Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 29 of 93
Found at i:11818334 original size:103 final size:104
Alignment explanation
Indices: 11818181--11818377 Score: 265
Period size: 103 Copynumber: 1.9 Consensus size: 104
11818171 ATTTAGAGTG
* *
11818181 TGTGACACGGCAGGGTCATAATGTGTGAAACAGCACAATGATAATGTGTGACACGGGTGTGACA-
1 TGTGACACGGCAGGGTCATAATGTGTGAAACAGCACAATGAGAATATGTGACACGGGTGTGACAC
11818245 GGCAGGGTTTAGAGTGTGTGACACACCATGGAGGGAATT
66 GGCAGGGTTTAGAGTGTGTGACACACCATGGAGGGAATT
* * * * *
11818284 TGTGACAC-GCTAGTGTGATAATGTGTGAGAC-GACACAGTGAGAATATGTGAGACGGGTGTGAC
1 TGTGACACGGC-AGGGTCATAATGTGTGAAACAG-CACAATGAGAATATGTGACACGGGTGTGAC
* * *
11818347 ACGGTAGGGTTTAGAGTGTGTGGCACGCCAT
64 ACGGCAGGGTTTAGAGTGTGTGACACACCAT
11818378 AATCAGACGT
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
102 3 0.04
103 52 0.64
104 26 0.32
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.23
Consensus pattern (104 bp):
TGTGACACGGCAGGGTCATAATGTGTGAAACAGCACAATGAGAATATGTGACACGGGTGTGACAC
GGCAGGGTTTAGAGTGTGTGACACACCATGGAGGGAATT
Found at i:11818413 original size:23 final size:22
Alignment explanation
Indices: 11818386--11818455 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 22
11818376 ATAATCAGAC
*
11818386 GTGTGACACGGCATGGCTTGAAA
1 GTGTGACACGCCATGG-TTGAAA
*
11818409 GTGTGACATGCCATGGGTTGAATA
1 GTGTGACACGCCAT-GGTTGAA-A
11818433 -TGTGACACGCCATGGTGTGAAA
1 GTGTGACACGCCATGGT-TGAAA
11818455 G
1 G
11818456 AAGGCAAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 4 0.10
23 33 0.82
24 3 0.08
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (22 bp):
GTGTGACACGCCATGGTTGAAA
Found at i:11819008 original size:54 final size:54
Alignment explanation
Indices: 11818844--11819271 Score: 462
Period size: 55 Copynumber: 7.8 Consensus size: 54
11818834 CATCTGCATA
* * * *
11818844 TGGCGTGTTATGGGTTAACTGGTTTTTTGAGTTTTTAGCGTGTCACGACTGTTCC
1 TGGCGTGTTGTGGGTTAA-TTGTTTTTTGAGTTTTTAACGTGTCACGGCTGTTCC
* * *** * * **
11818899 TAGCGTGTTGTTGGTTAATTGGTTTTTTTTTTTTTTAGCATGTCACAACTGTTCC
1 TGGCGTGTTGTGGGTTAATT-GTTTTTTGAGTTTTTAACGTGTCACGGCTGTTCC
* *
11818954 TGGCGTGTTGTGGGTTAATTGTTTTTTGTGTTTTTAACGTGTCACGGCTATTCC
1 TGGCGTGTTGTGGGTTAATTGTTTTTTGAGTTTTTAACGTGTCACGGCTGTTCC
* ** * *
11819008 TGGCATGTTGTGGGTTAATTGTTTTTTGTTTTTTTTACGTGTCACGGCTGTTCA
1 TGGCGTGTTGTGGGTTAATTGTTTTTTGAGTTTTTAACGTGTCACGGCTGTTCC
* * * *
11819062 TGGCCTGTTGTGGGTTAACTGTTTTTTTGGAGTTTTTAACGTGTCACAGTTGTTCC
1 TGGCGTGTTGTGGGTTAATTG-TTTTTT-GAGTTTTTAACGTGTCACGGCTGTTCC
** * * * * * * *
11819118 TCACTTGTTGTGGGTTAACTGATTTTTGGGTTTTTAGCGTGTCACGACTGTTCT
1 TGGCGTGTTGTGGGTTAATTGTTTTTTGAGTTTTTAACGTGTCACGGCTGTTCC
*
11819172 TGGCGTGTTGTGGGTTAATTGATTTTTT-AGGTTTTTAACGTGTCACGGCTGTTCT
1 TGGCGTGTTGTGGGTTAATTG-TTTTTTGA-GTTTTTAACGTGTCACGGCTGTTCC
* *
11819227 TGACGTGTTGTGGGTTAATTGATTTTTTGAGTTTTTAGCGTGTCA
1 TGGCGTGTTGTGGGTTAATTG-TTTTTTGAGTTTTTAACGTGTCA
11819272 AGGTTGTTGG
Statistics
Matches: 316, Mismatches: 51, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
54 134 0.42
55 142 0.45
56 40 0.13
ACGTcount: A:0.13, C:0.12, G:0.27, T:0.48
Consensus pattern (54 bp):
TGGCGTGTTGTGGGTTAATTGTTTTTTGAGTTTTTAACGTGTCACGGCTGTTCC
Found at i:11819358 original size:31 final size:31
Alignment explanation
Indices: 11819323--11819443 Score: 161
Period size: 31 Copynumber: 3.9 Consensus size: 31
11819313 GTCACGACAC
*
11819323 TGATATGCATGGCGTGTCACGACATTTAACT
1 TGATATGCATGGCGTGTCACAACATTTAACT
* * *
11819354 TGATATACATGGCGTGTCACTACATTTGACT
1 TGATATGCATGGCGTGTCACAACATTTAACT
* * *
11819385 TGATATGCATGGCATGTTACAACATTTTACT
1 TGATATGCATGGCGTGTCACAACATTTAACT
* *
11819416 TGATATGGATGGCGTGTAACAACATTTA
1 TGATATGCATGGCGTGTCACAACATTTA
11819444 TTTCTTTCTT
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (31 bp):
TGATATGCATGGCGTGTCACAACATTTAACT
Found at i:11821813 original size:81 final size:80
Alignment explanation
Indices: 11821675--11821913 Score: 268
Period size: 81 Copynumber: 3.0 Consensus size: 80
11821665 GATGATGCTA
* * * * *
11821675 AAGGAGTCCATGTTCATCAGGCTGATTCTG-TTATCAATGCATCTGTGAGAGGAGAGGGGGATCT
1 AAGGAGTCCATGTTCCT-AGGCTGATTC-GATTATCGATGCATCTATGGGAGGAGAGGGGGACCT
* * *
11821739 TCGCTCGCTCGTGGTTG
64 TCACTCCCTCGTGGCTG
*
11821756 AAGGAGTCCATGTTCCTAAGGCTGATTCGATTATCGATGCATCTACGGGA-GATGAGGGGGACCT
1 AAGGAGTCCATGTTCCT-AGGCTGATTCGATTATCGATGCATCTATGGGAGGA-GAGGGGGACCT
*
11821820 TCACTCCCTTGTGGCTG
64 TCACTCCCTCGTGGCTG
* * ***
11821837 AAGGATTCCATGTTCCTAGGCTGATTCAATTATCGATGCATCTATGGGATGG-GAAAAGGACCTT
1 AAGGAGTCCATGTTCCTAGGCTGATTCGATTATCGATGCATCTATGGGA-GGAGAGGGGGACCTT
*
11821901 CACTCGCTCGTGG
65 CACTCCCTCGTGG
11821914 TTAAAAGAGA
Statistics
Matches: 135, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
80 53 0.39
81 81 0.60
82 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (80 bp):
AAGGAGTCCATGTTCCTAGGCTGATTCGATTATCGATGCATCTATGGGAGGAGAGGGGGACCTTC
ACTCCCTCGTGGCTG
Found at i:11823438 original size:86 final size:86
Alignment explanation
Indices: 11823307--11823921 Score: 786
Period size: 86 Copynumber: 7.2 Consensus size: 86
11823297 CAACCACGTG
* * * *
11823307 GCGTGTCAGCC-C-ATTGGGGCATGGCGTGTCACCCCATAATACTACAACAAGTCAACGTGTCAC
1 GCGTGTCA-CCACAATTGGGGCATGGCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCAC
* *
11823370 GCTAGAAATCTGCATGCACTCA
65 GCCAGAAGTCTGCATGCACTCA
* * * *
11823392 GCTTGTCACCACAATTGGGGCATGGCGTGTCACCTCACAAGACTACAACAAGTTAGCGTGTCACG
1 GCGTGTCACCACAATTGGGGCATGGCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACG
*
11823457 CTAGAAGTCTGCATGCACTCA
66 CCAGAAGTCTGCATGCACTCA
* * * * * * * *
11823478 TCATGTCACCACAATTAGGGCGTGACGTGTCACCCCACAAGATTGCAACAAGTCAGCATGTCATG
1 GCGTGTCACCACAATTGGGGCATGGCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACG
11823543 CCAGAAGTCTGCATGCACTCA
66 CCAGAAGTCTGCATGCACTCA
* * * * * *
11823564 GCGTGTCTCCACAATTAGGGCGTGGCGTGTCACCCAACAAGATTGCAACAAGGCAGCGTGTCACG
1 GCGTGTCACCACAATTGGGGCATGGCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACG
**
11823629 CCAGAAGTCTGCACACACTCA
66 CCAGAAGTCTGCATGCACTCA
* ** *
11823650 GCGTGTCAACACAATTGGCCCATGCCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACG
1 GCGTGTCACCACAATTGGGGCATGGCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACG
* *
11823715 CTAGAAGTCTGCATGCACTCG
66 CCAGAAGTCTGCATGCACTCA
* ** * *
11823736 GCGTGTCACCACAATCGGCCCAT-GCAGTGTCACCCCACAAGACTGCAACAAGTCAACATGTCAC
1 GCGTGTCACCACAATTGGGGCATGGC-GTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCAC
11823800 GCCAGAAGTCTGCATGCACTCA
65 GCCAGAAGTCTGCATGCACTCA
* * * *
11823822 GCGTGTCACCATAATTGGGGCGTGGCCTGTCACCCCACAATACTGCAACAAGTCAGCGTGTCACG
1 GCGTGTCACCACAATTGGGGCATGGCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACG
* *
11823887 CCAAAAGTCTGCATGTACTCA
66 CCAGAAGTCTGCATGCACTCA
*
11823908 TCGTGTCACCACAA
1 GCGTGTCACCACAA
11823922 GCATCTGTTT
Statistics
Matches: 463, Mismatches: 63, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
84 2 0.00
85 9 0.02
86 450 0.97
87 2 0.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (86 bp):
GCGTGTCACCACAATTGGGGCATGGCGTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACG
CCAGAAGTCTGCATGCACTCA
Found at i:11827576 original size:23 final size:23
Alignment explanation
Indices: 11827546--11827674 Score: 118
Period size: 23 Copynumber: 5.7 Consensus size: 23
11827536 TCAGTCATGT
*
11827546 TGTTACACGCCATTTTCACAACA
1 TGTTACACGCCATGTTCACAACA
* * * **
11827569 TGTTACAC-ACAAGTTCAAAATT
1 TGTTACACGCCATGTTCACAACA
*
11827591 TGTTACACACCATGTTCACAACA
1 TGTTACACGCCATGTTCACAACA
* * * * **
11827614 TATTACATG-CAAGTTCAAAATT
1 TGTTACACGCCATGTTCACAACA
11827636 TGTTACACGCCATGTTCACAACA
1 TGTTACACGCCATGTTCACAACA
*
11827659 TGTTACACGCTATGTT
1 TGTTACACGCCATGTT
11827675 AAATAAAAAT
Statistics
Matches: 79, Mismatches: 25, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
22 32 0.41
23 47 0.59
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (23 bp):
TGTTACACGCCATGTTCACAACA
Found at i:11827594 original size:22 final size:22
Alignment explanation
Indices: 11827569--11827643 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
11827559 TTTCACAACA
11827569 TGTTACACACAAGTTCAAAATT
1 TGTTACACACAAGTTCAAAATT
* * **
11827591 TGTTACACACCATGTTCACAACA
1 TGTTACACA-CAAGTTCAAAATT
* **
11827614 TATTACATGCAAGTTCAAAATT
1 TGTTACACACAAGTTCAAAATT
11827636 TGTTACAC
1 TGTTACAC
11827644 GCCATGTTCA
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
22 24 0.62
23 15 0.38
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.32
Consensus pattern (22 bp):
TGTTACACACAAGTTCAAAATT
Found at i:11827595 original size:45 final size:45
Alignment explanation
Indices: 11827545--11827666 Score: 199
Period size: 45 Copynumber: 2.7 Consensus size: 45
11827535 ATCAGTCATG
*
11827545 TTGTTACACGCCATTTTCACAACATGTTACACACAAGTTCAAAAT
1 TTGTTACACGCCATGTTCACAACATGTTACACACAAGTTCAAAAT
* * **
11827590 TTGTTACACACCATGTTCACAACATATTACATGCAAGTTCAAAAT
1 TTGTTACACGCCATGTTCACAACATGTTACACACAAGTTCAAAAT
11827635 TTGTTACACGCCATGTTCACAACATGTTACAC
1 TTGTTACACGCCATGTTCACAACATGTTACAC
11827667 GCTATGTTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (45 bp):
TTGTTACACGCCATGTTCACAACATGTTACACACAAGTTCAAAAT
Found at i:11829161 original size:16 final size:16
Alignment explanation
Indices: 11829140--11829173 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
11829130 ATTTGTAAAT
*
11829140 AAAATATTAATATTTA
1 AAAATATTAATAATTA
11829156 AAAATATTAATAATTA
1 AAAATATTAATAATTA
11829172 AA
1 AA
11829174 TTATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATATTAATAATTA
Found at i:11829268 original size:24 final size:24
Alignment explanation
Indices: 11829235--11829284 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
11829225 ATTTAAATTA
*
11829235 TAAATAAAATATTAATGATTCAAT
1 TAAATAAAATATTAATGATTAAAT
* *
11829259 TAAATTAAATATTAATGTTTAAAT
1 TAAATAAAATATTAATGATTAAAT
11829283 TA
1 TA
11829285 TTACTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (24 bp):
TAAATAAAATATTAATGATTAAAT
Found at i:11829308 original size:26 final size:26
Alignment explanation
Indices: 11829278--11829343 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 26
11829268 TATTAATGTT
* *
11829278 TAAATTATTACTTATTAATATATAAA
1 TAAATTATAAATTATTAATATATAAA
* *
11829304 TAAATTATAAATTATTACTATTTAAAAA
1 TAAATTATAAATTATTA--ATATATAAA
*
11829332 TAAAATATAAAT
1 TAAATTATAAAT
11829344 AAATAATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 15 0.45
28 18 0.55
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAATTATAAATTATTAATATATAAA
Found at i:11829371 original size:135 final size:139
Alignment explanation
Indices: 11829159--11829537 Score: 400
Period size: 135 Copynumber: 2.7 Consensus size: 139
11829149 ATATTTAAAA
* * * * *
11829159 ATATTAATAATTAAATTATAAATTGTTAATACTT-AAAATAAAATAAAAATAAATAATCATAATA
1 ATATT-ATAAATAAATTATAAATTATTACTATTTAAAAATAAAATATAAATAAATAATCATAATA
* * *
11829223 ATATTTAAATTATAAATAAAATATTAATGATTCAAT-TAA-ATTAAA-TATTAAT-GT-TTAAAT
65 ACATTTAAATTATAAATAAAATATTAAT-ATTCAATAAAAGATTAAATTATTAATAATATTAAAT
11829283 -TATTACTTATTA-
129 AT-TTA--TATTAT
* *
11829295 ATA-TATAAATAAATTATAAATTATTACTATTTAAAAATAAAATATAAATAAATAATTATAACAA
1 ATATTATAAATAAATTATAAATTATTACTATTTAAAAATAAAATATAAATAAATAATCATAATAA
**
11829359 CATTTAAATTATAAATAAAATATTAATATTTTATAAAATGATTAAATTATTAATAAAATATTAAA
66 CATTTAAATTATAAATAAAATATTAATATTCAATAAAA-GATTAAATTATTAAT--AATATTAAA
11829424 TATTTATATTAT
128 TATTTATATTAT
* **
11829436 ATATTATTAATATTTTAACTAAATTATT-CATATTTAAACAATAAAATAAAATAAAAATAAATAA
1 ATATTATAAATAAATT-A-TAAATTATTAC-TATTTAAA-AATAAAAT---AT--AAATAAATAA
11829500 TCATAATAACATTTAAATTATAAATAAAATATTAATAT
57 TCATAATAACATTTAAATTATAAATAAAATATTAATAT
11829538 CTAAAAAATA
Statistics
Matches: 205, Mismatches: 17, Indels: 28
0.82 0.07 0.11
Matches are distributed among these distances:
134 29 0.14
135 57 0.28
136 3 0.01
137 6 0.03
138 7 0.03
140 5 0.02
141 4 0.02
142 18 0.09
143 3 0.01
144 17 0.08
145 8 0.04
148 2 0.01
150 46 0.22
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (139 bp):
ATATTATAAATAAATTATAAATTATTACTATTTAAAAATAAAATATAAATAAATAATCATAATAA
CATTTAAATTATAAATAAAATATTAATATTCAATAAAAGATTAAATTATTAATAATATTAAATAT
TTATATTAT
Found at i:11829447 original size:150 final size:147
Alignment explanation
Indices: 11829248--11829537 Score: 365
Period size: 150 Copynumber: 2.0 Consensus size: 147
11829238 ATAAAATATT
* * *
11829248 AATGATTCAATTAAATTAAATATTAATGTTTAAATTATTACTTATTAATA-TATAAATAAATTA-
1 AATGATTAAATTAAATAAAATATTAATATTTAAATTATTACTTATTAATATTATAAATAAATTAT
* * * *
11829311 T-AAA-TTATTACTATTTAAAAATAAAATATAAATAAATAATTATAACAACATTTAAATTATAAA
66 TCAAATTTA-AAC-A-AT-AAAATAAAATAAAAATAAATAATCATAACAACATTTAAATTATAAA
11829374 TAAAATATTAATATTTTATAA
127 TAAAATATTAATATTTTATAA
* * *
11829395 AATGATTAAATTATTAATAAAATATTAAATATTTATATTATATA-TTATTAATATTTTAACTAAA
1 AATGATTAAATTA--AATAAAATATT-AATATTTAAATTAT-TACTTATTAATATTATAAATAAA
* *
11829459 TTATTCATATTTAAACAATAAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAAA
62 TTATTCAAATTTAAACAATAAAATAAAATAAAAATAAATAATCATAACAACATTTAAATTATAAA
11829524 TAAAATATTAATAT
127 TAAAATATTAATAT
11829538 CTAAAAAATA
Statistics
Matches: 123, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
147 12 0.10
149 10 0.08
150 78 0.63
151 14 0.11
152 2 0.02
153 4 0.03
154 3 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (147 bp):
AATGATTAAATTAAATAAAATATTAATATTTAAATTATTACTTATTAATATTATAAATAAATTAT
TCAAATTTAAACAATAAAATAAAATAAAAATAAATAATCATAACAACATTTAAATTATAAATAAA
ATATTAATATTTTATAA
Found at i:11829463 original size:20 final size:19
Alignment explanation
Indices: 11829372--11829470 Score: 76
Period size: 20 Copynumber: 4.9 Consensus size: 19
11829362 TTAAATTATA
*
11829372 AATAAAATATTAATATTTT
1 AATAAATTATTAATATTTT
*
11829391 -ATAAAATGATTAA-ATTATT
1 AAT-AAATTATTAATATT-TT
*
11829410 AATAAAATATTAAATATTTAT
1 AATAAATTATT-AATATTT-T
*
11829431 ATTATATATTATTAATATTTT
1 A--ATAAATTATTAATATTTT
*
11829452 AACTAAATTATTCATATTT
1 AA-TAAATTATTAATATTT
11829471 AAACAATAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
18 5 0.08
19 17 0.27
20 19 0.30
21 7 0.11
22 7 0.11
23 8 0.13
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (19 bp):
AATAAATTATTAATATTTT
Found at i:11829548 original size:69 final size:69
Alignment explanation
Indices: 11829192--11829617 Score: 323
Period size: 69 Copynumber: 6.0 Consensus size: 69
11829182 TGTTAATACT
* *
11829192 TAAAATAAAATAAAAATAAATAATCATAATAATATTTAAATTATAAATAAAATATTAATGATTCA
1 TAAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAAT-ATTTA
*
11829257 ATTAAA
65 A-AAAA
* * *** * * * * * * *
11829263 TTAAAT--ATTAATGTTTAAATTATTACTTATTAATATATAAA-TA-AATTATAAATTATTACTA
1 TAAAATAAAATAA-AAATAAA-TAAT-CATAATAACATTTAAATTATAA--ATAAAATATTAATA
11829324 TTT-AAAAA
61 TTTAAAAAA
* *
11829332 TAAAAT---AT--AAATAAATAATTATAACAACATTTAAATTATAAATAAAATATTAATATTTTA
1 TAAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATA-TTTA
11829392 TAAAATGA
65 -AAAA--A
* * * * * * * * * *
11829400 TTAAATTATTAATAAAATATTAAATATTTATATTATATATTATTAATATTTTAACTAAATTATTC
1 -TAAAATA-AAATAAAA-A-TAAATAATCATAATA-ACA-T-TTAA-ATTATAAATAAAATATTA
*
11829465 ATATTTAAACAA
58 ATATTTAAAAAA
*
11829477 TAAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATATCTAA
1 TAAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTAA
11829542 AAAA
66 AAAA
* *
11829546 TAAAATAAAATAAAAATAAATAAGCATAATAATATTTAAATTATAAATAAAATATTAATATTTAA
1 TAAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTAA
*
11829611 ATAA
66 AAAA
11829615 TAA
1 TAA
11829618 TTATTAATAT
Statistics
Matches: 277, Mismatches: 53, Indels: 52
0.73 0.14 0.14
Matches are distributed among these distances:
63 22 0.08
64 8 0.03
65 6 0.02
66 4 0.01
68 2 0.01
69 109 0.39
70 11 0.04
71 14 0.05
72 26 0.09
73 14 0.05
74 1 0.00
75 9 0.03
76 7 0.03
77 13 0.05
78 2 0.01
79 4 0.01
80 8 0.03
81 17 0.06
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (69 bp):
TAAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTAA
AAAA
Found at i:11829622 original size:15 final size:13
Alignment explanation
Indices: 11829502--11829632 Score: 59
Period size: 14 Copynumber: 9.5 Consensus size: 13
11829492 ATAAATAATC
*
11829502 ATAATAACATTTAA
1 ATAATAATA-TTAA
* *
11829516 ATTATAA-ATAAA
1 ATAATAATATTAA
*
11829528 ATATTAATATCTAA
1 ATAATAATAT-TAA
* * *
11829542 AAAATAAAATAAA
1 ATAATAATATTAA
* *
11829555 ATAAAAATAAATAA
1 ATAATAAT-ATTAA
11829569 GCATAATAATATTTAA
1 --ATAATAATA-TTAA
* *
11829585 ATTATAA-ATAAA
1 ATAATAATATTAA
*
11829597 ATATTAATATTTAA
1 ATAATAATA-TTAA
11829611 ATAATAATTATTAA
1 ATAATAA-TATTAA
11829625 TATAATAA
1 -ATAATAA
11829633 ATAAATTATA
Statistics
Matches: 85, Mismatches: 22, Indels: 19
0.67 0.17 0.15
Matches are distributed among these distances:
12 16 0.19
13 12 0.14
14 37 0.44
15 10 0.12
16 10 0.12
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (13 bp):
ATAATAATATTAA
Found at i:11829705 original size:26 final size:26
Alignment explanation
Indices: 11829561--11829714 Score: 109
Period size: 26 Copynumber: 5.8 Consensus size: 26
11829551 TAAAATAAAA
11829561 ATAAATAAGCATAATAATATTTAAATT
1 ATAAATAA-CATAATAATATTTAAATT
* * *
11829588 ATAAATAAAATATTAATATTTAAATA
1 ATAAATAACATAATAATATTTAAATT
*
11829614 ATAATTATTAATATAATAA-A--TAAATT
1 ATAA--A-TAACATAATAATATTTAAATT
* * * * *
11829640 ATAAAATATCAATATTTATAATTAAA-A
1 AT-AAATAAC-ATAATAATATTTAAATT
*
11829667 ATAAATAATCATAATAACATTTAAATT
1 ATAAATAA-CATAATAATATTTAAATT
* *
11829694 ATAAATAACATATTATTATTT
1 ATAAATAACATAATAATATTT
11829715 TGTAATGTTA
Statistics
Matches: 97, Mismatches: 20, Indels: 21
0.70 0.14 0.15
Matches are distributed among these distances:
24 2 0.02
25 6 0.06
26 53 0.55
27 21 0.22
28 6 0.06
29 9 0.09
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (26 bp):
ATAAATAACATAATAATATTTAAATT
Found at i:11829760 original size:16 final size:16
Alignment explanation
Indices: 11829736--11829814 Score: 61
Period size: 16 Copynumber: 4.8 Consensus size: 16
11829726 TGATTTAATT
*
11829736 ATAAATAAAAATATTA
1 ATAATTAAAAATATTA
* *
11829752 ATAATTAAAATTATCA
1 ATAATTAAAAATATTA
* * *
11829768 ATTATT-AATATTTTA
1 ATAATTAAAAATATTA
11829783 GATAAATTATAAAATATTA
1 -AT-AATTA-AAAATATTA
*
11829802 ATATTTAAAAATA
1 ATAATTAAAAATA
11829815 AAATAAATAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
15 5 0.11
16 26 0.55
17 7 0.15
18 2 0.04
19 7 0.15
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (16 bp):
ATAATTAAAAATATTA
Found at i:11829805 original size:151 final size:151
Alignment explanation
Indices: 11829575--11829883 Score: 437
Period size: 157 Copynumber: 2.0 Consensus size: 151
11829565 ATAAGCATAA
*
11829575 TAATATTTAAATTATAAATAAAATATTAATATTTAAATAATAATTATTAATATAATAAATAAATT
1 TAATATTTAAATTATAAATAAAATATTAATATTAAAATAATAATTATTAATATAATAAATAAATT
*
11829640 ATAAAATATCAATATTT-AT-AATTAAA-AATAAATAATCATAATAACATTTAAATTATAAATAA
66 ATAAAATATCAATATTTAATAAAATAAATAATAAATAATCATAATAACATTTAAATTATAAATAA
* * *
11829702 CATATTATTATTTTGTAATGT
131 AATATTAATATTTTATAATGT
* ** *
11829723 TAATGATTT-AATTATAAATAAAAATATTAATAATTAAAATTATCAATTATTAATATTTTAGATA
1 TAAT-ATTTAAATTATAAAT-AAAATATTAAT-ATTAAAATAAT-AATTATTAATATAATAAATA
*
11829787 AATTATAAAATATTAATATTTAAAAATAAAATAAATAATAAATAATCATAATAACATTTAAATTA
62 AATTATAAAATATCAATATTT---AATAAAATAAATAATAAATAATCATAATAACATTTAAATTA
11829852 TAAATAAAATATTAATATTTTATAATGT
124 TAAATAAAATATTAATATTTTATAATGT
11829880 TAAT
1 TAAT
11829884 TATNNNNNNN
Statistics
Matches: 141, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
148 14 0.10
149 15 0.11
150 9 0.06
151 37 0.26
155 2 0.01
156 6 0.04
157 58 0.41
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (151 bp):
TAATATTTAAATTATAAATAAAATATTAATATTAAAATAATAATTATTAATATAATAAATAAATT
ATAAAATATCAATATTTAATAAAATAAATAATAAATAATCATAATAACATTTAAATTATAAATAA
AATATTAATATTTTATAATGT
Found at i:11830190 original size:93 final size:96
Alignment explanation
Indices: 11830000--11830191 Score: 246
Period size: 93 Copynumber: 2.0 Consensus size: 96
11829990 TTGATTTTTA
* * * * * *
11830000 TAAAATAATTATTTTATTTTATTTCTATTTAATTCATAATTTTTACAAAATACACATTGAAACAA
1 TAAAATAATTATTTCATTTCATTTCTATCTAATTCAGAATCTTTACAAAATACACA-TCAAACAA
*
11830065 CGAACTTACGATTCAATCAACCAAACGGAGCT
65 CGAACCTACGATTCAATCAACCAAACGGAGCT
* *
11830097 TAAAATAATTATTTCATTTCATTTCTATCTATTTC-GAA-CTTTACAAAATGCACA-CAAACAAC
1 TAAAATAATTATTTCATTTCATTTCTATCTAATTCAGAATCTTTACAAAATACACATCAAACAAC
* * *
11830159 GAACCTACGGTTCAGTCAACCAAGCGGAGCT
66 GAACCTACGATTCAATCAACCAAACGGAGCT
11830190 TA
1 TA
11830192 CAACTCAAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
93 36 0.43
95 14 0.17
96 2 0.02
97 31 0.37
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (96 bp):
TAAAATAATTATTTCATTTCATTTCTATCTAATTCAGAATCTTTACAAAATACACATCAAACAAC
GAACCTACGATTCAATCAACCAAACGGAGCT
Found at i:11830864 original size:2 final size:2
Alignment explanation
Indices: 11830857--11830885 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11830847 TGAGTCATGC
11830857 AT AT 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 AT AT A
11830886 ATTTTAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11838141 original size:2 final size:2
Alignment explanation
Indices: 11838117--11838157 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
11838107 GAGTGTTGAA
* *
11838117 AG AG A- AG AG AC AG AG -G GG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11838157 A
1 A
11838158 AAAGAGGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11838918 original size:15 final size:18
Alignment explanation
Indices: 11838879--11838919 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 18
11838869 ATACTCTTTT
11838879 TATTTTAATAGTATTGAA
1 TATTTTAATAGTATTGAA
*
11838897 TAATTTAA-A-TATT-AA
1 TATTTTAATAGTATTGAA
11838912 TATTTTAA
1 TATTTTAA
11838920 GTTTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 9 0.43
16 4 0.19
17 1 0.05
18 7 0.33
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TATTTTAATAGTATTGAA
Found at i:11842423 original size:18 final size:18
Alignment explanation
Indices: 11842396--11842435 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11842386 AATCGCTGAT
* *
11842396 TTATAAGTTATTTATGAA
1 TTATAAGTTACTTATAAA
*
11842414 TTATATGTTACTTATAAA
1 TTATAAGTTACTTATAAA
11842432 TTAT
1 TTAT
11842436 TTGTGGAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (18 bp):
TTATAAGTTACTTATAAA
Found at i:11843069 original size:45 final size:44
Alignment explanation
Indices: 11842995--11843082 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 44
11842985 TACCGTTTTC
* * *
11842995 AAGGTAAATATAGTTACAAATTTTTAGACTT-TCAAATCAAATTTG
1 AAGGTAAATACAGTTACAAAATTTCAGACTTAT-AAAT-AAATTTG
* *
11843040 AAGGTAGATACAGTTTCAAAATTTCAGACTTATAAATAAATTT
1 AAGGTAAATACAGTTACAAAATTTCAGACTTATAAATAAATTT
11843083 TTTTTAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 6 0.16
45 30 0.81
46 1 0.03
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (44 bp):
AAGGTAAATACAGTTACAAAATTTCAGACTTATAAATAAATTTG
Found at i:11843826 original size:31 final size:29
Alignment explanation
Indices: 11843791--11843884 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
11843781 TACAGAAACA
* * *
11843791 TGTTACAAGTTATTTTGAATAAAAATGTTAT
1 TGTTACAAGTCATGTTG-A-AAAAATATTAT
*
11843822 TGTTACACGTCATGTTGAAAAAATATTAT
1 TGTTACAAGTCATGTTGAAAAAATATTAT
* *
11843851 TGTTACACA-CCATGTTTAAAAAA-ATT-T
1 TGTTACA-AGTCATGTTGAAAAAATATTAT
11843878 TGTTACA
1 TGTTACA
11843885 CTTTAATATT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
27 8 0.15
28 3 0.05
29 29 0.53
30 1 0.02
31 14 0.25
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (29 bp):
TGTTACAAGTCATGTTGAAAAAATATTAT
Found at i:11843880 original size:27 final size:29
Alignment explanation
Indices: 11843811--11843885 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
11843801 TATTTTGAAT
* **
11843811 AAAAATGTTATTGTTACACGTCATGTTGA
1 AAAAATATTATTGTTACACACCATGTTGA
*
11843840 AAAAATATTATTGTTACACACCATGTTTA
1 AAAAATATTATTGTTACACACCATGTTGA
11843869 AAAAA-ATT-TTGTTACAC
1 AAAAATATTATTGTTACAC
11843886 TTTAATATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.21
28 3 0.07
29 30 0.71
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (29 bp):
AAAAATATTATTGTTACACACCATGTTGA
Found at i:11845139 original size:34 final size:32
Alignment explanation
Indices: 11845101--11845192 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 32
11845091 ATTAGTTAAG
11845101 TTTTAAAAAGAATTAAATTAATTAATATTAATTA
1 TTTT-AAAA-AATTAAATTAATTAATATTAATTA
* *
11845135 TTTT-ATAAA-TAAATTAGTT-A-ATTAATTA
1 TTTTAAAAAATTAAATTAATTAATATTAATTA
* *
11845163 ATTTAAAATAATT-AATCAATTAATATTAAT
1 TTTTAAAA-AATTAAATTAATTAATATTAAT
11845193 CACACATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
28 11 0.23
29 3 0.06
30 17 0.36
31 4 0.09
32 8 0.17
34 4 0.09
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (32 bp):
TTTTAAAAAATTAAATTAATTAATATTAATTA
Found at i:11845148 original size:30 final size:27
Alignment explanation
Indices: 11845114--11845186 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 27
11845104 TAAAAAGAAT
*
11845114 TAAATTAATTAATATTAATTATTTTATAAA
1 TAAATTAATT-A-ATTAATTAATTTA-AAA
*
11845144 TAAATTAGTTAATTAATTAATTTAAAA
1 TAAATTAATTAATTAATTAATTTAAAA
*
11845171 T-AATTAATCAATTAAT
1 TAAATTAATTAATTAAT
11845187 ATTAATCACA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 13 0.33
27 4 0.10
28 12 0.31
29 1 0.03
30 9 0.23
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
TAAATTAATTAATTAATTAATTTAAAA
Found at i:11849393 original size:82 final size:82
Alignment explanation
Indices: 11849302--11849573 Score: 185
Period size: 82 Copynumber: 3.2 Consensus size: 82
11849292 GGAACCTAAC
11849302 TATTT-TTTTTAATTTTATGCAATTAATAACAAACATATATAGTCAATTAAACTTGTAATGTTGT
1 TATTTATTTTTAATTTTATGCAATTAATAACAAACATATATAGTCAATTAAACTTGTAATGTTGT
11849366 TTAAGTTGTTGTTTGGA
66 TTAAGTTGTTGTTTGGA
*** * ** * ** *** * * *
11849383 TATTTATTTTTAATTATT-T--AAGTTGATATTTGATATTTTTATTTTTGCTNTATACTT-AAAA
1 TATTTATTTTTAATT-TTATGCAA-TT-A-ATAACAAACATATATAGTCAAT-TAAACTTGTAAT
** * *
11849444 GAAGTTATGAGATTATAATAGTTTGGAA
61 GTTGTT-TAAG-TTGT--T-GTTTGG-A
*
11849472 CCTAACTATTTTTTTTAATTTTATGCAATTAATAACAAACATATATAGTCAATTAAACTTGTAAT
1 --T-A-T-TTATTTTTAATTTTATGCAATTAATAACAAACATATATAGTCAATTAAACTTGTAAT
11849537 GTTGTTTAAGTTGTTGTTTGGA
61 GTTGTTTAAGTTGTTGTTTGGA
11849559 TATTTATTTTTAATT
1 TATTTATTTTTAATT
11849574 ATTTAAGTTG
Statistics
Matches: 130, Mismatches: 40, Indels: 41
0.62 0.19 0.19
Matches are distributed among these distances:
80 2 0.02
81 7 0.05
82 22 0.17
83 19 0.15
84 10 0.08
85 4 0.03
87 2 0.02
88 12 0.09
89 2 0.02
91 4 0.03
92 10 0.08
93 19 0.15
94 13 0.10
95 2 0.02
96 2 0.02
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (82 bp):
TATTTATTTTTAATTTTATGCAATTAATAACAAACATATATAGTCAATTAAACTTGTAATGTTGT
TTAAGTTGTTGTTTGGA
Found at i:11849551 original size:176 final size:175
Alignment explanation
Indices: 11849257--11849610 Score: 681
Period size: 176 Copynumber: 2.0 Consensus size: 175
11849247 TTATAAAATA
11849257 TATACTTAAAAGAAGTTATGAGATTATAATAGTTTGGAACCTAACTATTTTTTTTAATTTTATGC
1 TATACTTAAAAGAAGTTATGAGATTATAATAGTTTGGAACCTAACTATTTTTTTTAATTTTATGC
11849322 AATTAATAACAAACATATATAGTCAATTAAACTTGTAATGTTGTTTAAGTTGTTGTTTGGATATT
66 AATTAATAACAAACATATATAGTCAATTAAACTTGTAATGTTGTTTAAGTTGTTGTTTGGATATT
* *
11849387 TATTTTTAATTATTTAAGTTGATATTTGATATTTTTATTTTTGCT
131 TATTTTTAATTATTTAAGTTGATATTTGAGATATTTATTTTTGCT
11849432 NTATACTTAAAAGAAGTTATGAGATTATAATAGTTTGGAACCTAACTATTTTTTTTAATTTTATG
1 -TATACTTAAAAGAAGTTATGAGATTATAATAGTTTGGAACCTAACTATTTTTTTTAATTTTATG
11849497 CAATTAATAACAAACATATATAGTCAATTAAACTTGTAATGTTGTTTAAGTTGTTGTTTGGATAT
65 CAATTAATAACAAACATATATAGTCAATTAAACTTGTAATGTTGTTTAAGTTGTTGTTTGGATAT
11849562 TTATTTTTAATTATTTAAGTTGATATTTGAGATATTTATTTTTGCT
130 TTATTTTTAATTATTTAAGTTGATATTTGAGATATTTATTTTTGCT
11849608 TAT
1 TAT
11849611 TTAAATTTAA
Statistics
Matches: 176, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
175 3 0.02
176 173 0.98
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (175 bp):
TATACTTAAAAGAAGTTATGAGATTATAATAGTTTGGAACCTAACTATTTTTTTTAATTTTATGC
AATTAATAACAAACATATATAGTCAATTAAACTTGTAATGTTGTTTAAGTTGTTGTTTGGATATT
TATTTTTAATTATTTAAGTTGATATTTGAGATATTTATTTTTGCT
Found at i:11849600 original size:35 final size:34
Alignment explanation
Indices: 11849541--11849614 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 34
11849531 TGTAATGTTG
* *
11849541 TTTAAGTTGTTGTTTGGATATTTATTTTTAATTA
1 TTTAAGTTGATATTTGGATATTTATTTTTAATTA
**
11849575 TTTAAGTTGATATTTGAGATATTTATTTTTGCTTA
1 TTTAAGTTGATATTTG-GATATTTATTTTTAATTA
11849610 TTTAA
1 TTTAA
11849615 ATTTAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
34 14 0.40
35 21 0.60
ACGTcount: A:0.26, C:0.01, G:0.14, T:0.59
Consensus pattern (34 bp):
TTTAAGTTGATATTTGGATATTTATTTTTAATTA
Found at i:11850939 original size:29 final size:28
Alignment explanation
Indices: 11850878--11850968 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
11850868 GTCTATGGGC
11850878 AATTTTTCA-TTTTTGGGGTAAAAATGT
1 AATTTTTCACTTTTTGGGGTAAAAATGT
11850905 AATTTTTCACTTTTTGGGGTAAAAATGT
1 AATTTTTCACTTTTTGGGGTAAAAATGT
** * *
11850933 AATTTTTCACTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTT-TTGGGGTAAAAATGT
11850962 AATTTTT
1 AATTTTT
11850969 AAAAATTTGC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 9 0.16
28 31 0.53
29 18 0.31
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.45
Consensus pattern (28 bp):
AATTTTTCACTTTTTGGGGTAAAAATGT
Found at i:11854466 original size:17 final size:17
Alignment explanation
Indices: 11854399--11854466 Score: 52
Period size: 17 Copynumber: 4.0 Consensus size: 17
11854389 TATAAAAAAT
11854399 TAATATTTTAAATT-TAA
1 TAATA-TTTAAATTATAA
* *
11854416 AAATGAATTAAAATTAT--
1 TAAT--ATTTAAATTATAA
* *
11854433 TAATATTTTAATCATAA
1 TAATATTTAAATTATAA
11854450 TAATATTTAAATTATAA
1 TAATATTTAAATTATAA
11854467 ATAAAATATT
Statistics
Matches: 38, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
15 8 0.21
17 21 0.55
18 7 0.18
19 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (17 bp):
TAATATTTAAATTATAA
Found at i:11854644 original size:21 final size:20
Alignment explanation
Indices: 11854620--11854685 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 20
11854610 AATTTAAAAA
11854620 TTAATTAAAATGATTAATATT
1 TTAATTAAAAT-ATTAATATT
*
11854641 TTAATCATAATAATATTTATATT
1 TTAAT--TAA-AATATTAATATT
* *
11854664 ATAAATAAAATATTAATTATT
1 TTAATTAAAATATTAA-TATT
11854685 T
1 T
11854686 AAATGTTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
20 7 0.19
21 12 0.33
23 14 0.39
24 3 0.08
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAATTAAAATATTAATATT
Found at i:11854655 original size:201 final size:190
Alignment explanation
Indices: 11854171--11854680 Score: 722
Period size: 188 Copynumber: 2.6 Consensus size: 190
11854161 AAGAATTTAA
* * *
11854171 AATAAACAGTTTAAGTGTTTAATTATTTATTATTAAAAATTAATATTTTAAAGTTAAAAATTAAT
1 AATAAACAGTTTAAGTTTTTAATTATATATTA-TAAAAATTAATATTTTAAATTTAAAAATTAAT
* * * *
11854236 TAAAATTATTAATATTTTAATCACAATAATATTTAAGTTATAAATAAACTA-T--TGATATTTTG
65 TAAAATTATTAATATTTTAATCATAATAATATTTAAATTATAAATAAAATATTAATGAAATTTTG
*
11854298 AAAAAAATTATAAATTATTAATATTTAAAAATAAAATAAAAAATAGATAGTCATATATTAT
130 AAAAAAATTATAAATTATTAATATTTAAAAATAAAATAAAAAATAGATAATCATATATTAT
* * *
11854359 AATAAGCAGTTTAAGTTTTTAAATATATATTATAAAAAATTAATATTTTAAATTTAAAAATGAAT
1 AATAAACAGTTTAAGTTTTTAATTATATATTAT-AAAAATTAATATTTTAAATTTAAAAATTAAT
11854424 TAAAATTATTAATATTTTAATCATAATAATATTTAAATTATAAATAAAATATTAATAGTTAAAAA
65 TAAAATTATTAATATTTTAATCATAATAATATTTAAATTATAAATAAAATATTAAT-G----AAA
* *
11854489 TTTTTAATAATTAAATTATAAATTATTAATATTTTTTAAAAAATAAAAT-AAAAATATATAATCA
125 TTTTGAA-AA--AAATTATAAATTATTAATA---TTT-AAAAATAAAATAAAAAATAGATAATCA
11854553 TATATTAT
183 TATATTAT
*
11854561 AATAAACTGTTTAAGTTTTTAATTATATATTATAAAAATTAATATTTTAAATTTAAAAATTAATT
1 AATAAACAGTTTAAGTTTTTAATTATATATTATAAAAATTAATATTTTAAATTTAAAAATTAATT
* *
11854626 AAAATGATTAATATTTTAATCATAATAATATTTATATTATAAATAAAATATTAAT
66 AAAATTATTAATATTTTAATCATAATAATATTTAAATTATAAATAAAATATTAAT
11854681 TATTTAAATG
Statistics
Matches: 287, Mismatches: 19, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
187 1 0.00
188 105 0.37
189 1 0.00
191 1 0.00
192 1 0.00
196 8 0.03
197 2 0.01
199 19 0.07
201 84 0.29
202 54 0.19
203 11 0.04
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (190 bp):
AATAAACAGTTTAAGTTTTTAATTATATATTATAAAAATTAATATTTTAAATTTAAAAATTAATT
AAAATTATTAATATTTTAATCATAATAATATTTAAATTATAAATAAAATATTAATGAAATTTTGA
AAAAAATTATAAATTATTAATATTTAAAAATAAAATAAAAAATAGATAATCATATATTAT
Found at i:11854723 original size:202 final size:203
Alignment explanation
Indices: 11854324--11854724 Score: 605
Period size: 201 Copynumber: 2.0 Consensus size: 203
11854314 ATTAATATTT
* *
11854324 AAAAATAAAATAAAAAATAGATAGTCATATATTATAATAAGCAGTTTAAGTTTTTAAATATATAT
1 AAAAATAAAATAAAAAATAGATAATCATATATTATAATAAACAGTTTAAGTTTTTAAATATATAT
*
11854389 TATAAAAAATTAATATTTTAAATTTAAAAATGAATTAAAATTATTAATATTTTAATCATAATAAT
66 TATAAAAAATTAATATTTTAAATTTAAAAATGAATTAAAATGATTAATATTTTAATCATAATAAT
* * * *
11854454 ATTTAAATTATAAATAAAATATTAATAGTTAAAAATTTTTAATAATTAAATTATAAATTATTAAT
131 ATTTAAATTATAAATAAAATATTAATAGTTAAAAATTGTTAATAATTAAATTAAAAAATAATAAT
11854519 ATTTTTTA
196 ATTTTTTA
* * *
11854527 AAAAATAAAAT-AAAAATATATAATCATATATTATAATAAACTGTTTAAGTTTTTAATTATATAT
1 AAAAATAAAATAAAAAATAGATAATCATATATTATAATAAACAGTTTAAGTTTTTAAATATATAT
*
11854591 TAT-AAAAATTAATATTTTAAATTTAAAAATTAATTAAAATGATTAATATTTTAATCATAATAAT
66 TATAAAAAATTAATATTTTAAATTTAAAAATGAATTAAAATGATTAATATTTTAATCATAATAAT
* * *
11854655 ATTTATATTATAAATAAAATATTAATTA-TT-TAAA-TGTTAATCATTAAATCATAAAAAAATAA
131 ATTTAAATTATAAATAAAATATTAA-TAGTTAAAAATTGTTAATAATTAAAT--T-AAAAAATAA
11854717 TAATATTT
192 TAATATTT
11854725 AAATTATCTA
Statistics
Matches: 180, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
199 13 0.07
200 3 0.02
201 86 0.48
202 67 0.37
203 11 0.06
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (203 bp):
AAAAATAAAATAAAAAATAGATAATCATATATTATAATAAACAGTTTAAGTTTTTAAATATATAT
TATAAAAAATTAATATTTTAAATTTAAAAATGAATTAAAATGATTAATATTTTAATCATAATAAT
ATTTAAATTATAAATAAAATATTAATAGTTAAAAATTGTTAATAATTAAATTAAAAAATAATAAT
ATTTTTTA
Found at i:11854768 original size:27 final size:27
Alignment explanation
Indices: 11854724--11854777 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
11854714 TAATAATATT
**
11854724 TAAATTATCTATTATTAATATTT-TAAA
1 TAAATTATAAATTATTAAT-TTTATAAA
*
11854751 TAAATTATAAATTTTTAATTTTATAAA
1 TAAATTATAAATTATTAATTTTATAAA
11854778 AATAAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
TAAATTATAAATTATTAATTTTATAAA
Found at i:11855589 original size:22 final size:23
Alignment explanation
Indices: 11855539--11855589 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
11855529 AAGAGAATGT
*
11855539 TTTCTTCTTTGAATTCCAATAATTT
1 TTTCTTCTTTGAATTCC-A-AATTC
11855564 TTTCTTCTTTGAATTCC-AATTC
1 TTTCTTCTTTGAATTCCAAATTC
11855586 TTTC
1 TTTC
11855590 ATTGACCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 8 0.32
25 17 0.68
ACGTcount: A:0.20, C:0.20, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTCTTCTTTGAATTCCAAATTC
Found at i:11855918 original size:18 final size:20
Alignment explanation
Indices: 11855895--11855933 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
11855885 ACCTTCTAGG
11855895 ATAATTT-T-AACAAAAATT
1 ATAATTTATAAACAAAAATT
11855913 ATAATTTATAAAACAAAAATT
1 ATAATTTAT-AAACAAAAATT
11855934 TACCAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
21 10 0.56
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAATTTATAAACAAAAATT
Found at i:11877240 original size:31 final size:31
Alignment explanation
Indices: 11877192--11877270 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
11877182 CATGCCCCAG
* *
11877192 TTGTGGTGATACGCTGAGTGGAAGTAGATAC
1 TTGTGGTGACACGCTGAGTGCAAGTAGATAC
* **
11877223 TTG-GCGTGACACGCTGAGTGCATGTAGATTT
1 TTGTG-GTGACACGCTGAGTGCAAGTAGATAC
11877254 TTGTGGTGACACGCTGA
1 TTGTGGTGACACGCTGA
11877271 CTTCTTACAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 1 0.02
31 39 0.95
32 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.30
Consensus pattern (31 bp):
TTGTGGTGACACGCTGAGTGCAAGTAGATAC
Found at i:11877295 original size:117 final size:117
Alignment explanation
Indices: 11877075--11878166 Score: 1301
Period size: 117 Copynumber: 9.4 Consensus size: 117
11877065 CAATGACATC
* * *
11877075 TTGTAGTGACACGTTGAGTGGAAGCAGATACTTGACGTGACACGCTGAGTGCATGCAGATTTCTG
1 TTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCTG
* * * * * *
11877140 TGTTGACACGCTGACTTTTTACAGTATTATGGGGTGACACGGCATGCCCCAG
66 TGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGCACGCCCCAA
* * * *
11877192 TTGTGGTGATACGCTGAGTGGAAGTAGATACTTGGCGTGACACGCTGAGTGCATGTAGATTTTTG
1 TTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCTG
* * * * *
11877257 TGGTGACACGCTGACTTCTTACAGTATTATGGTGTGACACCGCACAG-CCCAG
66 TGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGCAC-GCCCCAA
* * * *
11877309 TTGTGGTGACATGCTGAATGGAAGCAGATACTTGGCATGACACGCTGAGTGCATGCAGATTTTTG
1 TTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCTG
* *
11877374 TGGTGACACGCTGACTTCTTGCAGTATTGTAGGGTGACATGGCACGCCCCAA
66 TGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGCACGCCCCAA
* ** * *
11877426 TTGTGGTGACACGTTGAGTGGAATTAGATACTTGGTGTGACACGTTGAGTGCATGCAGATTTCTG
1 TTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCTG
* * * * *
11877491 TGGTGGCACGTTGACTTCTTGCAGTATTGTGAGGTTG-CACGACATGCCCCAA
66 TGGTGACACGCTGACTTCTTGCAGTATTGTG-GGGTGACACGGCACGCCCCAA
* * * *
11877543 TTGTGGTGACATGCTGACT----TC---T--TGTGGGGTGAC-CGCTGAGTGCATGCAGATTTCT
1 TTGTGGTGACACGCTGAGTGGAAGCAGATACT-TGGCGTGACACGCTGAGTGCATGCAGATTTCT
* * * *
11877598 GTGGTGGCACGCTGACTTCTTGTAGTATTATGGGGTGACACGGCACGCCCTAA
65 GTGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGCACGCCCCAA
* * * *
11877651 TTATGGTGACACGCTGAGTGGAAGCAGATACTTGGAGCGACATGCTGAGTGCATGCAGATTTCTA
1 TTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCT-
**
11877716 G-CATGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGCACGCCCCAA
65 GTGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGCACGCCCCAA
* * * *
11877768 TTATGGTGACACGCTGAGTGGAAGTAGATACTTAGCGTGACACGTTGAGTGCATGCAGATTTCTG
1 TTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCTG
* * * * * *
11877833 TGGTGGCATGCTGACTTCTTGCAGTATTGTGAGGTTACACGGCATGCCCCAG
66 TGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGCACGCCCCAA
* * * * *
11877885 TTGTGGTGACACGTTGAGTGAAAACAGATACTTGGTGTGACATGCTGAGTGCATGCAGATTTCTG
1 TTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCTG
* *
11877950 TGGTGACACGCTGACTTCTTGTAGTATTGTGGGGTGACACAGCACGCCCCAA
66 TGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGCACGCCCCAA
* * * * * * * *
11878002 TTGTGGTGACACGCTGAGTTGAAACAGATACTAGGCATGACACGTTGAGTGCATACATATTTTTG
1 TTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCTG
** * * * * * *
11878067 ACGTGACACGCTGACTTTTTACAGTATTGTGGGGTGACAAGTCACTCTCCAA
66 TGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGCACGCCCCAA
* * *
11878119 TTATGGTGACACGCTAAGTGGAAGCAGATACTTGGCGTGACATGCTGA
1 TTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGA
11878167 CTTGTTCCAA
Statistics
Matches: 831, Mismatches: 127, Indels: 34
0.84 0.13 0.03
Matches are distributed among these distances:
107 4 0.00
108 79 0.10
109 8 0.01
110 1 0.00
112 1 0.00
113 1 0.00
115 1 0.00
116 9 0.01
117 721 0.87
118 6 0.01
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (117 bp):
TTGTGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCTG
TGGTGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGCACGCCCCAA
Found at i:11877978 original size:459 final size:462
Alignment explanation
Indices: 11877112--11878166 Score: 1329
Period size: 459 Copynumber: 2.3 Consensus size: 462
11877102 ATACTTGACG
* * *
11877112 TGACACGCTGAGTGCATGCAGATTTCTG-TGTTGACACGCTGACTTTTTACAGTATTATGGGGTG
1 TGACACGCTGAGTGCATACAGATTTCTGACG-TGACACGCTGACTTCTTACAGTATTATGGGGTG
* * * * * *
11877176 ACACGGCATGCCCCAGTTGTGGTGATACGCTGAGTGGAAGTAGATACTTGGCGTGACACGCTGAG
65 ACACGGCACG-CCCAATTATGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACATGCTGAG
* * ** *
11877241 TGCATGTAGATTTTTGTGGTGACACGCTGACTTCTTACAGTATTATGGTGTGACACCGCACAGCC
129 TGCATGCAGATTTTAGTCATGACACGCTGACTTCTTACAGTATTATGGGGTGACACCGCACAGCC
* * * *
11877306 CAGTTGTGGTGACATGCTGAATGGAAGCAGATACTTGGCATGACACGCTGAGTGCATGCAGATTT
194 CAATTATGGTGACACGCTGAATGGAAGCAGATACTTAGCATGACACGCTGAGTGCATGCAGATTT
* *
11877371 TTGTGGTGACACGCTGACTTCTTGCAGTATTGTAGGGTGACATGGCACGCCCCAATTGTGGTGAC
259 CTGTGGTGACACGCTGACTTCTTGCAGTATTGTAGGGTGACACGGCACGCCCCAATTGTGGTGAC
* ** * *
11877436 ACGTTGAGTGGAATTAGATACTTGGTGTGACACGTTGAGTGCATGCAGATTTCTGTGGTGGCACG
324 ACGTTGAGTGAAAACAGATACTTGGTGTGACACGCTGAGTGCATGCAGATTTCTGTGGTGACACG
* * * *
11877501 TTGACTTCTTGCAGTATTGTGAGGTTG-CAC-GACATGCCCCAATTGTGGTGACATGCTGACTT-
389 CTGACTTCTTGCAGTATTGTG-GGGTGACACAG-CACGCCCCAATTGTGGTGACACGCTGACTTA
** **
11877563 C-TTGT-GGGG
452 CATACTAGGCA
* ** * **
11877572 TGAC-CGCTGAGTGCATGCAGATTTCTGTGGTGGCACGCTGACTTCTTGTAGTATTATGGGGTGA
1 TGACACGCTGAGTGCATACAGATTTCTGACGTGACACGCTGACTTCTTACAGTATTATGGGGTGA
* *
11877636 CACGGCACGCCCTAATTATGGTGACACGCTGAGTGGAAGCAGATACTTGGAGCGACATGCTGAGT
66 CACGGCACGCCC-AATTATGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACATGCTGAGT
* * *
11877701 GCATGCAGATTTCTAG-CATGACACGCTGACTTCTTGCAGTATTGTGGGGTGACACGGCAC-GCC
130 GCATGCAGATTT-TAGTCATGACACGCTGACTTCTTACAGTATTATGGGGTGACACCGCACAG-C
* * * *
11877764 CCAATTATGGTGACACGCTGAGTGGAAGTAGATACTTAGCGTGACACGTTGAGTGCATGCAGATT
193 CCAATTATGGTGACACGCTGAATGGAAGCAGATACTTAGCATGACACGCTGAGTGCATGCAGATT
* * * * *
11877829 TCTGTGGTGGCATGCTGACTTCTTGCAGTATTGT-GAGGTTACACGGCATGCCCCAGTTGTGGTG
258 TCTGTGGTGACACGCTGACTTCTTGCAGTATTGTAG-GGTGACACGGCACGCCCCAATTGTGGTG
*
11877893 ACACGTTGAGTGAAAACAGATACTTGGTGTGACATGCTGAGTGCATGCAGATTTCTGTGGTGACA
322 ACACGTTGAGTGAAAACAGATACTTGGTGTGACACGCTGAGTGCATGCAGATTTCTGTGGTGACA
* *
11877958 CGCTGACTTCTTGTAGTATTGTGGGGTGACACAGCACGCCCCAATTGTGGTGACACGCTGAGTTG
387 CGCTGACTTCTTGCAGTATTGTGGGGTGACACAGCACGCCCCAATTGTGGTGACACGCTGACTT-
11878023 AAACAGATACTAGGCA
451 --AC--ATACTAGGCA
* * * * *
11878039 TGACACGTTGAGTGCATACATATTTTTGACGTGACACGCTGACTTTTTACAGTATTGTGGGGTGA
1 TGACACGCTGAGTGCATACAGATTTCTGACGTGACACGCTGACTTCTTACAGTATTATGGGGTGA
* * * *
11878104 CAAGTCACTCTCCAATTATGGTGACACGCTAAGTGGAAGCAGATACTTGGCGTGACATGCTGA
66 CACGGCACGC-CCAATTATGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACATGCTGA
11878167 CTTGTTCCAA
Statistics
Matches: 509, Mismatches: 69, Indels: 26
0.84 0.11 0.04
Matches are distributed among these distances:
458 9 0.02
459 378 0.74
460 8 0.02
463 1 0.00
466 2 0.00
467 6 0.01
468 103 0.20
469 2 0.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (462 bp):
TGACACGCTGAGTGCATACAGATTTCTGACGTGACACGCTGACTTCTTACAGTATTATGGGGTGA
CACGGCACGCCCAATTATGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACATGCTGAGTG
CATGCAGATTTTAGTCATGACACGCTGACTTCTTACAGTATTATGGGGTGACACCGCACAGCCCA
ATTATGGTGACACGCTGAATGGAAGCAGATACTTAGCATGACACGCTGAGTGCATGCAGATTTCT
GTGGTGACACGCTGACTTCTTGCAGTATTGTAGGGTGACACGGCACGCCCCAATTGTGGTGACAC
GTTGAGTGAAAACAGATACTTGGTGTGACACGCTGAGTGCATGCAGATTTCTGTGGTGACACGCT
GACTTCTTGCAGTATTGTGGGGTGACACAGCACGCCCCAATTGTGGTGACACGCTGACTTACATA
CTAGGCA
Found at i:11881943 original size:31 final size:31
Alignment explanation
Indices: 11881908--11881994 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
11881898 AGAAAGAAAT
11881908 AAATGTTGTTACACGCCATGCATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
*
11881939 AAATGTTGTTACACGCCATGCATATCAAGTC
1 AAATGTTGTTACACGCCATGCATATCAAGTA
* *
11881970 AAATGTCGTGACACGCCATGCATAT
1 AAATGTTGTTACACGCCATGCATAT
11881995 TAGTGTCATG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (31 bp):
AAATGTTGTTACACGCCATGCATATCAAGTA
Found at i:11882186 original size:55 final size:55
Alignment explanation
Indices: 11882070--11882453 Score: 468
Period size: 55 Copynumber: 7.0 Consensus size: 55
11882060 ATACGAACAG
* *
11882070 CGTGACACGCTAAAAACCCAAAAAAACCAGTTAATCCACAACAGGCCATATGCAGC
1 CGTGACACGCTAAAAACCC-AAAAAACCAGTTAACCCACAACACGCCATATGCAGC
* * * *
11882126 CGTGACACGCTAAAAACCCAAAAAAACAGTTAACCAACAACACGCCACGA-ACAGC
1 CGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCA-TATGCAGC
* * * * *
11882181 TGTGACACACTAAAAACCC-AAAAACCAGTTAACCCACAACATGCCACGA-ACAGC
1 CGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCA-TATGCAGC
* * * * *
11882235 CGTGACACACTAAAAACACAAAAAACCAGTTAACACACAACACACCATATGCAAC
1 CGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCATATGCAGC
* * **
11882290 CATGACACGTTAAAAACTTAAAAAACCAGTTAACCCACAACACGCCATATGCAGC
1 CGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCATATGCAGC
* * *
11882345 CGTGACATGCTAAAAACCCAAAAAACTAGTTAACCCACAACACGCCATATGCAAC
1 CGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCATATGCAGC
* ** * *
11882400 TGTGACACATTAAAAACCCAAAAAACCAGTTAACCCACAAAACACCATATGCAG
1 CGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCATATGCAG
11882454 AAGCAAACCC
Statistics
Matches: 283, Mismatches: 42, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
54 50 0.18
55 213 0.75
56 20 0.07
ACGTcount: A:0.46, C:0.31, G:0.11, T:0.12
Consensus pattern (55 bp):
CGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCATATGCAGC
Found at i:11882872 original size:23 final size:23
Alignment explanation
Indices: 11882840--11882906 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
11882830 ACCTCCTTCT
*
11882840 TTCAAACCATGGCGTGTGACATA
1 TTCAAACCATGGCGTGTCACATA
* *
11882863 TTCAACCCATGGCGTGTCACATG
1 TTCAAACCATGGCGTGTCACATA
* * *
11882886 TTCAAGCCATGCCATGTCACA
1 TTCAAACCATGGCGTGTCACA
11882907 CGTTCTGACC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (23 bp):
TTCAAACCATGGCGTGTCACATA
Found at i:11882911 original size:23 final size:23
Alignment explanation
Indices: 11882863--11882911 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11882853 GTGTGACATA
* * *
11882863 TTCAACCCATGGCGTGTCACATG
1 TTCAACCCATGCCATGTCACACG
*
11882886 TTCAAGCCATGCCATGTCACACG
1 TTCAACCCATGCCATGTCACACG
11882909 TTC
1 TTC
11882912 TGACCATGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (23 bp):
TTCAACCCATGCCATGTCACACG
Found at i:11883041 original size:46 final size:47
Alignment explanation
Indices: 11882991--11883093 Score: 145
Period size: 46 Copynumber: 2.2 Consensus size: 47
11882981 ATCACCTTGC
** * * *
11882991 CATGTCATGGATTCCCTGCATGGCGTGTCACAAACT-TAAACCCTGT
1 CATGTCACAGATTCCCTCCATGGCATATCACAAACTCTAAACCCTGT
*
11883037 CATGTCACAGATTCCCTCCATGGCATATCACACACTCTAAACCCTGT
1 CATGTCACAGATTCCCTCCATGGCATATCACAAACTCTAAACCCTGT
11883084 CATGTCACAG
1 CATGTCACAG
11883094 TTGTGTCACA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
46 30 0.60
47 20 0.40
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (47 bp):
CATGTCACAGATTCCCTCCATGGCATATCACAAACTCTAAACCCTGT
Found at i:11883125 original size:23 final size:23
Alignment explanation
Indices: 11883099--11883142 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11883089 CACAGTTGTG
* *
11883099 TCACACATTATCACCGTGCCGCT
1 TCACACATTATAACCCTGCCGCT
11883122 TCACACATTATAACCCTGCCG
1 TCACACATTATAACCCTGCCG
11883143 TGTCATAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.25, C:0.39, G:0.11, T:0.25
Consensus pattern (23 bp):
TCACACATTATAACCCTGCCGCT
Found at i:11883173 original size:104 final size:104
Alignment explanation
Indices: 11883009--11883234 Score: 258
Period size: 104 Copynumber: 2.2 Consensus size: 104
11882999 GGATTCCCTG
* * *
11883009 CATGGCGTGTCACAAACTTA-AACCCTGTCATGTCACAGATTCCCTCCATGGCATATCACACACT
1 CATGACGTGTCACACA-TTATAACCCTGCCATGTCACAGATTCCCTCCATGGCATATCACACACT
** **
11883073 CTAAACCCTGTCATGTCACAGTTGTGTCACACATTATCAC
65 CTAAACCCTACCATGTCACAACTGTGTCACACATTATCAC
* * * * ** *
11883113 CGTGCCGCT-TCACACATTATAACCCTGCCGTGTCATAGATTCCCTCCATGGTGTGTCACACACT
1 CATGACG-TGTCACACATTATAACCCTGCCATGTCACAGATTCCCTCCATGGCATATCACACACT
* * * *
11883177 CTAAATCCTACCGTGTCACAACTGTGTCACATATTCTCAC
65 CTAAACCCTACCATGTCACAACTGTGTCACACATTATCAC
11883217 CATGACGTGTCACACATT
1 CATGACGTGTCACACATT
11883235 CCCACCATAC
Statistics
Matches: 100, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
103 4 0.04
104 95 0.95
105 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (104 bp):
CATGACGTGTCACACATTATAACCCTGCCATGTCACAGATTCCCTCCATGGCATATCACACACTC
TAAACCCTACCATGTCACAACTGTGTCACACATTATCAC
Found at i:11883226 original size:23 final size:23
Alignment explanation
Indices: 11883200--11883313 Score: 113
Period size: 23 Copynumber: 4.9 Consensus size: 23
11883190 TGTCACAACT
* *
11883200 GTGTCACATATTCTCACCATGAC
1 GTGTCACACATTCCCACCATGAC
11883223 GTGTCACACATTCCCACCAT-ACC
1 GTGTCACACATTCCCACCATGA-C
* *** * *
11883246 GTGTCACAAACTTTATACCTTGTC
1 GTGTCACACA-TTCCCACCATGAC
*
11883270 GTGTCACACATTCCCACCATGCC
1 GTGTCACACATTCCCACCATGAC
*
11883293 ATGTCACACATTCCCACCATG
1 GTGTCACACATTCCCACCATG
11883314 TCATTTTATA
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
22 1 0.01
23 56 0.77
24 16 0.22
ACGTcount: A:0.25, C:0.36, G:0.11, T:0.27
Consensus pattern (23 bp):
GTGTCACACATTCCCACCATGAC
Found at i:11886551 original size:54 final size:54
Alignment explanation
Indices: 11886469--11886573 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
11886459 AAACATAGTA
*
11886469 CAAATAAATCAACTTAAGTGATCATACAACAAAGAACACAACGATTTTACAGTT
1 CAAATAAATCAACTTAAGTAATCATACAACAAAGAACACAACGATTTTACAGTT
*
11886523 CAAATAAATCAACTTAAGTAATCATACAACAACGAACACAACGATTTTACA
1 CAAATAAATCAACTTAAGTAATCATACAACAAAGAACACAACGATTTTACA
11886574 TATTGTTGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.50, C:0.20, G:0.08, T:0.23
Consensus pattern (54 bp):
CAAATAAATCAACTTAAGTAATCATACAACAAAGAACACAACGATTTTACAGTT
Found at i:11887370 original size:13 final size:13
Alignment explanation
Indices: 11887348--11887380 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11887338 TCTTATTTGG
11887348 AATT-TTTTTTTA
1 AATTATTTTTTTA
11887360 AATTATTTTTTTA
1 AATTATTTTTTTA
*
11887373 ATTTATTT
1 AATTATTT
11887381 AAAAAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
AATTATTTTTTTA
Found at i:11888432 original size:21 final size:20
Alignment explanation
Indices: 11888418--11888455 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
11888408 TTATAATTTG
11888418 TATTTAAA-AAATTATAAAT
1 TATTTAAATAAATTATAAAT
11888437 TATTTAAATAAATT-TAAAT
1 TATTTAAATAAATTATAAAT
11888456 AAATTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTTAAATAAATTATAAAT
Found at i:11888451 original size:10 final size:10
Alignment explanation
Indices: 11888419--11888460 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
11888409 TATAATTTGT
11888419 ATTTAAA-AA
1 ATTTAAATAA
*
11888428 ATTATAAAT-T
1 ATT-TAAATAA
11888438 ATTTAAATAA
1 ATTTAAATAA
11888448 ATTTAAATAA
1 ATTTAAATAA
11888458 ATT
1 ATT
11888461 ATTTTTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATTTAAATAA
Found at i:11892815 original size:6 final size:6
Alignment explanation
Indices: 11892785--11892814 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
11892775 TTCAAAAGCC
*
11892785 AAAAAG AAAAAG AAAAAG AAAAAG CAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
11892815 CTGTAAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:11895773 original size:38 final size:39
Alignment explanation
Indices: 11895694--11895790 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 39
11895684 GTACTTGAAG
*
11895694 AAAAAGTATATGATTCCTCCTTACATATATAGCTGGAGGA
1 AAAAAGTATATGATTCCTCCTTA-ATATATAGCTAGAGGA
* *
11895734 AAAAAGTGTTTGATTCCTCCTT-ATATATAGCTTAG-GGA
1 AAAAAGTATATGATTCCTCCTTAATATATAGC-TAGAGGA
*
11895772 AAAGAAGTATAAGATTCCT
1 AAA-AAGTATATGATTCCT
11895791 TGCGGACAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
38 15 0.31
39 14 0.29
40 20 0.41
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (39 bp):
AAAAAGTATATGATTCCTCCTTAATATATAGCTAGAGGA
Found at i:11897299 original size:24 final size:23
Alignment explanation
Indices: 11897268--11897318 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
11897258 TTATTATAAT
*
11897268 TGAGTATGATAGTTAGCGTACGA
1 TGAGTATGATAGCTAGCGTACGA
11897291 TGAGATATGATAGCTAGCGTACGA
1 TGAG-TATGATAGCTAGCGTACGA
11897315 TGAG
1 TGAG
11897319 CTAGGTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.27
Consensus pattern (23 bp):
TGAGTATGATAGCTAGCGTACGA
Found at i:11898520 original size:25 final size:22
Alignment explanation
Indices: 11898472--11898520 Score: 53
Period size: 25 Copynumber: 2.1 Consensus size: 22
11898462 ATAATTTTTC
*
11898472 ATTTTTTATTATATTTAATTAA
1 ATTTTTTATTATATTTAATCAA
*
11898494 ATTTTTATATTTTATTTTAAATCAA
1 ATTTTT-TATTATA-TTT-AATCAA
11898519 AT
1 AT
11898521 AAATTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 6 0.27
23 6 0.27
24 3 0.14
25 7 0.32
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTTTTTATTATATTTAATCAA
Found at i:11907393 original size:2 final size:2
Alignment explanation
Indices: 11907386--11907434 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
11907376 ATAAAGAAAC
*
11907386 AT AT AT AT AT AT AT AT AT A- AT AT GT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11907426 AT AT AT AT A
1 AT AT AT AT A
11907435 GATGTAGAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11907413 original size:19 final size:19
Alignment explanation
Indices: 11907386--11907434 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
11907376 ATAAAGAAAC
11907386 ATATATATATATATATATA
1 ATATATATATATATATATA
*
11907405 ATATGTATATATATATATA
1 ATATATATATATATATATA
11907424 ATATATATATA
1 ATATATATATA
11907435 GATGTAGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATATATATATATATATATA
Found at i:11911889 original size:128 final size:128
Alignment explanation
Indices: 11911661--11911916 Score: 433
Period size: 128 Copynumber: 2.0 Consensus size: 128
11911651 GAAACTTCTA
* * **
11911661 AATCTAAATCGAATTAAGATATAGATAAGTCGTAAACATCAATAAGTCTTTTTGCTATTTTTGCA
1 AATCTAAATCAAATGAAGATATAGATAAGTCGTAAACATCAATAAGTCTTTTTGCTATTGATGCA
11911726 TAGATATATGCAATATTGATGTTATTATTGGTGCTGCA-CTCTTTTATTTTTAAGTTTTTTATG
66 TAGATATATGCAATATTGATGTTATTATTGGTGCTGCACCTCTTTTA-TTTTAAGTTTTTTATG
* *
11911789 AATCTAAATCAAATGAAGATATAGATAAGTTGTAAACATCAATAAGTCTTTTTGTTATTGATGCA
1 AATCTAAATCAAATGAAGATATAGATAAGTCGTAAACATCAATAAGTCTTTTTGCTATTGATGCA
*
11911854 TAGATATGTGCAATATTGATGTTATTATTGGTGCTGCACCTCTTTTATTTTAAGTTTTTTATG
66 TAGATATATGCAATATTGATGTTATTATTGGTGCTGCACCTCTTTTATTTTAAGTTTTTTATG
11911917 CCTTCCCTTT
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
128 112 0.93
129 8 0.07
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (128 bp):
AATCTAAATCAAATGAAGATATAGATAAGTCGTAAACATCAATAAGTCTTTTTGCTATTGATGCA
TAGATATATGCAATATTGATGTTATTATTGGTGCTGCACCTCTTTTATTTTAAGTTTTTTATG
Found at i:11916932 original size:2 final size:2
Alignment explanation
Indices: 11916925--11916949 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11916915 TATTGAGGTA
11916925 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
11916950 ACAGTTGCAC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:11918855 original size:99 final size:98
Alignment explanation
Indices: 11918684--11918875 Score: 375
Period size: 99 Copynumber: 1.9 Consensus size: 98
11918674 TATATCTCTC
11918684 ATTTCATTTGTAAATACATATTCTCGAATAATATTTTTTTTTGTTCTTTTAGTTTATATTTCATA
1 ATTTCATTTGTAAATACATATTCTCGAATAATATTTTTTTTTGTTCTTTTAGTTTATATTTCATA
11918749 ACTTATTATCAATACGATTATCTAATTTNATCTT
66 ACTTATTATCAATACGATTATCTAATTT-ATCTT
11918783 ATTTCATTTGTAAATACATATTCTCGAATAATATTTTTTTTTGTTCTTTTAGTTTATATTTCATA
1 ATTTCATTTGTAAATACATATTCTCGAATAATATTTTTTTTTGTTCTTTTAGTTTATATTTCATA
11918848 ACTTATTATCAATACGATTATCTAATTT
66 ACTTATTATCAATACGATTATCTAATTT
11918876 TTTAAGTTTT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.54
Consensus pattern (98 bp):
ATTTCATTTGTAAATACATATTCTCGAATAATATTTTTTTTTGTTCTTTTAGTTTATATTTCATA
ACTTATTATCAATACGATTATCTAATTTATCTT
Found at i:11919127 original size:60 final size:57
Alignment explanation
Indices: 11919035--11919158 Score: 160
Period size: 60 Copynumber: 2.1 Consensus size: 57
11919025 CTTCCTAAAA
* ** *
11919035 ATTAAATTTAATGTGAATTTGTTATCATGTAGTATGTAAT-ATATTTTATCTCTTAATTT
1 ATTAAATTAAATGTGAATTTACTATCACGTAGTATGT-ATCATATTTT-TCTCTTAA-TT
*
11919094 ATTAAATTGAAATGTGAATTTACTATCACGTAGTATGTATCATATTTTTCTCTTGATT
1 ATTAAATT-AAATGTGAATTTACTATCACGTAGTATGTATCATATTTTTCTCTTAATT
11919152 ATTAAAT
1 ATTAAAT
11919159 CGGATTGAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
58 9 0.16
59 17 0.29
60 32 0.55
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.49
Consensus pattern (57 bp):
ATTAAATTAAATGTGAATTTACTATCACGTAGTATGTATCATATTTTTCTCTTAATT
Found at i:11919717 original size:28 final size:27
Alignment explanation
Indices: 11919698--11919926 Score: 174
Period size: 27 Copynumber: 8.4 Consensus size: 27
11919688 ACAATTACAT
* *
11919698 TTTTCAACATGACATGTAACAACAACAA
1 TTTTCAACATAACATGTAACAACTA-AA
* * * *
11919726 TTTTAAATATAACTTGTAACAAATAAA
1 TTTTCAACATAACATGTAACAACTAAA
** * *
11919753 TTTTCAACATAATGTGTAACAATTACAT
1 TTTTCAACATAACATGTAACAACTA-AA
* **
11919781 TTTTCAACATAGCATACAACAACTAAA
1 TTTTCAACATAACATGTAACAACTAAA
*
11919808 TTTTCAACATAATATGTAACAACTAAA
1 TTTTCAACATAACATGTAACAACTAAA
** * * * *
11919835 TTTTCAACATGGCTTCTAATAACTATA
1 TTTTCAACATAACATGTAACAACTAAA
* *
11919862 TTTTCAACATGACATGTAACAA-T-TA
1 TTTTCAACATAACATGTAACAACTAAA
* * * *
11919887 TTTCCAACATAACGTATAATAACTAAA
1 TTTTCAACATAACATGTAACAACTAAA
*
11919914 TTTTAGAACATAA
1 TTTT-CAACATAA
11919927 TGTGTAATAT
Statistics
Matches: 155, Mismatches: 42, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
25 19 0.12
26 2 0.01
27 88 0.57
28 46 0.30
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.34
Consensus pattern (27 bp):
TTTTCAACATAACATGTAACAACTAAA
Found at i:11919771 original size:55 final size:55
Alignment explanation
Indices: 11919698--11919844 Score: 161
Period size: 55 Copynumber: 2.7 Consensus size: 55
11919688 ACAATTACAT
* * * * * **
11919698 TTTTCAACATGACATGTAACAACAACAATTTTAAATATAACTTGTAACAAATAAA
1 TTTTCAACATAATATGTAACAACTACAATTTTAAACATAACATACAACAAATAAA
* * * * * *
11919753 TTTTCAACATAATGTGTAACAATTACATTTTTCAACATAGCATACAACAACTAAA
1 TTTTCAACATAATATGTAACAACTACAATTTTAAACATAACATACAACAAATAAA
*
11919808 TTTTCAACATAATATGTAACAACTA-AATTTTCAACAT
1 TTTTCAACATAATATGTAACAACTACAATTTTAAACAT
11919845 GGCTTCTAAT
Statistics
Matches: 76, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
54 11 0.14
55 65 0.86
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.33
Consensus pattern (55 bp):
TTTTCAACATAATATGTAACAACTACAATTTTAAACATAACATACAACAAATAAA
Found at i:11921023 original size:45 final size:45
Alignment explanation
Indices: 11920968--11921081 Score: 138
Period size: 45 Copynumber: 2.5 Consensus size: 45
11920958 CTATTTTCAG
* * *
11920968 AAGTGGATGGATACCTTTACTTACAAAAAATGAATAGATAATCAA
1 AAGTGGATGGATACATTTACTCACAAAAAATGAATAGATAACCAA
* * * * * *
11921013 AAGTGAATGGATACTTTTACCCACCAGAAATGAATGGATAACCAA
1 AAGTGGATGGATACATTTACTCACAAAAAATGAATAGATAACCAA
*
11921058 AAGTGGATGAATACATTTACTCAC
1 AAGTGGATGGATACATTTACTCAC
11921082 TAGAAGTGGA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (45 bp):
AAGTGGATGGATACATTTACTCACAAAAAATGAATAGATAACCAA
Found at i:11921157 original size:23 final size:22
Alignment explanation
Indices: 11921126--11921168 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
11921116 GCATAGTAAT
*
11921126 AAAAAGATATAAGAAAAAGACA
1 AAAAAGATAAAAGAAAAAGACA
*
11921148 AAAATAGATAAAATAAAAAGA
1 AAAA-AGATAAAAGAAAAAGA
11921169 ATATAGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.12
Consensus pattern (22 bp):
AAAAAGATAAAAGAAAAAGACA
Found at i:11921178 original size:18 final size:18
Alignment explanation
Indices: 11921123--11921180 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
11921113 AATGCATAGT
11921123 AATAAAAAG-ATATAAGAA
1 AATAAAAAGAATAT-AGAA
* *
11921141 AA-AGACAAA-AATAGATAA
1 AATA-A-AAAGAATATAGAA
11921159 AATAAAAAGAATATAGAA
1 AATAAAAAGAATATAGAA
11921177 AATA
1 AATA
11921181 TCTATCATCG
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
17 4 0.13
18 20 0.65
19 7 0.23
ACGTcount: A:0.72, C:0.02, G:0.10, T:0.16
Consensus pattern (18 bp):
AATAAAAAGAATATAGAA
Found at i:11924113 original size:16 final size:16
Alignment explanation
Indices: 11924094--11924128 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11924084 TTTACTTTGG
*
11924094 TTTTTTCCCATAAGGT
1 TTTTTTCCAATAAGGT
*
11924110 TTTTTTCGAATAAGGT
1 TTTTTTCCAATAAGGT
11924126 TTT
1 TTT
11924129 AACATGACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.54
Consensus pattern (16 bp):
TTTTTTCCAATAAGGT
Found at i:11925519 original size:22 final size:22
Alignment explanation
Indices: 11925494--11925535 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11925484 GTAGAATTAC
*
11925494 TATTCTGTGATAATAGAATAGT
1 TATTCTGTGAGAATAGAATAGT
*
11925516 TATTTTGTGAGAATAGAATA
1 TATTCTGTGAGAATAGAATA
11925536 AAGTAGGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (22 bp):
TATTCTGTGAGAATAGAATAGT
Found at i:11936905 original size:36 final size:37
Alignment explanation
Indices: 11936858--11936927 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
11936848 CTTAAGTATA
11936858 AGATGCTTATTACAAA-CAGA-GTGTTTTAAACTCTAC
1 AGATGCTTATTACAAATCAGATGT-TTTTAAACTCTAC
*
11936894 AGATGCTTATTACAAATCCGATGTTTTTAAACTC
1 AGATGCTTATTACAAATCAGATGTTTTTAAACTC
11936928 CCGGTATCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
36 16 0.52
37 13 0.42
38 2 0.06
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (37 bp):
AGATGCTTATTACAAATCAGATGTTTTTAAACTCTAC
Found at i:11947725 original size:13 final size:13
Alignment explanation
Indices: 11947697--11947728 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11947687 AATCAATTTT
11947697 TTTTAAA-AAAAA
1 TTTTAAATAAAAA
11947709 -TTTAAATAAAAA
1 TTTTAAATAAAAA
11947721 TTTTAAAT
1 TTTTAAAT
11947729 TTTAAATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.33
12 5 0.28
13 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTTTAAATAAAAA
Found at i:11949448 original size:2 final size:2
Alignment explanation
Indices: 11949409--11949438 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11949399 AATCTCACAA
11949409 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11949439 AGTTTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11950365 original size:22 final size:21
Alignment explanation
Indices: 11950285--11950365 Score: 65
Period size: 22 Copynumber: 3.7 Consensus size: 21
11950275 GAAAATCAAT
* *
11950285 TAGTTATTAGGCATTACATTAC
1 TAGTT-TTAGGCATTGCAATAC
*
11950307 TAGTTTTAGGCATTG-TATCAC
1 TAGTTTTAGGCATTGCAAT-AC
* * *
11950328 TGATTTTTAAGTATTGCAATAC
1 T-AGTTTTAGGCATTGCAATAC
11950350 TAAGTTTTAGGCATTG
1 T-AGTTTTAGGCATTG
11950366 TGTGACTTAA
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
20 1 0.02
21 12 0.27
22 30 0.67
23 2 0.04
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.43
Consensus pattern (21 bp):
TAGTTTTAGGCATTGCAATAC
Found at i:11950537 original size:66 final size:66
Alignment explanation
Indices: 11950467--11950595 Score: 213
Period size: 66 Copynumber: 2.0 Consensus size: 66
11950457 TACAATAACT
*
11950467 AAAAGTCAGTCACCCAATGCGCATCAACCAGTCATACAATATATAAAAATCAATAACGCAATGAC
1 AAAAGTCAGTCACCCAATGCGCATCAACCAGTCACACAATATATAAAAATCAATAACGCAATGAC
11950532 C
66 C
** * *
11950533 AAAAGTCAGTCACCCAATGCGCATCAACCAGTCACGTAATATATAAAAATCAGTCACGCAATG
1 AAAAGTCAGTCACCCAATGCGCATCAACCAGTCACACAATATATAAAAATCAATAACGCAATG
11950596 CATAAAAATT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.43, C:0.26, G:0.12, T:0.19
Consensus pattern (66 bp):
AAAAGTCAGTCACCCAATGCGCATCAACCAGTCACACAATATATAAAAATCAATAACGCAATGAC
C
Found at i:11950586 original size:22 final size:22
Alignment explanation
Indices: 11950561--11950626 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
11950551 GCGCATCAAC
*
11950561 CAGTCACGTAATATATAAAAAT
1 CAGTCACGTAATACATAAAAAT
* *
11950583 CAGTCACGCAATGCATAAAAAT
1 CAGTCACGTAATACATAAAAAT
* * * *
11950605 TAGTAACGTAATGCTTAAAAAT
1 CAGTCACGTAATACATAAAAAT
11950627 TAGCATGCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (22 bp):
CAGTCACGTAATACATAAAAAT
Found at i:11950627 original size:22 final size:22
Alignment explanation
Indices: 11950575--11950629 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
11950565 CACGTAATAT
* *
11950575 ATAAAAATCAGTCACGCAATGC
1 ATAAAAATTAGTAACGCAATGC
*
11950597 ATAAAAATTAGTAACGTAATGC
1 ATAAAAATTAGTAACGCAATGC
*
11950619 TTAAAAATTAG
1 ATAAAAATTAG
11950630 CATGCAATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (22 bp):
ATAAAAATTAGTAACGCAATGC
Found at i:11950869 original size:60 final size:59
Alignment explanation
Indices: 11950763--11950888 Score: 171
Period size: 60 Copynumber: 2.1 Consensus size: 59
11950753 CCTACTTGGC
*
11950763 TCAAAATGCTCAAAATACTCAAAATTTTTCTTCATGTATCAAAAATCACTCCAAAATAT
1 TCAAAATGCTCAAAACACTCAAAATTTTTCTTCATGTATCAAAAATCACTCCAAAATAT
* * * * * **
11950822 TTAAAATGCTCAAAACGCTCAATAGTTTTTTTTCGTGTATCAAAAATCACTTTAAAATAT
1 TCAAAATGCTCAAAACACTCAA-AATTTTTCTTCATGTATCAAAAATCACTCCAAAATAT
11950882 TCAAAAT
1 TCAAAAT
11950889 ACTTAAAGGT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
59 19 0.33
60 38 0.67
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (59 bp):
TCAAAATGCTCAAAACACTCAAAATTTTTCTTCATGTATCAAAAATCACTCCAAAATAT
Found at i:11953885 original size:7 final size:7
Alignment explanation
Indices: 11953873--11953907 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
11953863 ACTCAGGTGC
11953873 ATGCATG
1 ATGCATG
11953880 ATGCATG
1 ATGCATG
11953887 ATGCATG
1 ATGCATG
11953894 ATGCATG
1 ATGCATG
*
11953901 TTGCATG
1 ATGCATG
11953908 GCCACTGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (7 bp):
ATGCATG
Found at i:11955835 original size:38 final size:39
Alignment explanation
Indices: 11955782--11955862 Score: 110
Period size: 40 Copynumber: 2.1 Consensus size: 39
11955772 TAGAATTTAC
* *
11955782 CTATTATTACTTAGTTTC-ATATTCATGCATCAAACTTT
1 CTATTATTACCTAGTTTCAAAATTCATGCATCAAACTTT
* *
11955820 CTATTATTACCTAGTTTCTAAAATTCATGTATCGAACTTT
1 CTATTATTACCTAGTTTC-AAAATTCATGCATCAAACTTT
11955860 CTA
1 CTA
11955863 AAATTAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 17 0.46
40 20 0.54
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.46
Consensus pattern (39 bp):
CTATTATTACCTAGTTTCAAAATTCATGCATCAAACTTT
Found at i:11961022 original size:3 final size:3
Alignment explanation
Indices: 11960978--11961003 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11960968 CGATCACTCT
11960978 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
11961004 GTGAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:11972232 original size:6 final size:6
Alignment explanation
Indices: 11972221--11972245 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11972211 GAAGCCAAAT
11972221 ATGCAA ATGCAA ATGCAA ATGCAA A
1 ATGCAA ATGCAA ATGCAA ATGCAA A
11972246 GCATAATGAT
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
ATGCAA
Found at i:11973086 original size:4 final size:4
Alignment explanation
Indices: 11973077--11973103 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
11973067 TTTTATTTTA
11973077 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
11973104 TAAATAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:11973379 original size:2 final size:2
Alignment explanation
Indices: 11973372--11973410 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
11973362 AAAGAGATAC
*
11973372 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11973411 TAGTATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11976271 original size:72 final size:72
Alignment explanation
Indices: 11976191--11976367 Score: 201
Period size: 72 Copynumber: 2.5 Consensus size: 72
11976181 ATCATAACCA
* * *
11976191 AGAACAAGCTTCTCAAAATGTAGTCAACGGTCATTCATATATCAATGACTGGCTACAAGAAAATC
1 AGAACAAGCTTCTCAAAATGTAGCCAACGGCCATTCATATATCAATGACTGGCTACAAGAAAATA
11976256 AAAAGCT
66 AAAAGCT
* * * * * * ** * * * *
11976263 TGAGCAAGCTTCTCACAATGTAGCCAATGGCCATTCGTATCTTGATGACTGGTTGCAGGAAGATA
1 AGAACAAGCTTCTCAAAATGTAGCCAACGGCCATTCATATATCAATGACTGGCTACAAGAAAATA
11976328 AAAAGCT
66 AAAAGCT
* *
11976335 AGAACAAGCTTCTCAAATTGTAGCCAATGGCCA
1 AGAACAAGCTTCTCAAAATGTAGCCAACGGCCA
11976368 CTCCTGCTTT
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
72 86 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (72 bp):
AGAACAAGCTTCTCAAAATGTAGCCAACGGCCATTCATATATCAATGACTGGCTACAAGAAAATA
AAAAGCT
Found at i:11984370 original size:24 final size:25
Alignment explanation
Indices: 11984326--11984372 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
11984316 TCTCAATAAG
*
11984326 GGGAGCCCTGATTTGGCGCTCCCAA
1 GGGAGCCCTAATTTGGCGCTCCCAA
*
11984351 GGGAGCCC-AATTTGGTGCTCCC
1 GGGAGCCCTAATTTGGCGCTCCC
11984373 TTCTCTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.15, C:0.32, G:0.32, T:0.21
Consensus pattern (25 bp):
GGGAGCCCTAATTTGGCGCTCCCAA
Found at i:11984458 original size:22 final size:21
Alignment explanation
Indices: 11984411--11984460 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
11984401 TTTTTTTTTA
* *
11984411 ATTTTAAAATATAATAATAAT
1 ATTTTAAAATATAAAAAAAAT
* *
11984432 TTTTTAAATTTATAAAAAAAAT
1 ATTTTAAA-ATATAAAAAAAAT
11984454 ATTTTAA
1 ATTTTAA
11984461 TTTTTTCTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTTAAAATATAAAAAAAAT
Found at i:11985292 original size:6 final size:6
Alignment explanation
Indices: 11985281--11985305 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11985271 TAATAACTTT
11985281 ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA A
11985306 CATTTTATTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:11985667 original size:3 final size:3
Alignment explanation
Indices: 11985659--11985684 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11985649 TCATGTATTT
11985659 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
11985685 TTGTCATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:11986342 original size:10 final size:10
Alignment explanation
Indices: 11986327--11986368 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
11986317 CTTTTTATCA
11986327 TTTATT-TTT
1 TTTATTCTTT
11986336 GTTTATTCTTT
1 -TTTATTCTTT
*
11986347 TTTATTCGTT
1 TTTATTCTTT
11986357 TTTATTCGTTT
1 TTTATTC-TTT
11986368 T
1 T
11986369 CCAATTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 22 0.79
11 6 0.21
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.76
Consensus pattern (10 bp):
TTTATTCTTT
Found at i:11986368 original size:9 final size:10
Alignment explanation
Indices: 11986337--11986368 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
11986327 TTTATTTTTG
*
11986337 TTTATTCTTT
1 TTTATTCGTT
11986347 TTTATTCGTT
1 TTTATTCGTT
11986357 TTTATTCGTT
1 TTTATTCGTT
11986367 TT
1 TT
11986369 CCAATTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.75
Consensus pattern (10 bp):
TTTATTCGTT
Found at i:11990870 original size:19 final size:19
Alignment explanation
Indices: 11990819--11990861 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
11990809 TGATAAAAGT
11990819 GTGTGGTTATGGTTATCCA
1 GTGTGGTTATGGTTATCCA
11990838 GTGTGGTTATGGTTATCCA
1 GTGTGGTTATGGTTATCCA
11990857 GTGTG
1 GTGTG
11990862 TTTGTGGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.14, C:0.09, G:0.35, T:0.42
Consensus pattern (19 bp):
GTGTGGTTATGGTTATCCA
Found at i:11994881 original size:36 final size:36
Alignment explanation
Indices: 11994834--11994906 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
11994824 GTGTCCCGTT
*
11994834 TCCTGCAGTTGATCACTTAATGATGGCAGCTTTAGA
1 TCCTGCAGTTGATCACTTAATGATGGCAGCTATAGA
*
11994870 TCCTGCAGTTGATCCCTTAATGATGGCAGCTATAGA
1 TCCTGCAGTTGATCACTTAATGATGGCAGCTATAGA
11994906 T
1 T
11994907 GATCGTGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (36 bp):
TCCTGCAGTTGATCACTTAATGATGGCAGCTATAGA
Found at i:11998544 original size:10 final size:10
Alignment explanation
Indices: 11998509--11998545 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
11998499 GAATAAAAGC
11998509 AAAAA-ATAA
1 AAAAATATAA
11998518 AAAAAT-TAA
1 AAAAATATAA
11998527 GAAAAATATAA
1 -AAAAATATAA
11998538 AAAAATAT
1 AAAAATAT
11998546 GAAATCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.32
10 14 0.56
11 3 0.12
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (10 bp):
AAAAATATAA
Found at i:12002907 original size:22 final size:22
Alignment explanation
Indices: 12002868--12002909 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12002858 AATTTTTTTT
*
12002868 AAAAATAAAATTATAAAATTTG
1 AAAAATAAAATTAAAAAATTTG
12002890 AAAAATAATAA-TAAAAAATT
1 AAAAATAA-AATTAAAAAATT
12002910 ATTAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAATAAAATTAAAAAATTTG
Found at i:12006440 original size:31 final size:31
Alignment explanation
Indices: 12006405--12006466 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
12006395 ATGTTTTTCA
12006405 CATGATACCCAAAATAAATGAATTCTCATAT
1 CATGATACCCAAAATAAATGAATTCTCATAT
*
12006436 CATGATACCCAAAATACATGAATTCTCATAT
1 CATGATACCCAAAATAAATGAATTCTCATAT
12006467 GAACTTCAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (31 bp):
CATGATACCCAAAATAAATGAATTCTCATAT
Found at i:12030458 original size:90 final size:91
Alignment explanation
Indices: 12030304--12030481 Score: 277
Period size: 90 Copynumber: 2.0 Consensus size: 91
12030294 ATCAATAATT
* * *
12030304 TCATCATCTTGCGGAAGCATATTGGAGGAAAAAAATCTATTTCTATTCAACCTGAATAAAGATGA
1 TCATCATCTTGCGGAAGCATATTAGAGGAAAAAAATCTATTACAATTCAACCTGAATAAAGATGA
12030369 TAAGAACTAGCAGCTCAAATCTGTTG
66 TAAGAACTAGCAGCTCAAATCTGTTG
* * *
12030395 TCATCATCTTGCGGGAGCATATTAGAGG-AAAAAATCTATTAGAATTCAACCTGAATCAAGATGA
1 TCATCATCTTGCGGAAGCATATTAGAGGAAAAAAATCTATTACAATTCAACCTGAATAAAGATGA
* *
12030459 TAAGAATTAGCAGCTTAAATCTG
66 TAAGAACTAGCAGCTCAAATCTG
12030482 CTGTGACCCC
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 53 0.67
91 26 0.33
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (91 bp):
TCATCATCTTGCGGAAGCATATTAGAGGAAAAAAATCTATTACAATTCAACCTGAATAAAGATGA
TAAGAACTAGCAGCTCAAATCTGTTG
Found at i:12038228 original size:2 final size:2
Alignment explanation
Indices: 12038217--12038245 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
12038207 AAAGAGAAAA
12038217 AG AG AG -G AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
12038246 CGTTGGGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12040080 original size:22 final size:22
Alignment explanation
Indices: 12040033--12040079 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
12040023 TAAGCTCAAA
*
12040033 TTTTAGAATTATTTTTTTTCTT
1 TTTTAAAATTATTTTTTTTCTT
12040055 TTTTAAAATTA-TTTTTTTCTT
1 TTTTAAAATTATTTTTTTTCTT
12040076 TTTT
1 TTTT
12040080 TTTCTTGGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTAAAATTATTTTTTTTCTT
Found at i:12044188 original size:24 final size:24
Alignment explanation
Indices: 12044138--12044195 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
12044128 ATATATTTCA
12044138 CTCTTT-GATTTTTTGACGATATT
1 CTCTTTGGATTTTTTGACGATATT
*
12044161 -TCTTTGGATTTTTTTAC-ATTATT
1 CTCTTTGGATTTTTTGACGA-TATT
12044184 CTCTTTGG-TTTT
1 CTCTTTGGATTTT
12044196 CTTGGGTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 6 0.19
23 18 0.58
24 7 0.23
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.62
Consensus pattern (24 bp):
CTCTTTGGATTTTTTGACGATATT
Found at i:12048579 original size:22 final size:22
Alignment explanation
Indices: 12048538--12048577 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
12048528 AAATATTGAN
12048538 TAAATTATATTTTTTTAAAATT
1 TAAATTATATTTTTTTAAAATT
12048560 TAAATT-T-TTTTTTTAAAA
1 TAAATTATATTTTTTTAAAA
12048578 AAATATTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 1 0.06
22 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TAAATTATATTTTTTTAAAATT
Found at i:12048599 original size:2 final size:2
Alignment explanation
Indices: 12048594--12048624 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
12048584 TGAAATATTG
*
12048594 AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12048625 CTAATAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:12052011 original size:3 final size:3
Alignment explanation
Indices: 12052003--12052028 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12051993 GAGAAATTAG
12052003 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
12052029 TTAGTGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12054368 original size:2 final size:2
Alignment explanation
Indices: 12054361--12054396 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
12054351 ATGAATCATA
12054361 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
12054397 GGCATGGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12060771 original size:19 final size:20
Alignment explanation
Indices: 12060730--12060773 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
12060720 AGTTTTTCTT
12060730 AAATACATTTCAAAAAAAGA
1 AAATACATTTCAAAAAAAGA
* * *
12060750 AAATGCATTTTAAAAAAAAA
1 AAATACATTTCAAAAAAAGA
12060770 AAAT
1 AAAT
12060774 TAGTTCCCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (20 bp):
AAATACATTTCAAAAAAAGA
Found at i:12071065 original size:28 final size:27
Alignment explanation
Indices: 12071020--12071203 Score: 134
Period size: 28 Copynumber: 6.7 Consensus size: 27
12071010 GTGTAAAATT
* * *
12071020 TTTTTATCATGACGTGTAATAATTAAAA
1 TTTTTAACATAACATGTAATAATT-AAA
* *
12071048 TTTTTAACATAACATGTAACAACTAAA
1 TTTTTAACATAACATGTAATAATTAAA
* * * * * *
12071075 TATTCAACATAGCACGTAACAATTACA
1 TTTTTAACATAACATGTAATAATTAAA
* *
12071102 TTTTTCAACATAGCATGTAATAATTATA
1 TTTTT-AACATAACATGTAATAATTAAA
* * * *
12071130 TTTTTCACATAGCGTGTAATAATTACA
1 TTTTTAACATAACATGTAATAATTAAA
* * ** *
12071157 TTTTTCAATATGATGTGTAATAACTAAA
1 TTTTT-AACATAACATGTAATAATTAAA
*
12071185 TTTTTAACATGACATGTAA
1 TTTTTAACATAACATGTAA
12071204 CAACTACATT
Statistics
Matches: 125, Mismatches: 29, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
27 62 0.50
28 63 0.50
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (27 bp):
TTTTTAACATAACATGTAATAATTAAA
Found at i:12071075 original size:27 final size:27
Alignment explanation
Indices: 12071045--12071260 Score: 135
Period size: 27 Copynumber: 7.9 Consensus size: 27
12071035 GTAATAATTA
12071045 AAATTTTTAACATAACATGTAACAACT
1 AAATTTTTAACATAACATGTAACAACT
* * * * *
12071072 AAATATTCAACATAGCACGTAACAATT
1 AAATTTTTAACATAACATGTAACAACT
* * * *
12071099 ACATTTTTCAACATAGCATGTAATAATT
1 AAATTTTT-AACATAACATGTAACAACT
* * * * * *
12071127 ATATTTTTCACATAGCGTGTAATAATT
1 AAATTTTTAACATAACATGTAACAACT
* * * ** *
12071154 ACATTTTTCAATATGATGTGTAATAACT
1 AAATTTTT-AACATAACATGTAACAACT
*
12071182 AAATTTTTAACATGACATGTAACAACT
1 AAATTTTTAACATAACATGTAACAACT
* * * **
12071209 ACATTTTCAATATAATGTGTAACAACT
1 AAATTTTTAACATAACATGTAACAACT
* **
12071236 AAATTTTAGAACATAATGTGTAACA
1 AAATTTT-TAACATAACATGTAACA
12071261 TTGCAATTTT
Statistics
Matches: 152, Mismatches: 34, Indels: 5
0.80 0.18 0.03
Matches are distributed among these distances:
27 93 0.61
28 59 0.39
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.36
Consensus pattern (27 bp):
AAATTTTTAACATAACATGTAACAACT
Found at i:12071112 original size:55 final size:55
Alignment explanation
Indices: 12071047--12071242 Score: 184
Period size: 55 Copynumber: 3.6 Consensus size: 55
12071037 AATAATTAAA
* *
12071047 ATTTTT-AACATAACATGTAACAACTAAATATTCAACATAGCACGTAACAATTAC
1 ATTTTTCAACATAACATGTAACAACTAAATTTTCAACATAGCATGTAACAATTAC
* * * * * *
12071101 ATTTTTCAACATAGCATGTAATAATTATATTTTTC-ACATAGCGTGTAATAATTAC
1 ATTTTTCAACATAACATGTAACAACTA-AATTTTCAACATAGCATGTAACAATTAC
* * ** * * *
12071156 ATTTTTCAATATGATGTGTAATAACTAAATTTTTAACAT-GACATGTAACAACTAC
1 ATTTTTCAACATAACATGTAACAACTAAATTTTCAACATAG-CATGTAACAATTAC
* **
12071211 A-TTTTCAATATAATGTGTAACAACTAAATTTT
1 ATTTTTCAACATAACATGTAACAACTAAATTTT
12071243 AGAACATAAT
Statistics
Matches: 117, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
54 41 0.35
55 71 0.61
56 5 0.04
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.38
Consensus pattern (55 bp):
ATTTTTCAACATAACATGTAACAACTAAATTTTCAACATAGCATGTAACAATTAC
Found at i:12072478 original size:47 final size:47
Alignment explanation
Indices: 12072427--12072727 Score: 311
Period size: 47 Copynumber: 6.4 Consensus size: 47
12072417 GGCACCGCTC
* * * * *
12072427 AGAGTTGATGAGATGCCATGGAGGGAATTTGTGAGACGCTAGAGTTA
1 AGAGTTGGTGACACGCCATGGAGGGAATTTGTGACACGCCAGAGTTA
* * * * *
12072474 AGAGTTGGTGACATGCCAT-GATGGGAATGTGTGACACGGCAGGGTTC
1 AGAGTTGGTGACACGCCATGGA-GGGAATTTGTGACACGCCAGAGTTA
* * * *
12072521 AGAGTTGGTGAGACGCCATGGAGGGAATTTGTGACATGTCA-AATTA
1 AGAGTTGGTGACACGCCATGGAGGGAATTTGTGACACGCCAGAGTTA
* * * * *
12072567 AGAGTTGGTGACACGGCATGGAGGGAATTCGTGACACACCAGCGTTC
1 AGAGTTGGTGACACGCCATGGAGGGAATTTGTGACACGCCAGAGTTA
* ** * *
12072614 AGAGTTGGTGAGACGCC-TGGATTGAATCTGTGAGACGCCAGAGTTA
1 AGAGTTGGTGACACGCCATGGAGGGAATTTGTGACACGCCAGAGTTA
* * * *
12072660 AGAGTTGGTGACACGCCATGGAGGAAATCTGTGACATGCCAGAGTTC
1 AGAGTTGGTGACACGCCATGGAGGGAATTTGTGACACGCCAGAGTTA
*
12072707 AGAGTTGGTGACATGCCATGG
1 AGAGTTGGTGACACGCCATGG
12072728 TCATGTTTAG
Statistics
Matches: 207, Mismatches: 43, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
46 76 0.37
47 129 0.62
48 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (47 bp):
AGAGTTGGTGACACGCCATGGAGGGAATTTGTGACACGCCAGAGTTA
Found at i:12072614 original size:93 final size:93
Alignment explanation
Indices: 12072425--12072727 Score: 355
Period size: 93 Copynumber: 3.2 Consensus size: 93
12072415 ACGGCACCGC
* * *
12072425 TCAGAGTTGATGAGATGCCATGGAGGGAATTTGTGAGACGCTAGAGTTAAGAGTTGGTGACATGC
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATTTGTGAGACGC-AGAGTTAAGAGTTGGTGACACGC
* *
12072490 CAT-GATGGGAATGT-GTGACACGGCAGGGT
65 CATGGA-GGGAAT-TCGTGACACGCCAGAGT
* * * *
12072519 TCAGAGTTGGTGAGACGCCATGGAGGGAATTTGTGACATGTCA-AATTAAGAGTTGGTGACACGG
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATTTGTGAGACG-CAGAGTTAAGAGTTGGTGACACGC
* *
12072583 CATGGAGGGAATTCGTGACACACCAGCGT
65 CATGGAGGGAATTCGTGACACGCCAGAGT
** *
12072612 TCAGAGTTGGTGAGACGCC-TGGATTGAATCTGTGAGACGCCAGAGTTAAGAGTTGGTGACACGC
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATTTGTGAGACG-CAGAGTTAAGAGTTGGTGACACGC
* *
12072676 CATGGA-GGAAATCTGTGACATGCCAGAGT
65 CATGGAGGGAATTC-GTGACACGCCAGAGT
* *
12072705 TCAGAGTTGGTGACATGCCATGG
1 TCAGAGTTGGTGAGACGCCATGG
12072728 TCATGTTTAG
Statistics
Matches: 179, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
92 24 0.13
93 112 0.63
94 42 0.23
95 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (93 bp):
TCAGAGTTGGTGAGACGCCATGGAGGGAATTTGTGAGACGCAGAGTTAAGAGTTGGTGACACGCC
ATGGAGGGAATTCGTGACACGCCAGAGT
Found at i:12072675 original size:24 final size:24
Alignment explanation
Indices: 12072643--12072724 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 24
12072633 GATTGAATCT
*
12072643 GTGAGACGCCAGAGTTAAGAGTTG
1 GTGACACGCCAGAGTTAAGAGTTG
*
12072667 GTGACACGCCATGGAG-GAA-A-TCT-
1 GTGACACGCCA--GAGTTAAGAGT-TG
* *
12072690 GTGACATGCCAGAGTTCAGAGTTG
1 GTGACACGCCAGAGTTAAGAGTTG
*
12072714 GTGACATGCCA
1 GTGACACGCCA
12072725 TGGTCATGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
21 3 0.07
22 1 0.02
23 13 0.28
24 24 0.52
25 2 0.04
26 3 0.07
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.21
Consensus pattern (24 bp):
GTGACACGCCAGAGTTAAGAGTTG
Found at i:12072824 original size:53 final size:52
Alignment explanation
Indices: 12072722--12072825 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 52
12072712 TGGTGACATG
* * * *
12072722 CCATGGTCATGTTTAGAGTGTGTGCCACGGCATTACTTGAAAAGTTGACACA
1 CCATGGTCATGTTTAAAGTGTGTGACACGGCAGTACTTGAAAAGCTGACACA
* **
12072774 CCATGGTCATGGTTTAAAGTGTGTGACACGGCAGTGCTTGAGCAGCTGACAC
1 CCATGGTCAT-GTTTAAAGTGTGTGACACGGCAGTACTTGAAAAGCTGACAC
12072826 GTCTTGGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 10 0.23
53 34 0.77
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (52 bp):
CCATGGTCATGTTTAAAGTGTGTGACACGGCAGTACTTGAAAAGCTGACACA
Found at i:12073321 original size:31 final size:31
Alignment explanation
Indices: 12073299--12073520 Score: 281
Period size: 31 Copynumber: 7.2 Consensus size: 31
12073289 CGTATGACAG
* *
12073299 CATTTTACTTGATATGCATAGCGTGTGACAGA
1 CATTTTACTTGATATGCATGGCGTGTCACA-A
* * *
12073331 -ATTTTACTTGATATGCATGGCATGTGACAT
1 CATTTTACTTGATATGCATGGCGTGTCACAA
*
12073361 CATTTTACTTGATATGCATGGCGTGTCATAA
1 CATTTTACTTGATATGCATGGCGTGTCACAA
* *
12073392 CATTTAACTTGTTATGCATGGCGTGTCACAA
1 CATTTTACTTGATATGCATGGCGTGTCACAA
12073423 CATTTTACTT-ATTATGCATGGCGTGTCACAA
1 CATTTTACTTGA-TATGCATGGCGTGTCACAA
* *
12073454 TATTTTACTTGTTATGCATGGCGTGTCACAA
1 CATTTTACTTGATATGCATGGCGTGTCACAA
*
12073485 CATTTTGA-TTG-TAATGCATGACGTGTCACAA
1 CATTTT-ACTTGAT-ATGCATGGCGTGTCACAA
12073516 CATTT
1 CATTT
12073521 ATTCCTTATT
Statistics
Matches: 169, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
30 1 0.01
31 167 0.99
32 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (31 bp):
CATTTTACTTGATATGCATGGCGTGTCACAA
Found at i:12075352 original size:156 final size:156
Alignment explanation
Indices: 12075156--12075648 Score: 621
Period size: 156 Copynumber: 3.2 Consensus size: 156
12075146 TATCGAGTAC
* * * * *
12075156 CACAGTAATTTATGTAATTACAGTTTACGGAAACGACAACAGGTCTTCAAGCACCGATCGGTCCA
1 CACAGTTATATATGTAATTACAGTTTACGGAAGCGACAACAGGTCTTGAAGCACCGATCGGTCTA
* *
12075221 GCTCAACCGCAGACAGCTAATGAGCCAGCAGTAAGTG-TATTAAAGTTGTAACGGTTAATGTTTA
66 GCTCCACCGCAGACAGCTAACGAGCCAGCAGTAAG-GATATTAAAGTTGTAACGGTTAATGTTTA
*
12075285 ACAATTCCAAACATGATTATTGAATAA
130 ACAATTCCATACATGATTATTGAATAA
* * * *
12075312 CACAGTTATATATGTAATTACAGTTTATGGAAGCGACAACAGGTCTTGAAGCACCAATCTGTCTG
1 CACAGTTATATATGTAATTACAGTTTACGGAAGCGACAACAGGTCTTGAAGCACCGATCGGTCTA
* * * * * *
12075377 GCTCCACCGCAGATAGTTAACGAGCCAACGGTAAGGATATTAAAGTTATAACGGTTAATGTTCAA
66 GCTCCACCGCAGACAGCTAACGAGCCAGCAGTAAGGATATTAAAGTTGTAACGGTTAATGTTTAA
*
12075442 CAATTTCATACATGATTATTGAATAA
131 CAATTCCATACATGATTATTGAATAA
* * * * * * *
12075468 CACAGTTAAATATGTAATTACAGTATGCGGAAGCGACGACAAGTCCTGAAGCACCGATCGGTCTT
1 CACAGTTATATATGTAATTACAGTTTACGGAAGCGACAACAGGTCTTGAAGCACCGATCGGTCTA
* * * * * ** *
12075533 GCTCCACCACAGACTGCTAACGCG-CTGCCGATTGGGACATTAAAGTTGTAACGGTTAATGTTTA
66 GCTCCACCGCAGACAGCTAACGAGCCAGCAG-TAAGGATATTAAAGTTGTAACGGTTAATGTTTA
*
12075597 ACAATTCCATATATGATTATTGAATAA
130 ACAATTCCATACATGATTATTGAATAA
* *
12075624 CACAGTTATATATGTTATTATAGTT
1 CACAGTTATATATGTAATTACAGTT
12075649 GACCTAGTCG
Statistics
Matches: 287, Mismatches: 48, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
155 4 0.01
156 283 0.99
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (156 bp):
CACAGTTATATATGTAATTACAGTTTACGGAAGCGACAACAGGTCTTGAAGCACCGATCGGTCTA
GCTCCACCGCAGACAGCTAACGAGCCAGCAGTAAGGATATTAAAGTTGTAACGGTTAATGTTTAA
CAATTCCATACATGATTATTGAATAA
Found at i:12076034 original size:31 final size:31
Alignment explanation
Indices: 12075995--12076386 Score: 369
Period size: 31 Copynumber: 12.6 Consensus size: 31
12075985 GTCAGCTTTA
*
12075995 GCGTGTCACAACATTTTACTTGTTATTCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * *
12076026 ACGTGTCACAACATTTGATTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * * *
12076057 GCGTGTCAGAACATTTTGCTTGTTATCCTTA
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * *
12076088 GCATGTCACCA-AGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTA-CTTGTTATGCATG
* * *
12076119 GCATGTCACAACATTTTAATTGTTTTGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * ** * *
12076150 GTGTGTCACAACATTTTCCTCATTATCCTTG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
12076181 GCGTGTCACCA-AGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTA-CTTGTTATGCATG
* * *
12076212 GCGTGTTACAACATTTAACTTGTTTTGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * *
12076243 GCGTGTCACAACATTTTCCTCGTTATCCTTG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * *
12076274 GTGTGTCACCA-AGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTA-CTTGTTATGCATG
* * *
12076305 GCGTGTTACGACATTTTACTTGTTTTGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
*
12076336 GCGTGTCACAACATTTTACTTGGTATGCACT-
1 GCGTGTCACAACATTTTACTTGTTATGCA-TG
*
12076367 GTGTGTCACAACATTTTACT
1 GCGTGTCACAACATTTTACT
12076387 GTTTACGATT
Statistics
Matches: 282, Mismatches: 72, Indels: 14
0.77 0.20 0.04
Matches are distributed among these distances:
30 12 0.04
31 255 0.90
32 15 0.05
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (31 bp):
GCGTGTCACAACATTTTACTTGTTATGCATG
Found at i:12076156 original size:93 final size:93
Alignment explanation
Indices: 12075995--12076352 Score: 495
Period size: 93 Copynumber: 3.8 Consensus size: 93
12075985 GTCAGCTTTA
* * * * * * * *
12075995 GCGTGTCACAACATTTTA-CTTGTTATTCATGACGTGTCACAACATTTGATTTGATATGCATGGC
1 GCGTGTCACCA-AGTTTATCTTGTTATGCATGGCGTGTCACAACATTTTAATTGTTTTGCATGGC
* * * *
12076059 GTGTCAGAACATTTTGCTTGTTATCCTTA
65 GTGTCACAACATTTTCCTCGTTATCCTTG
* * *
12076088 GCATGTCACCAAGTTTATCTTGTTATGCATGGCATGTCACAACATTTTAATTGTTTTGCATGGTG
1 GCGTGTCACCAAGTTTATCTTGTTATGCATGGCGTGTCACAACATTTTAATTGTTTTGCATGGCG
*
12076153 TGTCACAACATTTTCCTCATTATCCTTG
66 TGTCACAACATTTTCCTCGTTATCCTTG
*
12076181 GCGTGTCACCAAGTTTATCTTGTTATGCATGGCGTGTTACAACA-TTTAACTTGTTTTGCATGGC
1 GCGTGTCACCAAGTTTATCTTGTTATGCATGGCGTGTCACAACATTTTAA-TTGTTTTGCATGGC
12076245 GTGTCACAACATTTTCCTCGTTATCCTTG
65 GTGTCACAACATTTTCCTCGTTATCCTTG
* * * *
12076274 GTGTGTCACCAAGTTTATCTTGTTATGCATGGCGTGTTACGACATTTTACTTGTTTTGCATGGCG
1 GCGTGTCACCAAGTTTATCTTGTTATGCATGGCGTGTCACAACATTTTAATTGTTTTGCATGGCG
12076339 TGTCACAACATTTT
66 TGTCACAACATTTT
12076353 ACTTGGTATG
Statistics
Matches: 238, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
92 10 0.04
93 224 0.94
94 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (93 bp):
GCGTGTCACCAAGTTTATCTTGTTATGCATGGCGTGTCACAACATTTTAATTGTTTTGCATGGCG
TGTCACAACATTTTCCTCGTTATCCTTG
Found at i:12077913 original size:16 final size:16
Alignment explanation
Indices: 12077871--12077918 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
12077861 ATTTTTTTAT
* * *
12077871 ACAATTCATTTTATGC
1 ACAATTTATTGTATAC
*
12077887 AC-ATTTTTTGTATAC
1 ACAATTTATTGTATAC
12077902 ACAATTTATTGTATAC
1 ACAATTTATTGTATAC
12077918 A
1 A
12077919 ATTCATTGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (16 bp):
ACAATTTATTGTATAC
Done.