Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 35 of 373
Found at i:10101108 original size:40 final size:40
Alignment explanation
Indices: 10101049--10101220 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
10101039 CATTTGAATG
* * *
10101049 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
10101089 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* *
10101129 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * ** *
10101169 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
10101209 ATATCC-GGCTAA
1 ATATCCGGGCTAA
10101221 ATTCTGAAGA
Statistics
Matches: 114, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 7 0.06
40 104 0.91
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:10103910 original size:18 final size:18
Alignment explanation
Indices: 10103887--10103925 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
10103877 ATTTTATGCT
*
10103887 TATAATATAATAATATAA
1 TATAATATAATAACATAA
10103905 TATAATATAATAACATAA
1 TATAATATAATAACATAA
10103923 TAT
1 TAT
10103926 CTTTTACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAATATAATAACATAA
Found at i:10103925 original size:13 final size:14
Alignment explanation
Indices: 10103887--10103925 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
10103877 ATTTTATGCT
10103887 TATAATATAATA-A
1 TATAATATAATATA
10103900 TATAATATAATATA
1 TATAATATAATATA
*
10103914 -ATAACATAATAT
1 TATAATATAATAT
10103926 CTTTTACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 23 0.96
14 1 0.04
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
TATAATATAATATA
Found at i:10104057 original size:5 final size:5
Alignment explanation
Indices: 10104049--10104089 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
10104039 TATTTAATTG
*
10104049 ATATA ATATA ATATA ATAATA ATATA ATAATA AAATA ATAT
1 ATATA ATATA ATATA AT-ATA ATATA AT-ATA ATATA ATAT
10104090 TTACTTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 23 0.72
6 9 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:10104069 original size:8 final size:8
Alignment explanation
Indices: 10104051--10104089 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
10104041 TTTAATTGAT
10104051 ATAATATA
1 ATAATATA
10104059 AT-ATAATA
1 ATAAT-ATA
10104067 ATAATATA
1 ATAATATA
*
10104075 ATAATAAA
1 ATAATATA
10104083 ATAATAT
1 ATAATAT
10104090 TTACTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 2 0.07
8 23 0.85
9 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATAATATA
Found at i:10104072 original size:11 final size:11
Alignment explanation
Indices: 10104049--10104088 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
10104039 TATTTAATTG
10104049 ATATAAT-ATA
1 ATATAATAATA
10104059 ATATAATAATA
1 ATATAATAATA
10104070 ATATAATAATA
1 ATATAATAATA
*
10104081 AAATAATA
1 ATATAATA
10104089 TTTACTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAATAATA
Found at i:10107298 original size:27 final size:27
Alignment explanation
Indices: 10107250--10107408 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
10107240 GCGAGGCTGC
* *
10107250 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
10107277 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
10107303 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
10107330 CAAATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
10107357 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
10107384 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
10107409 GATGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:10107343 original size:54 final size:54
Alignment explanation
Indices: 10107268--10107408 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
10107258 GTGACGAAGT
*
10107268 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
10107322 CACCAGATCAAATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
10107376 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
10107409 GATGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 4 0.05
54 77 0.95
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:10107576 original size:28 final size:26
Alignment explanation
Indices: 10107514--10107576 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
10107504 AAAGTAACGC
* * *
10107514 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACGGTAATTTTCCACA
10107540 TAGGGGTATAACGGTAATTTTCCATACA
1 TAGGGGTATAACGGTAATTTTCC--ACA
10107568 TAGGGGTAT
1 TAGGGGTAT
10107577 TCAAGTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 21 0.66
28 11 0.34
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACGGTAATTTTCCACA
Found at i:10114272 original size:27 final size:27
Alignment explanation
Indices: 10114224--10114381 Score: 189
Period size: 27 Copynumber: 5.9 Consensus size: 27
10114214 GTAAGGCTGC
* * *
10114224 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
10114251 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
10114277 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
10114304 TAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
10114331 CAGATATATGTGGCAGAGCCACCAGATA
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
10114359 -AGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
10114382 AGACGCTTCC
Statistics
Matches: 114, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:10114317 original size:54 final size:54
Alignment explanation
Indices: 10114224--10114381 Score: 239
Period size: 54 Copynumber: 2.9 Consensus size: 54
10114214 GTAAGGCTGC
* * * *
10114224 CAGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGATA-AGATAATTGTGGCATAGCCACCAGAA
* *
10114277 CAGATATATGTGGCAGAGCCACCAGATTAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGATAAGATAATTGTGGCATAGCCACCAGAA
10114331 CAGATATATGTGGCAGAGCCACCAGATAAGATAATTGTGGCATAGCCACCA
1 CAGATATATGTGGCAGAGCCACCAGATAAGATAATTGTGGCATAGCCACCA
10114382 AGACGCTTCC
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
53 11 0.12
54 84 0.88
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATAAGATAATTGTGGCATAGCCACCAGAA
Found at i:10116143 original size:5 final size:5
Alignment explanation
Indices: 10116133--10116157 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10116123 AATAAAAATG
10116133 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
10116158 AGATAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:10116258 original size:3 final size:3
Alignment explanation
Indices: 10116252--10116364 Score: 88
Period size: 3 Copynumber: 36.3 Consensus size: 3
10116242 TAATATGATG
* *
10116252 ATA ATA ATA GTA ATA ATCCA ATA ATA ATA ATA A-A GTGGA A-A ATA ATA
1 ATA ATA ATA ATA ATA AT--A ATA ATA ATA ATA ATA AT--A ATA ATA ATA
* * *
10116299 ATA AT- ATA TTA ATA AGA ATA ATA ATA GATTA ATA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA
*
10116345 GAAA ATA ATA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA A
10116365 GGAATATCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
2 5 0.06
3 73 0.83
4 4 0.05
5 6 0.07
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:10116320 original size:20 final size:20
Alignment explanation
Indices: 10116252--10116363 Score: 108
Period size: 20 Copynumber: 5.8 Consensus size: 20
10116242 TAATATGATG
* *
10116252 ATAATAATAGTAATA-ATCCA
1 ATAATAATAATAATAGAT-TA
*
10116272 ATAATAATAATAA-AG-TGGA
1 ATAATAATAATAATAGAT-TA
*
10116291 A-AATAATAATAATATATTA
1 ATAATAATAATAATAGATTA
*
10116310 ATAAGAATAATAATAGATTA
1 ATAATAATAATAATAGATTA
* *
10116330 ATAATAAAAATAATAGA-AA
1 ATAATAATAATAATAGATTA
10116349 ATAATAATAATAATA
1 ATAATAATAATAATA
10116364 AGGAATATCA
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
18 11 0.14
19 22 0.29
20 44 0.57
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (20 bp):
ATAATAATAATAATAGATTA
Found at i:10116322 original size:23 final size:23
Alignment explanation
Indices: 10116290--10116344 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
10116280 AATAAAGTGG
*
10116290 AAAATAATAATA-ATATATTAATA
1 AAAATAATAATAGAT-TAATAATA
*
10116313 AGAATAATAATAGATTAATAATA
1 AAAATAATAATAGATTAATAATA
10116336 AAAATAATA
1 AAAATAATA
10116345 GAAAATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 26 0.93
24 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
AAAATAATAATAGATTAATAATA
Found at i:10119224 original size:44 final size:41
Alignment explanation
Indices: 10119145--10119288 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 41
10119135 TTCCGATGTG
** * *
10119145 TGATTTC-GTGTAAGACCACATCTGCGACGTTGGCATCGATT
1 TGATTTCAGTGTAAGACCATGTCTGAGAC-ATGGCATCGATT
10119186 TGAGATTT-ATGTGTAAGACCATGTCTGAGACATCGGCATCGTATT
1 T--GATTTCA-GTGTAAGACCATGTCTGAGACAT-GGCATCG-ATT
* *
10119231 TGATTTCA-TGTAAGACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCAGTGTAAGACCATGTCTGAGACA-TGGCATCG--ATT
*
10119274 TGATTACA-TGTAAGA
1 TGATTTCAGTGTAAGA
10119289 TCACATCTGG
Statistics
Matches: 87, Mismatches: 7, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
41 1 0.01
42 26 0.30
43 30 0.34
44 26 0.30
45 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (41 bp):
TGATTTCAGTGTAAGACCATGTCTGAGACATGGCATCGATT
Found at i:10119253 original size:42 final size:43
Alignment explanation
Indices: 10119197--10119288 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 43
10119187 GAGATTTATG
*
10119197 TGTAAGACCATGTCTGAGACA-TCGGCATCG-TATTTGATTTCA
1 TGTAAGACCATGTCTGAGACAGT-GGCATCGATATTTGATTACA
* *
10119239 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGAGACAGTGGCATCGATATTTGATTACA
10119282 TGTAAGA
1 TGTAAGA
10119289 TCACATCTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 26 0.58
43 19 0.42
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGAGACAGTGGCATCGATATTTGATTACA
Found at i:10119298 original size:43 final size:42
Alignment explanation
Indices: 10119220--10119300 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
10119210 CTGAGACATC
* * *
10119220 GGCATCGTATTTGATTTCATGTAAGACCCTGTCTGGGACAGT
1 GGCATCGTATTTGATTACATGTAAGACACTATCTGGGACAGT
10119262 GGCATCGATATTTGATTACATGTAAGATCAC-ATCTGGGA
1 GGCATCG-TATTTGATTACATGTAAGA-CACTATCTGGGA
10119301 TGTTGGAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 7 0.21
43 25 0.74
44 2 0.06
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
GGCATCGTATTTGATTACATGTAAGACACTATCTGGGACAGT
Found at i:10126228 original size:86 final size:86
Alignment explanation
Indices: 10126074--10126251 Score: 277
Period size: 86 Copynumber: 2.1 Consensus size: 86
10126064 CACGGGCGTA
* * ** * *
10126074 TGGGCCCATACGGGTGAACCACACGGGCGTGTGGGATTTTGGTCCAGGCCGTGTGATCTACCCAG
1 TGGGCCCATACAGGTGAACCACACGGGCATGTGAAATTTGGGTCCAGGCCGTGTGATCCACCCAG
10126139 CCAAGGCTGATTTGGGCCATG
66 CCAAGGCTGATTTGGGCCATG
*
10126160 TGGGCCCATACAGGTGAACCACACGGGCATGTAGAAATTTGGGT-CAGGCCGTGTGATCCACCCG
1 TGGGCCCATACAGGTGAACCACACGGGCATGT-GAAATTTGGGTCCAGGCCGTGTGATCCACCCA
10126224 GCCAAGGCTGATTTGGGCCATG
65 GCCAAGGCTGATTTGGGCCATG
10126246 TGGGCC
1 TGGGCC
10126252 ACACGGGCAT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
86 76 0.90
87 8 0.10
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (86 bp):
TGGGCCCATACAGGTGAACCACACGGGCATGTGAAATTTGGGTCCAGGCCGTGTGATCCACCCAG
CCAAGGCTGATTTGGGCCATG
Found at i:10129940 original size:7 final size:7
Alignment explanation
Indices: 10129928--10129962 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
10129918 CATCCCCATA
10129928 CATTTTC
1 CATTTTC
10129935 CATTTTC
1 CATTTTC
10129942 CATTTTC
1 CATTTTC
10129949 CATTTTC
1 CATTTTC
10129956 CATTTTC
1 CATTTTC
10129963 ATCACTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.29, G:0.00, T:0.57
Consensus pattern (7 bp):
CATTTTC
Found at i:10132392 original size:13 final size:13
Alignment explanation
Indices: 10132378--10132441 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
10132368 TAAACTAAAT
10132378 TTTTCAAAAGCA-
1 TTTTCAAAAGCAC
10132390 TTTCTCAAAAGCAC
1 TTT-TCAAAAGCAC
* *
10132404 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
* **
10132417 TTCTCAAAAATAC
1 TTTTCAAAAGCAC
10132430 TTTTCAAAAGCA
1 TTTTCAAAAGCA
10132442 TTGTCAAACT
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
12 3 0.08
13 34 0.85
14 3 0.08
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:10132407 original size:26 final size:26
Alignment explanation
Indices: 10132378--10132443 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
10132368 TAAACTAAAT
*
10132378 TTTTCAAAAGCATTTCTCAAAAGCAC
1 TTTTCAAAAGCATTTCTCAAAAACAC
* * * *
10132404 TTTTCCACAGCACTTCTCAAAAATAC
1 TTTTCAAAAGCATTTCTCAAAAACAC
10132430 TTTTCAAAAGCATT
1 TTTTCAAAAGCATT
10132444 GTCAAACTAG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TTTTCAAAAGCATTTCTCAAAAACAC
Found at i:10133675 original size:54 final size:54
Alignment explanation
Indices: 10133617--10133725 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
10133607 ATGAAAGAAA
10133617 ATAAAATTTTATAAAATATAGTGTAGTATTTAATCTTATGTTGTTAATTAAAAG
1 ATAAAATTTTATAAAATATAGTGTAGTATTTAATCTTATGTTGTTAATTAAAAG
10133671 ATAAAATTTTATAAAATATAGTGTAGTATTTAATCTTATGTTGTTAATTAAAAG
1 ATAAAATTTTATAAAATATAGTGTAGTATTTAATCTTATGTTGTTAATTAAAAG
10133725 A
1 A
10133726 GTAAGTAATC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (54 bp):
ATAAAATTTTATAAAATATAGTGTAGTATTTAATCTTATGTTGTTAATTAAAAG
Found at i:10133804 original size:43 final size:43
Alignment explanation
Indices: 10133740--10133826 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
10133730 GTAATCCCGC
*
10133740 ATTGTCTAGGAACAATCTACAAATAGATTACAAGTCTATATAT
1 ATTGTCTAGGAACAATATACAAATAGATTACAAGTCTATATAT
* *
10133783 ATTGTCTAGGAACAATATACAAATAGGTTATAAGTCTATATAT
1 ATTGTCTAGGAACAATATACAAATAGATTACAAGTCTATATAT
10133826 A
1 A
10133827 CACATATCCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (43 bp):
ATTGTCTAGGAACAATATACAAATAGATTACAAGTCTATATAT
Found at i:10136803 original size:26 final size:26
Alignment explanation
Indices: 10136770--10136822 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
10136760 TTAATTACTT
10136770 AACTTAGTTAATTTAATCATGTTTTA
1 AACTTAGTTAATTTAATCATGTTTTA
10136796 AACTTAGTTAATTTAATCATGTTTTA
1 AACTTAGTTAATTTAATCATGTTTTA
10136822 A
1 A
10136823 TTAACTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (26 bp):
AACTTAGTTAATTTAATCATGTTTTA
Found at i:10144632 original size:23 final size:23
Alignment explanation
Indices: 10144606--10144650 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10144596 TAGGTATGTG
*
10144606 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
10144629 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
10144651 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:10154319 original size:62 final size:62
Alignment explanation
Indices: 10154202--10154321 Score: 172
Period size: 62 Copynumber: 1.9 Consensus size: 62
10154192 TTATTCCTAT
*
10154202 AAAATAAAATAGATAGGTATAAATAAAAACATATATTAAATATAAAAAATAATAAATTTATA
1 AAAATAAAATAGATAGGTATAAATAAAAACATATATTAAACATAAAAAATAATAAATTTATA
* * *
10154264 AAAATAAAAT-GAATAGGTATAAAT-AAAACATATATTAAGCATAACAAACTTATAAATT
1 AAAATAAAATAG-ATAGGTATAAATAAAAACATATATTAAACATAA-AAAATAATAAATT
10154322 CATGTTACTA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
61 19 0.37
62 33 0.63
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (62 bp):
AAAATAAAATAGATAGGTATAAATAAAAACATATATTAAACATAAAAAATAATAAATTTATA
Found at i:10158810 original size:46 final size:46
Alignment explanation
Indices: 10158704--10159024 Score: 426
Period size: 46 Copynumber: 7.0 Consensus size: 46
10158694 TTTGACATGA
* * * * ** * * *
10158704 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** * *
10158751 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** * *
10158797 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
10158843 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
10158889 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
10158935 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
10158981 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10159025 AGAGCACACT
Statistics
Matches: 250, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
46 221 0.88
47 29 0.12
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:10161198 original size:18 final size:20
Alignment explanation
Indices: 10161183--10161219 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10161173 TAATAATAAA
*
10161183 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
10161203 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
10161220 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:10162812 original size:5 final size:5
Alignment explanation
Indices: 10162802--10162835 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
10162792 CTCTGTGTTC
10162802 TTTAT TTTAT TTTAT TTTAT TTT-T ATTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA
10162836 ACACAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 25 0.93
6 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:10165955 original size:52 final size:52
Alignment explanation
Indices: 10165857--10166010 Score: 188
Period size: 52 Copynumber: 2.9 Consensus size: 52
10165847 TGGACAATGG
10165857 AAACAAGTGATAAGTGATATCCGTA-AAGACCATAGCTGGGCTATGGCATCAGA
1 AAACAAGTGATAAGTG--ATCCGTATAAGACCATAGCTGGGCTATGGCATCAGA
*
10165910 AAACAAGTGATAAGTGATCCGTATAAGACCATAGCTGGG-TAATGGCATCGGA
1 AAACAAGTGATAAGTGATCCGTATAAGACCATAGCTGGGCT-ATGGCATCAGA
* * * * * *
10165962 GAA-AAGTGATAAGTGCTCCTGTGTAAGACCATATCTGAGATATGGCATC
1 AAACAAGTGATAAGTGATCC-GTATAAGACCATAGCTGGGCTATGGCATC
10166011 GGTATGATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
51 23 0.25
52 51 0.56
53 17 0.19
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (52 bp):
AAACAAGTGATAAGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCAGA
Found at i:10172843 original size:3 final size:3
Alignment explanation
Indices: 10172837--10172883 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
10172827 TGCTGCCATG
10172837 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
10172884 GGGCAGCATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10173486 original size:21 final size:20
Alignment explanation
Indices: 10173441--10173489 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
10173431 TTTTTACTTC
*
10173441 AATAAATATTAAAAATAAAT
1 AATAAATAATAAAAATAAAT
*
10173461 TATAAATCAATAAAAATATAA-
1 AATAAAT-AATAAAAATA-AAT
10173482 AATAAATA
1 AATAAATA
10173490 CAAACATACC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 7 0.29
21 15 0.62
22 2 0.08
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAATAATAAAAATAAAT
Found at i:10173815 original size:3 final size:3
Alignment explanation
Indices: 10173807--10173844 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10173797 CCCACCGTCC
10173807 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
10173845 CATGACAGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:10180218 original size:24 final size:24
Alignment explanation
Indices: 10180174--10180225 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
10180164 TTTCTAGATG
* *
10180174 ATTTAATATTTATTAATATAATAT
1 ATTTAACATTTATTAACATAATAT
* *
10180198 ATTTAACATTTATTAGCATAATTT
1 ATTTAACATTTATTAACATAATAT
10180222 ATTT
1 ATTT
10180226 GTGCTTATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTAACATTTATTAACATAATAT
Found at i:10187511 original size:44 final size:44
Alignment explanation
Indices: 10187458--10187544 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
10187448 GGATGTAAGC
10187458 CAGTGTAAGAC-ATGA-CT-GGAACAT-GCATCGGCTACGAGATATGT
1 CAGTGTAAGACTAT-ACCTAGG-ACATGGCATCGG-TACG-GATATGT
10187502 CAGTGTAAGACTATACCTAGGACATGGCATCGGTACGGATATG
1 CAGTGTAAGACTATACCTAGGACATGGCATCGGTACGGATATG
10187545 CGAGAGCTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
44 18 0.46
45 12 0.31
46 9 0.23
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (44 bp):
CAGTGTAAGACTATACCTAGGACATGGCATCGGTACGGATATGT
Found at i:10188723 original size:21 final size:21
Alignment explanation
Indices: 10188697--10188746 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
10188687 TGTGGGACAC
10188697 GGGCGTGTTACCCTTCAACAA
1 GGGCGTGTTACCCTTCAACAA
* *
10188718 GGGCGTGTTACCCTTCCACAC
1 GGGCGTGTTACCCTTCAACAA
10188739 GGGCGTGT
1 GGGCGTGT
10188747 GCCCTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (21 bp):
GGGCGTGTTACCCTTCAACAA
Found at i:10190171 original size:25 final size:25
Alignment explanation
Indices: 10190098--10190187 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 25
10190088 TTCCAAGCCA
**
10190098 AATAACAGAAAGCTCATGTGAGCTT
1 AATAACAGAAAGCTCATAAGAGCTT
* * * * ** *
10190123 -GTAATAGGAAGCTTATTCGGGCTT
1 AATAACAGAAAGCTCATAAGAGCTT
10190147 AATAACAGAAAGCTCATAAGAGCTT
1 AATAACAGAAAGCTCATAAGAGCTT
*
10190172 AA-ATCAGAAAGCTCAT
1 AATAACAGAAAGCTCAT
10190188 GTGAACTTAA
Statistics
Matches: 49, Mismatches: 15, Indels: 3
0.73 0.22 0.04
Matches are distributed among these distances:
24 30 0.61
25 19 0.39
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (25 bp):
AATAACAGAAAGCTCATAAGAGCTT
Found at i:10190196 original size:24 final size:24
Alignment explanation
Indices: 10190152--10190197 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10190142 GGCTTAATAA
*
10190152 CAGAAAGCTCATAAGAGCTTAAAT
1 CAGAAAGCTCATAAGAACTTAAAT
**
10190176 CAGAAAGCTCATGTGAACTTAA
1 CAGAAAGCTCATAAGAACTTAA
10190198 CGGGTAACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (24 bp):
CAGAAAGCTCATAAGAACTTAAAT
Found at i:10191164 original size:53 final size:53
Alignment explanation
Indices: 10191084--10191191 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
10191074 AAATTTTTCT
10191084 ATGGAAACCCTAGCTAAGATAAAGAACTTCAAGCAAGCTTAATTGGGTAAGTA
1 ATGGAAACCCTAGCTAAGATAAAGAACTTCAAGCAAGCTTAATTGGGTAAGTA
*
10191137 ATGGAAACCCTAGTTAAGATAAAGAACTTCAAGCAAGCTTAATTGGGTAAGTA
1 ATGGAAACCCTAGCTAAGATAAAGAACTTCAAGCAAGCTTAATTGGGTAAGTA
10191190 AT
1 AT
10191192 CATGTCCCTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (53 bp):
ATGGAAACCCTAGCTAAGATAAAGAACTTCAAGCAAGCTTAATTGGGTAAGTA
Found at i:10191618 original size:21 final size:21
Alignment explanation
Indices: 10191589--10191632 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10191579 CTTTTGCCTA
* * *
10191589 GAATGTGAATTTGATTGAATT
1 GAATATGAATTTCATTAAATT
10191610 GAATATGAATTTCATTAAATT
1 GAATATGAATTTCATTAAATT
10191631 GA
1 GA
10191633 GTTAAATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (21 bp):
GAATATGAATTTCATTAAATT
Found at i:10192271 original size:25 final size:25
Alignment explanation
Indices: 10192202--10192274 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
10192192 AAAGGCTCTT
** * *
10192202 ATGAGCTTCCCGTTATATATCCCAG
1 ATGAGCTTCCCGTTATATGGCTCAC
* * *
10192227 ATAAGCTTCCCATTACATGGCTCAC
1 ATGAGCTTCCCGTTATATGGCTCAC
10192252 ATGAGCTTCCCGTTATATGGCTC
1 ATGAGCTTCCCGTTATATGGCTC
10192275 GAGAGAGTGC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATGGCTCAC
Found at i:10192576 original size:13 final size:13
Alignment explanation
Indices: 10192558--10192583 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10192548 ATTGGCCAAA
10192558 ATGTTTTGGATGC
1 ATGTTTTGGATGC
10192571 ATGTTTTGGATGC
1 ATGTTTTGGATGC
10192584 TTACTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (13 bp):
ATGTTTTGGATGC
Found at i:10195894 original size:30 final size:30
Alignment explanation
Indices: 10195860--10195994 Score: 175
Period size: 30 Copynumber: 4.5 Consensus size: 30
10195850 TAAATCTTAG
10195860 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
10195890 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
*
10195920 CCTTTTCCACCACCAAATCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* ** * *
10195950 -CTTGCTCCATTACCTACTCCACTAACCACA
1 CCTT-TTCCACCACCAACTCCACTAGCCACA
*
10195980 -CTTGCTCCACCACCA
1 CCTT-TTCCACCACCA
10195995 CTTGTACCTA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
29 3 0.03
30 91 0.97
ACGTcount: A:0.27, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:10195898 original size:18 final size:18
Alignment explanation
Indices: 10195877--10195929 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
10195867 CACCACCAAC
10195877 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
*
10195895 TCCACCA-CCA-A-C---
1 TCCACTAGCCACACCTTT
10195907 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
10195925 TCCAC
1 TCCAC
10195930 CACCAAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 6 0.22
13 3 0.11
14 1 0.04
15 2 0.07
16 1 0.04
17 3 0.11
18 11 0.41
ACGTcount: A:0.25, C:0.49, G:0.04, T:0.23
Consensus pattern (18 bp):
TCCACTAGCCACACCTTT
Found at i:10196520 original size:23 final size:23
Alignment explanation
Indices: 10196483--10196614 Score: 65
Period size: 25 Copynumber: 5.5 Consensus size: 23
10196473 CTTTTTTTGT
10196483 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
10196506 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
10196528 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* * *
10196551 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
10196578 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
10196603 TATTATTTATAT
1 TATTATATATAT
10196615 ATATATATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 18 0.22
24 4 0.05
25 30 0.37
26 1 0.01
27 6 0.07
28 3 0.04
29 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:10196578 original size:27 final size:27
Alignment explanation
Indices: 10196548--10196698 Score: 96
Period size: 27 Copynumber: 5.6 Consensus size: 27
10196538 ATTTTAAATT
*
10196548 CTATATTACGTATATATATATTTTATA
1 CTATATTATGTATATATATATTTTATA
* * *
10196575 CTATTTTATGTATATATCTTTAATATTATA
1 CTATATTATGTATATA--TAT-ATTTTATA
* * *
10196605 TTAT-TTATATATATATATATTTTCTA
1 CTATATTATGTATATATATATTTTATA
* * * *
10196631 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTAT-GTATATATATATTTTATA
* * *
10196657 CTATATTATGTATGTAT-T-TTTAACA
1 CTATATTATGTATATATATATTTTATA
*
10196682 CTATATTATGTACATAT
1 CTATATTATGTATATAT
10196699 TTTTAATATT
Statistics
Matches: 97, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
24 3 0.03
25 19 0.20
26 19 0.20
27 34 0.35
29 12 0.12
30 10 0.10
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (27 bp):
CTATATTATGTATATATATATTTTATA
Found at i:10196588 original size:25 final size:25
Alignment explanation
Indices: 10196497--10196618 Score: 74
Period size: 25 Copynumber: 5.0 Consensus size: 25
10196487 ATTATATTTC
* * *
10196497 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
10196521 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
10196542 TAAATTCTATATTACGTATATATATAT
1 TTAATACTATATTA--TGTATATATAT
* * *
10196569 TTTATACTATTTTATGTATATATCT
1 TTAATACTATATTATGTATATATAT
* *
10196594 TTAATATTATATTATTTATATATAT
1 TTAATACTATATTATGTATATATAT
10196619 ATATATTTTC
Statistics
Matches: 73, Mismatches: 19, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
21 2 0.03
22 15 0.21
23 8 0.11
24 2 0.03
25 34 0.47
26 1 0.01
27 11 0.15
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:10196666 original size:22 final size:24
Alignment explanation
Indices: 10196640--10196698 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
10196630 ACATGTTATC
10196640 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
10196662 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
10196687 TTATGTACATAT
1 TTATGTATATAT
10196699 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:10196688 original size:25 final size:25
Alignment explanation
Indices: 10196656--10196704 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10196646 ATATATCTTA
**
10196656 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
10196681 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
10196705 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:10196883 original size:16 final size:15
Alignment explanation
Indices: 10196859--10196906 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
10196849 TAATTATTAT
*
10196859 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
10196875 TATTTTAATATTTTA
1 TATTTTAATATTTTA
10196890 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
10196906 T
1 T
10196907 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:10196894 original size:7 final size:8
Alignment explanation
Indices: 10196859--10196910 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
10196849 TAATTATTAT
*
10196859 TATTCTAA
1 TATTTTAA
*
10196867 TATTTTGA
1 TATTTTAA
10196875 TATTTTAA
1 TATTTTAA
10196883 TATTTT-A
1 TATTTTAA
10196890 TATTTTATA
1 TATTTTA-A
*
10196899 TATTTTAT
1 TATTTTAA
10196907 TATT
1 TATT
10196911 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:10214441 original size:89 final size:89
Alignment explanation
Indices: 10214165--10214722 Score: 893
Period size: 89 Copynumber: 6.3 Consensus size: 89
10214155 CGCTGAGGTA
* *
10214165 TTTTT-AATTTTTGCTCTTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGGC
1 TTTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
*
10214229 ACGCTGAGGTATTTTCAATTTATG
66 ACGCTGAGGTATTTTCAATTTCTG
*
10214253 TTTTTCAATTTTTGCTCTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG
1 TTTTTCAATTTCTGCTCTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG
*
10214318 CACGCTGAGGTATTTTCGATTTCTG
65 CACGCTGAGGTATTTTCAATTTCTG
* * * * * *
10214343 CTTTCCAATTTCTGCTCTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTAAGCCTCAAGAC
1 TTTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
* *
10214408 ACGCTGAGGTAATTTCAATTTATG
66 ACGCTGAGGTATTTTCAATTTCTG
*
10214432 TTTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGC
1 TTTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
10214497 ACGCTGAGGTATTTTCAATTTCTG
66 ACGCTGAGGTATTTTCAATTTCTG
*
10214521 TTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
1 TTTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
**
10214586 ACGCTGAGGTATTTTTGATTTCTG
66 ACGCTGAGGTATTTTCAATTTCTG
* *
10214610 CTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
1 TTTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
*
10214675 ACGCTGAGGTATTTTCAATTTTTG
66 ACGCTGAGGTATTTTCAATTTCTG
* *
10214699 TTTTTTCAATTTATGCTTTTCAAA
1 -TTTTTCAATTTCTGCTCTTCAAA
10214723 TTCTGCTTTT
Statistics
Matches: 431, Mismatches: 36, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
88 5 0.01
89 324 0.75
90 102 0.24
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (89 bp):
TTTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
ACGCTGAGGTATTTTCAATTTCTG
Found at i:10214558 original size:178 final size:178
Alignment explanation
Indices: 10214165--10214860 Score: 916
Period size: 178 Copynumber: 3.8 Consensus size: 178
10214155 CGCTGAGGTA
*
10214165 TTTTT-AATTTTTGCTCTTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGGC
1 TTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
*
10214229 ACGCTGAGGTATTTTCAATTTATGTTTTTCAATTTTTGCTCTTCAAAAAAAATCAACTCATATTG
66 ACGCTGAGGTATTTTCAATTTATGTTTTTCAATTTCTGCTCTTC-AAAAAAATCAACTCATATTG
*
10214294 CGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTG
130 CGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
* * * * * * *
10214343 CTTTCCAATTTCTGCTCTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTAAGCCTCAAGAC
1 TTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
*
10214408 ACGCTGAGGTAATTTCAATTTATGTTTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGC
66 ACGCTGAGGTATTTTCAATTTATGTTTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGC
*
10214473 GAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
131 GAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
10214521 TTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
1 TTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
** * * *
10214586 ACGCTGAGGTATTTTTGATTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGC
66 ACGCTGAGGTATTTTCAATTTATGTTTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGC
*
10214651 GAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTG
131 GAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
* * * *
10214699 TTTTTTCAATTTATGCTTTTCAAATTCTGCTTTTTAAAAAATCAACTCATATTGCTAGATGTGAG
1 -TTTTTCAATTTTTGC---TC----T-T-C----AAAAAAATCAACTCATATTGCGAGAGGTGAG
** * * **
10214764 TTGAGCCTC-GGGTCACATG-TCGAGGTATTTTCAAAATCTGTTTTTCAAATTAAG-T-TTCAAA
52 TTGAGCCTCAGGG-CAC--GCT-GAGGTATTTTCAATTTATGTTTTTCAATTTCTGCTCTTCAAA
* *
10214825 AAAACCAACTCATATGGCGAGAGGTGAGTTGAGCCT
113 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
10214861 TAGCTCACGT
Statistics
Matches: 457, Mismatches: 42, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
178 233 0.51
179 109 0.24
182 2 0.00
186 1 0.00
187 1 0.00
188 1 0.00
191 3 0.01
192 80 0.18
193 2 0.00
194 25 0.05
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (178 bp):
TTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
ACGCTGAGGTATTTTCAATTTATGTTTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
Found at i:10214652 original size:267 final size:268
Alignment explanation
Indices: 10214165--10214860 Score: 999
Period size: 267 Copynumber: 2.6 Consensus size: 268
10214155 CGCTGAGGTA
* *
10214165 TTTTT-AATTTTTGCTCTTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGGC
1 TTTTTCAATTTATGCTCTTCAAAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCAGGGC
*
10214229 ACGCTGAGGTATTTTCAATTTATGTTTTTCAATTTTTGCTCTTCAAAAAAAATCAACTCATATTG
66 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCTCTTC-AAAAAAATCAACTCATATTG
10214294 CGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCTGCT
130 CGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCTGCT
*
10214359 CTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAATTTC
195 CTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAATTTC
10214424 AATTTATG-
260 AATTTATGT
* *
10214432 TTTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGC
1 TTTTTCAATTTATGCTCTTCAAAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCAGGGC
10214497 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGC
66 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGC
*
10214562 GAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTTGATTTCTGCTTTCCAATTTCTGCTC
131 GAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCTGCTC
* * * *
10214627 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
196 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAATTTCA
*
10214692 ATTTTTGT
261 ATTTATGT
* *
10214700 TTTTTCAATTTATGCTTTTCAAATTCTGCTTTTTAAAAAATCAACTCATATTGCTAGATGTGAGT
1 TTTTTCAATTTATGC---TC----T-T-C----AAAAAAATCAACTCATATTGCTAGAAGTGAGT
** * **
10214765 TGAGCCTC-GGGTCACATG-TCGAGGTATTTTCAAAATCTGTTTTTCAAATTAAG-T-TTCAAAA
53 TGAGCCTCAGGG-CAC--GCT-GAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCTCTTCAAAA
* *
10214826 AAACCAACTCATATGGCGAGAGGTGAGTTGAGCCT
114 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
10214861 TAGCTCACGT
Statistics
Matches: 388, Mismatches: 22, Indels: 24
0.89 0.05 0.06
Matches are distributed among these distances:
267 156 0.40
268 113 0.29
271 2 0.01
275 1 0.00
276 1 0.00
277 1 0.00
280 3 0.01
281 80 0.21
282 2 0.01
283 29 0.07
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (268 bp):
TTTTTCAATTTATGCTCTTCAAAAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCAGGGC
ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCTGCTC
TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAATTTCA
ATTTATGT
Found at i:10214718 original size:15 final size:15
Alignment explanation
Indices: 10214686--10214733 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
10214676 CGCTGAGGTA
* *
10214686 TTTTCAATTTTTGTT
1 TTTTCAATTTATGCT
10214701 TTTTCAATTTATGC-
1 TTTTCAATTTATGCT
* *
10214715 TTTTCAAATTCTGCT
1 TTTTCAATTTATGCT
10214730 TTTT
1 TTTT
10214734 AAAAAATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.17, C:0.12, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTCAATTTATGCT
Found at i:10214836 original size:192 final size:193
Alignment explanation
Indices: 10214508--10214860 Score: 464
Period size: 192 Copynumber: 1.8 Consensus size: 193
10214498 CGCTGAGGTA
* * * *
10214508 TTTTCAATTTCTGTTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTTTCAATTTATGCTTTTCAAATTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
** ** * ** *
10214573 TGAGCCTCAGGGCACGCTGAGGTATTTTTGATTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAAT
66 TGAGCCTCAGGGCACGCTGAGGTATTTTCAAAATCTGCTTTCCAAATTAAGCTCTTCAAAAAAAC
*
10214638 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGTT
131 CAACTCATATGGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGTT
** * *
10214701 TTTTCAATTTATGCTTTTCAAATTCTGCT-TTTTAAAAAATCAACTCATATTGCTAGATGTGAGT
1 TTTTCAATTTATGCTTTTCAAATTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
* *
10214765 TGAGCCTC-GGGTCACATG-TCGAGGTATTTTCAAAATCTGTTTTTCAAATTAAG-T-TTCAAAA
66 TGAGCCTCAGGG-CAC--GCT-GAGGTATTTTCAAAATCTGCTTTCCAAATTAAGCTCTTCAAAA
10214826 AAACCAACTCATATGGCGAGAGGTGAGTTGAGCCT
127 AAACCAACTCATATGGCGAGAGGTGAGTTGAGCCT
10214861 TAGCTCACGT
Statistics
Matches: 137, Mismatches: 19, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
191 3 0.02
192 82 0.60
193 27 0.20
194 25 0.18
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (193 bp):
TTTTCAATTTATGCTTTTCAAATTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAGGGCACGCTGAGGTATTTTCAAAATCTGCTTTCCAAATTAAGCTCTTCAAAAAAAC
CAACTCATATGGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGTT
Found at i:10215635 original size:30 final size:30
Alignment explanation
Indices: 10215594--10215714 Score: 197
Period size: 30 Copynumber: 4.0 Consensus size: 30
10215584 TAAATCTTAG
*
10215594 CCTTTTCCACCACCAACTCCACTAGTCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* *
10215624 CCTTCTCCACCACCAACTCCACTAGCCACT
1 CCTTTTCCACCACCAACTCCACTAGCCACA
*
10215654 CATTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
*
10215684 CCTTTTCCACCACCAAATCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
10215714 C
1 C
10215715 TTGCTCCATT
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.27, C:0.49, G:0.03, T:0.21
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:10215733 original size:60 final size:60
Alignment explanation
Indices: 10215599--10215758 Score: 189
Period size: 60 Copynumber: 2.7 Consensus size: 60
10215589 CTTAGCCTTT
* * * *
10215599 TCCACCACCAACTCCACTAGTCACACCTTCTCCACCACCAACTCCACTAGCCACTCATTT
1 TCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCACACATTC
*
10215659 TCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCCACTAGCCACAC-TTGC
1 TCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCACACATT-C
** ** * *
10215719 TCCATTACGTACTCCACTAACCACA-CTTGCTTCACCACCA
1 TCCACCACCAACTCCACTAGCCACACCTT-CTCCACCACCA
10215759 CTTGTACCTA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
59 5 0.06
60 81 0.94
ACGTcount: A:0.28, C:0.47, G:0.04, T:0.21
Consensus pattern (60 bp):
TCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCACACATTC
Found at i:10216287 original size:23 final size:23
Alignment explanation
Indices: 10216250--10216381 Score: 65
Period size: 25 Copynumber: 5.5 Consensus size: 23
10216240 TTTTTTTTGT
10216250 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
10216273 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
10216295 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* * *
10216318 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
10216345 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
10216370 TATTATTTATAT
1 TATTATATATAT
10216382 ATATATATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 18 0.22
24 4 0.05
25 30 0.37
26 1 0.01
27 6 0.07
28 3 0.04
29 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:10216355 original size:25 final size:25
Alignment explanation
Indices: 10216264--10216385 Score: 74
Period size: 25 Copynumber: 5.0 Consensus size: 25
10216254 ATTATATTTC
* * *
10216264 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
10216288 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
10216309 TAAATTCTATATTACGTATATATATAT
1 TTAATACTATATTA--TGTATATATAT
* * *
10216336 TTTATACTATTTTATGTATATATCT
1 TTAATACTATATTATGTATATATAT
* *
10216361 TTAATATTATATTATTTATATATAT
1 TTAATACTATATTATGTATATATAT
10216386 ATATATTTTT
Statistics
Matches: 73, Mismatches: 19, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
21 2 0.03
22 15 0.21
23 8 0.11
24 2 0.03
25 34 0.47
26 1 0.01
27 11 0.15
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:10216439 original size:22 final size:24
Alignment explanation
Indices: 10216411--10216469 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
10216401 ACATGTTATC
10216411 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
10216433 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
10216458 TTATGTACATAT
1 TTATGTATATAT
10216470 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:10216459 original size:25 final size:25
Alignment explanation
Indices: 10216427--10216475 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10216417 ATATATCTTA
**
10216427 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
10216452 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
10216476 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:10216657 original size:16 final size:15
Alignment explanation
Indices: 10216633--10216680 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
10216623 TAATTATTAT
*
10216633 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
10216649 TATTTTAATATTTTA
1 TATTTTAATATTTTA
10216664 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
10216680 T
1 T
10216681 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:10216668 original size:7 final size:8
Alignment explanation
Indices: 10216633--10216684 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
10216623 TAATTATTAT
*
10216633 TATTCTAA
1 TATTTTAA
*
10216641 TATTTTGA
1 TATTTTAA
10216649 TATTTTAA
1 TATTTTAA
10216657 TATTTT-A
1 TATTTTAA
10216664 TATTTTATA
1 TATTTTA-A
*
10216673 TATTTTAT
1 TATTTTAA
10216681 TATT
1 TATT
10216685 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:10218589 original size:18 final size:17
Alignment explanation
Indices: 10218559--10218594 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
10218549 AAAATCATTA
10218559 ATTAAATTCTTGAAAAT
1 ATTAAATTCTTGAAAAT
*
10218576 ATTATAATTTTTGAAAAT
1 ATTA-AATTCTTGAAAAT
10218594 A
1 A
10218595 AAAATTTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
ATTAAATTCTTGAAAAT
Found at i:10220809 original size:79 final size:82
Alignment explanation
Indices: 10220671--10220827 Score: 198
Period size: 79 Copynumber: 1.9 Consensus size: 82
10220661 TTATACAAAA
* *
10220671 ATTTCTAAAACTTTACCAATATTTCTAAGGCTCTACCAAAGGTTTCCTTAGTGTCCCAAATCCAA
1 ATTTCTAAAACTTTACCAATATTTCTAAGGCTCTACCAAA-GTTTCCTTAATGTCCCAAACCCAA
10220736 -CTAACTCAACATTTTGCC
65 TC-AACTCAACATTTTGCC
* * * *
10220754 ATTTC-AAAA-TTTACCAATATTTTTAAGAG-TTTATCAAA-TTTCCTTAATGTGCCAAACCCAA
1 ATTTCTAAAACTTTACCAATATTTCTAAG-GCTCTACCAAAGTTTCCTTAATGTCCCAAACCCAA
10220815 TCAACTCAACATT
65 TCAACTCAACATT
10220828 ATGACATACA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
79 31 0.47
80 1 0.02
81 24 0.36
82 5 0.08
83 5 0.08
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.35
Consensus pattern (82 bp):
ATTTCTAAAACTTTACCAATATTTCTAAGGCTCTACCAAAGTTTCCTTAATGTCCCAAACCCAAT
CAACTCAACATTTTGCC
Found at i:10220842 original size:79 final size:81
Alignment explanation
Indices: 10220677--10220844 Score: 184
Period size: 79 Copynumber: 2.1 Consensus size: 81
10220667 AAAAATTTCT
* * *
10220677 AAAACTTTACCAATATTTCTAAGGCTCTACCAAAGGTTTCCTTAGTGTCCCAAATCCAACTAACT
1 AAAAATTTACCAATATTTCTAAGGCTCTACCAAA-GTTTCCTTAATGTCCCAAACCCAACTAACT
* * *
10220742 CAACATTTTGCCATTTC
65 CAACATTATGACATTAC
* * * *
10220759 -AAAATTTACCAATATTTTTAAGAG-TTTATCAAA-TTTCCTTAATGTGCCAAACCCAA-TCAAC
1 AAAAATTTACCAATATTTCTAAG-GCTCTACCAAAGTTTCCTTAATGTCCCAAACCCAACT-AAC
10220820 TCAACATTATGACA-TAC
64 TCAACATTATGACATTAC
10220837 AAAAATTT
1 AAAAATTT
10220845 CTAAGGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
78 3 0.04
79 42 0.58
81 27 0.37
82 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (81 bp):
AAAAATTTACCAATATTTCTAAGGCTCTACCAAAGTTTCCTTAATGTCCCAAACCCAACTAACTC
AACATTATGACATTAC
Found at i:10220863 original size:20 final size:20
Alignment explanation
Indices: 10220838--10221099 Score: 129
Period size: 20 Copynumber: 13.5 Consensus size: 20
10220828 ATGACATACA
*
10220838 AAAATTTCTAAGGATTTATC
1 AAAATTTCTAAGGATTTACC
* * *
10220858 AAAATTTTTAAAGATTTACA
1 AAAATTTCTAAGGATTTACC
*
10220878 AAAATATT-TGAGGATTT-CTC
1 AAAAT-TTCTAAGGATTTAC-C
* *
10220898 AAAATTTCT-ATGTTTATACC
1 AAAATTTCTAAGGATT-TACC
*
10220918 AAAATATCTAAGGATTTACC
1 AAAATTTCTAAGGATTTACC
* * * *
10220938 ATAATTTGTAAAGATTCACC
1 AAAATTTCTAAGGATTTACC
*
10220958 AAAATTTATAAGGATTTACC
1 AAAATTTCTAAGGATTTACC
* * * *
10220978 AAAACTTATTAGG-TTATACT
1 AAAATTTCTAAGGATT-TACC
** *
10220998 AAAATAACTAAAGATTTA-C
1 AAAATTTCTAAGGATTTACC
* *
10221017 ------TATAAGG-TTATACT
1 AAAATTTCTAAGGATT-TACC
* *
10221031 AAAATATCTAAGGATTTACT
1 AAAATTTCTAAGGATTTACC
** *
10221051 TGAATCTT-TAAGGATATACC
1 AAAAT-TTCTAAGGATTTACC
10221071 AAAATTTCTAAGGATTTACC
1 AAAATTTCTAAGGATTTACC
10221091 -AAATTTCTA
1 AAAATTTCTA
10221100 GAGTATACTA
Statistics
Matches: 179, Mismatches: 44, Indels: 39
0.68 0.17 0.15
Matches are distributed among these distances:
12 2 0.01
13 6 0.03
19 20 0.11
20 139 0.78
21 12 0.07
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (20 bp):
AAAATTTCTAAGGATTTACC
Found at i:10220972 original size:80 final size:80
Alignment explanation
Indices: 10220833--10221021 Score: 197
Period size: 80 Copynumber: 2.4 Consensus size: 80
10220823 ACATTATGAC
* * * * * *
10220833 ATACAAAAATTTCTAAGGATTTATCAAAATTTTTAAAGATTTACAAAAATATTTGAGGATTT-CT
1 ATACAAAAATATCTAAGGATTTACCATAATTTGTAAAGATTCACAAAAATATTTAAGGATTTAC-
*
10220897 CAAAA-TT-TCTATGTTT
65 CAAAACTTAT-TA-GGTT
* *
10220913 ATACCAAAATATCTAAGGATTTACCATAATTTGTAAAGATTCACCAAAAT-TTATAAGGATTTAC
1 ATACAAAAATATCTAAGGATTTACCATAATTTGTAAAGATTCACAAAAATATT-TAAGGATTTAC
10220977 CAAAACTTATTAGGTT
65 CAAAACTTATTAGGTT
* * * *
10220993 ATACTAAAATAACTAAAGATTTACTATAA
1 ATACAAAAATATCTAAGGATTTACCATAA
10221022 GGTTATACTA
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
79 2 0.02
80 84 0.91
81 5 0.05
82 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (80 bp):
ATACAAAAATATCTAAGGATTTACCATAATTTGTAAAGATTCACAAAAATATTTAAGGATTTACC
AAAACTTATTAGGTT
Found at i:10221030 original size:33 final size:33
Alignment explanation
Indices: 10220988--10221050 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
10220978 AAAACTTATT
10220988 AGGTTATACTAAAATAACTAAAGATTTACTATA
1 AGGTTATACTAAAATAACTAAAGATTTACTATA
* *
10221021 AGGTTATACTAAAATATCTAAGGATTTACT
1 AGGTTATACTAAAATAACTAAAGATTTACT
10221051 TGAATCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (33 bp):
AGGTTATACTAAAATAACTAAAGATTTACTATA
Found at i:10221208 original size:20 final size:19
Alignment explanation
Indices: 10221175--10221252 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 19
10221165 ACTAATCTTG
* *
10221175 TTAAGGTTTAACCAAAATT
1 TTAAGATTTTACCAAAATT
10221194 TGTAAGATTTTACCAAAAATT
1 T-TAAGATTTTACC-AAAATT
10221215 TTAAAGA-TTTACCAAAATT
1 TT-AAGATTTTACCAAAATT
* *
10221234 TATAAGGTTATACCAAAAT
1 T-TAAGATTTTACCAAAAT
10221253 ATCTAAGAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
19 11 0.22
20 28 0.56
21 11 0.22
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (19 bp):
TTAAGATTTTACCAAAATT
Found at i:10221482 original size:20 final size:20
Alignment explanation
Indices: 10221459--10221586 Score: 95
Period size: 20 Copynumber: 6.5 Consensus size: 20
10221449 CAAAAAAGTT
*
10221459 TAAGGATCTACCAAAATTTC
1 TAAGGATTTACCAAAATTTC
* *
10221479 TAAGG-TGTTA-C-TAATATC
1 TAAGGAT-TTACCAAAATTTC
*
10221497 TAAGGATTTACAAAAATTTC
1 TAAGGATTTACCAAAATTTC
* *
10221517 TAA-GATTATAACAAAATATC
1 TAAGGATT-TACCAAAATTTC
* * *
10221537 TAAGTATTTATCAATATTTC
1 TAAGGATTTACCAAAATTTC
* *
10221557 GAAGGCA-TTACAAAAATTTC
1 TAAGG-ATTTACCAAAATTTC
10221577 TAAGGATTTA
1 TAAGGATTTA
10221587 ACAGTATTTC
Statistics
Matches: 81, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
18 13 0.16
19 8 0.10
20 56 0.69
21 4 0.05
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (20 bp):
TAAGGATTTACCAAAATTTC
Found at i:10221556 original size:40 final size:39
Alignment explanation
Indices: 10221491--10221599 Score: 105
Period size: 40 Copynumber: 2.7 Consensus size: 39
10221481 AGGTGTTACT
*
10221491 AATATCTAAGGATTTACAAAAATTTCTAA-G-ATTATAACAA
1 AATATCTAAGGATTTAC-AATATTTCTAAGGCATTA-AA-AA
* * *
10221531 AATATCTAAGTATTTATCAATATTTCGAAGGCATTACAAA
1 AATATCTAAGGATTTA-CAATATTTCTAAGGCATTAAAAA
* *
10221571 AATTTCTAAGGATTTAACAGTATTTCTAA
1 AATATCTAAGGATTT-ACAATATTTCTAA
10221600 AAATTTACCG
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
40 49 0.86
41 4 0.07
42 4 0.07
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (39 bp):
AATATCTAAGGATTTACAATATTTCTAAGGCATTAAAAA
Found at i:10221787 original size:20 final size:20
Alignment explanation
Indices: 10221755--10221858 Score: 97
Period size: 20 Copynumber: 5.2 Consensus size: 20
10221745 ACAAAAATGC
*
10221755 CCTTAGAATTTTTGGTAAAT
1 CCTTAGAAATTTTGGTAAAT
* * * *
10221775 CCCTAGATATTTTGATTCAA-
1 CCTTAGAAATTTTG-GTAAAT
10221795 CCTTAGAAATTTTTTGG-AAAT
1 CCTTAGAAA--TTTTGGTAAAT
* *
10221816 CCTTATAAATTTTGGTAAAA
1 CCTTAGAAATTTTGGTAAAT
10221836 CCTTAGAAATTTTGGTAAA-
1 CCTTAGAAATTTTGGTAAAT
10221855 CCTT
1 CCTT
10221859 TACAAAATAT
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
19 10 0.15
20 41 0.61
21 11 0.16
22 5 0.07
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
CCTTAGAAATTTTGGTAAAT
Found at i:10221816 original size:41 final size:42
Alignment explanation
Indices: 10221755--10221848 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 42
10221745 ACAAAAATGC
* **
10221755 CCTTAG-AA-TTTTTGGTAAATCCCTAGATATTTTGATTCAA
1 CCTTAGAAATTTTTTGGTAAATCCCTAGAAATTTTGATAAAA
* * *
10221795 CCTTAGAAATTTTTTGG-AAATCCTTATAAATTTTGGTAAAA
1 CCTTAGAAATTTTTTGGTAAATCCCTAGAAATTTTGATAAAA
10221836 CCTTAGAAATTTT
1 CCTTAGAAATTTT
10221849 GGTAAACCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 6 0.13
41 33 0.72
42 7 0.15
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (42 bp):
CCTTAGAAATTTTTTGGTAAATCCCTAGAAATTTTGATAAAA
Found at i:10223523 original size:12 final size:12
Alignment explanation
Indices: 10223501--10223534 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10223491 AGGGCGAGAA
10223501 AAAAGGAGGTGGT
1 AAAA-GAGGTGGT
10223514 AAAAGAGGTGGT
1 AAAAGAGGTGGT
*
10223526 AAGAGAGGT
1 AAAAGAGGT
10223535 ACACATTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (12 bp):
AAAAGAGGTGGT
Found at i:10225022 original size:93 final size:93
Alignment explanation
Indices: 10224910--10225082 Score: 303
Period size: 93 Copynumber: 1.9 Consensus size: 93
10224900 CGCCCATAAG
* *
10224910 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10224975 ACGAGCTT-GGATGCCTAGTTACATCTCT
66 ACGAG-TTCGGATGCCTAGTTACATCTCT
*
10225003 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10225068 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
10225083 CAAATATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:10225078 original size:46 final size:46
Alignment explanation
Indices: 10224903--10225078 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
10224893 TGTAACCCGC
* * * *
10224903 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
10224949 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGC-A--T
* ***
10224995 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
10225042 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
10225079 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10225097 original size:46 final size:44
Alignment explanation
Indices: 10224911--10225097 Score: 114
Period size: 46 Copynumber: 4.0 Consensus size: 44
10224901 GCCCATAAGC
* ** ** **
10224911 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T-AGT
* *
10224957 GAACTCGGACTCAACTCAACGAGCTT-GGATGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAG-TTCGGATGCCCA---A-ATC-CTAGT
* *
10225004 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T-AGT
10225050 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCTAGT
10225096 GA
1 GA
10225098 CATGTCACTT
Statistics
Matches: 109, Mismatches: 15, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
46 61 0.56
47 27 0.25
48 4 0.04
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCTAGT
Found at i:10229316 original size:42 final size:42
Alignment explanation
Indices: 10229257--10229338 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
10229247 AGGCAAGAGT
10229257 TAGCTTGGGCGATATTGAAACTTAGAGAAAAGTCCTTGCTGC
1 TAGCTTGGGCGATATTGAAACTTAGAGAAAAGTCCTTGCTGC
10229299 TAGCTTGGGCGATATTGAAACTTAGAGAAAAGTCCTTGCT
1 TAGCTTGGGCGATATTGAAACTTAGAGAAAAGTCCTTGCT
10229339 ACTTGTTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
TAGCTTGGGCGATATTGAAACTTAGAGAAAAGTCCTTGCTGC
Found at i:10229828 original size:3 final size:3
Alignment explanation
Indices: 10229820--10229857 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10229810 TACCAACCTG
10229820 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10229858 AACCCATACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10230909 original size:2 final size:2
Alignment explanation
Indices: 10230902--10230936 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
10230892 GAAGAAAATA
*
10230902 AG AG AG AG AG AG AG AG AG AG AG AG AC AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10230937 GGGGGGGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10233546 original size:11 final size:10
Alignment explanation
Indices: 10233467--10233542 Score: 50
Period size: 11 Copynumber: 7.3 Consensus size: 10
10233457 ATACCAACAT
*
10233467 AATTGTTAAA
1 AATTATTAAA
10233477 TAATTATTAAA
1 -AATTATTAAA
10233488 AATTA-TAAA
1 AATTATTAAA
*
10233497 AGTATT-GTAGAA
1 A--ATTATTA-AA
*
10233509 AATTATTTGAA
1 AATTA-TTAAA
10233520 AATTA-TAAA
1 AATTATTAAA
10233529 AATATATTAAA
1 AAT-TATTAAA
10233540 AAT
1 AAT
10233543 ATATAGCTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
9 11 0.21
10 10 0.19
11 28 0.53
12 4 0.08
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (10 bp):
AATTATTAAA
Found at i:10234205 original size:22 final size:24
Alignment explanation
Indices: 10234153--10234206 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
10234143 TTTTTTATGA
*
10234153 TTAAATTATTGTTATTAAATATGTT
1 TTAAATTATTGTTATT-AATATCTT
*
10234178 TGAAATTATTG-TATT-ATATCTT
1 TTAAATTATTGTTATTAATATCTT
10234200 TTAAATT
1 TTAAATT
10234207 GAATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 12 0.46
24 4 0.15
25 10 0.38
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATCTT
Found at i:10239109 original size:48 final size:48
Alignment explanation
Indices: 10239053--10239319 Score: 209
Period size: 48 Copynumber: 5.6 Consensus size: 48
10239043 TGTGTGCTAA
* * *
10239053 TGTAAGACCATGTCTAGAACATGGCATTGGCCACATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
* *** * *
10239101 TGTAAGACCATGTTTGGGACATGGCATCGGCGTTGA-TATGTGTA-CTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAG-AGCCAG
* * *
10239149 TGTAAGACTATGTCTGGGATATGGCATCGGCCACATTATGAGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
* *** * * *
10239197 TGTAAGACCATGACTGGGACATGGCATCGG-CGTTTATATGTGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACAT-TATGAGAGCCAG
* * * * ** * *
10239245 TGTAAGACCATGTCCGGGATATGACATCGG-TATTGTTATGAGAGCTAC
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGAGAGCCAG
* *
10239293 TGGAAGACCATGTCCGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
10239320 TGGCAACTTA
Statistics
Matches: 172, Mismatches: 41, Indels: 12
0.76 0.18 0.05
Matches are distributed among these distances:
47 4 0.02
48 164 0.95
49 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
Found at i:10239200 original size:96 final size:96
Alignment explanation
Indices: 10239036--10239319 Score: 363
Period size: 96 Copynumber: 3.0 Consensus size: 96
10239026 ATGGCATTTG
* * * * *
10239036 GTTGATATGTGTGCTAATGTAAGACCATGTCTAGAACATGGCATTGGCCACATTATGAGAGCCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCACATTATGAGAGCCAG
**
10239101 TGTAAGACCATGTTTGGGACATGGCATCGGC
66 TGTAAGACCATGACTGGGACATGGCATCGGC
* * *
10239132 GTTGATATGTGTACTAGTGTAAGACTATGTCTGGGATATGGCATCGGCCACATTATGAGAGTCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCACATTATGAGAGCCAG
10239197 TGTAAGACCATGACTGGGACATGGCATCGGC
66 TGTAAGACCATGACTGGGACATGGCATCGGC
* * * * ** *
10239228 GTTTATATGTGTGCTAGTGTAAGACCATGTCCGGGATATGACATCGG-TATTGTTATGAGAGCTA
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCA-CATTATGAGAGCCA
* * * *
10239292 CTGGAAGACCATGTCCGGGACATGGCAT
65 GTGTAAGACCATGACTGGGACATGGCAT
10239320 TGGCAACTTA
Statistics
Matches: 163, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
95 1 0.01
96 162 0.99
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (96 bp):
GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCACATTATGAGAGCCAG
TGTAAGACCATGACTGGGACATGGCATCGGC
Found at i:10244009 original size:20 final size:21
Alignment explanation
Indices: 10243984--10244030 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
10243974 AGAATGATAA
10243984 ATAATAAGTAAATAA-AT-ATT
1 ATAATAAGT-AATAACATAATT
10244004 ATAAT-AGTAATAACATAATT
1 ATAATAAGTAATAACATAATT
10244024 ATAATAA
1 ATAATAA
10244031 TAACATTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.21
19 5 0.21
20 13 0.54
21 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (21 bp):
ATAATAAGTAATAACATAATT
Found at i:10245356 original size:13 final size:13
Alignment explanation
Indices: 10245326--10245357 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10245316 ATTGCTGTCA
*
10245326 AAAAATGCTTTTG
1 AAAAGTGCTTTTG
10245339 AAAAGTGCTTTTG
1 AAAAGTGCTTTTG
10245352 AAAAGT
1 AAAAGT
10245358 AAAATGTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (13 bp):
AAAAGTGCTTTTG
Found at i:10246504 original size:21 final size:22
Alignment explanation
Indices: 10246480--10246520 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
10246470 AAACAATATA
10246480 ATTTTG-CTTTTTAA-TTTAATG
1 ATTTTGAC-TTTTAACTTTAATG
10246501 ATTTTGACTTTTAACTTTAA
1 ATTTTGACTTTTAACTTTAA
10246521 AAAAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (22 bp):
ATTTTGACTTTTAACTTTAATG
Found at i:10246842 original size:32 final size:34
Alignment explanation
Indices: 10246805--10246870 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 34
10246795 CAATATAGAA
* *
10246805 TTTTAGACTTTT-AAT-ATTGTTTTAAAAATCAT
1 TTTTAGAATTTTAAATAATAGTTTTAAAAATCAT
10246837 TTTTAGAATTTTAAATAGATAGTTTTAAAAATCA
1 TTTTAGAATTTTAAATA-ATAGTTTTAAAAATCA
10246871 AAAGCTCGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 11 0.38
33 3 0.10
35 15 0.52
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (34 bp):
TTTTAGAATTTTAAATAATAGTTTTAAAAATCAT
Found at i:10247323 original size:34 final size:35
Alignment explanation
Indices: 10247278--10247344 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
10247268 CAGTAAAATG
* *
10247278 TTTTCTATAAAATGATTTTC-GGAAAATGTTTTAC
1 TTTTCTATAAAATGATTTACTGGAAAATATTTTAC
*
10247312 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTATAAAATGATTTACTGGAAAATATTTT
10247345 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCTATAAAATGATTTACTGGAAAATATTTTAC
Found at i:10247450 original size:18 final size:18
Alignment explanation
Indices: 10247424--10247473 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
10247414 AAAAGTTGTT
*
10247424 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
10247442 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
* *
10247460 TTTTTATATTTTAA
1 TTTATATATATTAA
10247474 ATTATTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:10258418 original size:30 final size:29
Alignment explanation
Indices: 10258384--10258470 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
10258374 AATTTTAATA
10258384 TTTAATTTGGTATTTAAGTTTTTTTTATG
1 TTTAATTTGGTATTTAAGTTTTTTTTATG
* * **
10258413 TTTTAATTTGGTATTTGAGTTTGACTTCAATG
1 -TTTAATTTGGTATTTAAGTTT--TTTTTATG
* *
10258445 TTTAATTTGATAATTAAGTTTTTTTT
1 TTTAATTTGGTATTTAAGTTTTTTTT
10258471 TTGTCCTATA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
29 2 0.04
30 20 0.44
31 18 0.40
32 5 0.11
ACGTcount: A:0.23, C:0.02, G:0.14, T:0.61
Consensus pattern (29 bp):
TTTAATTTGGTATTTAAGTTTTTTTTATG
Found at i:10258823 original size:21 final size:20
Alignment explanation
Indices: 10258793--10258832 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10258783 GAATGATGAG
*
10258793 TAAGAACTCTTATAAAATAAA
1 TAAGAACTCTT-CAAAATAAA
*
10258814 TAAGATCTCTTCAAAATAA
1 TAAGAACTCTTCAAAATAA
10258833 TAAAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (20 bp):
TAAGAACTCTTCAAAATAAA
Found at i:10262872 original size:33 final size:34
Alignment explanation
Indices: 10262810--10262938 Score: 116
Period size: 35 Copynumber: 3.7 Consensus size: 34
10262800 ATCCAACCAA
* * * * *
10262810 AACACACTAGATGCTCACAAGAGCCAATCCGTCTG
1 AACACAC-AAATGCTCATAAGAGCTAATCCCTCAG
*
10262845 -ACACACAAATGCTCATAAGAGTTAATCCCTCAG
1 AACACACAAATGCTCATAAGAGCTAATCCCTCAG
* * * **
10262878 AAACACACTAATGTTTATAAGAGCTAATCTTTTCAG
1 -AACACACAAATGCTCATAAGAGCTAATC-CCTCAG
*
10262914 AACACACCAATGCTCATAAGAGCTA
1 AACACACAAATGCTCATAAGAGCTA
10262939 GTCCAATCGA
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
33 21 0.28
34 6 0.08
35 45 0.59
36 4 0.05
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (34 bp):
AACACACAAATGCTCATAAGAGCTAATCCCTCAG
Found at i:10265137 original size:46 final size:45
Alignment explanation
Indices: 10265112--10265418 Score: 312
Period size: 46 Copynumber: 6.4 Consensus size: 45
10265102 GATCAAGTGA
* * *
10265112 CAAGTGGA-AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
* * * *
10265157 CAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
10265203 CAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
*
10265249 CAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
1 CAAGTGAC-------AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
* *
10265301 CAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGAC-------AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
* *
10265353 CAAGAGATAAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
*
10265398 CAAGAGACAAAGTGATAAGTG
1 CAAGTGAC-AAGTGATAAGTG
10265419 GCTACACTTA
Statistics
Matches: 238, Mismatches: 13, Indels: 22
0.87 0.05 0.08
Matches are distributed among these distances:
44 2 0.01
45 39 0.16
46 104 0.44
52 93 0.39
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
CAAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
Found at i:10265138 original size:52 final size:49
Alignment explanation
Indices: 10265053--10265418 Score: 431
Period size: 52 Copynumber: 7.6 Consensus size: 49
10265043 TTTGAGTACT
* **
10265053 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
10265099 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
10265151 TCTGATCAAGTG---ATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
10265197 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
10265243 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
10265295 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
10265347 TCTGATCAA--GA-GATAAAGTGATAAGTGATAGCTT-AGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
10265392 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
10265419 GCTACACTTA
Statistics
Matches: 288, Mismatches: 15, Indels: 35
0.85 0.04 0.10
Matches are distributed among these distances:
45 31 0.11
46 118 0.41
47 2 0.01
48 2 0.01
49 3 0.01
50 3 0.01
52 129 0.45
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:10265173 original size:98 final size:97
Alignment explanation
Indices: 10265053--10265418 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
10265043 TTTGAGTACT
* *
10265053 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
10265118 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
10265151 TCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
10265211 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
10265243 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
10265308 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
10265347 TCTGATCAAGAGATAAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
10265411 GATAAGTG
65 GA-AAGTG
10265419 GCTACACTTA
Statistics
Matches: 239, Mismatches: 15, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
97 24 0.10
98 129 0.54
100 1 0.00
101 1 0.00
104 41 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:10265418 original size:45 final size:44
Alignment explanation
Indices: 10265315--10265492 Score: 181
Period size: 37 Copynumber: 4.3 Consensus size: 44
10265305 TGACAAGTGA
* *
10265315 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAT
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
10265361 AAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT-GCTACACTTATCTGATCAAGAGAC
*
10265406 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
10265443 AAAGTGATAA--G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
10265479 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
10265493 CATACGTAAG
Statistics
Matches: 123, Mismatches: 6, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
35 9 0.07
36 4 0.03
37 54 0.44
38 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
45 32 0.26
46 20 0.16
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:10265426 original size:37 final size:37
Alignment explanation
Indices: 10265382--10265490 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
10265372 TGATAGCTTA
10265382 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
10265419 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
10265456 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
10265491 ATCATACGTA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 12 0.17
36 4 0.06
37 53 0.77
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:10266875 original size:47 final size:49
Alignment explanation
Indices: 10266742--10266932 Score: 305
Period size: 49 Copynumber: 3.9 Consensus size: 49
10266732 ATGTGAACAT
10266742 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
10266792 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
10266841 GTGATATGTGA-T-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
10266888 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
10266933 AGAAAACGAA
Statistics
Matches: 135, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
47 43 0.32
48 2 0.01
49 86 0.64
50 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:10266926 original size:96 final size:99
Alignment explanation
Indices: 10266742--10266932 Score: 307
Period size: 96 Copynumber: 2.0 Consensus size: 99
10266732 ATGTGAACAT
*
10266742 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATTCC
1 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATTAC
*
10266807 GTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
66 GTGTAAGACCATAGCTGGACTATGGCATCGGTAA
* * *
10266841 GTGA-TATGTGA-T-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTGTGATTAC
1 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATTAC
*
10266903 GTGTAAGACCATAGTTGGACTATGGCATCG
66 GTGTAAGACCATAGCTGGACTATGGCATCG
10266933 AGAAAACGAA
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
96 74 0.86
97 1 0.01
98 7 0.08
99 4 0.05
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (99 bp):
GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATTAC
GTGTAAGACCATAGCTGGACTATGGCATCGGTAA
Found at i:10270127 original size:52 final size:52
Alignment explanation
Indices: 10270049--10270318 Score: 383
Period size: 52 Copynumber: 5.3 Consensus size: 52
10270039 TACTTCTGAT
* * **
10270049 CAAGTGAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
10270101 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
10270153 C------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
10270199 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* * *
10270251 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
10270303 AAAGT-GATAAGTGATA
1 CAAGTGGA-AAGTGATA
10270319 GCTACACTTA
Statistics
Matches: 196, Mismatches: 15, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
46 43 0.22
51 1 0.01
52 152 0.78
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (52 bp):
CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
Found at i:10270172 original size:98 final size:98
Alignment explanation
Indices: 10270043--10270318 Score: 403
Period size: 98 Copynumber: 2.8 Consensus size: 98
10270033 TTTGAGTACT
* *
10270043 TCTGATCAAGTGA-AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
10270107 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTACACTTA
10270140 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
10270205 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTACACTTA
* * *
10270238 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
*
10270303 AAAGT-GATAAGTGATA
60 CAAGTGGA-AAGTGATA
10270319 GCTACACTTA
Statistics
Matches: 163, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
97 13 0.08
98 94 0.58
103 2 0.01
104 54 0.33
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTACACTTA
Found at i:10270369 original size:37 final size:37
Alignment explanation
Indices: 10270279--10270426 Score: 214
Period size: 37 Copynumber: 4.0 Consensus size: 37
10270269 TGATAGCTTC
*
10270279 GGCTATACTTATCTGATCAAGAGA-AAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
10270315 GATAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
1 G---GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
10270355 GGCTACACTTATCTGATCAAGAAACAAAGTGAT-AGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
10270391 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
10270426 G
1 G
10270427 ATCATACGTA
Statistics
Matches: 103, Mismatches: 4, Indels: 11
0.87 0.03 0.09
Matches are distributed among these distances:
34 7 0.07
35 8 0.08
36 22 0.21
37 31 0.30
39 22 0.21
40 13 0.13
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:10271738 original size:49 final size:49
Alignment explanation
Indices: 10271677--10271866 Score: 305
Period size: 49 Copynumber: 3.9 Consensus size: 49
10271667 ATGTGAACAT
10271677 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
10271727 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
*
10271776 GTGATATGTGA-T-CGTGTAAGACCATAG-TGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
10271822 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
10271867 AGAAAACGAA
Statistics
Matches: 134, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
46 28 0.21
47 16 0.12
48 16 0.12
49 70 0.52
50 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:10271817 original size:95 final size:99
Alignment explanation
Indices: 10271677--10271866 Score: 307
Period size: 95 Copynumber: 2.0 Consensus size: 99
10271667 ATGTGAACAT
*
10271677 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATTCC
1 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATTAC
*
10271742 GTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
66 GTGTAAGACCATAGCTGGACTATGGCATCGGTAA
* *
10271776 GTGA-TATGTGA-T-CGTGTAAGACCATAG-TGGGCTATGGCATCGGTATGTGATTTGTGATTAC
1 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATTAC
*
10271837 GTGTAAGACCATAGTTGGACTATGGCATCG
66 GTGTAAGACCATAGCTGGACTATGGCATCG
10271867 AGAAAACGAA
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
95 59 0.69
96 15 0.17
97 1 0.01
98 7 0.08
99 4 0.05
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.31
Consensus pattern (99 bp):
GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATTAC
GTGTAAGACCATAGCTGGACTATGGCATCGGTAA
Found at i:10275140 original size:89 final size:89
Alignment explanation
Indices: 10275034--10275326 Score: 365
Period size: 89 Copynumber: 3.1 Consensus size: 89
10275024 TGACAAGTGG
* *
10275034 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAA-TGATAAGTGATAAGTTATAGCTT
1 AAAGTGATAAGTGATAGCTTC-GCTATACTTATCTGATCAAGTGATAAGTGATAAGTGATAGCTT
*
10275098 CGCTATACTTATCTGATCAAGTGAC
65 CGCTACACTTATCTGATCAAGTGAC
*
10275123 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAGTGATAAGTGA
1 AAAGTGATAAGTGATAGCTTC-GCTATACTTATCTGATCAAGTG---A-T--AAGTGATAAGTGA
10275188 TAGCTTCGGCTACACTTATCTGATCAAGTGAC
59 TAGCTTC-GCTACACTTATCTGATCAAGTGAC
* *
10275220 AAGTGAAAGTGATAAGTGATAGCTTCGCTATACTTATCTGATCAAGAGAAAAGTGATAAGTGATA
1 -----AAAGTGATAAGTGATAGCTTCGCTATACTTATCTGATCAAGTGATAAGTGATAAGTGATA
* *
10275285 GCTTTAGCTACACTTATCTGATCAAG-AAC
61 GC-TTCGCTACACTTATCTGATCAAGTGAC
10275314 AAAGTGATAAGTG
1 AAAGTGATAAGTG
10275327 GCTACACTTA
Statistics
Matches: 180, Mismatches: 10, Indels: 28
0.83 0.05 0.13
Matches are distributed among these distances:
89 51 0.28
90 2 0.01
93 1 0.01
94 3 0.02
95 37 0.21
96 21 0.12
97 23 0.13
98 1 0.01
101 20 0.11
102 21 0.12
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (89 bp):
AAAGTGATAAGTGATAGCTTCGCTATACTTATCTGATCAAGTGATAAGTGATAAGTGATAGCTTC
GCTACACTTATCTGATCAAGTGAC
Found at i:10275141 original size:141 final size:143
Alignment explanation
Indices: 10274968--10275310 Score: 550
Period size: 141 Copynumber: 2.4 Consensus size: 143
10274958 TTTGAGTACT
*
10274968 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGA-AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGT-
* *
10275033 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAA-TG-A-T-AAGTGATAAGTTATA
64 GAAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGAAGTAAAGTGATAAGTGATA
10275094 GCTTCGCTATACTTA
129 GCTTCGCTATACTTA
*
10275109 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGA-AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
10275174 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAGTGATAAGTGA
65 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTG--AAGT-AAAGTGATAAGTGA
10275239 TAGCTTCGCTATACTTA
127 TAGCTTCGCTATACTTA
*
10275256 TCTGATCAAGAGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 TCTGATCAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
10275311 AACAAAGTGA
Statistics
Matches: 187, Mismatches: 8, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
140 40 0.21
141 63 0.34
144 1 0.01
145 1 0.01
146 41 0.22
147 41 0.22
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (143 bp):
TCTGATCAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGA
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGAAGTAAAGTGATAAGTGATAGC
TTCGCTATACTTA
Found at i:10275143 original size:45 final size:46
Alignment explanation
Indices: 10275034--10275326 Score: 355
Period size: 51 Copynumber: 6.3 Consensus size: 46
10275024 TGACAAGTGG
* *
10275034 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAA-TGA-
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* * *
10275078 TAAGTGATAAGTTATAGCTTC-GCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
*
10275123 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
10275169 AAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 -----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
10275220 AAGTGAAAGTGATAAGTGATAGCTTC-GCTATACTTATCTGATCAAGAGA-
1 -----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
** *
10275269 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG-AAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
10275314 AAAGTGATAAGTG
1 AAAGTGATAAGTG
10275327 GCTACACTTA
Statistics
Matches: 228, Mismatches: 11, Indels: 19
0.88 0.04 0.07
Matches are distributed among these distances:
43 19 0.08
44 43 0.19
45 51 0.22
46 23 0.10
50 21 0.09
51 71 0.31
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
Found at i:10275320 original size:95 final size:96
Alignment explanation
Indices: 10274968--10275310 Score: 441
Period size: 95 Copynumber: 3.6 Consensus size: 96
10274958 TTTGAGTACT
* *
10274968 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGA-AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGT-
* *
10275033 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
64 GAAAGTGATAAGTGATAGCTTCAGCTATACTTA
* * * * *
10275066 TCTGATCAA-TGATAAGTGATAAGTTATAGC-TTCGCTATACTTATCTGATCAAGTGAC-----A
1 TCTGATCAAGAGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGA
*
10275124 AAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAGTGATAAGTGATAGCTTCAGCTATACTTA
* **
10275155 TCTGATCAAGTGACAAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 TCTGATCAA--G---AG-AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC
10275220 AAGTGAAAGTGATAAGTGATAGCTTC-GCTATACTTA
60 AAGTGAAAGTGATAAGTGATAGCTTCAGCTATACTTA
10275256 TCTGATCAAGAGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 TCTGATCAAGAGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
10275311 AACAAAGTGA
Statistics
Matches: 213, Mismatches: 19, Indels: 29
0.82 0.07 0.11
Matches are distributed among these distances:
89 38 0.18
95 66 0.31
96 33 0.15
97 27 0.13
98 9 0.04
99 1 0.00
101 18 0.08
102 21 0.10
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (96 bp):
TCTGATCAAGAGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGA
AAGTGATAAGTGATAGCTTCAGCTATACTTA
Found at i:10275334 original size:36 final size:36
Alignment explanation
Indices: 10275291--10275398 Score: 175
Period size: 36 Copynumber: 3.0 Consensus size: 36
10275281 GATAGCTTTA
10275291 GCTACACTTATCTGATCAAGAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAACAAAGTGATAAGTG
10275327 GCTACACTTATCTGATCAAGAAACAAAGTGAT-AGTG
1 GCTACACTTATCTGATCAAG-AACAAAGTGATAAGTG
*
10275363 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAA-GAACAAAGTGATAAGTG
10275399 ATCATACGTA
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
35 7 0.10
36 49 0.72
37 12 0.18
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGAACAAAGTGATAAGTG
Found at i:10276711 original size:49 final size:49
Alignment explanation
Indices: 10276650--10276842 Score: 323
Period size: 49 Copynumber: 3.9 Consensus size: 49
10276640 ATGTGAACAT
10276650 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
10276700 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
10276749 GTGATATGTGACTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
10276798 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
10276843 AGAAAACGAA
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 132 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:10280047 original size:52 final size:49
Alignment explanation
Indices: 10279962--10280327 Score: 438
Period size: 46 Copynumber: 7.6 Consensus size: 49
10279952 TTTGAGTACT
* **
10279962 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
10280008 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
10280060 TCTGATCAAGTG---ATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
10280106 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
10280152 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
10280204 TCTGATCAAGTGACAAGTGAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T-AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
10280255 TCTGATCAA--GA-GATAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
10280301 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
10280328 GCTACACTTA
Statistics
Matches: 288, Mismatches: 15, Indels: 34
0.85 0.04 0.10
Matches are distributed among these distances:
46 149 0.52
47 1 0.00
48 4 0.01
49 4 0.01
50 1 0.00
51 41 0.14
52 88 0.31
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:10280082 original size:98 final size:97
Alignment explanation
Indices: 10279962--10280327 Score: 508
Period size: 98 Copynumber: 3.7 Consensus size: 97
10279952 TTTGAGTACT
* *
10279962 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
10280027 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
10280060 TCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
10280120 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
10280152 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
10280217 CAAGTGAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTGAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
10280255 TCTGATCAAGAGATAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
10280320 GATAAGTG
65 GA-AAGTG
10280328 GCTACACTTA
Statistics
Matches: 239, Mismatches: 16, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
97 43 0.18
98 105 0.44
99 6 0.03
100 1 0.00
103 41 0.17
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:10280335 original size:37 final size:37
Alignment explanation
Indices: 10280291--10280400 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
10280281 GATAGCTTTA
10280291 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
10280328 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
10280365 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
10280401 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:10280364 original size:149 final size:147
Alignment explanation
Indices: 10279962--10280316 Score: 459
Period size: 144 Copynumber: 2.4 Consensus size: 147
10279952 TTTGAGTACT
* * * * *
10279962 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * * *
10280027 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---A-T-AAAGTGATAAGTT
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGAAAGTGATAAGTG
10280087 ATAGCTTCGGCTATACTTA
129 ATAGCTTCGGCTATACTTA
* *
10280106 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * *
10280171 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAGTGATAAGTG
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGAAAGTGATAAGTG
10280236 ATAGCTTCGGCTATACTTA
129 ATAGCTTCGGCTATACTTA
* *
10280255 TCTGATCAAGAGATAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
10280317 AGTGATAAGT
Statistics
Matches: 196, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
144 105 0.54
147 1 0.01
148 1 0.01
149 89 0.45
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (147 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCAAACTAAACTGATCAAGTGACAAGTGAAAGTGATAAGTGAT
AGCTTCGGCTATACTTA
Found at i:10288153 original size:35 final size:35
Alignment explanation
Indices: 10287986--10288149 Score: 172
Period size: 35 Copynumber: 4.7 Consensus size: 35
10287976 AATCCAACCA
* * *
10287986 AAACACACCAGATGCTCACAAGAGCCAATCCAT-CG
1 AAACACACCA-ATGCTCATAAGAGCTAATCCCTCCG
* * * *
10288021 --ACACACAAATGCTTATAAGAGTTAATCCCTCTG
1 AAACACACCAATGCTCATAAGAGCTAATCCCTCCG
* ** *
10288054 AAACACACTAATGCTTGTAAGAGCTAATCCCTACG
1 AAACACACCAATGCTCATAAGAGCTAATCCCTCCG
* *
10288089 AAACACACCAATGCTCATAAGAGCTAGTCCCTCCA
1 AAACACACCAATGCTCATAAGAGCTAATCCCTCCG
*
10288124 AAACACACCAATACTCATAAGAGCTA
1 AAACACACCAATGCTCATAAGAGCTA
10288150 GTCCAACCGA
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
32 17 0.16
33 8 0.07
35 82 0.77
ACGTcount: A:0.40, C:0.29, G:0.12, T:0.19
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCCTCCG
Found at i:10289855 original size:10 final size:10
Alignment explanation
Indices: 10289825--10289858 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
10289815 TTCCAACCGC
10289825 AAGAAAGTAAA
1 AAGAAAG-AAA
10289836 AAGAAA-AAA
1 AAGAAAGAAA
10289845 AAGAAAGAAA
1 AAGAAAGAAA
10289855 AAGA
1 AAGA
10289859 GACGTAGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 7 0.32
11 6 0.27
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (10 bp):
AAGAAAGAAA
Done.