
7561488 ATTGCCTCAATAGGACACTTCACTTGCTCTAACAATCCTCAAGTGTACACTCTAGCTCGTTGCCT
1 ATTGCATCAATAAGACACTTCACTTGCTCCAACAATCCTCAAGTGTACACTCTAGCTCATTGCCT
7561553 ATAGCAACCTTC
66 ATAGCAACCTTC
7561565 ATTG
1 ATTG
7561569 GTTCCAGCAG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
77 71 0.99
78 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (77 bp):
ATTGCATCAATAAGACACTTCACTTGCTCCAACAATCCTCAAGTGTACACTCTAGCTCATTGCCT
ATAGCAACCTTC
Found at i:7564446 original size:15 final size:16
Alignment explanation
Indices: 7564420--7564450 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
7564410 ACCGATCGAT
7564420 TAATACTTATTTATTA
1 TAATACTTATTTATTA
7564436 TAATA-TTATTTATTA
1 TAATACTTATTTATTA
7564451 AGTTCGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATACTTATTTATTA
Found at i:7564591 original size:18 final size:18
Alignment explanation
Indices: 7564564--7564601 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7564554 AACTGATCAT
7564564 TTAACCAAATTCAA-TCGA
1 TTAACCAAATT-AATTCGA
*
7564582 TTAACTAAATTAATTCGA
1 TTAACCAAATTAATTCGA
7564600 TT
1 TT
7564602 TTATCTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (18 bp):
TTAACCAAATTAATTCGA
Found at i:7570451 original size:17 final size:17
Alignment explanation
Indices: 7570410--7570458 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
7570400 TATAATTTTT
* *
7570410 TAAAAATTTAAGAAATA
1 TAAAAATTTAAAAAAAA
* *
7570427 TTAGAATTTAAAAAAAA
1 TAAAAATTTAAAAAAAA
7570444 TAAAAATTTAAAAAA
1 TAAAAATTTAAAAAA
7570459 GAAATTATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (17 bp):
TAAAAATTTAAAAAAAA
Found at i:7570473 original size:23 final size:22
Alignment explanation
Indices: 7570419--7570480 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 22
7570409 TTAAAAATTT
7570419 AAGAAATATTAG-AATTT-AAA
1 AAGAAATATTAGAAATTTAAAA
7570439 AA-AAATA--A-AAATTTAAAA
1 AAGAAATATTAGAAATTTAAAA
7570457 AAGAAATTATTAGAAATTGTAAAA
1 AAGAAA-TATTAGAAATT-TAAAA
7570481 GATTGTATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 8 0.24
20 4 0.12
22 1 0.03
23 5 0.15
24 5 0.15
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (22 bp):
AAGAAATATTAGAAATTTAAAA
Found at i:7571873 original size:2 final size:2
Alignment explanation
Indices: 7571866--7571920 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
7571856 CGTTCGAATG
7571866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7571908 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
7571921 AAAAGAAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7572721 original size:10 final size:10
Alignment explanation
Indices: 7572696--7572799 Score: 53
Period size: 11 Copynumber: 10.7 Consensus size: 10
7572686 AATTTATGGT
7572696 TTTTAATAACA
1 TTTTAATAA-A
7572707 TTTTAATAAA
1 TTTTAATAAA
7572717 TTTT-AT--A
1 TTTTAATAAA
* * *
7572724 TTTT-GTTAT
1 TTTTAATAAA
7572733 TTTTAAT--A
1 TTTTAATAAA
*
7572741 TTTTTAT-AA
1 TTTTAATAAA
7572750 TTTT-ATAAAA
1 TTTTAAT-AAA
*
7572760 TTTTATATATCA
1 TTTTA-ATA-AA
7572772 TTTTAATAAA
1 TTTTAATAAA
7572782 TTTTTAATAAA
1 -TTTTAATAAA
*
7572793 TTATAAT
1 TTTTAAT
7572800 TTTCCATAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
7 6 0.08
8 8 0.11
9 11 0.15
10 19 0.25
11 23 0.31
12 8 0.11
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:7572833 original size:19 final size:18
Alignment explanation
Indices: 7572780--7572835 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
7572770 CATTTTAATA
*
7572780 AATTTT-TAATAAATTAT
1 AATTTTCTAATAATTTAT
*
7572797 AATTTTCCATAAT-TTTTAT
1 AATTTT-C-TAATAATTTAT
7572816 AATTTTCTAATAACTTTAT
1 AATTTTCTAATAA-TTTAT
7572835 A
1 A
7572836 TTAAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 10 0.32
18 1 0.03
19 16 0.52
20 4 0.13
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (18 bp):
AATTTTCTAATAATTTAT
Found at i:7572990 original size:20 final size:20
Alignment explanation
Indices: 7572965--7573013 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
7572955 CAAATTTTAA
*
7572965 CATTTTTTTATATTTTAAAT
1 CATTTTTTTAGATTTTAAAT
* *
7572985 CATTTTTATAGATTTTCAAT
1 CATTTTTTTAGATTTTAAAT
*
7573005 GATTTTTTT
1 CATTTTTTT
7573014 TTATAAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (20 bp):
CATTTTTTTAGATTTTAAAT
Found at i:7574685 original size:39 final size:39
Alignment explanation
Indices: 7574637--7574756 Score: 141
Period size: 39 Copynumber: 3.1 Consensus size: 39
7574627 TAACCACTGC
* * **
7574637 AATGAGATACTAAACTGACGGTAACACTAAAAATACCGT
1 AATGCGATACTGAACTGACGGTAACACTGTAAATACCGT
* * *
7574676 AATGCGATACTGAATTGATGGTAACACTGTAAATACTGT
1 AATGCGATACTGAACTGACGGTAACACTGTAAATACCGT
* * * *
7574715 AATGCAATATTGAACTGACGGTGACACTGTAAACACCGT
1 AATGCGATACTGAACTGACGGTAACACTGTAAATACCGT
7574754 AAT
1 AAT
7574757 ACTAGACCGA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (39 bp):
AATGCGATACTGAACTGACGGTAACACTGTAAATACCGT
Found at i:7581066 original size:67 final size:67
Alignment explanation
Indices: 7580938--7581068 Score: 190
Period size: 67 Copynumber: 2.0 Consensus size: 67
7580928 ATGCTGTGTG
* * * * *
7580938 CCTTATAAAAGAGAAATAGTGAGTTACACGGTCTGGACACACGAGCATGGGCTAAACCGTGTGTA
1 CCTTATAAAAGAGAAACAATGAGTTACACGATCTGGACACACGAGCATAGGCCAAACCGTGTGTA
7581003 TA
66 TA
* * *
7581005 CCTTATAAAAGAGAAACAATGAGTTACACGATCTGGACACACGAGCGTAGGCCAGATCGTGTGT
1 CCTTATAAAAGAGAAACAATGAGTTACACGATCTGGACACACGAGCATAGGCCAAACCGTGTGT
7581069 GTGCTTGTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.21
Consensus pattern (67 bp):
CCTTATAAAAGAGAAACAATGAGTTACACGATCTGGACACACGAGCATAGGCCAAACCGTGTGTA
TA
Found at i:7581506 original size:39 final size:39
Alignment explanation
Indices: 7581413--7581517 Score: 104
Period size: 39 Copynumber: 2.7 Consensus size: 39
7581403 CTGCAATGCG
* * * * *
7581413 ATACTGAACTGACGGTAACACTGAAAATGCCGTAATACG
1 ATACTGAACTGACAGTAACACTGTAAATACCGTAACACA
* * * *
7581452 ATACT-AATTTCACAGTAACATTGTAAATACCGTAACGCA
1 ATACTGAA-CTGACAGTAACACTGTAAATACCGTAACACA
*
7581491 ATACTGAACTGACAGTGACACTGTAAA
1 ATACTGAACTGACAGTAACACTGTAAA
7581518 CACTGTAATA
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
38 2 0.04
39 47 0.92
40 2 0.04
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (39 bp):
ATACTGAACTGACAGTAACACTGTAAATACCGTAACACA
Found at i:7584461 original size:12 final size:12
Alignment explanation
Indices: 7584444--7584485 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
7584434 TTAATTTAAT
7584444 CGAACATGTTCA
1 CGAACATGTTCA
**
7584456 CGAACAT-TAAA
1 CGAACATGTTCA
7584467 CGAACATGTTCA
1 CGAACATGTTCA
*
7584479 TGAACAT
1 CGAACAT
7584486 ATAATTAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (12 bp):
CGAACATGTTCA
Found at i:7584465 original size:23 final size:23
Alignment explanation
Indices: 7584439--7584508 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
7584429 TTCATTTAAT
7584439 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCACGAACA
* *
7584462 TTAAACGAACATGTTCATGAACA
1 TTAATCGAACATGTTCACGAACA
** *
7584485 TATAATTAAACATGTTCACAAACA
1 T-TAATCGAACATGTTCACGAACA
7584509 ATGTTAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 22 0.56
24 17 0.44
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:7584501 original size:24 final size:23
Alignment explanation
Indices: 7584446--7584508 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
7584436 AATTTAATCG
*
7584446 AACATGTTCACGAACATTAAACG
1 AACATGTTCACGAACATTAAACA
* **
7584469 AACATGTTCATGAACATATAATTA
1 AACATGTTCACGAACAT-TAAACA
*
7584493 AACATGTTCACAAACA
1 AACATGTTCACGAACA
7584509 ATGTTAATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 16 0.48
24 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.25
Consensus pattern (23 bp):
AACATGTTCACGAACATTAAACA
Found at i:7584552 original size:4 final size:4
Alignment explanation
Indices: 7584545--7584577 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
7584535 CAAACAATAA
7584545 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
7584578 CATAGATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:7584997 original size:24 final size:23
Alignment explanation
Indices: 7584931--7584998 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
7584921 ATATAAAAAT
* *
7584931 AATTATA-TTAAAAATGTTATTA
1 AATTATATTTAATAATATTATTA
* *
7584953 AATTATATATTATTATTATTATTA
1 AATTATAT-TTAATAATATTATTA
7584977 AATTATATTTAATAATAATTAT
1 AATTATATTTAATAAT-ATTAT
7584999 ATTAAAATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
22 7 0.19
23 6 0.16
24 24 0.65
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
AATTATATTTAATAATATTATTA
Found at i:7585025 original size:61 final size:62
Alignment explanation
Indices: 7584928--7585067 Score: 221
Period size: 61 Copynumber: 2.3 Consensus size: 62
7584918 TTAATATAAA
7584928 AATAATTATATTAAAA-ATGTTATTAAATTATATATTATTATTATTATTAAATTATATTTAAT
1 AATAATTATATTAAAATATG-TATTAAATTATATATTATTATTATTATTAAATTATATTTAAT
* *
7584990 AATAATTATATTAAAATATG-ATTAAATTATTTATTATTATTTTTATTAAATTATATTTAAT
1 AATAATTATATTAAAATATGTATTAAATTATATATTATTATTATTATTAAATTATATTTAAT
**
7585051 AATAATCCTATTAAAAT
1 AATAATTATATTAAAAT
7585068 TTAATAACAA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
61 54 0.74
62 16 0.22
63 3 0.04
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (62 bp):
AATAATTATATTAAAATATGTATTAAATTATATATTATTATTATTATTAAATTATATTTAAT
Found at i:7585027 original size:26 final size:26
Alignment explanation
Indices: 7584947--7585030 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
7584937 ATTAAAAATG
* *
7584947 TTATT-AAAT-TATATATTATTATTA
1 TTATTAAAATATATTTAATATTATTA
* *
7584971 TTATTAAATTATATTTAATAATAATTA
1 TTATTAAAATATATTTAAT-ATTATTA
*
7584998 -TATTAAAATATGATTAAATTATTTATTA
1 TTATTAAAATAT-ATTTAA-TA-TTATTA
7585026 TTATT
1 TTATT
7585031 TTTATTAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
24 5 0.11
25 3 0.07
26 16 0.35
27 12 0.26
28 6 0.13
29 4 0.09
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (26 bp):
TTATTAAAATATATTTAATATTATTA
Found at i:7587872 original size:5 final size:6
Alignment explanation
Indices: 7587857--7587881 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7587847 TGACTTGTCG
7587857 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
7587882 GAATGTAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:7615861 original size:17 final size:17
Alignment explanation
Indices: 7615815--7615861 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
7615805 TTGAAAATGG
*
7615815 TTTTTGAAAAA-TTATT
1 TTTTTAAAAAATTTATT
**
7615831 TTTAGAAAATAATTTATT
1 TTTTTAAAA-AATTTATT
7615849 TTTTTAAAAAATT
1 TTTTTAAAAAATT
7615862 AATAATTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
16 6 0.25
17 6 0.25
18 12 0.50
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTTTAAAAAATTTATT
Found at i:7615869 original size:20 final size:20
Alignment explanation
Indices: 7615824--7615871 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
7615814 GTTTTTGAAA
*
7615824 AATTATTTTTAGAAAATAATT
1 AATT-TTTTTAAAAAATAATT
*
7615845 TATTTTTTTAAAAAATTAA-T
1 AATTTTTTTAAAAAA-TAATT
7615865 AATTTTT
1 AATTTTT
7615872 GATGTTTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTTTTTAAAAAATAATT
Found at i:7616069 original size:21 final size:21
Alignment explanation
Indices: 7616030--7616069 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7616020 TTATTTATAA
**
7616030 TTTAATTAATCATGTTTTAGT
1 TTTAATTAATCATAATTTAGT
*
7616051 TTTAATTAATCTTAATTTA
1 TTTAATTAATCATAATTTA
7616070 CTTAATTAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTAATTAATCATAATTTAGT
Found at i:7616127 original size:14 final size:14
Alignment explanation
Indices: 7616108--7616134 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7616098 ACATTAAGAA
7616108 ATATAAATTTATAG
1 ATATAAATTTATAG
7616122 ATATAAATTTATA
1 ATATAAATTTATA
7616135 TTTAATTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
ATATAAATTTATAG
Found at i:7624553 original size:29 final size:29
Alignment explanation
Indices: 7624498--7624575 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
7624488 AAAAGTATTT
* * *
7624498 AAATATTCAAAAAAAAATTATACATTTTA
1 AAATATTCAAATAAAAGTTATACATTTCA
7624527 AAATATTCAAATAAAAGTTA-ACAATTTCA
1 AAATATTCAAATAAAAGTTATAC-ATTTCA
*
7624556 AAAGTAATT-AATTAAAAGTT
1 AAA-T-ATTCAAATAAAAGTT
7624576 TTTTAAATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.05
29 26 0.62
30 11 0.26
31 3 0.07
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.33
Consensus pattern (29 bp):
AAATATTCAAATAAAAGTTATACATTTCA
Found at i:7636913 original size:19 final size:18
Alignment explanation
Indices: 7636872--7636914 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
7636862 AGACCGACTT
7636872 GAAAAAGGTCGTTTCCGG
1 GAAAAAGGTCGTTTCCGG
7636890 GAAAAAGGTCGTTTCCGG
1 GAAAAAGGTCGTTTCCGG
7636908 GAAAAAG
1 GAAAAAG
7636915 CCCGAGAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.33, T:0.19
Consensus pattern (18 bp):
GAAAAAGGTCGTTTCCGG
Found at i:7640359 original size:27 final size:27
Alignment explanation
Indices: 7640321--7640374 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
7640311 GTTGGGATAG
7640321 AAAGCATGCTTTTCGAATGAAATCTAT
1 AAAGCATGCTTTTCGAATGAAATCTAT
7640348 AAAGCATGCTTTTCGAATGAAATCTAT
1 AAAGCATGCTTTTCGAATGAAATCTAT
7640375 CTCATTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
AAAGCATGCTTTTCGAATGAAATCTAT
Found at i:7642409 original size:9 final size:9
Alignment explanation
Indices: 7642390--7642452 Score: 60
Period size: 9 Copynumber: 7.1 Consensus size: 9
7642380 TAAAATTATT
7642390 ATTTTTGAAA
1 ATTTTT-AAA
7642400 ATTTTTAAA
1 ATTTTTAAA
7642409 A-TTTTAAA
1 ATTTTTAAA
* *
7642417 TTTTTTATAT
1 ATTTTTA-AA
*
7642427 ATTTTTATA
1 ATTTTTAAA
7642436 ATTTTT--A
1 ATTTTTAAA
7642443 ATTTTTAAA
1 ATTTTTAAA
7642452 A
1 A
7642453 AAATAAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
7 7 0.16
8 7 0.16
9 17 0.39
10 13 0.30
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:7642421 original size:8 final size:8
Alignment explanation
Indices: 7642398--7642451 Score: 56
Period size: 8 Copynumber: 6.4 Consensus size: 8
7642388 TTATTTTTGA
7642398 AAATTTTT
1 AAATTTTT
*
7642406 AAAATTTT
1 AAATTTTT
7642414 AAATTTTTT
1 AAA-TTTTT
7642423 ATATATTTTT
1 A-A-ATTTTT
7642433 ATAATTTTT
1 A-AATTTTT
7642442 -AATTTTT
1 AAATTTTT
7642449 AAA
1 AAA
7642452 AAAATAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
7 7 0.17
8 12 0.30
9 11 0.28
10 9 0.22
11 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
AAATTTTT
Found at i:7642476 original size:20 final size:21
Alignment explanation
Indices: 7642453--7642495 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
7642443 ATTTTTAAAA
7642453 AAATA-AATATAATTTTTTAT
1 AAATATAATATAATTTTTTAT
**
7642473 AAATATTTTATAATTTTTTAT
1 AAATATAATATAATTTTTTAT
7642494 AA
1 AA
7642496 TTTTTGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATATAATATAATTTTTTAT
Found at i:7642491 original size:10 final size:10
Alignment explanation
Indices: 7642460--7642500 Score: 64
Period size: 10 Copynumber: 4.0 Consensus size: 10
7642450 AAAAAATAAA
7642460 TATAATTTTT
1 TATAATTTTT
*
7642470 TATAAATATTT
1 TAT-AATTTTT
7642481 TATAATTTTT
1 TATAATTTTT
7642491 TATAATTTTT
1 TATAATTTTT
7642501 GTTGAGAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TATAATTTTT
Found at i:7642740 original size:3 final size:3
Alignment explanation
Indices: 7642732--7642765 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
7642722 CGAATCGAAC
* *
7642732 ATT ATT ATT ATC GTT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7642766 CTGCCCACCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:7647365 original size:26 final size:25
Alignment explanation
Indices: 7647329--7647393 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
7647319 TTTCTAGGAA
* *
7647329 ACCAAACAAAACCCCTCTCAAACAAC
1 ACCAAAAAAAACCCCTC-CAAAAAAC
*
7647355 ACCAAAAAAAACCCCTCGAAAAAAC
1 ACCAAAAAAAACCCCTCCAAAAAAC
*
7647380 A-AAAAAAAAACCCC
1 ACCAAAAAAAACCCC
7647394 GAAATTTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 12 0.34
25 7 0.20
26 16 0.46
ACGTcount: A:0.58, C:0.35, G:0.02, T:0.05
Consensus pattern (25 bp):
ACCAAAAAAAACCCCTCCAAAAAAC
Found at i:7648834 original size:96 final size:96
Alignment explanation
Indices: 7648709--7648994 Score: 475
Period size: 96 Copynumber: 3.0 Consensus size: 96
7648699 ATCTCTCACA
7648709 AGCTTCCTTTCTTGCCTTTTAGTACGTTAACAAGCCAAAGGTTGTTAAATTCAATGATGATCCTC
1 AGCTTCCTTTCTTGCCTTTTAGTACGTTAACAAGCCAAAGGTTGTTAAATTCAATGATGATCCTC
*
7648774 GACTAGTCATTCCTTTTGACAAGTGAA-TTC
66 GACTAGTCATTCCTTTTGACAAGTGAACATC
* * * * *
7648804 TAGCTTTCTTTCTTGCCTTTTAATATGTTAACAAGCCAAAGATTGTTAAATTCAATGATAATCCT
1 -AGCTTCCTTTCTTGCCTTTTAGTACGTTAACAAGCCAAAGGTTGTTAAATTCAATGATGATCCT
7648869 CGACTAGTCATTCCTTTTGACAAGTGAACATC
65 CGACTAGTCATTCCTTTTGACAAGTGAACATC
* *
7648901 AGCTTCCTTTCTTGCCTTTTAGTACGTTAACAAGTCAAAGGTTGTTAAATTCAATGATGATCCTG
1 AGCTTCCTTTCTTGCCTTTTAGTACGTTAACAAGCCAAAGGTTGTTAAATTCAATGATGATCCTC
*
7648966 GACTAGTCATTCCTTTTGACAAGTAAACA
66 GACTAGTCATTCCTTTTGACAAGTGAACA
7648995 CCTTAAATGA
Statistics
Matches: 175, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
96 173 0.99
97 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (96 bp):
AGCTTCCTTTCTTGCCTTTTAGTACGTTAACAAGCCAAAGGTTGTTAAATTCAATGATGATCCTC
GACTAGTCATTCCTTTTGACAAGTGAACATC
Found at i:7662042 original size:14 final size:15
Alignment explanation
Indices: 7662007--7662045 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
7661997 ATAGTAAAAA
7662007 TATAATTTTATCATTT
1 TATAA-TTTATCATTT
7662023 TAATAATTTAT-ATTT
1 T-ATAATTTATCATTT
7662038 TATAATTT
1 TATAATTT
7662046 TTAAATGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.32
15 5 0.23
16 6 0.27
17 4 0.18
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TATAATTTATCATTT
Found at i:7662717 original size:26 final size:28
Alignment explanation
Indices: 7662677--7662731 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
7662667 TTGGATTCCA
7662677 TATTAAAAATATTGAATTAGA-TTTATT
1 TATTAAAAATATTGAATTAGATTTTATT
* * *
7662704 TATTGAAAAT-TTGATTTATATTTTATT
1 TATTAAAAATATTGAATTAGATTTTATT
7662731 T
1 T
7662732 TAAATTTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (28 bp):
TATTAAAAATATTGAATTAGATTTTATT
Found at i:7663112 original size:2 final size:2
Alignment explanation
Indices: 7663105--7663147 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7663095 CTAATGGACA
7663105 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7663147 A
1 A
7663148 AAAGTAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7677039 original size:31 final size:31
Alignment explanation
Indices: 7677004--7677065 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
7676994 CTTAACAGTC
*
7677004 TAGTGACT-TAAATAAAAACTTTTGAATAGTT
1 TAGTGACTGAAAAT-AAAACTTTTGAATAGTT
*
7677035 TAGTGACTGAAAATAAAATTTTTGAATAGTT
1 TAGTGACTGAAAATAAAACTTTTGAATAGTT
7677066 CAATGACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.39
Consensus pattern (31 bp):
TAGTGACTGAAAATAAAACTTTTGAATAGTT
Found at i:7677052 original size:32 final size:30
Alignment explanation
Indices: 7677004--7677074 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
7676994 CTTAACAGTC
*
7677004 TAGTGACTTAAATAAAAACTTTTGAATAGTT
1 TAGTGACTAAAAT-AAAACTTTTGAATAGTT
*
7677035 TAGTGACTGAAAATAAAATTTTTGAATAGTT
1 TAGTGACT-AAAATAAAACTTTTGAATAGTT
* *
7677066 CAATGACTA
1 TAGTGACTA
7677075 TGTTGTAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.03
31 30 0.86
32 4 0.11
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (30 bp):
TAGTGACTAAAATAAAACTTTTGAATAGTT
Found at i:7680448 original size:15 final size:16
Alignment explanation
Indices: 7680420--7680452 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7680410 TTTTAGATTA
*
7680420 ATTTTTATTTAAAAAT
1 ATTTTTATTAAAAAAT
7680436 ATTTTT-TTAAAAAAT
1 ATTTTTATTAAAAAAT
7680451 AT
1 AT
7680453 AATACATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTTATTAAAAAAT
Found at i:7680605 original size:40 final size:41
Alignment explanation
Indices: 7680524--7680614 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 41
7680514 TTAAAAATAT
* *
7680524 TTATATTAAAAAACACTACTAGAAATATAATAAATAATTTA
1 TTATATTAAAAAACACTACAAGAAATATAATAAACAATTTA
* *
7680565 TTATATCTAAAAAACA-TA-AATAAATATAATAAACATTTTA
1 TTATAT-TAAAAAACACTACAAGAAATATAATAAACAATTTA
*
7680605 TTGTATTAAA
1 TTATATTAAA
7680615 TATAATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
39 4 0.09
40 23 0.52
41 8 0.18
42 9 0.20
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAAGAAATATAATAAACAATTTA
Found at i:7682258 original size:30 final size:31
Alignment explanation
Indices: 7682222--7682292 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
7682212 CATTTAACAT
* *
7682222 AACAGTCACTCAAC-TT-TGAAAATGTGACAA
1 AACAGTCACT-AACGTTATCAAAAAGTGACAA
7682252 AACAGTCACTAACGTTATCAAAAAGTGACAA
1 AACAGTCACTAACGTTATCAAAAAGTGACAA
*
7682283 AACAATCACT
1 AACAGTCACT
7682293 GATTAACAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.08
30 12 0.33
31 21 0.58
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.21
Consensus pattern (31 bp):
AACAGTCACTAACGTTATCAAAAAGTGACAA
Found at i:7691050 original size:2 final size:2
Alignment explanation
Indices: 7691043--7691093 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
7691033 ACATACATAC
7691043 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7691085 AT AT AT AT A
1 AT AT AT AT A
7691094 AGTGATTCTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7692670 original size:84 final size:81
Alignment explanation
Indices: 7692502--7692824 Score: 252
Period size: 84 Copynumber: 4.0 Consensus size: 81
7692492 AAAATTGGAA
* * *
7692502 AATAATCTGTTTCGGAATTTA-TTCCTGCCGTTCAACAGATTTGATTCTATTTTGATTTATTTCC
1 AATAATCTGTTTCGGGATTTATTTCCCGCCGTTCAACAGATTTGATTCTATTTTAATTTATTTCC
7692566 AAACAAGAATTAAGTG
66 AAACAAGAATTAAGTG
* * * *
7692582 AATAATTCTGTTTCGGGATTTATTTCCCGCCGTTTAACATATTTTATTCTATTTTAATTTTTCTT
1 AATAA-TCTGTTTCGGGATTTATTTCCCGCCGTTCAACAGATTTGATTCTATTTTAATTTAT-TT
7692647 CCAAAACAAGAA-TAAGTTG
64 CC-AAACAAGAATTAAG-TG
* ** * * *
7692666 AATAAATCTATTTCGGGATTTATTT-TTGCCGTTCAACAGA----ATTGT-TTTGAATTTTGTTT
1 AAT-AATCTGTTTCGGGATTTATTTCCCGCCGTTCAACAGATTTGATTCTATTTTAA-TTTATTT
* * * *
7692725 CCAAATAAAAATTTAAATTA
64 CCAAACAAGAA-TT-AAGTG
* ** * * * *
7692745 AATAATTTTGTTTTAGGATTTATTT-TCGTCGTTTAACAGATTTGATT-TAATTTTGATTTAATT
1 AATAA-TCTGTTTCGGGATTTATTTCCCGCCGTTCAACAGATTTGATTCT-ATTTTAATTT-ATT
7692808 TCCAAACAAAGAATTAA
63 TCCAAAC-AAGAATTAA
7692825 TTAAATTTTG
Statistics
Matches: 193, Mismatches: 31, Indels: 35
0.75 0.12 0.14
Matches are distributed among these distances:
77 7 0.04
78 11 0.06
79 40 0.21
80 7 0.04
81 15 0.08
82 34 0.18
83 27 0.14
84 46 0.24
85 6 0.03
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.45
Consensus pattern (81 bp):
AATAATCTGTTTCGGGATTTATTTCCCGCCGTTCAACAGATTTGATTCTATTTTAATTTATTTCC
AAACAAGAATTAAGTG
Found at i:7694956 original size:29 final size:29
Alignment explanation
Indices: 7694922--7694991 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
7694912 TAGAAAATCA
*
7694922 TCCTACAACCACTTGGAAATAAGGGGGTG
1 TCCTACAACCACTTAGAAATAAGGGGGTG
* **
7694951 TCCTACAACTACTTAGAAATGTGGGGGTG
1 TCCTACAACCACTTAGAAATAAGGGGGTG
7694980 TCCTACAACCAC
1 TCCTACAACCAC
7694992 CTGAAAATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (29 bp):
TCCTACAACCACTTAGAAATAAGGGGGTG
Found at i:7695011 original size:30 final size:29
Alignment explanation
Indices: 7694922--7695011 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
7694912 TAGAAAATCA
* * **
7694922 TCCTACAACCACTTGGAAATAAGGGGGTG
1 TCCTACAACCACCTGAAAATGTGGGGGTG
* *
7694951 TCCTACAACTA-CTTAGAAATGTGGGGGTG
1 TCCTACAACCACCTGA-AAATGTGGGGGTG
7694980 TCCTACAACCACCTGAAAATGTGGAGGGTG
1 TCCTACAACCACCTGAAAATGTGG-GGGTG
7695010 TC
1 TC
7695012 TTTGTAACGT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.02
29 39 0.78
30 10 0.20
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (29 bp):
TCCTACAACCACCTGAAAATGTGGGGGTG
Found at i:7699690 original size:24 final size:25
Alignment explanation
Indices: 7699646--7699698 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
7699636 GGAAATAATT
7699646 AAAACCTAAATCTAAGAAAAGAGA-
1 AAAACCTAAATCTAAGAAAAGAGAG
7699670 AAAACCTAAA-CTAA-ACTAAAGAGAG
1 AAAACCTAAATCTAAGA--AAAGAGAG
7699695 AAAA
1 AAAA
7699699 TTTAATCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 1 0.04
23 4 0.15
24 17 0.65
25 4 0.15
ACGTcount: A:0.64, C:0.13, G:0.11, T:0.11
Consensus pattern (25 bp):
AAAACCTAAATCTAAGAAAAGAGAG
Found at i:7704527 original size:13 final size:13
Alignment explanation
Indices: 7704509--7704549 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
7704499 GTTAACACTT
7704509 TGAAATGGCTATA
1 TGAAATGGCTATA
*
7704522 TGAAATGGTTATA
1 TGAAATGGCTATA
*
7704535 TGAAATGGCTCTA
1 TGAAATGGCTATA
7704548 TG
1 TG
7704550 GATTGGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (13 bp):
TGAAATGGCTATA
Found at i:7704539 original size:26 final size:26
Alignment explanation
Indices: 7704509--7704567 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
7704499 GTTAACACTT
7704509 TGAAATGGCTATATGAAATGGTTATA
1 TGAAATGGCTATATGAAATGGTTATA
* * *
7704535 TGAAATGGCTCTATGGATTGGTTATA
1 TGAAATGGCTATATGAAATGGTTATA
7704561 TGGAAAT
1 T-GAAAT
7704568 AATCATATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGAAATGGCTATATGAAATGGTTATA
Found at i:7704562 original size:13 final size:13
Alignment explanation
Indices: 7704512--7704565 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
7704502 AACACTTTGA
* *
7704512 AATGGCTATATGA
1 AATGGTTATATGG
*
7704525 AATGGTTATATGA
1 AATGGTTATATGG
* *
7704538 AATGGCTCTATGG
1 AATGGTTATATGG
*
7704551 ATTGGTTATATGG
1 AATGGTTATATGG
7704564 AA
1 AA
7704566 ATAATCATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.35
Consensus pattern (13 bp):
AATGGTTATATGG
Found at i:7707433 original size:13 final size:13
Alignment explanation
Indices: 7707415--7707440 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7707405 ATAAATATAT
7707415 TTATAAAAATTAA
1 TTATAAAAATTAA
7707428 TTATAAAAATTAA
1 TTATAAAAATTAA
7707441 GTTTTGGTTA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATAAAAATTAA
Found at i:7708015 original size:23 final size:22
Alignment explanation
Indices: 7707989--7708045 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
7707979 CTCAAACAGT
*
7707989 AAAAATAACAACCAAACAACATA
1 AAAAATAACAACAAAACAACA-A
*
7708012 AAAAATAACAGCAAAACAACAA
1 AAAAATAACAACAAAACAACAA
*
7708034 AAACAACAACAA
1 AAA-AATAACAA
7708046 AAATAACACC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.72, C:0.21, G:0.02, T:0.05
Consensus pattern (22 bp):
AAAAATAACAACAAAACAACAA
Found at i:7708039 original size:32 final size:33
Alignment explanation
Indices: 7708002--7708071 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
7707992 AATAACAACC
*
7708002 AAACAACATA-AAAAATAACAGCAAAACAACA-A
1 AAACAACA-ACAAAAATAACACCAAAACAACAGA
**
7708034 AAACAACAACAAAAATAACACCAGTACAACAGA
1 AAACAACAACAAAAATAACACCAAAACAACAGA
7708067 AAACA
1 AAACA
7708072 CCAGAAACAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 1 0.03
32 26 0.79
33 6 0.18
ACGTcount: A:0.69, C:0.21, G:0.04, T:0.06
Consensus pattern (33 bp):
AAACAACAACAAAAATAACACCAAAACAACAGA
Found at i:7709871 original size:21 final size:22
Alignment explanation
Indices: 7709831--7709886 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
7709821 ACTTAGAAAT
7709831 TAATTTAATTTATTTGAATT-A
1 TAATTTAATTTATTTGAATTAA
*
7709852 TTATTTAATTTA-TTGTAATTAAA
1 TAATTTAATTTATTTG-AATT-AA
7709875 TAATTTAATTTA
1 TAATTTAATTTA
7709887 GAGTAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.10
21 15 0.50
23 12 0.40
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (22 bp):
TAATTTAATTTATTTGAATTAA
Found at i:7722012 original size:30 final size:30
Alignment explanation
Indices: 7721977--7722036 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
7721967 CTCTCATATT
*
7721977 GTAGATATGCATTAATCTTAGACGTCAATG
1 GTAGATATGCATTAATCATAGACGTCAATG
*
7722007 GTAGATATGCATTAATCATAGTCGTCAATG
1 GTAGATATGCATTAATCATAGACGTCAATG
7722037 TATTTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (30 bp):
GTAGATATGCATTAATCATAGACGTCAATG
Found at i:7725890 original size:16 final size:16
Alignment explanation
Indices: 7725869--7725906 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
7725859 GTTGGCAGAG
**
7725869 AGCTCGTAGCTATCAC
1 AGCTCGTAAATATCAC
7725885 AGCTCGTAAATATCAC
1 AGCTCGTAAATATCAC
7725901 AGCTCG
1 AGCTCG
7725907 CCAGCATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (16 bp):
AGCTCGTAAATATCAC
Found at i:7731987 original size:14 final size:16
Alignment explanation
Indices: 7731959--7731997 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
7731949 TTAAATTTTT
*
7731959 TTCTTTTTTACAAAAG
1 TTCTTTTTTACAAAAA
7731975 TT-TTTTTTA-AAAAA
1 TTCTTTTTTACAAAAA
7731989 TTCTTTTTT
1 TTCTTTTTT
7731998 GATTTTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 13 0.62
16 2 0.10
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (16 bp):
TTCTTTTTTACAAAAA
Found at i:7735948 original size:48 final size:49
Alignment explanation
Indices: 7735849--7735952 Score: 138
Period size: 48 Copynumber: 2.1 Consensus size: 49
7735839 TTTTGAAGCA
* * *
7735849 TTTGGGGTTAAAATGTAATTTTGGGAAAGTTTAGGGGTAAAAATATAAT
1 TTTGGGATCAAAATGTAATTTTGGGAAAGTTTAAGGGTAAAAATATAAT
* * * *
7735898 TTTGGGATCAAAATGTGATTTTGGG-AAGTTTAAGGGTTAAAATGTGAT
1 TTTGGGATCAAAATGTAATTTTGGGAAAGTTTAAGGGTAAAAATATAAT
7735946 TTTGGGA
1 TTTGGGA
7735953 AAATTTAAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 26 0.54
49 22 0.46
ACGTcount: A:0.33, C:0.01, G:0.29, T:0.38
Consensus pattern (49 bp):
TTTGGGATCAAAATGTAATTTTGGGAAAGTTTAAGGGTAAAAATATAAT
Found at i:7735962 original size:30 final size:30
Alignment explanation
Indices: 7735907--7736199 Score: 222
Period size: 30 Copynumber: 9.9 Consensus size: 30
7735897 TTTTGGGATC
7735907 AAAATGTGATTTTGGG-AAGTTTAAGGGTT
1 AAAATGTGATTTTGGGAAAGTTTAAGGGTT
*
7735936 AAAATGTGATTTTGGGAAAATTTAAGGGTT
1 AAAATGTGATTTTGGGAAAGTTTAAGGGTT
7735966 AAAATGTGATTTTGGGAAAGTTTAAGGGTT
1 AAAATGTGATTTTGGGAAAGTTTAAGGGTT
* * * *
7735996 AAAATGTAATTTTAGAAAAGTTT-AGGAGCT
1 AAAATGTGATTTTGGGAAAGTTTAAGG-GTT
*** * * **
7736026 AAAATACAATTTTGGAAAAGTTTAGGGGCC
1 AAAATGTGATTTTGGGAAAGTTTAAGGGTT
* *** **
7736056 AAAATGTAATTTTTAAAAAGGAT-AGGGTT
1 AAAATGTGATTTTGGGAAAGTTTAAGGGTT
** *
7736085 CAAAATGTGATTTTAAGAAAGTTT--GGAGTC
1 -AAAATGTGATTTTGGGAAAGTTTAAGG-GTT
** * *
7736115 AAAATGCAATTTTGGAAAAGTTT-AGGGTC
1 AAAATGTGATTTTGGGAAAGTTTAAGGGTT
** * * *
7736144 AAAATGCAATTTTTGG-AAGTTTAAGGATC
1 AAAATGTGATTTTGGGAAAGTTTAAGGGTT
* *
7736173 AAAATATGATTTTTGGAAAGTTTAAGG
1 AAAATGTGATTTTGGGAAAGTTTAAGG
7736200 ACCTCTTGAG
Statistics
Matches: 219, Mismatches: 37, Indels: 15
0.81 0.14 0.06
Matches are distributed among these distances:
28 6 0.03
29 77 0.35
30 134 0.61
31 2 0.01
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.34
Consensus pattern (30 bp):
AAAATGTGATTTTGGGAAAGTTTAAGGGTT
Found at i:7739809 original size:18 final size:18
Alignment explanation
Indices: 7739773--7739808 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
7739763 CTTAAAATTC
7739773 TCTCTTAAATTCTATTTT
1 TCTCTTAAATTCTATTTT
7739791 TCTC-TAAATTCTATTTT
1 TCTCTTAAATTCTATTTT
7739808 T
1 T
7739809 TATTAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.61
Consensus pattern (18 bp):
TCTCTTAAATTCTATTTT
Found at i:7744705 original size:14 final size:15
Alignment explanation
Indices: 7744679--7744709 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
7744669 GAATAAATAA
7744679 ATTACTAAAATATTT
1 ATTACTAAAATATTT
7744694 ATTACT-AAATATTT
1 ATTACTAAAATATTT
7744708 AT
1 AT
7744710 AAAGTGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTACTAAAATATTT
Found at i:7744827 original size:17 final size:18
Alignment explanation
Indices: 7744805--7744842 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
7744795 TTGTTGATGT
7744805 TAAAATT-TA-TATTAGAA
1 TAAAATTGTAGTATTA-AA
7744822 TAAAATTGTAGTATTAAA
1 TAAAATTGTAGTATTAAA
7744840 TAA
1 TAA
7744843 TTTTATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 7 0.37
19 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAAAATTGTAGTATTAAA
Found at i:7745151 original size:14 final size:14
Alignment explanation
Indices: 7745132--7745161 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7745122 ATTTAATTAT
7745132 TTTAAATAAGATAA
1 TTTAAATAAGATAA
7745146 TTTAAATAAGATAA
1 TTTAAATAAGATAA
7745160 TT
1 TT
7745162 ATGCAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (14 bp):
TTTAAATAAGATAA
Found at i:7753928 original size:27 final size:29
Alignment explanation
Indices: 7753898--7753965 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 29
7753888 CAATTGAACT
*
7753898 TAAATTTTTAAATCTAAAAAT-TA-AGAC
1 TAAATTTTTAAATATAAAAATATAGAGAC
* * *
7753925 TAAATTCTTAAAAATAAAAGTATAGAGAC
1 TAAATTTTTAAATATAAAAATATAGAGAC
7753954 TAAA-TTTTAAAT
1 TAAATTTTTAAAT
7753966 TGATGAAGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 17 0.52
28 8 0.24
29 8 0.24
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (29 bp):
TAAATTTTTAAATATAAAAATATAGAGAC
Found at i:7763468 original size:27 final size:27
Alignment explanation
Indices: 7763430--7763498 Score: 129
Period size: 27 Copynumber: 2.6 Consensus size: 27
7763420 GTCCACTTCT
7763430 CCTAGATTGGTACCTAAGGTTTTTTTC
1 CCTAGATTGGTACCTAAGGTTTTTTTC
7763457 CCTAGATTGGTACCTAAGGTTTTTTTC
1 CCTAGATTGGTACCTAAGGTTTTTTTC
*
7763484 CCCAGATTGGTACCT
1 CCTAGATTGGTACCT
7763499 GAACGTTTGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (27 bp):
CCTAGATTGGTACCTAAGGTTTTTTTC
Found at i:7764049 original size:29 final size:29
Alignment explanation
Indices: 7764016--7764074 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
7764006 AGGTATTTGA
7764016 CTCTATTTTTCTGGGTT-ATTTTTCATCAT
1 CTCTATTTTTCTGGGTTAATTTTT-ATCAT
*
7764045 CTCTATTTTTTTGGGTTAATTTTTATCAT
1 CTCTATTTTTCTGGGTTAATTTTTATCAT
7764074 C
1 C
7764075 GAATTAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.59
Consensus pattern (29 bp):
CTCTATTTTTCTGGGTTAATTTTTATCAT
Found at i:7764244 original size:28 final size:29
Alignment explanation
Indices: 7764194--7764275 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 29
7764184 TTTTTGTACG
* **
7764194 TATTATATTTAACTTCCAATTTTTT-TT-A
1 TATTATATCTAACTT-TTATTTTTTATTCA
*
7764222 TATTATATCTAACTTTTATTTTTTAATTCG
1 TATTATATCTAACTTTTATTTTTT-ATTCA
* *
7764252 TATCATATCTAAATTTTATTTTTT
1 TATTATATCTAACTTTTATTTTTT
7764276 GTTTTTGTCG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 7 0.16
28 14 0.31
29 2 0.04
30 22 0.49
ACGTcount: A:0.28, C:0.10, G:0.01, T:0.61
Consensus pattern (29 bp):
TATTATATCTAACTTTTATTTTTTATTCA
Found at i:7764415 original size:30 final size:30
Alignment explanation
Indices: 7764351--7764415 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
7764341 GTATGCCTAC
* *
7764351 TATGTTAAGTTTCTTTACTATTTGTGTATG
1 TATGTTAAGTTTCTTAACTATTTGTATATG
*
7764381 TATGTTAAGTTT-TTAAACTGTTATGTATAT-
1 TATGTTAAGTTTCTT-AACTATT-TGTATATG
7764411 TATGT
1 TATGT
7764416 ATGTATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 2 0.07
30 22 0.73
31 6 0.20
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (30 bp):
TATGTTAAGTTTCTTAACTATTTGTATATG
Found at i:7764454 original size:5 final size:5
Alignment explanation
Indices: 7764444--7764596 Score: 60
Period size: 5 Copynumber: 30.8 Consensus size: 5
7764434 ATTACGTAAC
* * *
7764444 TGTTA TGTTA TG-TA TGCTA TG-TA TATTA TG-TA TATTA TG-TA TGTTA
1 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA
* *
7764490 TGTTTA CTATTA TGTT- TGTATA TTTGTA TG-TA TGTTA TGTTA TG-TA
1 TG-TTA -TGTTA TGTTA TGT-TA TGT-TA TGTTA TGTTA TGTTA TGTTA
* *
7764536 CTGTTA T-CTA TATTA TG-TA TGATTAA T-TGTA TGTT- TGTTA TGTGT-
1 -TGTTA TGTTA TGTTA TGTTA TG-TT-A TGT-TA TGTTA TGTTA TGT-TA
7764581 TGTTTA CTGTTA TGTT
1 TG-TTA -TGTTA TGTT
7764597 TGTATGATTG
Statistics
Matches: 114, Mismatches: 12, Indels: 44
0.67 0.07 0.26
Matches are distributed among these distances:
4 34 0.30
5 54 0.47
6 21 0.18
7 5 0.04
ACGTcount: A:0.22, C:0.03, G:0.18, T:0.57
Consensus pattern (5 bp):
TGTTA
Found at i:7764464 original size:9 final size:9
Alignment explanation
Indices: 7764399--7764570 Score: 102
Period size: 9 Copynumber: 18.4 Consensus size: 9
7764389 GTTTTTAAAC
7764399 TGTTATGTA
1 TGTTATGTA
*
7764408 TATTATGTA
1 TGTTATGTA
7764417 TGTATAATTGTA
1 TGT-T-A-TGTA
7764429 TGTCTAT-TA
1 TGT-TATGTA
* *
7764438 CGTAACTGTTA
1 TGTTA-TG-TA
7764449 TGTTATGTA
1 TGTTATGTA
*
7764458 TGCTATGTA
1 TGTTATGTA
*
7764467 TATTATGTA
1 TGTTATGTA
*
7764476 TATTATGTA
1 TGTTATGTA
*
7764485 TGTTATGTT
1 TGTTATGTA
**
7764494 TACTAT-TA
1 TGTTATGTA
7764502 TGTT-TGTA
1 TGTTATGTA
*
7764510 TATT-TGTA
1 TGTTATGTA
7764518 TG-TATGTTA
1 TGTTATG-TA
7764527 TGTTATGTA
1 TGTTATGTA
*
7764536 CTGTTATCTA
1 -TGTTATGTA
*
7764546 TATTATGTA
1 TGTTATGTA
7764555 TGATTAATTGTA
1 TG-TT-A-TGTA
7764567 TGTT
1 TGTT
7764571 TGTTATGTGT
Statistics
Matches: 126, Mismatches: 23, Indels: 26
0.72 0.13 0.15
Matches are distributed among these distances:
7 2 0.02
8 16 0.13
9 66 0.52
10 18 0.14
11 10 0.08
12 14 0.11
ACGTcount: A:0.26, C:0.04, G:0.16, T:0.54
Consensus pattern (9 bp):
TGTTATGTA
Found at i:7764521 original size:12 final size:13
Alignment explanation
Indices: 7764402--7764535 Score: 79
Period size: 12 Copynumber: 10.5 Consensus size: 13
7764392 TTTAAACTGT
7764402 TATGTATATTATG
1 TATGTATATTATG
*
7764415 TATGTATAAT-TG
1 TATGTATATTATG
* *
7764427 TATGTCTATTACG
1 TATGTATATTATG
*
7764440 TAACTGTTATGTTATG
1 T-A-TG-TATATTATG
*
7764456 TATGCTATGTATAT-
1 TATG-TATAT-TATG
7764470 TATGTATATTATG
1 TATGTATATTATG
7764483 TATG----TTATG
1 TATGTATATTATG
7764492 T-T-TACTATTATG
1 TATGTA-TATTATG
*
7764504 TTTGTATATT-TG
1 TATGTATATTATG
*
7764516 TATGTATGTTATG
1 TATGTATATTATG
7764529 TTATGTA
1 -TATGTA
7764536 CTGTTATCTA
Statistics
Matches: 95, Mismatches: 11, Indels: 29
0.70 0.08 0.21
Matches are distributed among these distances:
8 1 0.01
9 6 0.06
12 29 0.31
13 26 0.27
14 20 0.21
15 6 0.06
16 7 0.07
ACGTcount: A:0.26, C:0.04, G:0.16, T:0.54
Consensus pattern (13 bp):
TATGTATATTATG
Found at i:7764608 original size:17 final size:18
Alignment explanation
Indices: 7764562--7764608 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
7764552 GTATGATTAA
*
7764562 TTGTATGTTTGTTATGTG
1 TTGTATGATTGTTATGTG
* *
7764580 TTGT-TTACTGTTATGT-
1 TTGTATGATTGTTATGTG
7764596 TTGTATGATTGTT
1 TTGTATGATTGTT
7764609 TATTAATGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.13, C:0.02, G:0.23, T:0.62
Consensus pattern (18 bp):
TTGTATGATTGTTATGTG
Found at i:7772521 original size:101 final size:101
Alignment explanation
Indices: 7772383--7772670 Score: 375
Period size: 106 Copynumber: 2.8 Consensus size: 101
7772373 TGTTACATTG
* *
7772383 TATATGTAAGACTATAGTTAGACTATGACATTCTGATGATAAGACCATAATCGGGTTATGAG-AC
1 TATATGTAAGACCATAGCTAG-CTATGACATTCTGATGATAAGACCATAATCGGGTTATGAGCAC
* *
7772447 TATGAACATAAGACCATGGTTGGACCAGGGCAGTGTA
65 TATGAACGTAAGACCATGGTTGGACCAGGACAGTGTA
* * *
7772484 TATATGTAAGACCATAGCTGAGCTATGGCATTCTGATGATAAGGCCATAATTGGGTTATGGCACT
1 TATATGTAAGACCATAGCT-AGCTATGACATTCTGATGATAAGACCATAATCGGGTTAT-G-A--
* *
7772549 GCACTATGAACGTAAAACCATGGTTGGACCATGACAGTGTA
61 GCACTATGAACGTAAGACCATGGTTGGACCAGGACAGTGTA
* * *
7772590 TATATATAAGACCATAGCTAGGCTATGACATTCTGATGATAAGACCATAA-CTGAGTCATG-GCA
1 TATATGTAAGACCATAGCTA-GCTATGACATTCTGATGATAAGACCATAATC-GGGTTATGAGCA
7772653 CTATGAACGTAAGACCAT
64 CTATGAACGTAAGACCAT
7772671 AGTAGGGCCA
Statistics
Matches: 163, Mismatches: 16, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
101 71 0.44
102 3 0.02
103 1 0.01
105 3 0.02
106 85 0.52
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (101 bp):
TATATGTAAGACCATAGCTAGCTATGACATTCTGATGATAAGACCATAATCGGGTTATGAGCACT
ATGAACGTAAGACCATGGTTGGACCAGGACAGTGTA
Found at i:7775168 original size:3 final size:3
Alignment explanation
Indices: 7775162--7775188 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7775152 ACCACCAAAG
7775162 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
7775189 ATAATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Done.