Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 74 of 292
Found at i:22581811 original size:29 final size:29
Alignment explanation
Indices: 22581736--22581865 Score: 226
Period size: 29 Copynumber: 4.5 Consensus size: 29
22581726 CTTCGAGCTC
22581736 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
22581765 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
22581794 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
22581823 GCACACTCAGTGCCATAT-TTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
22581851 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
22581866 ATCTCGTCAC
Statistics
Matches: 95, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 24 0.25
29 71 0.75
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:22590036 original size:29 final size:29
Alignment explanation
Indices: 22590003--22590163 Score: 182
Period size: 29 Copynumber: 5.6 Consensus size: 29
22589993 GTGACGAGAT
22590003 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
22590032 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
22590061 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
22590090 CGGCACTGGGTGTGCGAGCTCGAAGGCTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
22590119 TGGCACTATGTGTGCGGGCT-TAAATCGA-A
1 TGGCACTAAGTGTGCGTGCTGGAAAT--ATA
22590148 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
22590164 AAATCGAGTA
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
28 2 0.02
29 109 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:22597966 original size:42 final size:43
Alignment explanation
Indices: 22597874--22598018 Score: 143
Period size: 43 Copynumber: 3.4 Consensus size: 43
22597864 TAAGAACACA
** * * *
22597874 TCTGGGATGTTGGTATCGATTTAAGATTTACATGTAAGAC-CATG
1 TCTGGGACATTGGCATCGATATATGA-TTACATGTAAGACAC-TG
* * *
22597918 TCTGGGACATTGGCATC-ATATATGTTTTCGTGTAAGACACTG
1 TCTGGGACATTGGCATCGATATATGATTACATGTAAGACACTG
* * *
22597960 TTTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCAC-G
1 TCTGGGACATTGGCATCGATATATGATTACATGTAAGA-CACTG
22598003 TCTGGGACATTGGCAT
1 TCTGGGACATTGGCAT
22598019 TGTACGAGTT
Statistics
Matches: 82, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 28 0.34
43 37 0.45
44 17 0.21
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
TCTGGGACATTGGCATCGATATATGATTACATGTAAGACACTG
Found at i:22598009 original size:43 final size:42
Alignment explanation
Indices: 22597901--22598018 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
22597891 GATTTAAGAT
* *
22597901 TTACATGTAAGACCATGTCTGGGACATTGGCATCATATATGT
1 TTACATGTAAGACCACGTCTGGGACATTGGCATCATATATGA
* * * * *
22597943 TTTCGTGTAAGA-CACTGTTTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCAC-GTCTGGGACATTGGCATC-ATATATGA
22597986 TTACATGTAAGACCACGTCTGGGACATTGGCAT
1 TTACATGTAAGACCACGTCTGGGACATTGGCAT
22598019 TGTACGAGTT
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
41 2 0.03
42 26 0.42
43 31 0.50
44 3 0.05
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACATTGGCATCATATATGA
Found at i:22603263 original size:46 final size:46
Alignment explanation
Indices: 22603201--22603331 Score: 208
Period size: 46 Copynumber: 2.8 Consensus size: 46
22603191 GATATTTGGG
22603201 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *
22603247 CGTCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *
22603293 CACCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22603332 GCGGTTACAT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:22607082 original size:18 final size:18
Alignment explanation
Indices: 22607061--22607104 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
22607051 TTAAATCAAT
22607061 TTTTGAAAAGATCTATAA
1 TTTTGAAAAGATCTATAA
*
22607079 TTTTGAAAAGATTTATAA
1 TTTTGAAAAGATCTATAA
22607097 TTTTGAAA
1 TTTTGAAA
22607105 TAAGGACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (18 bp):
TTTTGAAAAGATCTATAA
Found at i:22613247 original size:27 final size:26
Alignment explanation
Indices: 22613191--22613247 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
22613181 CAACCTTAAC
* * *
22613191 CCTAGGGGTATATTAGTAATTTTGCT
1 CCTAGGGGTAAATTAGTAATTTTCCA
22613217 CCTAGGGGTAAATCT-GTAAATTTTCCA
1 CCTAGGGGTAAAT-TAGT-AATTTTCCA
22613244 CCTA
1 CCTA
22613248 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATTAGTAATTTTCCA
Found at i:22613518 original size:21 final size:22
Alignment explanation
Indices: 22613494--22613534 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
22613484 AATTATTGCC
*
22613494 TATTTTTTTTATTA-TATTATA
1 TATTTTCTTTATTATTATTATA
22613515 TATTTTCTTTATTATTATTA
1 TATTTTCTTTATTATTATTA
22613535 CCCGTATGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTTTCTTTATTATTATTATA
Found at i:22615260 original size:15 final size:15
Alignment explanation
Indices: 22615240--22615268 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22615230 TTTTTCTATC
22615240 TAATAATAATAATTA
1 TAATAATAATAATTA
22615255 TAATAATAATAATT
1 TAATAATAATAATT
22615269 TTATAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:22615387 original size:19 final size:18
Alignment explanation
Indices: 22615350--22615393 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
22615340 ATACATACAG
22615350 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
22615367 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
22615386 TACTAATT
1 TAATAATT
22615394 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:22622233 original size:48 final size:41
Alignment explanation
Indices: 22622137--22622256 Score: 114
Period size: 48 Copynumber: 2.7 Consensus size: 41
22622127 TTAAGTGATT
* **
22622137 TCGTATAAGACCATGTCTGGGACATGGCATCGATATGAGGT
1 TCGTATAAGACCATGTCTGGGACATGGCATCAATATGAGCC
22622178 TCCGTATAAGACCATGTCTGGGACATGGCATAGGCATTAATATGAGACC
1 T-CGTATAAGACCATGTCTGGGACATGGCAT---C---AATATGAG-CC
* * *
22622227 TCGTATAACACCATATCTGGGATATGGCAT
1 TCGTATAAGACCATGTCTGGGACATGGCAT
22622257 TAATGTGTGG
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 29 0.45
45 1 0.02
48 33 0.51
49 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (41 bp):
TCGTATAAGACCATGTCTGGGACATGGCATCAATATGAGCC
Found at i:22627925 original size:25 final size:25
Alignment explanation
Indices: 22627891--22627941 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
22627881 TCCCTTGTAT
* *
22627891 TGGATAGAGCTTAAGGAAAATTAGA
1 TGGATAGAGCTCAAGGAAAATCAGA
22627916 TGGATAGAGCTCAAGGAAAATCAGA
1 TGGATAGAGCTCAAGGAAAATCAGA
22627941 T
1 T
22627942 TCATGATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.27, T:0.22
Consensus pattern (25 bp):
TGGATAGAGCTCAAGGAAAATCAGA
Found at i:22630123 original size:28 final size:28
Alignment explanation
Indices: 22630079--22630180 Score: 141
Period size: 28 Copynumber: 3.6 Consensus size: 28
22630069 TTGCATGACG
* *
22630079 ATGAATGTGGTTCGGCCTGATGGGCCAT
1 ATGAATGTGATTGGGCCTGATGGGCCAT
* * *
22630107 ATGAAAGTGATTGGGCCTGATGGGTCAC
1 ATGAATGTGATTGGGCCTGATGGGCCAT
*
22630135 ATGAATGTGATTGGGCCCGATGGGCCAT
1 ATGAATGTGATTGGGCCTGATGGGCCAT
*
22630163 ATGAATGAGATTGGGCCT
1 ATGAATGTGATTGGGCCT
22630181 AAAGGGGCCA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (28 bp):
ATGAATGTGATTGGGCCTGATGGGCCAT
Found at i:22631470 original size:17 final size:19
Alignment explanation
Indices: 22631434--22631470 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
22631424 TATTCTAAAG
22631434 AAGGATTTTCAATGAAAAC
1 AAGGATTTTCAATGAAAAC
*
22631453 AAGG-TTTTCGAT-AAAAC
1 AAGGATTTTCAATGAAAAC
22631470 A
1 A
22631471 CTTCAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (19 bp):
AAGGATTTTCAATGAAAAC
Found at i:22634163 original size:48 final size:48
Alignment explanation
Indices: 22634094--22634879 Score: 840
Period size: 48 Copynumber: 17.0 Consensus size: 48
22634084 AGATAAATAT
*
22634094 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
22634142 ATATACGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
22634190 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
22634238 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
22634286 ATATATGTGTGATATGTATA--T-GT------G---GGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
22634322 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* *
22634370 ATATAGGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* *
22634418 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCAAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
22634466 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* * * **
22634514 ATATATGTGTGAAATGTATATGT-GTGAAA--TGTAT-ATG--TGTGAA
1 ATATATGTGTGATATGTATATGTGGT-AAAGCCGAATGGCGAATGTGAA
* * * * * * *
22634557 ATGTATATGTGGTAAAGCCGA-ATG-GCG-AATG-TGAAAT----ATATGTG--
1 ATATATGTGTGAT-ATG--TATATGTG-GTAAAGCCG-AATGGCGA-ATGTGAA
* * * ** * * *
22634601 -TGATATGTAT-ATGTGGTA-AAGCCG-AATGGCGAAT---G-T---GAA
1 AT-ATATGTGTGATAT-GTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
22634640 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* * *
22634688 ATATATGTGTGAAATCTATATGTGGTAAAGCAGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
22634736 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* * * * *
22634784 ATATATATGAGATATGTATAGGTCGTAAAGTCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* * * * *
22634832 ATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
22634880 GGTTGTAACA
Statistics
Matches: 633, Mismatches: 64, Indels: 82
0.81 0.08 0.11
Matches are distributed among these distances:
36 32 0.05
37 1 0.00
38 1 0.00
39 13 0.02
40 7 0.01
41 19 0.03
42 1 0.00
43 18 0.03
44 9 0.01
45 8 0.01
46 12 0.02
47 2 0.00
48 510 0.81
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
Found at i:22634205 original size:96 final size:96
Alignment explanation
Indices: 22634094--22634879 Score: 945
Period size: 96 Copynumber: 8.5 Consensus size: 96
22634084 AGATAAATAT
* *
22634094 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATACGTGTGATATGT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
22634159 ATATGTGGTAAAGCCGAATGGCGAATGTGAA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
22634190 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
22634255 ATATGTGGTAAAGCCGAATGGCGAATGTGAA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAA
22634286 ATATATGTGTGATATGTATA--T-GT------G---GGCGAATGTGAAATATATGTGTGATATGT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
22634339 ATATGTGGTAAAGCCGAATGGCGAATGTGAA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAA
* * *
22634370 ATATAGGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGAAATGT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
*
22634435 ATATGTGGTAAAGCCGAATGGCAAATGTGAA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAA
* *
22634466 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGAAATGT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
* * **
22634531 ATATGT-GTGAAA--TGTAT-ATG--TGTGAA
66 ATATGTGGT-AAAGCCGAATGGCGAATGTGAA
* * * ** * * * * ** * *
22634557 ATGTATATGTG----GTA-AAGCCG-AATGGCGAATGTG-AAATAT-ATGTGTGATATGT-ATAT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATG-GCGAATGTGAAATAT-ATGTGTGATAT
*
22634613 GTG------GTAAAGCCGAATGGCGAATGTGAA
64 GTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* * *
22634640 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGAAATCT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
*
22634705 ATATGTGGTAAAGCAGAATGGCGAATGTGAA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAA
* *
22634736 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAGATATGT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
* * *
22634801 ATAGGTCGTAAAGTCGAATGGCGAATGTGAA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAA
* * * * *
22634832 ATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
22634880 GGTTGTAACA
Statistics
Matches: 593, Mismatches: 62, Indels: 70
0.82 0.09 0.10
Matches are distributed among these distances:
78 3 0.01
79 2 0.00
80 3 0.01
81 1 0.00
83 15 0.03
84 87 0.15
85 18 0.03
86 5 0.01
87 9 0.02
88 4 0.01
89 18 0.03
90 7 0.01
91 15 0.03
93 3 0.01
94 4 0.01
95 2 0.00
96 397 0.67
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (96 bp):
ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
ATATGTGGTAAAGCCGAATGGCGAATGTGAA
Found at i:22634275 original size:144 final size:144
Alignment explanation
Indices: 22634094--22634879 Score: 945
Period size: 144 Copynumber: 5.7 Consensus size: 144
22634084 AGATAAATAT
* *
22634094 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATACGTGTGATATGT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
*
22634159 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGAAATGTATATGTGGTAAAGCCGA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
22634224 ATGGCGAATGTGAA
131 ATGGCGAATGTGAA
22634238 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
22634303 ATA--T-GT------G---GGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
22634356 ATGGCGAATGTGAA
131 ATGGCGAATGTGAA
* * *
22634370 ATATAGGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGAAATGT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
*
22634435 ATATGTGGTAAAGCCGAATGGCAAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
*
22634500 ATGGCTAATGTGAA
131 ATGGCGAATGTGAA
* * * ** * *
22634514 ATATATGTGTGAAATGTATATGT-GTGAAA--TGTAT-ATG--TGTGAAATGTATATGTG----G
1 ATATATGTGTGATATGTATATGTGGT-AAAGCCGAATGGCGAATGTGAAATATATGTGTGATATG
* ** * * * * * * * * *
22634569 TA-AAGCCG-AATGGCGAAT-GTGAA-AT-ATATGTGTGATATGTATATG--TG----GTAAAGC
65 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATG-TGTG-ATATGTATATGTGGTAAAGC
22634623 CGAATGGCGAATGTGAA
128 CGAATGGCGAATGTGAA
* * *
22634640 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGAAATCT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
*
22634705 ATATGTGGTAAAGCAGAATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
22634770 ATGGCGAATGTGAA
131 ATGGCGAATGTGAA
* * * * * * * * *
22634784 ATATATATGAGATATGTATAGGTCGTAAAGTCGAATGGCGAATGTGAAATATGTATGAGATATGA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
*
22634849 ATATGTGGTAAAGCCGAATGGCTAATGTGAA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAA
22634880 GGTTGTAACA
Statistics
Matches: 539, Mismatches: 67, Indels: 72
0.79 0.10 0.11
Matches are distributed among these distances:
126 48 0.09
127 2 0.00
128 3 0.01
130 7 0.01
131 19 0.04
132 132 0.24
133 8 0.01
134 4 0.01
135 8 0.01
136 3 0.01
137 7 0.01
138 9 0.02
139 19 0.04
140 7 0.01
141 3 0.01
142 4 0.01
143 2 0.00
144 254 0.47
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (144 bp):
ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
ATGGCGAATGTGAA
Found at i:22634317 original size:36 final size:36
Alignment explanation
Indices: 22634274--22634346 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
22634264 AAAGCCGAAT
22634274 GGCGAATGTGAAATATATGTGTGATATGTATATGTG
1 GGCGAATGTGAAATATATGTGTGATATGTATATGTG
22634310 GGCGAATGTGAAATATATGTGTGATATGTATATGTG
1 GGCGAATGTGAAATATATGTGTGATATGTATATGTG
22634346 G
1 G
22634347 TAAAGCCGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.03, G:0.32, T:0.36
Consensus pattern (36 bp):
GGCGAATGTGAAATATATGTGTGATATGTATATGTG
Found at i:22634526 original size:13 final size:14
Alignment explanation
Indices: 22634508--22634567 Score: 86
Period size: 15 Copynumber: 4.1 Consensus size: 14
22634498 GAATGGCTAA
22634508 TGTGAAA-TATATG
1 TGTGAAAGTATATG
22634521 TGTGAAATGTATATG
1 TGTGAAA-GTATATG
22634536 TGTGAAATGTATATG
1 TGTGAAA-GTATATG
22634551 TGTGAAATGTATATG
1 TGTGAAA-GTATATG
22634566 TG
1 TG
22634568 GTAAAGCCGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
13 7 0.16
15 38 0.84
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (14 bp):
TGTGAAAGTATATG
Found at i:22634535 original size:15 final size:15
Alignment explanation
Indices: 22634515--22634567 Score: 106
Period size: 15 Copynumber: 3.5 Consensus size: 15
22634505 TAATGTGAAA
22634515 TATATGTGTGAAATG
1 TATATGTGTGAAATG
22634530 TATATGTGTGAAATG
1 TATATGTGTGAAATG
22634545 TATATGTGTGAAATG
1 TATATGTGTGAAATG
22634560 TATATGTG
1 TATATGTG
22634568 GTAAAGCCGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (15 bp):
TATATGTGTGAAATG
Found at i:22634551 original size:30 final size:28
Alignment explanation
Indices: 22634508--22634567 Score: 102
Period size: 30 Copynumber: 2.1 Consensus size: 28
22634498 GAATGGCTAA
22634508 TGTGAAATATATGTGTGAAATGTATATG
1 TGTGAAATATATGTGTGAAATGTATATG
22634536 TGTGAAATGTATATGTGTGAAATGTATATG
1 TGTGAAA--TATATGTGTGAAATGTATATG
22634566 TG
1 TG
22634568 GTAAAGCCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 7 0.23
30 23 0.77
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (28 bp):
TGTGAAATATATGTGTGAAATGTATATG
Found at i:22634561 original size:78 final size:76
Alignment explanation
Indices: 22634460--22634615 Score: 267
Period size: 78 Copynumber: 2.0 Consensus size: 76
22634450 GAATGGCAAA
* *
22634460 TGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 TGTGAAATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTG
22634525 AAATGTATATG
66 AAATGTATATG
22634536 TGTGAAATGTATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTG
1 TGTGAAA--TATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTG
*
22634601 TGATATGTATATG
64 TGAAATGTATATG
22634614 TG
1 TG
22634616 GTAAAGCCGA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
76 7 0.09
78 68 0.91
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (76 bp):
TGTGAAATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTG
AAATGTATATG
Found at i:22634980 original size:37 final size:37
Alignment explanation
Indices: 22634930--22635031 Score: 186
Period size: 37 Copynumber: 2.8 Consensus size: 37
22634920 ATATTCCAGC
22634930 TAAGACCCGATGACTACGTGTGGAGATTATGTCCGGG
1 TAAGACCCGATGACTACGTGTGGAGATTATGTCCGGG
*
22634967 TAAGACCCGATGACTACGTGTGGAGAGTATGTCCGGG
1 TAAGACCCGATGACTACGTGTGGAGATTATGTCCGGG
*
22635004 TAAGACCCGATGACTTCGTGTGGAGATT
1 TAAGACCCGATGACTACGTGTGGAGATT
22635032 TCCTCTGAGC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TAAGACCCGATGACTACGTGTGGAGATTATGTCCGGG
Found at i:22637866 original size:40 final size:40
Alignment explanation
Indices: 22637801--22638044 Score: 285
Period size: 40 Copynumber: 6.1 Consensus size: 40
22637791 CGGAATACAA
* ** * * *
22637801 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
22637841 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
22637881 CTGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
22637921 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
22637961 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
* ** * * *
22638001 CCAGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
22638041 CCGG
1 CCGG
22638045 GTATCATTCA
Statistics
Matches: 178, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
40 177 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:22638232 original size:123 final size:123
Alignment explanation
Indices: 22638013--22638351 Score: 588
Period size: 123 Copynumber: 2.8 Consensus size: 123
22638003 AGATATAATT
* * * * * * *
22638013 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
22638078 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
22638136 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
22638201 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAAGACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
22638259 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
22638324 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
22638352 CACATAATTC
Statistics
Matches: 206, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 206 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:22642215 original size:28 final size:28
Alignment explanation
Indices: 22642175--22642235 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
22642165 TTGCATGACA
* * * *
22642175 ATGAATGTCATTGTGCCTGACGGGCTAT
1 ATGAAAGTCATTGGGCCTAACGGGCCAT
* *
22642203 ATGAAAGTGATTGGGCCTAATGGGCCAT
1 ATGAAAGTCATTGGGCCTAACGGGCCAT
22642231 ATGAA
1 ATGAA
22642236 TGAGATTGGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (28 bp):
ATGAAAGTCATTGGGCCTAACGGGCCAT
Found at i:22642242 original size:28 final size:28
Alignment explanation
Indices: 22642196--22642250 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
22642186 TGTGCCTGAC
* * *
22642196 GGGCTATATGAAAGTGATTGGGCCTAAT
1 GGGCCATATGAAAGAGATTGGACCTAAT
*
22642224 GGGCCATATGAATGAGATTGGACCTAA
1 GGGCCATATGAAAGAGATTGGACCTAA
22642251 AGGGGTCGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (28 bp):
GGGCCATATGAAAGAGATTGGACCTAAT
Found at i:22648345 original size:12 final size:13
Alignment explanation
Indices: 22648309--22648346 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
22648299 AAATATTTGA
22648309 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
22648322 ATATGTTCTTAATT
1 CT-TGTTCTTAATT
22648336 CTTG-TCTTAAT
1 CTTGTTCTTAAT
22648347 ATTCCATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:22651517 original size:18 final size:18
Alignment explanation
Indices: 22651494--22651528 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22651484 CACATTAACC
22651494 GAGAACTCACCATAAACT
1 GAGAACTCACCATAAACT
*
22651512 GAGAACTCACTATAAAC
1 GAGAACTCACCATAAAC
22651529 CAAAACCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.17
Consensus pattern (18 bp):
GAGAACTCACCATAAACT
Found at i:22666080 original size:40 final size:39
Alignment explanation
Indices: 22665915--22666098 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
22665905 AAATTGAATG
* * *
22665915 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
22665955 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
22665995 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
22666035 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
22666074 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
22666099 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:22666123 original size:80 final size:81
Alignment explanation
Indices: 22665955--22666143 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
22665945 GCTGGAAATT
* * * *
22665955 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
22666020 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
22666036 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
22666099 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
22666115 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
22666144 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:22670347 original size:40 final size:39
Alignment explanation
Indices: 22670182--22670365 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
22670172 AAATTGAATG
* * *
22670182 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
22670222 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
22670262 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
22670302 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
22670341 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
22670366 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:22670390 original size:80 final size:81
Alignment explanation
Indices: 22670222--22670410 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
22670212 GCTGGAAATT
* * * *
22670222 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
22670287 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
22670303 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
22670366 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
22670382 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
22670411 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:22678462 original size:40 final size:39
Alignment explanation
Indices: 22678297--22678480 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
22678287 AAATTGAATG
* * *
22678297 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
22678337 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
22678377 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
22678417 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
22678456 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
22678481 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:22678505 original size:80 final size:81
Alignment explanation
Indices: 22678337--22678525 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
22678327 GCTGGAAATT
* * * *
22678337 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
22678402 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
22678418 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
22678481 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
22678497 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
22678526 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:22680685 original size:27 final size:26
Alignment explanation
Indices: 22680615--22680729 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
22680605 AGCATGACTG
* **
22680615 CCAGAACAGATATTGTGACAGAGTAA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
22680641 CCAGATATAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
22680668 CTAGAACAGATATATGTGGCATAGCCA
1 CCAGAACAGATAT-TGTGGCAGAGCCA
*
22680695 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATA-TTGTGGCAGAGCCA
*
22680723 CTAGAAC
1 CCAGAAC
22680730 GCTTCCTCCA
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
26 12 0.16
27 39 0.51
28 24 0.32
29 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:22680722 original size:55 final size:53
Alignment explanation
Indices: 22680617--22680729 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 53
22680607 CATGACTGCC
* * *
22680617 AGAACAGATATTGTGACAGAGTAACCAGATATAGATATTGTGGCAGAGCCACT
1 AGAACAGATATTGTGACAGAGCAACCAGAAACAGATATTGTGGCAGAGCCACT
* * * *
22680670 AGAACAGATATATGTGGCATAGCCACCAGAAACAGATATTTGTGGCATAGCCACT
1 AGAACAGATAT-TGTGACAGAGCAACCAGAAACAGATA-TTGTGGCAGAGCCACT
22680725 AGAAC
1 AGAAC
22680730 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 11 0.22
54 20 0.39
55 20 0.39
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AGAACAGATATTGTGACAGAGCAACCAGAAACAGATATTGTGGCAGAGCCACT
Found at i:22690613 original size:24 final size:24
Alignment explanation
Indices: 22690586--22690753 Score: 320
Period size: 24 Copynumber: 7.0 Consensus size: 24
22690576 GCTTATTATG
*
22690586 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
22690610 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
22690634 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
22690658 ATCG-ACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
22690681 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
22690705 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
22690729 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
22690753 A
1 A
22690754 CTTTCTACCC
Statistics
Matches: 142, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
23 23 0.16
24 119 0.84
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (24 bp):
ATCGCACACACAGTGCCATAGTAA
Found at i:22690674 original size:71 final size:72
Alignment explanation
Indices: 22690586--22690753 Score: 320
Period size: 71 Copynumber: 2.3 Consensus size: 72
22690576 GCTTATTATG
*
22690586 ATCGCACACATAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCC
1 ATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCC
22690651 ATAGTAA
66 ATAGTAA
22690658 ATCG-ACACACAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCC
1 ATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCC
22690722 ATAGTAA
66 ATAGTAA
22690729 ATCGCACACACAGTGCCATAGTAAA
1 ATCGCACACACAGTGCCATAGTAAA
22690754 CTTTCTACCC
Statistics
Matches: 94, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
71 70 0.74
72 24 0.26
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (72 bp):
ATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCC
ATAGTAA
Found at i:22698526 original size:24 final size:24
Alignment explanation
Indices: 22698499--22698595 Score: 176
Period size: 24 Copynumber: 4.0 Consensus size: 24
22698489 GCTTATTATG
*
22698499 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
22698523 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
22698547 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
*
22698571 ATCGCACACACAATGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
22698595 A
1 A
22698596 CTTTCTACCC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (24 bp):
ATCGCACACACAGTGCCATAGTAA
Found at i:22701854 original size:28 final size:28
Alignment explanation
Indices: 22701794--22701867 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
22701784 GATATGAATA
* * * *
22701794 TTGTGGTAGAGCCACCAG-AATAGATGT
1 TTGTGGCATAGCCACCAGAAACAGATAT
22701821 TTGTGGCATAGCCACCAGAAACAGATAT
1 TTGTGGCATAGCCACCAGAAACAGATAT
*
22701849 TTGTGGCATAGCTACCAGA
1 TTGTGGCATAGCCACCAGA
22701868 CCGCTTCCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 16 0.39
28 25 0.61
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (28 bp):
TTGTGGCATAGCCACCAGAAACAGATAT
Found at i:22712453 original size:46 final size:46
Alignment explanation
Indices: 22712403--22712528 Score: 200
Period size: 46 Copynumber: 2.7 Consensus size: 46
22712393 TGGTTGAGCA
*
22712403 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
22712449 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
22712495 -CTCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
22712529 GGGGCGGATT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 1 0.01
46 74 0.99
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:22715477 original size:41 final size:41
Alignment explanation
Indices: 22715420--22715502 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
22715410 AGTAGCCGTT
*
22715420 AATTTATTCGTAACAACATAAGCATGAGTTTAATAATTCTA
1 AATTTATTCATAACAACATAAGCATGAGTTTAATAATTCTA
22715461 AATTTATTCATAACAACATAAGCATGAGTTTAATAATTCTA
1 AATTTATTCATAACAACATAAGCATGAGTTTAATAATTCTA
22715502 A
1 A
22715503 GTTAAAGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.36
Consensus pattern (41 bp):
AATTTATTCATAACAACATAAGCATGAGTTTAATAATTCTA
Found at i:22726166 original size:5 final size:5
Alignment explanation
Indices: 22726156--22726189 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
22726146 TTTCTTTGAG
22726156 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
22726190 CAGTAAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:22729750 original size:46 final size:46
Alignment explanation
Indices: 22729683--22729780 Score: 187
Period size: 46 Copynumber: 2.1 Consensus size: 46
22729673 TGAATATGTT
22729683 CATAAGTTAGCAAATTATCGAGTTGCCGTGAATTTATTCGTAACAA
1 CATAAGTTAGCAAATTATCGAGTTGCCGTGAATTTATTCGTAACAA
*
22729729 CATAAGTTAGCAAATTATCGAGTTTCCGTGAATTTATTCGTAACAA
1 CATAAGTTAGCAAATTATCGAGTTGCCGTGAATTTATTCGTAACAA
22729775 CATAAG
1 CATAAG
22729781 CATGAGATTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (46 bp):
CATAAGTTAGCAAATTATCGAGTTGCCGTGAATTTATTCGTAACAA
Found at i:22731461 original size:23 final size:24
Alignment explanation
Indices: 22731404--22731461 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
22731394 AAGCTCAATG
** *
22731404 AGCTTCCTGTTCTAAACTCTTATG
1 AGCTTCCTGTTCTAAACTCGGATA
* *
22731428 AGTTTCCTGTTTTAAAC-CGGATA
1 AGCTTCCTGTTCTAAACTCGGATA
22731451 AGCTTCCTGTT
1 AGCTTCCTGTT
22731462 ACATGACTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (24 bp):
AGCTTCCTGTTCTAAACTCGGATA
Found at i:22736668 original size:49 final size:49
Alignment explanation
Indices: 22736599--22736828 Score: 352
Period size: 49 Copynumber: 4.7 Consensus size: 49
22736589 GTACATAATA
22736599 ATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTAT
*
22736648 ATATATGTGATAAGGCCTAATGGCTGATGTGACGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTAT
* * *
22736697 ATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTAT
* *
22736746 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATAT
1 ATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG--TAT
* * * *
22736797 ATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATATATGTGATAAGGCCTAATGGCTGATGTGA
22736829 ATGTTGTAAC
Statistics
Matches: 166, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
49 137 0.83
51 29 0.17
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTAT
Found at i:22736924 original size:37 final size:36
Alignment explanation
Indices: 22736869--22736955 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
22736859 AACTTGGAAA
22736869 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
22736907 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
22736944 TATGTCCGGGTA
1 TATGTCCGGGTA
22736956 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:22748500 original size:28 final size:28
Alignment explanation
Indices: 22748402--22748493 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 28
22748392 CCCTTTAGGG
* * *
22748402 CCAATCTCATTCATATGGCCCATCGGGC
1 CCAATCACTTTCATATGGCCCATCAGGC
22748430 CCAATCACTTTCATATGGCCCATCAGGC
1 CCAATCACTTTCATATGGCCCATCAGGC
* * *
22748458 CCAATCACTTTCATATGGCTCGTTAGGC
1 CCAATCACTTTCATATGGCCCATCAGGC
22748486 CCAATCAC
1 CCAATCAC
22748494 ACTCATAGTC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (28 bp):
CCAATCACTTTCATATGGCCCATCAGGC
Found at i:22748743 original size:16 final size:16
Alignment explanation
Indices: 22748718--22748748 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22748708 AAACTTCCAG
22748718 CTTTTCGGCATTTCGA
1 CTTTTCGGCATTTCGA
*
22748734 CTTTTTGGCATTTCG
1 CTTTTCGGCATTTCG
22748749 GGATTTGCCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.23, G:0.19, T:0.48
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:22751296 original size:40 final size:40
Alignment explanation
Indices: 22751259--22751444 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
22751249 GCTACTCGTT
* *
22751259 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
22751299 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
22751339 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
22751379 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTTACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
22751420 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
22751445 CATCATTCGA
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.87
41 15 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:22755888 original size:80 final size:80
Alignment explanation
Indices: 22755804--22755952 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
22755794 TATGGTAACC
* * * *
22755804 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
22755868 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
22755884 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
22755949 CCGG
66 CCGG
22755953 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:22755894 original size:40 final size:38
Alignment explanation
Indices: 22755845--22755952 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
22755835 ATCACGATTT
*
22755845 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
22755885 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
22755925 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
22755953 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:22763657 original size:80 final size:80
Alignment explanation
Indices: 22763573--22763721 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
22763563 TATGGTAACC
* * * *
22763573 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
22763637 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
22763653 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
22763718 CCGG
66 CCGG
22763722 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:22763663 original size:40 final size:38
Alignment explanation
Indices: 22763614--22763721 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
22763604 ATCACGATTT
*
22763614 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
22763654 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
22763694 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
22763722 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:22770575 original size:40 final size:40
Alignment explanation
Indices: 22770538--22770722 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
22770528 GCTACTCGTT
*
22770538 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
22770578 CAAATGCCTTCGGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
22770617 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
22770657 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
22770698 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22770723 CATCATTCGA
Statistics
Matches: 131, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
39 38 0.29
40 82 0.63
41 11 0.08
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:22770641 original size:79 final size:78
Alignment explanation
Indices: 22770505--22770722 Score: 273
Period size: 79 Copynumber: 2.7 Consensus size: 78
22770495 GAATCACGTA
** *
22770505 CCTTCGGAGT-TTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATA
1 CCTTCGGA-TCTTAACCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TA
22770568 GTAACTCGCACAAATG
63 GTAACTCGCACAAATG
* *
22770584 CCTTCGGGA-CTTAACCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTC-GGATCTTAACCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAG
22770648 TAACTCGCACAAATG
64 TAACTCGCACAAATG
* *
22770663 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTA-ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
22770723 CATCATTCGA
Statistics
Matches: 122, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
78 4 0.03
79 73 0.60
80 37 0.30
81 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CCTTCGGATCTTAACCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATG
Found at i:22776753 original size:27 final size:27
Alignment explanation
Indices: 22776714--22776785 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
22776704 CAGCGGACTT
* *
22776714 CCTCATGTTTAATGTCTCGGTGAACTA
1 CCTCATGTATAATGTCCCGGTGAACTA
* *
22776741 CCTCGTGTATAATGTCCCGGTGGACTA
1 CCTCATGTATAATGTCCCGGTGAACTA
* *
22776768 CCTCATGTTTAGTGTCCC
1 CCTCATGTATAATGTCCC
22776786 ACGGACTCTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (27 bp):
CCTCATGTATAATGTCCCGGTGAACTA
Found at i:22778589 original size:48 final size:48
Alignment explanation
Indices: 22778513--22778707 Score: 266
Period size: 48 Copynumber: 4.0 Consensus size: 48
22778503 TACTCGGAAG
* *
22778513 TCTCACACCCAAAGT-CCAAATATCATGGCCCAAAGCCAACTCAATGAA
1 TCTCGCACCCGAAGTGCC-AATATCATGGCCCAAAGCCAACTCAATGAA
22778561 TCTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
1 TCTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
* * **
22778609 TCTTGCACTCGAAGTGCCAATATCATGGCCTGAAGCCAACTCAATGAA
1 TCTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
* * * * *
22778657 TCTCGCATCTGAAGTGCCAATATCCTGGCCCGAAGCTAACTCAATGTAA
1 TCTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATG-AA
22778706 TC
1 TC
22778708 CCTAATGACA
Statistics
Matches: 132, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
48 126 0.95
49 6 0.05
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.21
Consensus pattern (48 bp):
TCTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
Found at i:22787190 original size:23 final size:22
Alignment explanation
Indices: 22787152--22787202 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
22787142 AAGCCACCCC
*
22787152 TTTTA-TT-TTATTTTATTTAT
1 TTTTATTTGTTATATTATTTAT
22787172 TTATTATTTGTTATATTATTTAT
1 TT-TTATTTGTTATATTATTTAT
22787195 TTTTATTT
1 TTTTATTT
22787203 TACTAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 2 0.07
21 3 0.11
22 8 0.30
23 14 0.52
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTATTTGTTATATTATTTAT
Found at i:22787333 original size:3 final size:3
Alignment explanation
Indices: 22787325--22787357 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
22787315 ATGATTGAGT
22787325 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22787358 ATTTCATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22787384 original size:23 final size:23
Alignment explanation
Indices: 22787343--22787402 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
22787333 ATTATTATTA
* *
22787343 TTATTATTATTATTAATTTCAT-T
1 TTATTTTTATTTTTAATTT-ATCT
*
22787366 TTATTTTTATTTTTTATTTATCT
1 TTATTTTTATTTTTAATTTATCT
* *
22787389 TTCTTTTTAATTTT
1 TTATTTTTATTTTT
22787403 GTTTTAGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 2 0.06
23 29 0.94
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (23 bp):
TTATTTTTATTTTTAATTTATCT
Found at i:22787385 original size:11 final size:12
Alignment explanation
Indices: 22787328--22787386 Score: 54
Period size: 12 Copynumber: 4.9 Consensus size: 12
22787318 ATTGAGTTTA
22787328 TTATTA-TTATT
1 TTATTATTTATT
22787339 ATTATTA-TTATT
1 -TTATTATTTATT
22787351 ATTATTAATTTCATT
1 -TTATT-ATTT-ATT
22787366 TTATT-TTTATT
1 TTATTATTTATT
22787377 TT-TTATTTAT
1 TTATTATTTAT
22787387 CTTTCTTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.05
11 10 0.23
12 20 0.47
13 1 0.02
14 7 0.16
15 3 0.07
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTATTTATT
Found at i:22789890 original size:45 final size:45
Alignment explanation
Indices: 22789832--22789923 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
22789822 AGATTGAGTT
*
22789832 AATGCGACAATAGATATTTTAATTAGAAAGAGGTTTCAATTAATA
1 AATGCGACAATAGAGATTTTAATTAGAAAGAGGTTTCAATTAATA
22789877 AATGCGACAATAGAGATTTTAATTAGAAAGAGGTTTCAATTAATA
1 AATGCGACAATAGAGATTTTAATTAGAAAGAGGTTTCAATTAATA
22789922 AA
1 AA
22789924 CCTAGAATCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.32
Consensus pattern (45 bp):
AATGCGACAATAGAGATTTTAATTAGAAAGAGGTTTCAATTAATA
Found at i:22790410 original size:35 final size:35
Alignment explanation
Indices: 22790371--22790475 Score: 95
Period size: 35 Copynumber: 3.0 Consensus size: 35
22790361 GAGCAACATT
*
22790371 ATGTAAACAGTCTATAGGCTATACAGAGTGACACC
1 ATGTAAATAGTCTATAGGCTATACAGAGTGACACC
* * * * * **
22790406 ATGTAAATAATCTACAAGATTTATGGAGTGACACC
1 ATGTAAATAGTCTATAGGCTATACAGAGTGACACC
* * *
22790441 ATGAAAATGGTCTATAGGCTCTACACGA-TGACACC
1 ATGTAAATAGTCTATAGGCTATACA-GAGTGACACC
22790476 TCTAAAGAGG
Statistics
Matches: 52, Mismatches: 17, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
35 50 0.96
36 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (35 bp):
ATGTAAATAGTCTATAGGCTATACAGAGTGACACC
Found at i:22797211 original size:40 final size:39
Alignment explanation
Indices: 22797145--22797295 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
22797135 AAATTGAATG
* * *
22797145 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
22797184 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
22797224 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
22797264 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
22797296 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:22797309 original size:40 final size:39
Alignment explanation
Indices: 22797182--22797311 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
22797172 ATGCTGGAAA
* *
22797182 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
22797222 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
22797262 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
22797302 TTATATCCGG
1 TTATATCCGG
22797312 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:22803824 original size:19 final size:21
Alignment explanation
Indices: 22803802--22803840 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22803792 AATAAAATAA
22803802 GAGT-ATG-GAAAAAAAAAAT
1 GAGTAATGAGAAAAAAAAAAT
22803821 GAGTAATGAGAAAAAAAAAA
1 GAGTAATGAGAAAAAAAAAA
22803841 AAAAGTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 3 0.17
21 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.13
Consensus pattern (21 bp):
GAGTAATGAGAAAAAAAAAAT
Found at i:22805190 original size:40 final size:40
Alignment explanation
Indices: 22805124--22805274 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
22805114 AAATTGAATG
* * *
22805124 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
22805163 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
22805203 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
22805243 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
22805275 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:22805288 original size:40 final size:40
Alignment explanation
Indices: 22805161--22805290 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
22805151 ATGCTGGAAA
* * *
22805161 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
22805201 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
22805241 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
22805281 TTATATCCGG
1 TTATATCCGG
22805291 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:22808110 original size:16 final size:16
Alignment explanation
Indices: 22808076--22808124 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
22808066 TTTCTTTATC
* *
22808076 CTGGATCTCTTTA-TT
1 CTGGATTTCTCTACTT
22808091 CTGGATTTCTCTACTT
1 CTGGATTTCTCTACTT
*
22808107 CTGGGTTTCTCTATCTT
1 CTGGATTTCTCTA-CTT
22808124 C
1 C
22808125 GGTTTCTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 11 0.38
16 14 0.48
17 4 0.14
ACGTcount: A:0.10, C:0.24, G:0.14, T:0.51
Consensus pattern (16 bp):
CTGGATTTCTCTACTT
Found at i:22808130 original size:15 final size:15
Alignment explanation
Indices: 22808096--22808145 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
22808086 TTATTCTGGA
22808096 TTTCTCTACTTCTGGG
1 TTTCTCTACTTC-GGG
22808112 TTTCTCTATCTTC-GG
1 TTTCTCTA-CTTCGGG
* *
22808127 TTTCTTTA-TTCGGT
1 TTTCTCTACTTCGGG
22808141 TTTCT
1 TTTCT
22808146 TGTATCTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 3 0.10
14 6 0.20
15 9 0.30
16 8 0.27
17 4 0.13
ACGTcount: A:0.06, C:0.22, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTCTACTTCGGG
Found at i:22810574 original size:46 final size:46
Alignment explanation
Indices: 22810519--22810699 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
22810509 CTAGGATGTT
22810519 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
22810565 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
22810611 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
22810658 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22810700 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:22810680 original size:93 final size:93
Alignment explanation
Indices: 22810521--22810691 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
22810511 AGGATGTTGA
* *
22810521 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22810586 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
22810614 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22810679 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
22810692 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:22823138 original size:22 final size:22
Alignment explanation
Indices: 22823113--22823158 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
22823103 CAAATGTGAT
*
22823113 GAATGTGAACATGTATATATGA
1 GAATGTGAACATGCATATATGA
22823135 GAATGTGAACATGCATATATGA
1 GAATGTGAACATGCATATATGA
22823157 GA
1 GA
22823159 TAAGGCCGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (22 bp):
GAATGTGAACATGCATATATGA
Found at i:22823180 original size:69 final size:69
Alignment explanation
Indices: 22823066--22823202 Score: 211
Period size: 69 Copynumber: 2.0 Consensus size: 69
22823056 TTTATGTGAT
** * * *
22823066 GAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACATGTATAT
1 GAATGTGAACATGCATATATGAGATAAGGCCGAATGGCAAATGTGATAAATGTGAACATGCATAT
22823131 ATGA
66 ATGA
* *
22823135 GAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAGTGTGATAAATGTGAACATGCATAT
1 GAATGTGAACATGCATATATGAGATAAGGCCGAATGGCAAATGTGATAAATGTGAACATGCATAT
22823200 ATG
66 ATG
22823203 TGATAAGGCC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.37, C:0.09, G:0.27, T:0.27
Consensus pattern (69 bp):
GAATGTGAACATGCATATATGAGATAAGGCCGAATGGCAAATGTGATAAATGTGAACATGCATAT
ATGA
Found at i:22823208 original size:47 final size:47
Alignment explanation
Indices: 22823135--22823552 Score: 599
Period size: 47 Copynumber: 8.9 Consensus size: 47
22823125 GTATATATGA
* *
22823135 GAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAGTGTGAT
1 GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGAT
*
22823182 AAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGAT
*
22823229 GAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGAT
*
22823276 GAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGAT
* * * *
22823323 GAATGTGAACATGTATATGTATGATAAGGCCGAATGGCCAATATGAT
1 GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGAT
* *
22823370 GAATGTGAACATGAATATGTGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGAT
*
22823417 GAATGTGAACATGCATATATGTGATAAGGCCGAATAGCCAATGTGAT
1 GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGAT
* * * *
22823464 GAATGAGAACAT-TATATATGTGATAAGG-CAAGATGGCCAATGTGAC
1 GAATGTGAACATGCATATATGTGATAAGGCCGA-ATGGCCAATGTGAT
* * * * * *
22823510 GAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTAATG
1 GAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCAATG
22823553 CGAAATGTGT
Statistics
Matches: 341, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
45 2 0.01
46 32 0.09
47 305 0.89
48 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGAT
Found at i:22823228 original size:22 final size:22
Alignment explanation
Indices: 22823200--22823322 Score: 60
Period size: 22 Copynumber: 5.3 Consensus size: 22
22823190 ACATGCATAT
22823200 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
22823222 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
22823244 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
* *
22823269 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
22823291 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
22823316 ATGTGAT
1 ATGTGAT
22823323 GAATGTGAAC
Statistics
Matches: 75, Mismatches: 8, Indels: 36
0.63 0.07 0.30
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 16 0.21
25 18 0.24
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:22823296 original size:23 final size:23
Alignment explanation
Indices: 22823222--22823296 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
22823212 CGAATGGCCA
22823222 ATGTGATGAATGTGAACATGCAT
1 ATGTGATGAATGTGAACATGCAT
* *
22823245 ATGTG-TGATAAG-G-CCGAATGGCCA-
1 ATGTGATGA-ATGTGAAC--AT-G-CAT
22823269 ATGTGATGAATGTGAACATGCAT
1 ATGTGATGAATGTGAACATGCAT
22823292 ATGTG
1 ATGTG
22823297 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 6 0.15
23 15 0.38
24 10 0.26
25 6 0.15
26 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCAT
Found at i:22823463 original size:22 final size:22
Alignment explanation
Indices: 22823389--22823463 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
22823379 CATGAATATG
*
22823389 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATAGCCAA
* * * *
22823411 TGTGATGAATG-TGAACATGCATATA
1 TGTGAT-AAGGCCGAATA-GC-CA-A
22823436 TGTGATAAGGCCGAATAGCCAA
1 TGTGATAAGGCCGAATAGCCAA
22823458 TGTGAT
1 TGTGAT
22823464 GAATGAGAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 16 0.41
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATAGCCAA
Found at i:22823582 original size:46 final size:46
Alignment explanation
Indices: 22823526--22823644 Score: 202
Period size: 46 Copynumber: 2.6 Consensus size: 46
22823516 GGAAGTGTAT
* *
22823526 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
*
22823572 ATATGAGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
*
22823618 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
22823645 TGAGAGATGT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
Found at i:22825407 original size:40 final size:40
Alignment explanation
Indices: 22825153--22825398 Score: 429
Period size: 40 Copynumber: 6.2 Consensus size: 40
22825143 GATGTATCTA
* *
22825153 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCG
1 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
*
22825193 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
1 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
* *
22825233 AGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATATATCCG
1 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
22825273 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
1 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
* *
22825313 GGCTAAGTTCCGAAAAGCATTCATGCTAGTGATATATCCG
1 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
22825353 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
1 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
22825393 GGCTAA
1 GGCTAA
22825399 ACCTCGAAGG
Statistics
Matches: 196, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 196 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
Found at i:22825518 original size:57 final size:57
Alignment explanation
Indices: 22825426--22825593 Score: 228
Period size: 57 Copynumber: 2.9 Consensus size: 57
22825416 GCTGGAATTA
* * * * * * *
22825426 TGAGGCACTGTGTGTGCAAGTTCTTCAACCAAGCACTATATGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
**
22825483 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* * *
22825540 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT
22825594 CAGTGGCACT
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 97 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
Found at i:22825557 original size:29 final size:29
Alignment explanation
Indices: 22825458--22825559 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
22825448 CTTCAACCAA
* * * *
22825458 GCACTATATGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
** *
22825487 GCACTATGTGTGCGAG-TTCTTCAATCGA-
1 GCACTATGTGTGCGAGATTAGT-AATTGAG
*
22825515 GCACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
22825544 GCACTATGTGTGCGAG
1 GCACTATGTGTGCGAG
22825560 TTCTTTAATC
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 23 0.38
29 37 0.62
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATTAGTAATTGAG
Found at i:22825568 original size:29 final size:28
Alignment explanation
Indices: 22825487--22825586 Score: 130
Period size: 28 Copynumber: 3.5 Consensus size: 28
22825477 AGTAGTTGAG
*
22825487 GCACTATGTGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTGCGAGTTCTTTAATCGA
** *
22825515 GCACTATGTGTGCGAGATT-GGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTTAATCGA
22825543 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTCTTTAATCGA
*
22825572 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
22825587 AATCAGTCAG
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
28 37 0.61
29 24 0.39
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (28 bp):
GCACTATGTGTGCGAGTTCTTTAATCGA
Found at i:22828991 original size:47 final size:47
Alignment explanation
Indices: 22828937--22829503 Score: 823
Period size: 47 Copynumber: 12.1 Consensus size: 47
22828927 TTAGGATTTT
** * * *
22828937 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
22828984 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
22829031 ATGTGATGAGTGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
22829078 ATGTGATGAATGAGAACATACATATATGTGATAAAGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
22829125 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
22829172 ATGTGATGAATGAGAACATACATATATGTGATAAAGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
22829219 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
22829266 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
22829313 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
22829360 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * **
22829407 GTGTGATGAATGAGAACATGTATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
22829454 ATGTGACGAACGTGGAA-GTGTATATATGTGGA-AAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGT-GATAAGGCCGAATGGCCA
22829501 ATG
1 ATG
22829504 CGAAATGTGT
Statistics
Matches: 475, Mismatches: 43, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
47 470 0.99
48 5 0.01
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:22829272 original size:22 final size:22
Alignment explanation
Indices: 22829245--22829366 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
22829235 CATGCATATG
22829245 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
22829267 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
22829290 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
* *
22829314 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
22829337 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
22829361 TGTGAT
1 TGTGAT
22829367 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 24 0.32
23 16 0.22
24 16 0.22
25 18 0.24
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:22829536 original size:46 final size:46
Alignment explanation
Indices: 22829477--22829595 Score: 193
Period size: 46 Copynumber: 2.6 Consensus size: 46
22829467 GGAAGTGTAT
* *
22829477 ATATGTGGAAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
22829523 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* *
22829569 ATATGTGGTAAAGTCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
22829596 TAAGAGATGT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:22831331 original size:15 final size:16
Alignment explanation
Indices: 22831303--22831332 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22831293 GGTTTTGGTG
22831303 TATGTTTGTAATGTGC
1 TATGTTTGTAATGTGC
22831319 TATGTTT-TAATGTG
1 TATGTTTGTAATGTG
22831333 TTTTGGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.03, G:0.23, T:0.53
Consensus pattern (16 bp):
TATGTTTGTAATGTGC
Found at i:22835861 original size:81 final size:80
Alignment explanation
Indices: 22835763--22835932 Score: 313
Period size: 81 Copynumber: 2.1 Consensus size: 80
22835753 ATTCTGATTC
*
22835763 GATTTGATTATTCGCTTGATAAGCTAGTTGAGTTGTATATTTTTGATATTGTGAGATTGCATGGT
1 GATTTGATTATTCGCTTGATAAGCTAGTTGAGTTGTATATTTTTAATATTGTGAGATTGCATGGT
22835828 GTGCCATTGTCAATTA
66 GTGCCATTGTCAA-TA
22835844 GATTTGATTATTCGCTTGATAAGCTAGTTGAGTTGTATATTTTTAATATTGTGAGATTGCATGGT
1 GATTTGATTATTCGCTTGATAAGCTAGTTGAGTTGTATATTTTTAATATTGTGAGATTGCATGGT
22835909 GTGCCATTGTCAATA
66 GTGCCATTGTCAATA
22835924 GTATTTGAT
1 G-ATTTGAT
22835933 AGAGACCCGA
Statistics
Matches: 87, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
80 3 0.03
81 84 0.97
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (80 bp):
GATTTGATTATTCGCTTGATAAGCTAGTTGAGTTGTATATTTTTAATATTGTGAGATTGCATGGT
GTGCCATTGTCAATA
Found at i:22837694 original size:8 final size:8
Alignment explanation
Indices: 22837681--22837709 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
22837671 TTGAATGAAA
22837681 TGAATGGT
1 TGAATGGT
22837689 TGAATGGT
1 TGAATGGT
22837697 TGAATGGT
1 TGAATGGT
22837705 TGAAT
1 TGAAT
22837710 TTGTATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (8 bp):
TGAATGGT
Found at i:22842792 original size:27 final size:28
Alignment explanation
Indices: 22842736--22842805 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
22842726 AAACTTGTAC
22842736 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
22842764 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
22842791 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22842806 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:22842816 original size:27 final size:27
Alignment explanation
Indices: 22842736--22842817 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
22842726 AAACTTGTAC
* *
22842736 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
22842764 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
22842791 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
22842818 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:22850813 original size:27 final size:28
Alignment explanation
Indices: 22850757--22850826 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
22850747 AAACTTGTAC
22850757 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
22850785 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
22850812 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22850827 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:22850837 original size:27 final size:27
Alignment explanation
Indices: 22850757--22850838 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
22850747 AAACTTGTAC
* *
22850757 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
22850785 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
22850812 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
22850839 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:22858266 original size:43 final size:43
Alignment explanation
Indices: 22858219--22858325 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 43
22858209 CCTGAATTGA
* ** *
22858219 GATTTACATATAAGACCATGTCTGGGACATTGGAATC-GTATCT
1 GATTTACATGTAAGACCATGTCTGGGACAGAGGAATCAATAT-T
* * * *
22858262 GATTT-CGTGTAACACCCTGTCTGGGACAGAGGCATCAATATT
1 GATTTACATGTAAGACCATGTCTGGGACAGAGGAATCAATATT
*
22858304 GAATTACATGTAAGACCATGTC
1 GATTTACATGTAAGACCATGTC
22858326 CGCGATGTCG
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 29 0.58
43 21 0.42
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (43 bp):
GATTTACATGTAAGACCATGTCTGGGACAGAGGAATCAATATT
Found at i:22870189 original size:40 final size:40
Alignment explanation
Indices: 22870126--22870345 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
22870116 ATTCAGATTG
22870126 ATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
22870165 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
22870205 ATAACCGGGCCAAGTCCCGAAGGTAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
22870245 ATAACCGGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
22870285 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* *
22870325 ATATCC-GGCTAA-ACCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
22870346 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
38 8 0.05
39 21 0.13
40 136 0.82
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:22883812 original size:46 final size:46
Alignment explanation
Indices: 22883762--22883935 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
22883752 TGGTTGAGCA
22883762 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
22883808 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
22883853 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
22883901 CCCGAGCTCGTTGAGTTGAGTCCG-GTTCA-TTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22883936 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 6 0.06
45 8 0.07
46 51 0.47
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22883918 original size:93 final size:92
Alignment explanation
Indices: 22883759--22883928 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
22883749 GGATGGTTGA
*
22883759 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
22883824 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCG-GTTCGTGAAATGTAACTAG
*
22883852 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
22883917 TGAGTCCGGTTC
66 TGAGTCCGGTTC
22883929 ATTATGGGCG
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGGTTCGTGAAATGTAACTAG
Found at i:22889055 original size:41 final size:41
Alignment explanation
Indices: 22889010--22889127 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
22889000 TGAAAGATAA
22889010 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
22889051 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22889081 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22889122 ATGTAG
1 ATGTAG
22889128 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:22889066 original size:71 final size:71
Alignment explanation
Indices: 22888978--22889141 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22888968 GAGATGTATC
22888978 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22889043 AGGACA
66 AGGACA
22889049 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22889114 AGGACA
66 AGGACA
22889120 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
22889142 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:22895914 original size:68 final size:70
Alignment explanation
Indices: 22895842--22896039 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
22895832 ACACCCTGTA
* * * *
22895842 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
22895904 ATAAAT
65 ATAAAT
*
22895910 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
*
22895975 GTAAAT
65 ATAAAT
* *
22895981 GTAGCTAGGTCGCATGCGAGATTCCAAGTGAAAGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTG-AAGACACCATGTAGACAAGAGAGCTACG
22896040 AGACAAATCG
Statistics
Matches: 118, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 88 0.75
72 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:22895965 original size:71 final size:71
Alignment explanation
Indices: 22895876--22896039 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
22895866 GAGATGTATC
*
22895876 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGAGATTCCAAGTGA
*
22895941 AGGACA
66 AAGACA
*
22895947 CCATGTAGACAAGAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCGCATGCGAGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGAGATTCCAAGTGA
22896012 AAGACA
66 AAGACA
22896018 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
22896040 AGACAAATCG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGAGATTCCAAGTGA
AAGACA
Found at i:22908821 original size:28 final size:27
Alignment explanation
Indices: 22908758--22908827 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
22908748 ATAGTGAGTC
*
22908758 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
22908785 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
22908813 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22908828 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:22912037 original size:46 final size:46
Alignment explanation
Indices: 22911987--22912115 Score: 240
Period size: 46 Copynumber: 2.8 Consensus size: 46
22911977 TGGTTGAGCA
22911987 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
22912033 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
22912079 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22912116 GCGGGTTACA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22915239 original size:23 final size:21
Alignment explanation
Indices: 22915200--22915241 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
22915190 GTACTTGAGT
22915200 ACATTTTGTTGCATTTTTAGG
1 ACATTTTGTTGCATTTTTAGG
22915221 ACATTTTAGTTAGCATTTTTA
1 ACATTTT-GTT-GCATTTTTA
22915242 ATATTGCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
ACATTTTGTTGCATTTTTAGG
Found at i:22920833 original size:37 final size:37
Alignment explanation
Indices: 22920727--22920835 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
22920717 AGCTCATACG
* * **
22920727 AAATCTCCACACGAAGTTATCGGGTCTTACCCAAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
22920764 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
22920801 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
22920836 ATACATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:22920941 original size:48 final size:48
Alignment explanation
Indices: 22920880--22921552 Score: 1098
Period size: 48 Copynumber: 14.0 Consensus size: 48
22920870 TGTTACAACA
*
22920880 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
22920928 TTCACATTAGCCATCCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
22920976 TTCACATTAGCCATTCGGCTTTACCACATAGACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
22921024 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
22921072 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
22921120 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
22921168 TTCACATTTGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
22921216 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
22921264 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
22921312 TTCACATTCA-CCATTTGGCTTTACCACATATACACATCACACATATAT
1 TTCACATT-AGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
22921360 TTCACATTAGCCATTCGGCTTTACCACATATA-ATATCACATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
22921407 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
22921455 TTCACATTCGCCATTCGGCCTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
22921503 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
22921551 TT
1 TT
22921553 ATCTTGTACA
Statistics
Matches: 581, Mismatches: 41, Indels: 6
0.93 0.07 0.01
Matches are distributed among these distances:
47 44 0.08
48 536 0.92
49 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:22925157 original size:40 final size:40
Alignment explanation
Indices: 22925123--22925514 Score: 568
Period size: 40 Copynumber: 9.8 Consensus size: 40
22925113 CCAGCATGAT
* * * * *
22925123 TGCTCTTCGGGACCTAGCCCGGATATAACGCCAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** * *
22925163 TGCTCTTCGGGGTTTAGCCCGTATAGATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
22925203 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
22925243 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
22925283 TGCTCCTCGGGACTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
22925323 TGCTCCTCGGGACTTAACCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
22925363 TGCTCCTCGGGACTTAACCCGGATATATCACTGGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
22925403 TGCTCCTCGGGACTTAACCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
22925443 TGCTCCTCGGGACTTAACCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * **
22925483 TGCTCTTTGGGACTTAGCCTAGATATATCACT
1 TGCTCCTCGGGACTTAGCCCGGATATATCACT
22925515 CTCAATTCTC
Statistics
Matches: 326, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 326 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:22926842 original size:37 final size:37
Alignment explanation
Indices: 22926783--22926891 Score: 157
Period size: 37 Copynumber: 2.9 Consensus size: 37
22926773 AGCTCATACG
* ** *
22926783 AAATCTCCATACAAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
22926820 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGG-CA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC-GGACA
*
22926857 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
22926892 ATACATTTCC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
36 2 0.03
37 61 0.94
38 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:22926997 original size:48 final size:48
Alignment explanation
Indices: 22926936--22927513 Score: 881
Period size: 48 Copynumber: 12.0 Consensus size: 48
22926926 TGTTACAACA
*
22926936 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
22926984 TTCACATTAGCCA-TCTGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTC-GGCTTTACCACATATACATATCACACATATAT
** * * * *
22927032 TTCACATTAGCCATTTTGCTTTACAACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
22927080 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
22927128 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
22927176 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
22927224 TTCACATTCGCCATTCGACTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * * *
22927272 TTCACATTAGCCATTCAGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
22927320 TTCACATTCGCCATTTGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
22927368 TTCACATTAGCCGTTCGGCTTTACCACATATACATATCACATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
22927416 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
22927464 TTCACATTCA-CCATTCGGCCTTACCATATATACATATCTCAAATATAT
1 TTCACATT-AGCCATTCGGCTTTACCACATATACATATCACACATATAT
22927512 TT
1 TT
22927514 ATCTTGTACA
Statistics
Matches: 478, Mismatches: 49, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
47 2 0.00
48 475 0.99
49 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:22930883 original size:16 final size:16
Alignment explanation
Indices: 22930839--22930885 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
22930829 CGGCAAATCC
* *
22930839 CAAAAAGTCTAAATGT
1 CAAAAAGCCGAAATGT
* *
22930855 CGAAAAGCTGAAATGT
1 CAAAAAGCCGAAATGT
22930871 CAAAAAGCCGAAATG
1 CAAAAAGCCGAAATG
22930886 CCGAAAGTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (16 bp):
CAAAAAGCCGAAATGT
Found at i:22931170 original size:29 final size:29
Alignment explanation
Indices: 22931106--22931246 Score: 171
Period size: 28 Copynumber: 5.0 Consensus size: 29
22931096 CATGAATGTA
*
22931106 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* *
22931134 AATTTGATTTGGGCCTAATGGGACATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* *
22931163 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
22931192 AATGTGA-ATGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * * *
22931220 AAAGAGA-TTGGGCCTAGTGGGCTATAT
1 AATGTGATTTGGGCCTAATGGGCCATAT
22931247 ATATAGGTAT
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 57 0.59
29 40 0.41
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.29
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:22931204 original size:57 final size:58
Alignment explanation
Indices: 22931106--22931241 Score: 179
Period size: 57 Copynumber: 2.4 Consensus size: 58
22931096 CATGAATGTA
* * * *
22931106 AATGTGATTTGGGCCTAGT-GGCCATATGAATTTGATTTGGGCCTAATGGGACATATG
1 AATGTGATTTGGGCCTAGTGGGCCACATAAATGTGATATGGGCCTAATGGGACATATG
* *
22931163 AATGTGATTTGGGCCTAATGGGCCACATAAATGTGA-ATGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAGTGGGCCACATAAATGTGATATGGGCCTAATGGGACATATG
* *
22931220 AAAGAGA-TTGGGCCTAGTGGGC
1 AATGTGATTTGGGCCTAGTGGGC
22931242 TATATATATA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
56 14 0.20
57 42 0.61
58 13 0.19
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (58 bp):
AATGTGATTTGGGCCTAGTGGGCCACATAAATGTGATATGGGCCTAATGGGACATATG
Found at i:22931309 original size:15 final size:15
Alignment explanation
Indices: 22931289--22931319 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22931279 ACAGGTTGTA
22931289 GGCCTAGTATATGAT
1 GGCCTAGTATATGAT
22931304 GGCCTAGTATATGAT
1 GGCCTAGTATATGAT
22931319 G
1 G
22931320 ACTACATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (15 bp):
GGCCTAGTATATGAT
Found at i:22936125 original size:42 final size:42
Alignment explanation
Indices: 22936014--22936217 Score: 248
Period size: 42 Copynumber: 4.8 Consensus size: 42
22936004 TATCGTACCA
* * * * * ** *
22936014 ATGCCATATCCCAGATATAGTCTTATATGTAATCTTGTATTG
1 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
* *
22936056 ATGCCA-ATAACTCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCCATAT-CCT-AGATATGGTCTTACACGAAATCTCATATCG
22936099 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
1 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
* * *
22936141 ATGCCATATCCTAGATATGGTCTTACATGAAATTTCATATTG
1 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
* *
22936183 ATGCCATATCCCAGATATGGTCTTACACGTAATCT
1 ATGCCATATCCTAGATATGGTCTTACACGAAATCT
22936218 TAGTAACCCT
Statistics
Matches: 140, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.01
42 106 0.76
43 30 0.21
44 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
Found at i:22939648 original size:29 final size:29
Alignment explanation
Indices: 22939606--22939737 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
22939596 AAAATTGTAC
22939606 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
22939635 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
22939664 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATAT
*
22939694 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
22939723 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22939738 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:22939702 original size:59 final size:58
Alignment explanation
Indices: 22939606--22939737 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
22939596 AAAATTGTAC
22939606 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
* *
22939664 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATAT
22939723 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22939738 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.32
59 48 0.68
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:22939726 original size:88 final size:89
Alignment explanation
Indices: 22939576--22939737 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
22939566 GACAAGATTG
* * *
22939576 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
22939641 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * *
22939665 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
22939729 AAGTGTGCG
66 AAGTGTGCG
22939738 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:22945733 original size:42 final size:42
Alignment explanation
Indices: 22945620--22945777 Score: 192
Period size: 42 Copynumber: 3.7 Consensus size: 42
22945610 GTACCAATGA
* * * **
22945620 CATATTCCAGATATGGTCTTGCATGTAATCTTGTATCGATGC
1 CATATTCCAGATATGGTCTTACACGAAATCTCATATCGATGC
** * * *
22945662 CAATAGCCCAGCTATGGTCGTACATGAAATCTCATATCGATGC
1 C-ATATTCCAGATATGGTCTTACACGAAATCTCATATCGATGC
22945705 CATATTCCAGATATGGTCTTACACGAAATCTCATATCGATGC
1 CATATTCCAGATATGGTCTTACACGAAATCTCATATCGATGC
*
22945747 CATA-TCTCAGATATGGTCTTACACGTAATCT
1 CATATTC-CAGATATGGTCTTACACGAAATCT
22945778 TAGTAACCCT
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 2 0.02
42 64 0.64
43 34 0.34
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (42 bp):
CATATTCCAGATATGGTCTTACACGAAATCTCATATCGATGC
Done.