Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 69 of 126
Found at i:20568168 original size:23 final size:23
Alignment explanation
Indices: 20568142--20568185 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
20568132 TGAAATAAGT
*
20568142 CTAAGAAAATAAAAATAAAGCAA
1 CTAAAAAAATAAAAATAAAGCAA
20568165 CTAAAAAAATAAAAATAAAGC
1 CTAAAAAAATAAAAATAAAGC
20568186 TAAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.70, C:0.09, G:0.07, T:0.14
Consensus pattern (23 bp):
CTAAAAAAATAAAAATAAAGCAA
Found at i:20568267 original size:12 final size:12
Alignment explanation
Indices: 20568252--20568284 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
20568242 AAGGTAGTAG
20568252 TAAAAATAATAC
1 TAAAAATAATAC
20568264 T-AAAA-AATAC
1 TAAAAATAATAC
20568274 TAAAAATAATA
1 TAAAAATAATA
20568285 GAAATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.32
11 8 0.42
12 5 0.26
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAAATAATAC
Found at i:20568293 original size:22 final size:22
Alignment explanation
Indices: 20568252--20568293 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
20568242 AAGGTAGTAG
*
20568252 TAAAAATAATACTAAAAAATAC
1 TAAAAATAATACGAAAAAATAC
20568274 TAAAAATAATA-GAAATAAAT
1 TAAAAATAATACGAAA-AAAT
20568294 TAAAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
TAAAAATAATACGAAAAAATAC
Found at i:20568340 original size:18 final size:18
Alignment explanation
Indices: 20568317--20568420 Score: 68
Period size: 19 Copynumber: 5.4 Consensus size: 18
20568307 AAATCTAAGC
20568317 ATAAGAAAAATAAAAAAA
1 ATAAGAAAAATAAAAAAA
20568335 ATAAGAAAAAATAAGAAAATA
1 ATAAG-AAAAATAA-AAAA-A
* * *
20568356 GATAAAAAATAATATAACAA
1 -ATAAGAAA-AATAAAAAAA
* *
20568376 ATAATAATAAAT-AATAAA
1 ATAAGAA-AAATAAAAAAA
*
20568394 ATAA-TAAAATAAAATAAA
1 ATAAGAAAAATAAAA-AAA
20568412 ATAAAGAAA
1 AT-AAGAAA
20568421 TGGGTAAAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
16 4 0.06
17 3 0.05
18 17 0.26
19 19 0.29
20 8 0.12
21 7 0.11
22 8 0.12
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (18 bp):
ATAAGAAAAATAAAAAAA
Found at i:20568388 original size:41 final size:37
Alignment explanation
Indices: 20568322--20568420 Score: 103
Period size: 41 Copynumber: 2.6 Consensus size: 37
20568312 TAAGCATAAG
20568322 AAAAATAAAAAAAATAAGAAAAAATAAGAAAATAGATA
1 AAAAATAAAAAAAATAAGAAAAAATAAGAAAATA-ATA
* * *
20568360 AAAAATAATATAACAAATAATAATAAATAATAAAATAAT-
1 AAAAATAA-A-AA-AAATAAGAAAAAATAAGAAAATAATA
20568399 -AAAATAAAATAAAATAAAGAAA
1 AAAAATAAAA-AAAAT-AAGAAA
20568421 TGGGTAAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
36 5 0.10
37 6 0.12
38 15 0.29
39 1 0.02
40 4 0.08
41 20 0.39
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (37 bp):
AAAAATAAAAAAAATAAGAAAAAATAAGAAAATAATA
Found at i:20568391 original size:25 final size:26
Alignment explanation
Indices: 20568328--20568415 Score: 53
Period size: 25 Copynumber: 3.5 Consensus size: 26
20568318 TAAGAAAAAT
* *
20568328 AAAA-AAAATAAGAAAA-AATAAGAA
1 AAAATAAAATAATAAAATAATAATAA
* *
20568352 AATAGATAAAA-AATAATATAACAA-ATA
1 AA-A-ATAAAATAATAAAATAATAATA-A
*
20568379 ATAAT-AAATAATAAAATAATAA-AA
1 AAAATAAAATAATAAAATAATAATAA
20568403 TAAAATAAAATAA
1 -AAAATAAAATAA
20568416 AGAAATGGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
24 6 0.12
25 19 0.39
26 14 0.29
27 10 0.20
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.19
Consensus pattern (26 bp):
AAAATAAAATAATAAAATAATAATAA
Found at i:20568416 original size:10 final size:9
Alignment explanation
Indices: 20568317--20568412 Score: 75
Period size: 10 Copynumber: 9.7 Consensus size: 9
20568307 AAATCTAAGC
*
20568317 ATAAGAAAA
1 ATAAAAAAA
20568326 ATAAAAAAA
1 ATAAAAAAA
20568335 ATAAGAAAAA
1 ATAA-AAAAA
20568345 ATAAGAAAATA
1 ATAA-AAAA-A
20568356 GATAAAAAATA
1 -ATAAAAAA-A
* *
20568367 ATATAACAA
1 ATAAAAAAA
*
20568376 ATAATAATAA
1 ATAA-AAAAA
20568386 ATAATAAAATA
1 ATAA-AAAA-A
20568397 ATAAAATAAA
1 ATAAAA-AAA
20568407 ATAAAA
1 ATAAAA
20568413 TAAAGAAATG
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
9 16 0.21
10 41 0.55
11 14 0.19
12 4 0.05
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:20569091 original size:20 final size:20
Alignment explanation
Indices: 20569066--20569141 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
20569056 CCACGCCTAT
* *
20569066 GTGAGAGCCCACATGCTCGA
1 GTGAGAGCCCACACGCCCGA
* **
20569086 GTGAGAGCCCACTCAACCGA
1 GTGAGAGCCCACACGCCCGA
*
20569106 GTGAGAGCCCACACGCCCGT
1 GTGAGAGCCCACACGCCCGA
*
20569126 GTGAGAGCCTACACGC
1 GTGAGAGCCCACACGC
20569142 TCGTGCGGCT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.25, C:0.34, G:0.29, T:0.12
Consensus pattern (20 bp):
GTGAGAGCCCACACGCCCGA
Found at i:20570693 original size:21 final size:21
Alignment explanation
Indices: 20570668--20570710 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
20570658 CTTTAACAGC
*
20570668 TTGAGAATTTTACCAAATTGT
1 TTGAGAATTTTACAAAATTGT
20570689 TTGAGAATTTTACAAAATTGT
1 TTGAGAATTTTACAAAATTGT
20570710 T
1 T
20570711 CGTTCATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (21 bp):
TTGAGAATTTTACAAAATTGT
Found at i:20572377 original size:18 final size:18
Alignment explanation
Indices: 20572337--20572379 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
20572327 AAATTAGAAT
*
20572337 TAAAAATTAAACTAGAAA
1 TAAAAATTAAACTAAAAA
*
20572355 CAAAAATTATAA-TAAAAA
1 TAAAAATTA-AACTAAAAA
20572373 TAAAAAT
1 TAAAAAT
20572380 GGCCAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (18 bp):
TAAAAATTAAACTAAAAA
Found at i:20574789 original size:29 final size:29
Alignment explanation
Indices: 20574747--20574983 Score: 196
Period size: 29 Copynumber: 8.1 Consensus size: 29
20574737 TCGCTATAAG
*
20574747 GGCTTCCTTTTAATAGAGATAGCCACAAA
1 GGCTTCCATTTAATAGAGATAGCCACAAA
* * * *
20574776 GACATCCATTTAATTGAGATAGCCATAAA
1 GGCTTCCATTTAATAGAGATAGCCACAAA
* * * * * *
20574805 AGCATCCTTTTTTACAGAGATGGCCACAAA
1 GGCTTCC-ATTTAATAGAGATAGCCACAAA
* * * *
20574835 AGCTTCCTTTTAATAGAGATCA-TCACCAA
1 GGCTTCCATTTAATAGAGAT-AGCCACAAA
* *
20574864 GGCTTCCATTTAACAAAGA-ACGCCACAAA
1 GGCTTCCATTTAATAGAGATA-GCCACAAA
*
20574893 GGCTTCCATTTAATAGAGATCGCCACAAA
1 GGCTTCCATTTAATAGAGATAGCCACAAA
* *
20574922 GGCTTCCTTTTAACA-ATGATCA-CCACAAA
1 GGCTTCCATTTAATAGA-GAT-AGCCACAAA
*
20574951 GGCTTCC-TTATAATAGAGATATCCACAAA
1 GGCTTCCATT-TAATAGAGATAGCCACAAA
20574980 GGCT
1 GGCT
20574984 CACTTATACA
Statistics
Matches: 166, Mismatches: 32, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
27 1 0.01
28 4 0.02
29 138 0.83
30 23 0.14
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (29 bp):
GGCTTCCATTTAATAGAGATAGCCACAAA
Found at i:20576912 original size:42 final size:43
Alignment explanation
Indices: 20576834--20576920 Score: 131
Period size: 42 Copynumber: 2.0 Consensus size: 43
20576824 TCTCTAATCA
** **
20576834 TCCTTTAATTTTGTATGGTTTAGGAAAATTTGATCTTTATCGT
1 TCCTTTAATCGTGTATGGTTTAGGAAAATTCAATCTTTATCGT
20576877 TCCTTTAATCGTGTATGG-TTAGGAAAATTCAATCTTTATCGT
1 TCCTTTAATCGTGTATGGTTTAGGAAAATTCAATCTTTATCGT
20576919 TC
1 TC
20576921 GGCAACTCAG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 24 0.60
43 16 0.40
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (43 bp):
TCCTTTAATCGTGTATGGTTTAGGAAAATTCAATCTTTATCGT
Found at i:20581175 original size:13 final size:13
Alignment explanation
Indices: 20581157--20581183 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20581147 TTTTCTGATT
20581157 AATTTGTTGGATG
1 AATTTGTTGGATG
20581170 AATTTGTTGGATG
1 AATTTGTTGGATG
20581183 A
1 A
20581184 TTTTTTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (13 bp):
AATTTGTTGGATG
Found at i:20589374 original size:20 final size:20
Alignment explanation
Indices: 20589351--20589390 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20589341 CTTATATTTA
*
20589351 ATTTAAA-ATTATTATAAAAT
1 ATTTAAATAATATT-TAAAAT
20589371 ATTTAAATAATATTTAAAAT
1 ATTTAAATAATATTTAAAAT
20589391 GCTTAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTAAATAATATTTAAAAT
Found at i:20592965 original size:5 final size:5
Alignment explanation
Indices: 20592945--20592981 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
20592935 AGAAACAAAT
*
20592945 TTTG- TTTGA TTCGA TTTGA TTTGA TTTGA TTTGA TTT
1 TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA TTT
20592982 TCTTTCCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.16, C:0.03, G:0.19, T:0.62
Consensus pattern (5 bp):
TTTGA
Found at i:20593926 original size:44 final size:45
Alignment explanation
Indices: 20593811--20594146 Score: 114
Period size: 44 Copynumber: 7.7 Consensus size: 45
20593801 AGCTTTAATT
* *
20593811 TGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTACCATATTCAATC
** * * * *
20593856 TGC-CTTGCTGCAACTTTA-GGAGGATAAGACTT-GCTTAATT-AGTC
1 TGCTC-CACTGCAACTTCAGGGA-GATAAGACTTACCAT-ATTCAATC
* * * *
20593900 TGCTCCACTGCAACTTCAGGGAGATAA-A---ACTAGATGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTACCATATTCAATC
* * ** * *** *
20593941 TACT-CTCTGCAACTTCAAAGAGGTAAGA-TCTAAGGT-TTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACT-TACCATATTCAATC
* * * *** *
20593984 --CTCTCACTGCAACTTTAGCGAGATAGGA-TTACCGGCTTTAATC
1 TGCTC-CACTGCAACTTCAGGGAGATAAGACTTACCATATTCAATC
* * * * ** *
20594027 TGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTACCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTACCATATTCAATC
* * *
20594072 TAC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCC-TACTT-AGTC
1 TGCTC-CACTGCAACTTCAGGGA-GATAAGACTTACCATA-TTCAATC
* *
20594116 TACTCCACTGTAACTTCAGGGAGATAAGACT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACT
20594147 CGATCTGTTA
Statistics
Matches: 214, Mismatches: 55, Indels: 45
0.68 0.18 0.14
Matches are distributed among these distances:
40 20 0.09
41 8 0.04
42 3 0.01
43 31 0.14
44 80 0.37
45 72 0.34
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTTACCATATTCAATC
Found at i:20594096 original size:216 final size:217
Alignment explanation
Indices: 20593660--20594142 Score: 689
Period size: 216 Copynumber: 2.2 Consensus size: 217
20593650 ATCTTGGAAA
* * * * *
20593660 GATAAGATTTGCCTTATTCGATCTGCTCCACTACAACTTCAGGGAGATAATACTAGATGCGATCT
1 GATAAGACTTGCCTAATTAG-TCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCT
* *
20593725 ACTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAACCCGCCCCACTACAACTTTAGGGAG
65 ACTCTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAACCCGCCCCACTACAACTTTAGCGAG
** * * *
20593790 ATAGGATTGTCAGCTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAAT
130 ATAGGATTACCAGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTACCACCTTCAAT
* ** *
20593855 CTGCCTTGCTGCAACTTTAGGAG
195 CTACCTCACTGCAACTTCAGGAG
*
20593878 GATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCTA
1 GATAAGACTTGCCTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCTA
* * * * *
20593943 CTCTCTGCAACTTCAAAGAGGTAAGATCTAAGGTTTTAATCC-TCTCACTGCAACTTTAGCGAGA
66 CTCTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAACCCGCCCCACTACAACTTTAGCGAGA
* * * *
20594007 TAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTACCTTCAGTC
131 TAGGATTACCAGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTACCACCTTCAATC
20594072 TACCTCACTGCAACTTCAGGAG
196 TACCTCACTGCAACTTCAGGAG
* * *
20594094 GATAAGACTTGCCTACTTAGTCTACTCCACTGTAACTTCAGGGAGATAA
1 GATAAGACTTGCCTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAA
20594143 GACTCGATCT
Statistics
Matches: 235, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
216 137 0.58
217 82 0.35
218 16 0.07
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (217 bp):
GATAAGACTTGCCTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCTA
CTCTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAACCCGCCCCACTACAACTTTAGCGAGA
TAGGATTACCAGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTACCACCTTCAATC
TACCTCACTGCAACTTCAGGAG
Found at i:20594098 original size:45 final size:44
Alignment explanation
Indices: 20594029--20594146 Score: 145
Period size: 44 Copynumber: 2.7 Consensus size: 44
20594019 CTTTAATCTG
*
20594029 CTCCACTGCAACTTCAAGGA-GATAAGATTTG-CTACCTTCAGTCTA
1 CTCCACTGCAACTTC-AGGAGGATAAGACTTGCCTA-CTT-AGTCTA
20594074 C-CTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGTCTA
1 CTC-CACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGTCTA
*
20594118 CTCCACTGTAACTTCAGG-GAGATAAGACT
1 CTCCACTGCAACTTCAGGAG-GATAAGACT
20594147 CGATCTGTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 11
0.84 0.03 0.14
Matches are distributed among these distances:
43 1 0.02
44 35 0.53
45 27 0.41
46 3 0.05
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGTCTA
Found at i:20595981 original size:45 final size:45
Alignment explanation
Indices: 20595911--20596038 Score: 184
Period size: 45 Copynumber: 2.8 Consensus size: 45
20595901 GCCTCTCCCT
** * * *
20595911 TTTTTTTAGGACTTTAAGCGTCCTTTACGCGTTTTCACATTGGTC
1 TTTTTTTAGGACTAAAAACGCCCTTTACGGGTTTTCACATTGGTC
*
20595956 TTTTTTTAGGACTAAAAACGCCCTTTACGGGTTTTCACCTTGGTC
1 TTTTTTTAGGACTAAAAACGCCCTTTACGGGTTTTCACATTGGTC
* *
20596001 TTTTTTTAGGACTGAAAACACCCTTTACGGGTTTTCAC
1 TTTTTTTAGGACTAAAAACGCCCTTTACGGGTTTTCAC
20596039 CTTAATACCT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.42
Consensus pattern (45 bp):
TTTTTTTAGGACTAAAAACGCCCTTTACGGGTTTTCACATTGGTC
Found at i:20601951 original size:45 final size:46
Alignment explanation
Indices: 20601885--20601980 Score: 167
Period size: 45 Copynumber: 2.1 Consensus size: 46
20601875 AGCGTCCACG
*
20601885 CATCTCAACAGTACTCGATCCTTTCCCCTTTTGTATAGGATCT-CC
1 CATCTCAACAGTACTCCATCCTTTCCCCTTTTGTATAGGATCTCCC
*
20601930 CATCTCAACAGTACTCCATCCTTTCCCCTTTTGTATAGGATTTCCC
1 CATCTCAACAGTACTCCATCCTTTCCCCTTTTGTATAGGATCTCCC
20601976 CATCT
1 CATCT
20601981 AAGACATAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 41 0.85
46 7 0.15
ACGTcount: A:0.20, C:0.34, G:0.09, T:0.36
Consensus pattern (46 bp):
CATCTCAACAGTACTCCATCCTTTCCCCTTTTGTATAGGATCTCCC
Found at i:20607929 original size:19 final size:20
Alignment explanation
Indices: 20607892--20607929 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
20607882 TATAAGAAAA
*
20607892 CTTTACTAGAAATTAAATTC
1 CTTTACTAGAAAGTAAATTC
*
20607912 CTTTAC-AGAAAGTGAATT
1 CTTTACTAGAAAGTAAATT
20607930 ACAAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (20 bp):
CTTTACTAGAAAGTAAATTC
Found at i:20613560 original size:4 final size:4
Alignment explanation
Indices: 20613553--20613577 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20613543 GGGGGGGGAA
20613553 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
20613578 TGCACATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:20616604 original size:21 final size:21
Alignment explanation
Indices: 20616578--20616620 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20616568 TTTAGCAACT
*
20616578 TCTTCTTCAACAACAACTTCC
1 TCTTCTGCAACAACAACTTCC
* *
20616599 TCTTCTGCAGCAGCAACTTCC
1 TCTTCTGCAACAACAACTTCC
20616620 T
1 T
20616621 TCTCAACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.37, G:0.07, T:0.33
Consensus pattern (21 bp):
TCTTCTGCAACAACAACTTCC
Found at i:20620927 original size:14 final size:15
Alignment explanation
Indices: 20620908--20620938 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20620898 CTTAATTCCA
20620908 TTAG-TTTATTTAAC
1 TTAGTTTTATTTAAC
20620922 TTAGTTTTATTTAAC
1 TTAGTTTTATTTAAC
20620937 TT
1 TT
20620939 TTACAGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (15 bp):
TTAGTTTTATTTAAC
Found at i:20629276 original size:28 final size:28
Alignment explanation
Indices: 20629192--20629276 Score: 82
Period size: 28 Copynumber: 3.1 Consensus size: 28
20629182 CATATGATAG
* * *
20629192 TCTTGATGGACATCCCTATTTAATACAG
1 TCTTGATGGACATCCCCATTTAAGACAA
* * * * * *
20629220 TCTTGACGGGCTTTCACA-TTAAGATAA
1 TCTTGATGGACATCCCCATTTAAGACAA
20629247 TCTTGATGGACATCCCCATTTAAGACAA
1 TCTTGATGGACATCCCCATTTAAGACAA
20629275 TC
1 TC
20629277 CTAACGAACT
Statistics
Matches: 41, Mismatches: 15, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
27 19 0.46
28 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (28 bp):
TCTTGATGGACATCCCCATTTAAGACAA
Found at i:20629293 original size:55 final size:55
Alignment explanation
Indices: 20629187--20629294 Score: 135
Period size: 55 Copynumber: 2.0 Consensus size: 55
20629177 CCACTCATAT
* * * * * * ** *
20629187 GATAGTCTTGATGGACATCCCTATTTAATACAGTCTTGACGGGCTTTCACATTAA
1 GATAATCTTGATGGACATCCCCATTTAAGACAATCCTAACGAACTTCCACATTAA
20629242 GATAATCTTGATGGACATCCCCATTTAAGACAATCCTAACGAACTTCCACATT
1 GATAATCTTGATGGACATCCCCATTTAAGACAATCCTAACGAACTTCCACATT
20629295 TACGGTAATG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (55 bp):
GATAATCTTGATGGACATCCCCATTTAAGACAATCCTAACGAACTTCCACATTAA
Found at i:20641980 original size:6 final size:6
Alignment explanation
Indices: 20641969--20642002 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
20641959 CATCTCTTTC
20641969 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
20642003 GCCACAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:20649222 original size:79 final size:81
Alignment explanation
Indices: 20649086--20649270 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
20649076 TTGAATGATG
*
20649086 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
20649150 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
20649165 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
20649227 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
20649245 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20649271 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:20649284 original size:40 final size:40
Alignment explanation
Indices: 20649087--20649270 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
20649077 TGAATGATGT
* * * *
20649087 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
20649127 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
20649167 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
20649205 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
20649246 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
20649271 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:20649292 original size:79 final size:79
Alignment explanation
Indices: 20649139--20649303 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
20649129 GGACTAAGAT
* **
20649139 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
20649204 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
20649218 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
20649281 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
20649297 CCGAAGG
1 CCGAAGG
20649304 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:20657194 original size:79 final size:81
Alignment explanation
Indices: 20657058--20657242 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
20657048 TTGAATGATG
*
20657058 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
20657122 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
20657137 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
20657199 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
20657217 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20657243 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:20657256 original size:40 final size:40
Alignment explanation
Indices: 20657059--20657242 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
20657049 TGAATGATGT
* * * *
20657059 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
20657099 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
20657139 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
20657177 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
20657218 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
20657243 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:20657264 original size:79 final size:79
Alignment explanation
Indices: 20657111--20657275 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
20657101 GGACTAAGAT
* **
20657111 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
20657176 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
20657190 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
20657253 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
20657269 CCGAAGG
1 CCGAAGG
20657276 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:20666513 original size:20 final size:20
Alignment explanation
Indices: 20666488--20666536 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
20666478 GAAGCACTCA
*
20666488 ATTTACTTTCTTACCATTCC
1 ATTTACTTACTTACCATTCC
** *
20666508 ATTTACTTACTTTTCATTTC
1 ATTTACTTACTTACCATTCC
20666528 ATTTACTTA
1 ATTTACTTA
20666537 GCATAACTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCC
Found at i:20672685 original size:29 final size:29
Alignment explanation
Indices: 20672620--20672686 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
20672610 TCAATAATTG
*
20672620 CCACAAAGGCTTTCCTATCTAGAGTTTTA
1 CCACAAAGGCTTTCCTATCAAGAGTTTTA
* * * *
20672649 CAATAAAGGCTTTCTTGTCAAGAGTTTTA
1 CCACAAAGGCTTTCCTATCAAGAGTTTTA
20672678 CCACAAAGG
1 CCACAAAGG
20672687 TTGTCCTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (29 bp):
CCACAAAGGCTTTCCTATCAAGAGTTTTA
Found at i:20672723 original size:61 final size:61
Alignment explanation
Indices: 20672653--20672845 Score: 219
Period size: 61 Copynumber: 3.2 Consensus size: 61
20672643 GTTTTACAAT
* *
20672653 AAAGGCTTTCTTGTCAAGAGTTTTACCACAAAGGTTGTCCTTTAAATTCAGTACTCACCAC
1 AAAGGCTTTCTTGTCAAGAGTTTTACCACAAAGGTTGTCCTTTAAATTCAGTACTTAACAC
* * * * * * * *
20672714 AAAAGCTTTCCTGTCCAGAGTTTTGCCACAAAGTTTGTCCATTACACTCAGTACTTAACAC
1 AAAGGCTTTCTTGTCAAGAGTTTTACCACAAAGGTTGTCCTTTAAATTCAGTACTTAACAC
* ** * *
20672775 AAAGGCTTACATT-TCCAA-AGTTTTAGAACAATGGTTGTCCTTTATATTCAGTACTTAACAC
1 AAAGGCTTTC-TTGT-CAAGAGTTTTACCACAAAGGTTGTCCTTTAAATTCAGTACTTAACAC
20672836 AAAGGCTTTC
1 AAAGGCTTTC
20672846 CTTCTCCTGG
Statistics
Matches: 107, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
61 104 0.97
62 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (61 bp):
AAAGGCTTTCTTGTCAAGAGTTTTACCACAAAGGTTGTCCTTTAAATTCAGTACTTAACAC
Found at i:20682060 original size:16 final size:15
Alignment explanation
Indices: 20682033--20682066 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
20682023 ATAACTAGTA
*
20682033 TATAATTATATTTAT
1 TATAATTATATTAAT
20682048 TATAATATATATTAAT
1 TATAAT-TATATTAAT
20682064 TAT
1 TAT
20682067 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:20682760 original size:25 final size:23
Alignment explanation
Indices: 20682732--20682790 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 23
20682722 AATTTTCTAC
*
20682732 TAAATTTTAATTTTATTTAATTATT
1 TAAATTTTAA-TTTATTGAATTA-T
20682757 TAAATTTTCAATTTATTGAATTAT
1 TAAATTTT-AATTTATTGAATTAT
20682781 TAATATTTTA
1 TAA-ATTTTA
20682791 TACTAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 5 0.16
25 24 0.77
26 2 0.06
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TAAATTTTAATTTATTGAATTAT
Found at i:20685364 original size:35 final size:35
Alignment explanation
Indices: 20685315--20685386 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
20685305 ATTTAACATG
* *
20685315 TCTTTATTGTGTAAGAATTTAGTCTATTTTTGCTA
1 TCTTTATTGAGTAAGAATTTAGCCTATTTTTGCTA
*
20685350 TCTTTATTGAGTAAGCATTTAGCCTATTTTTGCTA
1 TCTTTATTGAGTAAGAATTTAGCCTATTTTTGCTA
20685385 TC
1 TC
20685387 ATAATAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.51
Consensus pattern (35 bp):
TCTTTATTGAGTAAGAATTTAGCCTATTTTTGCTA
Found at i:20706979 original size:26 final size:26
Alignment explanation
Indices: 20706964--20707015 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
20706954 TGCTTCAGTT
20706964 GTTTATGAATATTGATAGAATTATTG
1 GTTTATGAATATTGATAGAATTATTG
20706990 GTTTATGAATATTGATAGAATTATTG
1 GTTTATGAATATTGATAGAATTATTG
20707016 AATTACTCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (26 bp):
GTTTATGAATATTGATAGAATTATTG
Found at i:20715394 original size:180 final size:180
Alignment explanation
Indices: 20715186--20715561 Score: 752
Period size: 180 Copynumber: 2.1 Consensus size: 180
20715176 CTTTCTACAG
20715186 AAAATAGACTCAATAAGGAATCTAGAAATATAAATTATAACTATAAATATTTTTTTACAATTTTT
1 AAAATAGACTCAATAAGGAATCTAGAAATATAAATTATAACTATAAATATTTTTTTACAATTTTT
20715251 AATGATTTTCCAAAGTCAGAACAGGGGATTCCTAAAACCACTTTGACCTTGTCTAACTAAAAGGC
66 AATGATTTTCCAAAGTCAGAACAGGGGATTCCTAAAACCACTTTGACCTTGTCTAACTAAAAGGC
20715316 AAATATCTCAGAATACATAATTCCTTTGTCTACAATGTTATTTTTATATA
131 AAATATCTCAGAATACATAATTCCTTTGTCTACAATGTTATTTTTATATA
20715366 AAAATAGACTCAATAAGGAATCTAGAAATATAAATTATAACTATAAATATTTTTTTACAATTTTT
1 AAAATAGACTCAATAAGGAATCTAGAAATATAAATTATAACTATAAATATTTTTTTACAATTTTT
20715431 AATGATTTTCCAAAGTCAGAACAGGGGATTCCTAAAACCACTTTGACCTTGTCTAACTAAAAGGC
66 AATGATTTTCCAAAGTCAGAACAGGGGATTCCTAAAACCACTTTGACCTTGTCTAACTAAAAGGC
20715496 AAATATCTCAGAATACATAATTCCTTTGTCTACAATGTTATTTTTATATA
131 AAATATCTCAGAATACATAATTCCTTTGTCTACAATGTTATTTTTATATA
20715546 AAAATAGACTCAATAA
1 AAAATAGACTCAATAA
20715562 TATTTAATTC
Statistics
Matches: 196, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
180 196 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (180 bp):
AAAATAGACTCAATAAGGAATCTAGAAATATAAATTATAACTATAAATATTTTTTTACAATTTTT
AATGATTTTCCAAAGTCAGAACAGGGGATTCCTAAAACCACTTTGACCTTGTCTAACTAAAAGGC
AAATATCTCAGAATACATAATTCCTTTGTCTACAATGTTATTTTTATATA
Found at i:20716430 original size:50 final size:50
Alignment explanation
Indices: 20716319--20716543 Score: 186
Period size: 50 Copynumber: 4.4 Consensus size: 50
20716309 GTCATGTTCT
* * * * * *
20716319 AGACATGGTCTTACATGGGATTTTTCTTTTAC--TGCCAATGTCATATCCC
1 AGACATGGTCTTACATGGGAATTCTCATAT-CGGTGCCAATGCCATGTCCC
* * *
20716368 AGATATGATCTTACATGGGAATTCTCATATCGGTGCCCATGCCATGTCCC
1 AGACATGGTCTTACATGGGAATTCTCATATCGGTGCCAATGCCATGTCCC
* ** * *
20716418 AGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCC
1 AGACATGGTCTTACATGGGAATTCTCATATCGGTGCCAATGCCATGTCCC
* * * *
20716468 AGACATGGTCATACATGGGACCTT-TCATAACATCAATGATGTCAATGCCATGTCCC
1 AGACATGGTCTTACATGGGA-ATTCTCAT---ATC---GGTGCCAATGCCATGTCCC
*
20716524 AGACATTGTCTTACATGGGA
1 AGACATGGTCTTACATGGGA
20716544 TCTCTTTACC
Statistics
Matches: 141, Mismatches: 26, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 24 0.17
50 78 0.55
51 2 0.01
53 2 0.01
56 34 0.24
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (50 bp):
AGACATGGTCTTACATGGGAATTCTCATATCGGTGCCAATGCCATGTCCC
Found at i:20716524 original size:56 final size:50
Alignment explanation
Indices: 20716351--20716548 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 50
20716341 TTTCTTTTAC
* * * * ** * *
20716351 TGCCAATGTCATATCCCAGATATGATCTTACATGGGAATTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
* * *
20716401 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
* * *
20716451 TGCCAACGCCATGTCCCAGACATGGTCATACATGGGACCTTTCATAACATCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT--C-TC---GA
* * *
20716507 TGTCAATGCCATGTCCCAGACATTGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
20716549 TTACCCAAAT
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 81 0.67
52 1 0.01
53 2 0.02
56 37 0.31
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
Found at i:20718777 original size:12 final size:12
Alignment explanation
Indices: 20718760--20718794 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
20718750 TTCCTTTTTC
20718760 CCTATTCCTCCG
1 CCTATTCCTCCG
20718772 CCTATTCCTCCG
1 CCTATTCCTCCG
20718784 CCTATTCCTCC
1 CCTATTCCTCC
20718795 ATTCGCCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.09, C:0.51, G:0.06, T:0.34
Consensus pattern (12 bp):
CCTATTCCTCCG
Found at i:20719330 original size:30 final size:30
Alignment explanation
Indices: 20719295--20719355 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
20719285 CCTTTCTTTC
20719295 ATCCATAAGTAAAAAGAGGTAAGAAAACTT
1 ATCCATAAGTAAAAAGAGGTAAGAAAACTT
* * *
20719325 ATCCATAATTAAAGAGAGGTAAGGAAACTT
1 ATCCATAAGTAAAAAGAGGTAAGAAAACTT
20719355 A
1 A
20719356 CCAATTTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.21
Consensus pattern (30 bp):
ATCCATAAGTAAAAAGAGGTAAGAAAACTT
Found at i:20723043 original size:89 final size:89
Alignment explanation
Indices: 20722892--20723069 Score: 338
Period size: 89 Copynumber: 2.0 Consensus size: 89
20722882 ACACGGCTGA
20722892 GACACACACCCCTGTCTCTGCCCGTGTGGACAAAAATAGGTCATTTTACAAGCCATATTTCTCAC
1 GACACACACCCCTGTCTCTGCCCGTGTGGACAAAAATAGGTCATTTTACAAGCCATATTTCTCAC
20722957 CCAATTTGCCATAAAACTACACCC
66 CCAATTTGCCATAAAACTACACCC
20722981 GACACACACCCCTGTCTCTGCCCGTGTGGACAAAAATAGGTCATTTTACAAGCCATATTTCTCAC
1 GACACACACCCCTGTCTCTGCCCGTGTGGACAAAAATAGGTCATTTTACAAGCCATATTTCTCAC
* *
20723046 CCAATTTGGCATAAACCTACACCC
66 CCAATTTGCCATAAAACTACACCC
20723070 AACATTATCC
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.25
Consensus pattern (89 bp):
GACACACACCCCTGTCTCTGCCCGTGTGGACAAAAATAGGTCATTTTACAAGCCATATTTCTCAC
CCAATTTGCCATAAAACTACACCC
Found at i:20724182 original size:25 final size:25
Alignment explanation
Indices: 20724138--20724212 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 25
20724128 ATACATGTAT
20724138 GCTTATACGAGC-GATGAATCGGTATA
1 GCTTATACGAGCTGA-GAATCGGTA-A
*
20724164 -CTT-TCACGAGCTGTA-AATCAGTAA
1 GCTTAT-ACGAGCTG-AGAATCGGTAA
20724188 GCTTATACGAGCTGAGAATCGGTAA
1 GCTTATACGAGCTGAGAATCGGTAA
20724213 CCCTGATGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
24 3 0.07
25 35 0.85
26 2 0.05
27 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (25 bp):
GCTTATACGAGCTGAGAATCGGTAA
Found at i:20731472 original size:25 final size:25
Alignment explanation
Indices: 20731434--20731509 Score: 93
Period size: 25 Copynumber: 3.0 Consensus size: 25
20731424 TCCTGTACAT
20731434 GTATGCTCATACGAGCTATGAATCG
1 GTATGCTCATACGAGCTATGAATCG
* *
20731459 GTATGCTC-TCACGAGCTGTAAATCG
1 GTATGCTCAT-ACGAGCTATGAATCG
*
20731484 GTAAGCTCATACGAGCTGA-GAATCG
1 GTATGCTCATACGAGCT-ATGAATCG
20731509 G
1 G
20731510 GAACCCTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 1 0.02
25 41 0.95
26 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATGAATCG
Found at i:20734331 original size:25 final size:26
Alignment explanation
Indices: 20734297--20734345 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
20734287 AATAATTTAA
*
20734297 AAATTGTAAAAAGATAT-TAAAAATC
1 AAATTGTAAAAAAATATATAAAAATC
*
20734322 AAATTTTAAAAAAATATATAAAAA
1 AAATTGTAAAAAAATATATAAAAA
20734346 GTTCATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (26 bp):
AAATTGTAAAAAAATATATAAAAATC
Found at i:20741537 original size:26 final size:26
Alignment explanation
Indices: 20741484--20741539 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
20741474 AATTTTAAAA
** * *
20741484 TATTTTTAAAATACTTTTTTATTTTT
1 TATTTTTAAAATAAATTTTTAGTGTT
*
20741510 TATTTTTAAAATAAATTTTTGGTGTT
1 TATTTTTAAAATAAATTTTTAGTGTT
20741536 TATT
1 TATT
20741540 AAAAAATGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (26 bp):
TATTTTTAAAATAAATTTTTAGTGTT
Found at i:20742245 original size:31 final size:33
Alignment explanation
Indices: 20742210--20742278 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
20742200 CCAAATACTA
*
20742210 ATATATTG-TAACGA-TAATATATAATGTCATC
1 ATATATTGATAACAAGTAATATATAATGTCATC
*
20742241 ATATATTGATGACAATGTAATATATAATGTCATC
1 ATATATTGATAACAA-GTAATATATAATGTCATC
20742275 ATAT
1 ATAT
20742279 GACTAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 8 0.24
32 4 0.12
34 21 0.64
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (33 bp):
ATATATTGATAACAAGTAATATATAATGTCATC
Found at i:20744065 original size:19 final size:19
Alignment explanation
Indices: 20744030--20744066 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20744020 CTTTACCAAT
*
20744030 AAATTTTAAAATTATACAC
1 AAATTTTAAAATAATACAC
*
20744049 AAATTTTAATATAATACA
1 AAATTTTAAAATAATACA
20744067 ATTATACATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTTTAAAATAATACAC
Found at i:20744286 original size:14 final size:14
Alignment explanation
Indices: 20744267--20744322 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
20744257 TTAATCAAAT
20744267 TAAAATTTCATATA
1 TAAAATTTCATATA
* *
20744281 TAAAATTATACAAAAA
1 TAAAATT-T-CATATA
20744297 T-AAATTTCATATA
1 TAAAATTTCATATA
* *
20744310 TATAATTACATAT
1 TAAAATTTCATAT
20744323 TGAACCATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
13 5 0.15
14 17 0.52
15 6 0.18
16 5 0.15
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAAATTTCATATA
Found at i:20744812 original size:16 final size:16
Alignment explanation
Indices: 20744791--20744831 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
20744781 CATAATTATT
20744791 TAAAAAATATGAAAAA
1 TAAAAAATATGAAAAA
* * *
20744807 TAAAAATTCTGTAAAA
1 TAAAAAATATGAAAAA
20744823 TAAAAAATA
1 TAAAAAATA
20744832 GATTTTTTAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (16 bp):
TAAAAAATATGAAAAA
Found at i:20745313 original size:16 final size:17
Alignment explanation
Indices: 20745294--20745334 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
20745284 TTTGAAGAGT
20745294 TTTTATTTTTTT-ATAA
1 TTTTATTTTTTTCATAA
*
20745310 TTTT-TTATTTTTCATAT
1 TTTTATT-TTTTTCATAA
20745327 TTTTATTT
1 TTTTATTT
20745335 AAAATATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
15 2 0.10
16 9 0.43
17 8 0.38
18 2 0.10
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATTTTTTTCATAA
Found at i:20745314 original size:18 final size:19
Alignment explanation
Indices: 20745273--20745321 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
20745263 TTTAAAAATC
20745273 TTTTTTATTTTTTTGAAGA
1 TTTTTTATTTTTTTGAAGA
*
20745292 GTTTTTATTTTTTT-ATA-A
1 TTTTTTATTTTTTTGA-AGA
20745310 TTTTTTATTTTT
1 TTTTTTATTTTT
20745322 CATATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (19 bp):
TTTTTTATTTTTTTGAAGA
Found at i:20745474 original size:17 final size:17
Alignment explanation
Indices: 20745452--20745486 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
20745442 AGTTGTCGAT
*
20745452 GCAATAGTATAGTGACG
1 GCAATAGTATAGTCACG
20745469 GCAATAGTATAGTCACG
1 GCAATAGTATAGTCACG
20745486 G
1 G
20745487 TAAAAAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (17 bp):
GCAATAGTATAGTCACG
Found at i:20751885 original size:17 final size:17
Alignment explanation
Indices: 20751863--20751895 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
20751853 TCAATCAGAA
20751863 CATACAACATATAATAG
1 CATACAACATATAATAG
20751880 CATACAACATATAATA
1 CATACAACATATAATA
20751896 TGTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.18, G:0.03, T:0.24
Consensus pattern (17 bp):
CATACAACATATAATAG
Found at i:20755205 original size:19 final size:20
Alignment explanation
Indices: 20755181--20755218 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20755171 CAAGCACACA
20755181 AAAGAAAA-GAAAAAAAATC
1 AAAGAAAATGAAAAAAAATC
*
20755200 AAAGAAAATGTAAAAAAAT
1 AAAGAAAATGAAAAAAAAT
20755219 TTTAGGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAGAAAATGAAAAAAAATC
Found at i:20756926 original size:23 final size:23
Alignment explanation
Indices: 20756891--20756945 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
20756881 AAATTTTGGG
20756891 TAATTA-AAGGTTAATAGGTGTTT
1 TAATTAGAAGGTTAATAGG-GTTT
* *
20756914 TAATTAGAA-GTTAGTATGGTTT
1 TAATTAGAAGGTTAATAGGGTTT
20756936 TAAGTTAGAA
1 TAA-TTAGAA
20756946 AATAGGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 7 0.25
23 19 0.68
24 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (23 bp):
TAATTAGAAGGTTAATAGGGTTT
Found at i:20760961 original size:23 final size:22
Alignment explanation
Indices: 20760918--20760961 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
20760908 TTCTAAGTTG
20760918 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
20760941 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
20760962 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:20761074 original size:45 final size:44
Alignment explanation
Indices: 20761006--20761098 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 44
20760996 AACAGATACT
* * *
20761006 CGGTGGATTAACACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGATCAACACATAGAAACCACCTTACTAATCAATGATGTC
* *
20761050 CGGTGGAATCAACACATAGAAACCACTTTACTAATCAATGATGTT
1 CGGTGG-ATCAACACATAGAAACCACCTTACTAATCAATGATGTC
20761095 CGGT
1 CGGT
20761099 TCACATAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 6 0.14
45 37 0.86
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (44 bp):
CGGTGGATCAACACATAGAAACCACCTTACTAATCAATGATGTC
Found at i:20764046 original size:42 final size:42
Alignment explanation
Indices: 20763966--20764047 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
20763956 CATTTTCTCT
* * **
20763966 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTATTACACATATGCACATATTG
*
20764008 ATGCCATAGCCCAGCTATGGTATTACACA-ATAGCACATAT
1 ATGCCATAGCCCAACTATGGTATTACACATAT-GCACATAT
20764048 CACACCGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTATTACACATATGCACATATTG
Found at i:20769543 original size:14 final size:14
Alignment explanation
Indices: 20769524--20769553 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20769514 TGATTATTTT
*
20769524 TAATCTAATTTTAC
1 TAATCTAATTTAAC
20769538 TAATCTAATTTAAC
1 TAATCTAATTTAAC
20769552 TA
1 TA
20769554 CGGCGCAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATCTAATTTAAC
Found at i:20774714 original size:56 final size:54
Alignment explanation
Indices: 20774588--20774741 Score: 200
Period size: 56 Copynumber: 2.8 Consensus size: 54
20774578 ATGGCCATGG
* *
20774588 AAAGAAGACCATATAATGTAAGACCTAGTCTGGGACTATGGCATCATATGAGGA
1 AAAGAAGACCATATAGTGTAAGACCTAGTCTGGGACTATGGCATAATATGAGGA
** * * *
20774642 AGTGAAGACTATATAGTGTAAGACCTAGTCATGGTGGCTATGGCATAATATGGGGA
1 AAAGAAGACCATATAGTGTAAGACCTAGTC-TGG-GACTATGGCATAATATGAGGA
* * *
20774698 AAAGAATACCACATAGTGTAAGACCTAGTCTGGGACGATGGCAT
1 AAAGAAGACCATATAGTGTAAGACCTAGTCTGGGACTATGGCAT
20774742 TATGTAGGGA
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
54 35 0.42
55 6 0.07
56 43 0.51
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (54 bp):
AAAGAAGACCATATAGTGTAAGACCTAGTCTGGGACTATGGCATAATATGAGGA
Found at i:20774772 original size:29 final size:29
Alignment explanation
Indices: 20774730--20774787 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
20774720 ACCTAGTCTG
*
20774730 GGACGATGGCATTATGTAGGGAAAAAGAT
1 GGACGATGGCATTATGAAGGGAAAAAGAT
20774759 GGACGATGGCATTATGAAGGGAAAAAGAT
1 GGACGATGGCATTATGAAGGGAAAAAGAT
20774788 AAAAGATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.34, T:0.19
Consensus pattern (29 bp):
GGACGATGGCATTATGAAGGGAAAAAGAT
Found at i:20774795 original size:29 final size:29
Alignment explanation
Indices: 20774734--20774796 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
20774724 AGTCTGGGAC
* ** *
20774734 GATGGCATTATGTAGGGAAAAAGATGGAC
1 GATGGCATTATGAAGGGAAAAAGATAAAA
20774763 GATGGCATTATGAAGGGAAAAAGATAAAA
1 GATGGCATTATGAAGGGAAAAAGATAAAA
20774792 GATGG
1 GATGG
20774797 TTGGGCAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.43, C:0.05, G:0.33, T:0.19
Consensus pattern (29 bp):
GATGGCATTATGAAGGGAAAAAGATAAAA
Found at i:20775127 original size:30 final size:30
Alignment explanation
Indices: 20775093--20775261 Score: 130
Period size: 30 Copynumber: 5.7 Consensus size: 30
20775083 TATATGTGTT
* * *
20775093 TGGACGCCTTTGTGGCTTTTTGATTTTATG
1 TGGACGCCTTTGTGGCTATCTGATGTTATG
* * *
20775123 TGGACGCATTTATGGCTATCTAATGTTATG
1 TGGACGCCTTTGTGGCTATCTGATGTTATG
*
20775153 TGGATC-CCTTTGTGGCTATCT-ATCTGTA--
1 TGGA-CGCCTTTGTGGCTATCTGATGT-TATG
* * *
20775181 TGGACACCTTTGTGGCTTTTTGATGTTATG
1 TGGACGCCTTTGTGGCTATCTGATGTTATG
* * * * *
20775211 TAGACACATTTATGGCTATCTAATGTTATG
1 TGGACGCCTTTGTGGCTATCTGATGTTATG
* * *
20775241 TGGATGCTTTTGTGGATATCT
1 TGGACGCCTTTGTGGCTATCT
20775262 ATCTGTATGG
Statistics
Matches: 109, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
27 1 0.01
28 19 0.17
29 6 0.06
30 82 0.75
31 1 0.01
ACGTcount: A:0.18, C:0.14, G:0.24, T:0.44
Consensus pattern (30 bp):
TGGACGCCTTTGTGGCTATCTGATGTTATG
Found at i:20775192 original size:28 final size:28
Alignment explanation
Indices: 20775159--20775348 Score: 109
Period size: 28 Copynumber: 6.7 Consensus size: 28
20775149 TATGTGGATC
*
20775159 CCTTTGTGGCTATCTATCTGTATGGACA
1 CCTTTATGGCTATCTATCTGTATGGACA
* * * *
20775187 CCTTTGTGGCTTTTTGATGT-TATGTAGACA
1 CCTTTATGGCTATCT-ATCTGTATG--GACA
* * **
20775217 CATTTATGGCTATCTA-ATGTTATGTGGATG
1 CCTTTATGGCTATCTATCTG-TA--TGGACA
* * * *
20775247 CTTTTGTGGATATCTATCTGTATGGACG
1 CCTTTATGGCTATCTATCTGTATGGACA
*
20775275 CCTATATGGCTATCTATCTGTATGGA-A
1 CCTTTATGGCTATCTATCTGTATGGACA
* * * **
20775302 GCTTTTATGGCTATCTA-ATGTTTGGATG
1 -CCTTTATGGCTATCTATCTGTATGGACA
*
20775330 CCTTTTTGGCTATCTATCT
1 CCTTTATGGCTATCTATCT
20775349 ATTGTGAAAG
Statistics
Matches: 123, Mismatches: 28, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
27 21 0.17
28 60 0.49
29 4 0.03
30 34 0.28
31 2 0.02
32 2 0.02
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.44
Consensus pattern (28 bp):
CCTTTATGGCTATCTATCTGTATGGACA
Found at i:20775196 original size:88 final size:88
Alignment explanation
Indices: 20775093--20775348 Score: 326
Period size: 88 Copynumber: 3.0 Consensus size: 88
20775083 TATATGTGTT
20775093 TGGACGCCTTTGTGGCTTTTTGATTTTATGTGGACGCATTTATGGCTATCTAATGTTATGTGGAT
1 TGGACGCCTTTGTGGCTTTTTGATTTTATGTGGACGCATTTATGGCTATCTAATGTTATGTGGAT
*
20775158 CCCTTTGTGGCTATCTATCTGTA
66 GCCTTTGTGGCTATCTATCTGTA
* * * *
20775181 TGGACACCTTTGTGGCTTTTTGATGTTATGTAGACACATTTATGGCTATCTAATGTTATGTGGAT
1 TGGACGCCTTTGTGGCTTTTTGATTTTATGTGGACGCATTTATGGCTATCTAATGTTATGTGGAT
* *
20775246 GCTTTTGTGGATATCTATCTGTA
66 GCCTTTGTGGCTATCTATCTGTA
* * * * * * *
20775269 TGGACGCCTATATGGCTATCT-ATCTGTA--TGGAAGCTTTTATGGCTATCTAATG-T-T-TGGA
1 TGGACGCCTTTGTGGCTTTTTGAT-TTTATGTGGACGCATTTATGGCTATCTAATGTTATGTGGA
*
20775328 TGCCTTTTTGGCTATCTATCT
65 TGCCTTTGTGGCTATCTATCT
20775349 ATTGTGAAAG
Statistics
Matches: 146, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
83 22 0.15
84 1 0.01
85 1 0.01
86 21 0.14
87 2 0.01
88 99 0.68
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (88 bp):
TGGACGCCTTTGTGGCTTTTTGATTTTATGTGGACGCATTTATGGCTATCTAATGTTATGTGGAT
GCCTTTGTGGCTATCTATCTGTA
Found at i:20776829 original size:18 final size:18
Alignment explanation
Indices: 20776806--20776842 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
20776796 CAATAATATG
* *
20776806 AATTCTTGAACCTAGAAT
1 AATTCTTAAAACTAGAAT
20776824 AATTCTTAAAACTAGAAT
1 AATTCTTAAAACTAGAAT
20776842 A
1 A
20776843 TTTTTTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (18 bp):
AATTCTTAAAACTAGAAT
Found at i:20777417 original size:17 final size:17
Alignment explanation
Indices: 20777397--20777432 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
20777387 AAGTATTTTT
20777397 TATAAACATAAAATATA
1 TATAAACATAAAATATA
*
20777414 TATAAACATAATATATA
1 TATAAACATAAAATATA
20777431 TA
1 TA
20777433 GGAAAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAACATAAAATATA
Found at i:20777426 original size:15 final size:16
Alignment explanation
Indices: 20777397--20777432 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 16
20777387 AAGTATTTTT
20777397 TATAAACATAAAATATA
1 TATAAACAT-AAATATA
20777414 TATAAACAT-AATATA
1 TATAAACATAAATATA
20777429 TATA
1 TATA
20777433 GGAAAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
17 9 0.47
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (16 bp):
TATAAACATAAATATA
Found at i:20777497 original size:43 final size:42
Alignment explanation
Indices: 20777439--20777519 Score: 126
Period size: 43 Copynumber: 1.9 Consensus size: 42
20777429 TATAGGAAAA
*
20777439 AATGTAAATATATATGTACGCATAGATATATAAAGATAGGATT
1 AATGTAAATAAATATGTACGCATAGATATATAAA-ATAGGATT
* *
20777482 AATGTATATAAATATGTACGTATAGATATATAAAATAG
1 AATGTAAATAAATATGTACGCATAGATATATAAAATAG
20777520 TAAGATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 4 0.11
43 31 0.89
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.33
Consensus pattern (42 bp):
AATGTAAATAAATATGTACGCATAGATATATAAAATAGGATT
Found at i:20784475 original size:24 final size:24
Alignment explanation
Indices: 20784426--20784477 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
20784416 TATCAAAGTC
* * *
20784426 AAATATATTATGCTAATACATGCT
1 AAATATATTATACTAATAAATACT
*
20784450 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
20784474 AAAT
1 AAAT
20784478 CTTCAAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:20788726 original size:24 final size:24
Alignment explanation
Indices: 20788699--20788746 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
20788689 AAAATCAAAC
* *
20788699 ATATTATGCTAATAAATGCTAAAT
1 ATATTATACTAATAAATACTAAAT
*
20788723 ATATTATACTCATAAATACTAAAT
1 ATATTATACTAATAAATACTAAAT
20788747 CTTCTAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (24 bp):
ATATTATACTAATAAATACTAAAT
Found at i:20797898 original size:28 final size:28
Alignment explanation
Indices: 20797866--20797989 Score: 126
Period size: 28 Copynumber: 4.5 Consensus size: 28
20797856 GAAAATGTTT
* *
20797866 AGCTCTCTGTTTAGCTCTGCTTTGTGTG
1 AGCTCTCTATTTGGCTCTGCTTTGTGTG
* **
20797894 AGCTCTCTGTTTGGCTCTGCTTTGTACG
1 AGCTCTCTATTTGGCTCTGCTTTGTGTG
* * *
20797922 AGCTTTCTATTTGGTTTTGC-TTGTGTG
1 AGCTCTCTATTTGGCTCTGCTTTGTGTG
* * *
20797949 AGCTCTCTATTTGG-TTTGTTTTGTGTA
1 AGCTCTCTATTTGGCTCTGCTTTGTGTG
20797976 AGCTCTCTACTTTG
1 AGCTCTCTA-TTTG
20797990 TTCATTTTGT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.05
27 33 0.40
28 45 0.55
ACGTcount: A:0.09, C:0.19, G:0.23, T:0.49
Consensus pattern (28 bp):
AGCTCTCTATTTGGCTCTGCTTTGTGTG
Found at i:20797957 original size:27 final size:26
Alignment explanation
Indices: 20797887--20797989 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 26
20797877 TAGCTCTGCT
* *
20797887 TTGTGTGAGCTCTCTGTTTGGCTCTGC
1 TTGTGTGAGCTCTCTATTTGG-TTTGC
*
20797914 TT-TGTACGAGCTTTCTATTTGGTTTTGC
1 TTGTGT--GAGCTCTCTATTTGG-TTTGC
*
20797942 TTGTGTGAGCTCTCTATTTGGTTTGTT
1 TTGTGTGAGCTCTCTATTTGGTTTG-C
*
20797969 TTGTGTAAGCTCTCTACTTTG
1 TTGTGTGAGCTCTCTA-TTTG
20797990 TTCATTTTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
26 7 0.11
27 31 0.48
28 23 0.36
29 3 0.05
ACGTcount: A:0.09, C:0.17, G:0.24, T:0.50
Consensus pattern (26 bp):
TTGTGTGAGCTCTCTATTTGGTTTGC
Found at i:20797997 original size:27 final size:27
Alignment explanation
Indices: 20797942--20798008 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
20797932 TTGGTTTTGC
* **
20797942 TTGTGTGAGCTCTCTATTTGGTTTGTT
1 TTGTGTAAGCTCTCTATTTGGTTCATT
20797969 TTGTGTAAGCTCTCTACTTT-GTTCATT
1 TTGTGTAAGCTCTCTA-TTTGGTTCATT
**
20797996 TTGTACAAGCTCT
1 TTGTGTAAGCTCT
20798009 TCGTCTGGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 31 0.91
28 3 0.09
ACGTcount: A:0.13, C:0.16, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTGTAAGCTCTCTATTTGGTTCATT
Found at i:20802742 original size:16 final size:16
Alignment explanation
Indices: 20802721--20802754 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
20802711 AAAAGTGTGT
20802721 CATGTATTTTCTTACC
1 CATGTATTTTCTTACC
20802737 CATGTATTTTCTTACC
1 CATGTATTTTCTTACC
20802753 CA
1 CA
20802755 GAAAGAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.06, T:0.47
Consensus pattern (16 bp):
CATGTATTTTCTTACC
Found at i:20806700 original size:27 final size:28
Alignment explanation
Indices: 20806612--20806701 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
20806602 CTAATGTTTT
* *
20806612 AGCTCTCGGTTTGGCTTTGCTTTATGCG
1 AGCTCTCTGTTTGGCTTTGCTTTGTGCG
* * * *
20806640 AGCTCTCTATTTGGCTCTGATTTGTACG
1 AGCTCTCTGTTTGGCTTTGCTTTGTGCG
*
20806668 AGCTCTTTGTTTGG-TTTGCTTTGTGCG
1 AGCTCTCTGTTTGGCTTTGCTTTGTGCG
*
20806695 AACTCTC
1 AGCTCTC
20806702 CATTTAGCCT
Statistics
Matches: 49, Mismatches: 13, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
27 15 0.31
28 34 0.69
ACGTcount: A:0.10, C:0.21, G:0.24, T:0.44
Consensus pattern (28 bp):
AGCTCTCTGTTTGGCTTTGCTTTGTGCG
Found at i:20813567 original size:27 final size:27
Alignment explanation
Indices: 20813537--20813614 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
20813527 CCAGAAGGTT
* * *
20813537 TGGCGACCTGGTGTTCGCCAGTAGATC
1 TGGCGACTTTGTGTTCGCCAGTAGACC
* * *
20813564 TGGCAACTTTGTGTTCTCCAGTAGGCC
1 TGGCGACTTTGTGTTCGCCAGTAGACC
* *
20813591 TGGCGAGTTTGTATTCGCCAGTAG
1 TGGCGACTTTGTGTTCGCCAGTAG
20813615 GCTTGGTGAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (27 bp):
TGGCGACTTTGTGTTCGCCAGTAGACC
Found at i:20813784 original size:26 final size:26
Alignment explanation
Indices: 20813724--20813786 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
20813714 ACCAATGGAT
* * *
20813724 TTAGCGAACTATGATCGTTAGTGGGC
1 TTAGCGAGCTAAGATCGCTAGTGGGC
* * *
20813750 CTAGTGAGCTAAGGTCGCTAGTGGGC
1 TTAGCGAGCTAAGATCGCTAGTGGGC
20813776 TTAGCGAGCTA
1 TTAGCGAGCTA
20813787 TAATCACTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.27
Consensus pattern (26 bp):
TTAGCGAGCTAAGATCGCTAGTGGGC
Found at i:20816055 original size:58 final size:58
Alignment explanation
Indices: 20815948--20816072 Score: 144
Period size: 58 Copynumber: 2.2 Consensus size: 58
20815938 CTGAATGGAC
* * *
20815948 ACCTTTGTGGCTATCTCTGTTATAATGAAGCATTTGTGGGGACCACTATTAAAAGGAA
1 ACCTTTATGGCTATCTCAGTTAGAATGAAGCATTTGTGGGGACCACTATTAAAAGGAA
* * * * * * *
20816006 GCTTTTATGGCTATCTCAGTT-GAATGAATGCTTTTGTGGTGATCTCTATTATAAGGAA
1 ACCTTTATGGCTATCTCAGTTAGAATGAA-GCATTTGTGGGGACCACTATTAAAAGGAA
20816064 ACCTTTATG
1 ACCTTTATG
20816073 ACTCTTTCTA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
57 6 0.11
58 48 0.89
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (58 bp):
ACCTTTATGGCTATCTCAGTTAGAATGAAGCATTTGTGGGGACCACTATTAAAAGGAA
Found at i:20821921 original size:58 final size:58
Alignment explanation
Indices: 20821851--20821966 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
20821841 AGCTACTGTA
20821851 ATCAGCTATTAATAAAATACAAACATTACTCAATTGTCTAATTTTGTCATCAGAATTT
1 ATCAGCTATTAATAAAATACAAACATTACTCAATTGTCTAATTTTGTCATCAGAATTT
*
20821909 ATCAGCTATTAATACAATACAAACATTACTCAATTGTCTAATTTTGTCATCAGAATTT
1 ATCAGCTATTAATAAAATACAAACATTACTCAATTGTCTAATTTTGTCATCAGAATTT
20821967 TCACATTATT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (58 bp):
ATCAGCTATTAATAAAATACAAACATTACTCAATTGTCTAATTTTGTCATCAGAATTT
Found at i:20825649 original size:23 final size:22
Alignment explanation
Indices: 20825606--20825649 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
20825596 TTCTAAGTCG
20825606 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
20825629 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
20825650 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:20825779 original size:45 final size:46
Alignment explanation
Indices: 20825694--20825781 Score: 144
Period size: 45 Copynumber: 1.9 Consensus size: 46
20825684 AACATATACT
*
20825694 CGGTGGATTCAGCACATAGCAAACCACCTTATTAATCAATGATATC
1 CGGTGGATTCAGCACATAGCAAACCACCTTACTAATCAATGATATC
20825740 CGGTGGAATT-AGCACATAGC-AACCACCTTACTAATCAATGAT
1 CGGTGG-ATTCAGCACATAGCAAACCACCTTACTAATCAATGAT
20825782 GTTCGGTTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
45 21 0.52
46 16 0.40
47 3 0.08
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (46 bp):
CGGTGGATTCAGCACATAGCAAACCACCTTACTAATCAATGATATC
Found at i:20825855 original size:51 final size:51
Alignment explanation
Indices: 20825785--20825980 Score: 191
Period size: 51 Copynumber: 3.9 Consensus size: 51
20825775 CAATGATGTT
* * * *
20825785 CGGTTCACATAGTACCCTACACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTACCATC
* * * ** *
20825836 CGATACACGTAGTAGCCTACCCATAGTACTACACACGTGA-TAGAAACTATC
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCA-TTACCATC
* * * * * *
20825887 CGGTACGCATAGTAGCCTACGCATAGTACTACACATGCGACC--TATCATTC
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTACCA-TC
* *
20825937 CGGTACACGTAGTAGCTTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
20825981 CATTTTCACT
Statistics
Matches: 113, Mismatches: 27, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
49 2 0.02
50 38 0.34
51 73 0.65
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTACCATC
Found at i:20825972 original size:101 final size:101
Alignment explanation
Indices: 20825792--20825976 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
20825782 GTTCGGTTCA
* *
20825792 CATAGTACCCTACACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTACC
1 CATAGTACCCTACACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTACA
20825857 CATAGTACTACACACGTGATAGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATAGAAACTATCCGGTACG
* * * * * *
20825894 CATAGTAGCCTACGCATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCTTGCA
1 CATAGTACCCTACACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTACA
20825958 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
20825977 CCATCATTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 32 0.43
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (101 bp):
CATAGTACCCTACACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATAGAAACTATCCGGTACG
Found at i:20830978 original size:16 final size:16
Alignment explanation
Indices: 20830957--20831005 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
20830947 TTCGTTGTAT
20830957 TGGAATAGAGGCATAA
1 TGGAATAGAGGCATAA
*
20830973 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCATAA
20830989 TGGAATAGAGGCATAA
1 TGGAATAGAGGCATAA
20831005 T
1 T
20831006 AGCAAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCATAA
Found at i:20831259 original size:18 final size:17
Alignment explanation
Indices: 20831238--20831272 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20831228 TTATTATTAA
*
20831238 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
20831256 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
20831273 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:20831331 original size:61 final size:60
Alignment explanation
Indices: 20831266--20831572 Score: 190
Period size: 61 Copynumber: 5.1 Consensus size: 60
20831256 ATATAATTTA
*
20831266 ATAAAATTCTTAATAATCAATATTCTTATATTATTTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATCAATATTCTTATATTATTTTACT-AAATTATAATATATGATACT
* * * * * * *
20831327 ATAAAATATAATTTAA-CATAAATATTATT-TAATATATTT--T-AATTAAAATATATGAT-TT
1 ATAAAAT-T--CTTAATAATCAATATTCTTATATTAT-TTTACTAAATTATAATATATGATACT
* *
20831385 AATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATTATAATATATGATACT
1 -ATAAAATTCTTAATAATCAATATTCTTATATTATTTTACT-AAATTATAATATATGATACT
* * * * * * **
20831447 ATAAAATATAATTTGA-AAT-AATTATTATTA-AATATATT--T-AATTAAAATATATG-TTTT
1 ATAAAAT-T--CTTAATAATCAA-TATTCTTATATTATTTTACTAAATTATAATATATGATACT
* * * * * *
20831504 AATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATTATAATATATAATAGT
1 -ATAAAATTCTTAATAATCAATATTCTTATATTATTTTACT-AAATTATAATATATGATACT
20831566 ATAAAAT
1 ATAAAAT
20831573 ATAATTTAAC
Statistics
Matches: 182, Mismatches: 39, Indels: 50
0.67 0.14 0.18
Matches are distributed among these distances:
55 3 0.02
56 13 0.07
57 22 0.12
58 25 0.14
59 23 0.13
60 1 0.01
61 49 0.27
62 16 0.09
63 23 0.13
64 7 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (60 bp):
ATAAAATTCTTAATAATCAATATTCTTATATTATTTTACTAAATTATAATATATGATACT
Found at i:20831537 original size:119 final size:120
Alignment explanation
Indices: 20831218--20831655 Score: 700
Period size: 120 Copynumber: 3.7 Consensus size: 120
20831208 TTAATCATAT
20831218 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * * * *
20831283 CAATATTCTTATATTATTTTACTCAAATCATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAA
* * *
20831338 TTTAACATAAATATTATTTAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
20831403 CAATATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAA
** *
20831458 TTTGAA-ATAATTATTATTAAATATA-TTTAATTAAAATATATGTTTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
20831521 TAAATATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAA
* * *
20831577 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
20831642 AAATATTCTTATAT
66 AAATATTCTTATAT
20831656 TGCATTTAGA
Statistics
Matches: 298, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
118 2 0.01
119 111 0.37
120 183 0.61
121 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAA
Found at i:20838533 original size:15 final size:15
Alignment explanation
Indices: 20838513--20838544 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20838503 GCCTGTTAAG
20838513 ATTTTAGCTCGGGAA
1 ATTTTAGCTCGGGAA
*
20838528 ATTTTAGCTTGGGAA
1 ATTTTAGCTCGGGAA
20838543 AT
1 AT
20838545 AAAAGAGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (15 bp):
ATTTTAGCTCGGGAA
Found at i:20839237 original size:28 final size:29
Alignment explanation
Indices: 20839197--20839269 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
20839187 AGTAGCAGTT
** * *
20839197 TGGGCCTGGGCCCTATACAGCAATA-GTG
1 TGGGCCTTAGCCCAATACAGCAACAGGTG
* *
20839225 TGGGCCTTAGCCCAATATAGTAACAGTGTG
1 TGGGCCTTAGCCCAATACAGCAACAG-GTG
20839255 TGGGCCTTAGCCCAA
1 TGGGCCTTAGCCCAA
20839270 AATAGTAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 19 0.51
30 18 0.49
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (29 bp):
TGGGCCTTAGCCCAATACAGCAACAGGTG
Found at i:20839258 original size:30 final size:30
Alignment explanation
Indices: 20839222--20839279 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
20839212 TACAGCAATA
*
20839222 GTGTGGGCCTTAGCCCAATATAGTAACAGT
1 GTGTGGGCCTTAGCCCAAAATAGTAACAGT
20839252 GTGTGGGCCTTAGCCCAAAATAGTAACA
1 GTGTGGGCCTTAGCCCAAAATAGTAACA
20839280 ATGCAATGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAAAATAGTAACAGT
Found at i:20839422 original size:26 final size:26
Alignment explanation
Indices: 20839391--20839464 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
20839381 ACACTAATAT
* *
20839391 CGCAACAAAGCTGCCAGTAATAGTGA
1 CGCAACAAAGCTGCCAGTAACAGTAA
*
20839417 TGCAACAAAGCTGCCAGTAACAGTAA
1 CGCAACAAAGCTGCCAGTAACAGTAA
* *
20839443 CGTAGCAAAGCTGCCAGTAACA
1 CGCAACAAAGCTGCCAGTAACA
20839465 ATATATGTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (26 bp):
CGCAACAAAGCTGCCAGTAACAGTAA
Found at i:20839672 original size:27 final size:27
Alignment explanation
Indices: 20839642--20839947 Score: 346
Period size: 27 Copynumber: 11.3 Consensus size: 27
20839632 GGGTACAATA
* *
20839642 GTCATTTTACCATTCTAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
20839669 GTCATTTTACCCTTCG-GGGATATTTTG
1 GTCATTTTACCCTTCGAGGG-TATTTCG
**
20839696 GTCATTTTACCCTTC-AGGGGTATTTTA
1 GTCATTTTACCCTTCGA-GGGTATTTCG
*
20839723 ATCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
20839750 ATCATTTTACCCTTCGATGGTATATCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
20839777 GTCATTTTACACTTCAAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * **
20839804 GACATTTTACCCTTCAAGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
20839831 GTCATGTTACCCTTCGCGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * *
20839858 GTTATTTTACCATTTGAGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
20839885 GTCATTTTACCCTTCGAGAGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
**
20839912 GTCATTTTACCCTTTTAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
20839939 ATCATTTTA
1 GTCATTTTA
20839948 GGCCCATTAC
Statistics
Matches: 236, Mismatches: 39, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.01
27 229 0.97
28 4 0.02
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:20847069 original size:26 final size:26
Alignment explanation
Indices: 20847040--20847102 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
20847030 AGAAAGTTGT
* *
20847040 CAGTAATAGTGATGCAGCAAAGCTGC
1 CAGTAACAGTAATGCAGCAAAGCTGC
20847066 CAGTAACAGTAATGCAGCAAAGCTGC
1 CAGTAACAGTAATGCAGCAAAGCTGC
**
20847092 CAACAACAGTA
1 CAGTAACAGTA
20847103 TATGTGGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (26 bp):
CAGTAACAGTAATGCAGCAAAGCTGC
Found at i:20854464 original size:10 final size:10
Alignment explanation
Indices: 20854449--20854473 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20854439 CCAACTTTAC
20854449 CATTTCTATT
1 CATTTCTATT
20854459 CATTTCTATT
1 CATTTCTATT
20854469 CATTT
1 CATTT
20854474 GATGCAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (10 bp):
CATTTCTATT
Found at i:20856409 original size:39 final size:39
Alignment explanation
Indices: 20856346--20856480 Score: 180
Period size: 39 Copynumber: 3.5 Consensus size: 39
20856336 CATAACCACA
* * *
20856346 GCACGAAAGTGCTATCAAGAGTACCGAAGTACAACAGGG
1 GCACGTAAGTGCAATCAAGGGTACCGAAGTACAACAGGG
* * *
20856385 GCATGTAAGTGCCATCAAGGGTACCGAAGTACAACAGGA
1 GCACGTAAGTGCAATCAAGGGTACCGAAGTACAACAGGG
** * *
20856424 GCACGTAAGTGTGATTAGGGGTACCGAAGTACAACAGGG
1 GCACGTAAGTGCAATCAAGGGTACCGAAGTACAACAGGG
20856463 GCACGTAAGTGCAATCAA
1 GCACGTAAGTGCAATCAA
20856481 ATGTATAATT
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.16
Consensus pattern (39 bp):
GCACGTAAGTGCAATCAAGGGTACCGAAGTACAACAGGG
Found at i:20856472 original size:19 final size:19
Alignment explanation
Indices: 20856372--20856472 Score: 53
Period size: 19 Copynumber: 5.2 Consensus size: 19
20856362 AAGAGTACCG
*
20856372 AAGTACAACAGGGGCATGT
1 AAGTACAACAGGGGCACGT
* * * *
20856391 AAGTGCCATCAAGGGTACCG-
1 AAGT-ACAACAGGGGCA-CGT
*
20856411 AAGTACAACAGGAGCACGT
1 AAGTACAACAGGGGCACGT
** ** *
20856430 AAGTGTGATTAGGGGTACCG-
1 AAGT-ACAACAGGGGCA-CGT
20856450 AAGTACAACAGGGGCACGT
1 AAGTACAACAGGGGCACGT
20856469 AAGT
1 AAGT
20856473 GCAATCAAAT
Statistics
Matches: 55, Mismatches: 21, Indels: 12
0.62 0.24 0.14
Matches are distributed among these distances:
18 4 0.07
19 26 0.47
20 22 0.40
21 3 0.05
ACGTcount: A:0.35, C:0.18, G:0.32, T:0.16
Consensus pattern (19 bp):
AAGTACAACAGGGGCACGT
Found at i:20861072 original size:26 final size:27
Alignment explanation
Indices: 20861016--20861073 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
20861006 ATAATTACCT
* * * *
20861016 TAAACTCCCCTCTTTAATTTATGAGAA
1 TAAAATCCCCTATTAAATTTATGACAA
20861043 -AAAATCCCCTATTAAATTT-TGACAA
1 TAAAATCCCCTATTAAATTTATGACAA
20861068 TAAAAT
1 TAAAAT
20861074 ATGTAATAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (27 bp):
TAAAATCCCCTATTAAATTTATGACAA
Found at i:20861700 original size:23 final size:23
Alignment explanation
Indices: 20861660--20861703 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20861650 TTATGCATAT
* *
20861660 ATATGAGCATATTAATTTAATAC
1 ATATGAACAAATTAATTTAATAC
*
20861683 ATATGAACAAATTCATTTAAT
1 ATATGAACAAATTAATTTAAT
20861704 TTAAATCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
ATATGAACAAATTAATTTAATAC
Found at i:20862264 original size:24 final size:24
Alignment explanation
Indices: 20862236--20862287 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20862226 TTCGTAGGTC
* *
20862236 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
20862260 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
20862284 AAAT
1 AAAT
20862288 CTTCTACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:20864792 original size:17 final size:19
Alignment explanation
Indices: 20864770--20864804 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
20864760 GCAGACTGGC
20864770 TTATAT-ATTTAT-ATATA
1 TTATATAATTTATGATATA
20864787 TTATATAATTTATGATAT
1 TTATATAATTTATGATAT
20864805 TAGTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TTATATAATTTATGATATA
Found at i:20864805 original size:17 final size:18
Alignment explanation
Indices: 20864770--20864814 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
20864760 GCAGACTGGC
*
20864770 TTATAT-ATTTATATATA
1 TTATATAATTTATAGATA
20864787 TTATATAATTTAT-GATA
1 TTATATAATTTATAGATA
20864804 TTAGTATAATT
1 TTA-TATAATT
20864815 CACCACTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
TTATATAATTTATAGATA
Found at i:20866524 original size:17 final size:17
Alignment explanation
Indices: 20866496--20866546 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
20866486 CTTATAAATC
20866496 ATAAAAAT-TTTAAAAA
1 ATAAAAATATTTAAAAA
20866512 ATAAAAATATTTAAAAA
1 ATAAAAATATTTAAAAA
*
20866529 TTAACAAA-ATTTAAAAA
1 ATAA-AAATATTTAAAAA
20866546 A
1 A
20866547 GTTTGTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
16 8 0.26
17 20 0.65
18 3 0.10
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAAATATTTAAAAA
Found at i:20867222 original size:29 final size:29
Alignment explanation
Indices: 20867189--20867249 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
20867179 TGGGTATTCT
20867189 TTAAATTTGT-AAAAAAGATAGAAATTAAA
1 TTAAATTTGTGAAAAAA-ATAGAAATTAAA
20867218 TTAAATTTGTGAAAAAAATAGAAATTAAA
1 TTAAATTTGTGAAAAAAATAGAAATTAAA
20867247 TTA
1 TTA
20867250 TGAAGTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (29 bp):
TTAAATTTGTGAAAAAAATAGAAATTAAA
Found at i:20868601 original size:3 final size:3
Alignment explanation
Indices: 20868595--20868625 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
20868585 TGAAAGTAGT
20868595 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20868626 ATTTGGTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:20874363 original size:18 final size:18
Alignment explanation
Indices: 20874342--20874380 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
20874332 GATTGAGAGT
* *
20874342 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
20874360 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
20874378 GAA
1 GAA
20874381 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:20879943 original size:21 final size:20
Alignment explanation
Indices: 20879901--20879945 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
20879891 ATTAATTAAA
* *
20879901 TTTTTTAAAATTTAAAAATAT
1 TTTTTTAAAATTT-TAATTAT
20879922 TTTTTTATAAATTTTAATTAT
1 TTTTTTA-AAATTTTAATTAT
20879943 TTT
1 TTT
20879946 ATATTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTTAAAATTTTAATTAT
Found at i:20881859 original size:15 final size:15
Alignment explanation
Indices: 20881836--20881866 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20881826 CAATGGAGTC
*
20881836 ATGAGGAAGTATACA
1 ATGAAGAAGTATACA
20881851 ATGAAGAAGTATACA
1 ATGAAGAAGTATACA
20881866 A
1 A
20881867 AGAATGAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (15 bp):
ATGAAGAAGTATACA
Found at i:20884404 original size:13 final size:13
Alignment explanation
Indices: 20884386--20884415 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20884376 AAACTATATT
*
20884386 TTAACTAAGTAAA
1 TTAACTAAGAAAA
20884399 TTAACTAAGAAAA
1 TTAACTAAGAAAA
20884412 TTAA
1 TTAA
20884416 AAAGGTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:20888703 original size:86 final size:86
Alignment explanation
Indices: 20888558--20888883 Score: 643
Period size: 86 Copynumber: 3.8 Consensus size: 86
20888548 AATTTCATGT
*
20888558 CATTATCAAATTGATGTCAAACGGTGTATGAGCATAGGTCATCATTCATTCGAGTAACAATCATT
1 CATTATCAAATTGATGTTAAACGGTGTATGAGCATAGGTCATCATTCATTCGAGTAACAATCATT
20888623 AATTTCATGTCATTACATAGC
66 AATTTCATGTCATTACATAGC
20888644 CATTATCAAATTGATGTTAAACGGTGTATGAGCATAGGTCATCATTCATTCGAGTAACAATCATT
1 CATTATCAAATTGATGTTAAACGGTGTATGAGCATAGGTCATCATTCATTCGAGTAACAATCATT
20888709 AATTTCATGTCATTACATAGC
66 AATTTCATGTCATTACATAGC
20888730 CATTATCAAATTGATGTTAAACGGTGTATGAGCATAGGTCATCATTCATTCGAGTAACAATCATT
1 CATTATCAAATTGATGTTAAACGGTGTATGAGCATAGGTCATCATTCATTCGAGTAACAATCATT
20888795 AATTTCATGTCATTACATAGC
66 AATTTCATGTCATTACATAGC
20888816 CATTATCAAATTGATGTTAAACGGTGTATGAGCATAGGTCATCATTCATTCGAGTAACAATCATT
1 CATTATCAAATTGATGTTAAACGGTGTATGAGCATAGGTCATCATTCATTCGAGTAACAATCATT
20888881 AAT
66 AAT
20888884 CTCGATACCA
Statistics
Matches: 239, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 239 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (86 bp):
CATTATCAAATTGATGTTAAACGGTGTATGAGCATAGGTCATCATTCATTCGAGTAACAATCATT
AATTTCATGTCATTACATAGC
Found at i:20891563 original size:12 final size:12
Alignment explanation
Indices: 20891546--20891572 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20891536 ATTCCGAAGT
20891546 ATATATATATAC
1 ATATATATATAC
20891558 ATATATATATAC
1 ATATATATATAC
20891570 ATA
1 ATA
20891573 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:20892091 original size:27 final size:27
Alignment explanation
Indices: 20892060--20892237 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20892050 TAAATTGTAC
20892060 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20892087 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20892113 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20892141 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20892169 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20892196 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20892223 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20892238 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20892174 original size:82 final size:81
Alignment explanation
Indices: 20892061--20892216 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20892051 AAATTGTACA
* *
20892061 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
20892125 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
20892142 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
20892207 TGCGAGTTGA
65 TGCGAATTGA
20892217 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20892228 original size:82 final size:81
Alignment explanation
Indices: 20892057--20892237 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
20892047 GATTAAATTG
* *
20892057 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20892122 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20892138 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20892202 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20892220 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20892238 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20901275 original size:40 final size:40
Alignment explanation
Indices: 20901186--20901449 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
20901176 TTGAATGATG
* *
20901186 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
20901225 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
20901265 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20901304 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20901344 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20901384 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20901425 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20901450 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Done.