Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 371 of 433
Found at i:116337273 original size:87 final size:90
Alignment explanation
Indices: 116337171--116337355 Score: 259
Period size: 96 Copynumber: 2.0 Consensus size: 90
116337161 TGATATATAT
*
116337171 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TA-TGTAAGTTATGTAAATTATGATAT
1 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
116337233 AAAATATATTTAAGTATTATGTAAG
66 AAAATATATTTAAGTATTATGTAAG
*
116337258 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTATATAAATTA
1 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TGTA----TTGTAAGTTATATAAATTA
* *
116337323 TGATATCAAATATATTTATGTATTATGTAAG
60 TGATATAAAATATATTTAAGTATTATGTAAG
116337354 TT
1 TT
116337356 TTTTATTTCA
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
87 34 0.40
90 1 0.01
91 2 0.02
96 48 0.56
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (90 bp):
TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
AAAATATATTTAAGTATTATGTAAG
Found at i:116337311 original size:114 final size:114
Alignment explanation
Indices: 116337111--116337324 Score: 290
Period size: 114 Copynumber: 1.9 Consensus size: 114
116337101 ACTAGTTATG
* * * *
116337111 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATG
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
*
116337176 TAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
66 TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
* *
116337225 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATAT-AGTTAT
* * *
116337288 ATAAGTTATGTACGTTT-TGTAAGTTATATAAATTATG
65 ATAAATTATATA--TTTATCTAAGTTATATAAATTATG
116337325 ATATCAAATA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
112 4 0.05
113 18 0.21
114 62 0.71
115 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
Found at i:116337363 original size:87 final size:87
Alignment explanation
Indices: 116337171--116337355 Score: 234
Period size: 87 Copynumber: 2.1 Consensus size: 87
116337161 TGATATATAT
*
116337171 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
** *
116337236 ATATATTTAAGTATTATGTAAG
66 ATATATCAAAATATTATGTAAG
* * *
116337258 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTAT-ATA-AAT
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAA-
*
116337321 TATGATATCAAATATATTTATGT-A-
65 AAT-ATATCAAA-ATA-TTATGTAAG
116337345 TTATGTAAGTT
1 TTATGTAAGTT
116337356 TTTTATTTCA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
85 2 0.02
86 5 0.06
87 70 0.81
88 3 0.03
89 6 0.07
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (87 bp):
TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
ATATATCAAAATATTATGTAAG
Found at i:116337449 original size:15 final size:15
Alignment explanation
Indices: 116337429--116337484 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
116337419 AAGTAGCGGG
116337429 ATTAAATAATATTTA
1 ATTAAATAATATTTA
116337444 ATTAAATAATATTT-
1 ATTAAATAATATTTA
116337458 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
116337473 ATTAAGTAATAT
1 ATTAAATAATAT
116337485 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:116338282 original size:273 final size:274
Alignment explanation
Indices: 116337694--116338368 Score: 1264
Period size: 273 Copynumber: 2.5 Consensus size: 274
116337684 ATAAAATGGA
* * *
116337694 GAATTTTTTAAGATTCATCATACGCGGCGTTGTTACACCTAAGGAGGATCCAATATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
* *
116337759 CTCGATATAAGGCAACCCGTCAGGTTTTCAACCTATATACTTTGAATCTTTAAAATATTTAAATA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
116337824 TTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCG
131 TTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCG
*
116337889 TAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTT
196 TAGTTTAATTTTTATAAGTACATTGAAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTT
116337954 TTTCAAGTCTTTTT
261 TTTCAAGTCTTTTT
*
116337968 AAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
116338033 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
116338098 TTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATAT-AAAAAA-AATC
131 TTAAAATCAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATC
116338161 GTAGTTTAATTTTTATAAGTACATTGAAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTT
195 GTAGTTTAATTTTTATAAGTACATTGAAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTT
116338226 TTTTCAAGTCTTTTT
260 TTTTCAAGTCTTTTT
116338241 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
116338306 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAA
116338369 ATAAGGTTGG
Statistics
Matches: 392, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
273 210 0.54
274 153 0.39
275 29 0.07
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (274 bp):
GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
TTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCG
TAGTTTAATTTTTATAAGTACATTGAAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTT
TTTCAAGTCTTTTT
Found at i:116338650 original size:15 final size:15
Alignment explanation
Indices: 116338630--116338658 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
116338620 AGAATTTTGA
116338630 AATAAAACGTACCTT
1 AATAAAACGTACCTT
116338645 AATAAAACGTACCT
1 AATAAAACGTACCT
116338659 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:116339168 original size:183 final size:183
Alignment explanation
Indices: 116338858--116339226 Score: 675
Period size: 183 Copynumber: 2.0 Consensus size: 183
116338848 CCTAGAACAG
116338858 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
116338923 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
* *
116338988 AGCAGGAAGTAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
* *
116339041 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGTAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
*
116339106 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
* *
116339171 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
116339224 ATG
1 ATG
116339227 GAACTATATC
Statistics
Matches: 179, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 179 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
Found at i:116339316 original size:14 final size:13
Alignment explanation
Indices: 116339297--116339326 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
116339287 CAATATAATT
116339297 TTACTTCATATATA
1 TTACTTCATATA-A
116339311 TTACTTCATATAA
1 TTACTTCATATAA
116339324 TTA
1 TTA
116339327 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:116342578 original size:9 final size:10
Alignment explanation
Indices: 116342561--116342585 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
116342551 AAAAGAGACG
116342561 AAATGGGGGA
1 AAATGGGGGA
116342571 AAATGGGGGA
1 AAATGGGGGA
116342581 AAATG
1 AAATG
116342586 ACTTAGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (10 bp):
AAATGGGGGA
Found at i:116344231 original size:155 final size:158
Alignment explanation
Indices: 116344059--116344390 Score: 361
Period size: 155 Copynumber: 2.1 Consensus size: 158
116344049 CGCTTTTACA
* * * *
116344059 AAAACGCCGCTAATGCTTGAACTTTTTGCAGTATTTTACG-AGAAACGCCACTAATGCCTC-AAT
1 AAAACGCCGCTAATGCTTGAACTTATAGCAGCATTTTACGTA-AAACGCCACTAATGCCTCAAAG
* * * * *
116344122 AGCTCACCTACACACGGCGCCATTTTGCTCAATACTTTTGCAACGTTTGTAGA-AACTGCCGCTA
65 AGCTCACCAACACACGACACCATTTTGCTCAACACTTTTGCAACGTTTGTAGACAACCGCCGCTA
*
116344186 ATGCGTCA-CCTATTGCGGCATT-TTTGGT
130 ATGCGTCAGCC-ATTGCGGCATTCTTTGAT
* * * ** *
116344214 AAAACGCCGCTAATGCTTGAAGTTATAGCGGCGTTTTTGGTAAAACGCCGCTAATGCCTCAAAAG
1 AAAACGCCGCTAATGCTTGAACTTATAGCAGCATTTTACGTAAAACGCCACTAATGCCTC-AAAG
* * ** * *
116344279 AGCTCACCAACATACGACACCGTTTTGCTCAACACTTTTGCGGCGTTTTTTGACAACCGCCGCTA
65 AGCTCACCAACACACGACACCATTTTGCTCAACACTTTTGCAACGTTTGTAGACAACCGCCGCTA
* * *
116344344 ATGTGTCAGCCATTGCGGCGTTCTTTTAT
130 ATGCGTCAGCCATTGCGGCATTCTTTGAT
116344373 AAAA-GACCGCTAATGCTT
1 AAAACG-CCGCTAATGCTT
116344391 TATTTTTTGC
Statistics
Matches: 145, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
155 49 0.34
156 1 0.01
157 45 0.31
158 28 0.19
159 22 0.15
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (158 bp):
AAAACGCCGCTAATGCTTGAACTTATAGCAGCATTTTACGTAAAACGCCACTAATGCCTCAAAGA
GCTCACCAACACACGACACCATTTTGCTCAACACTTTTGCAACGTTTGTAGACAACCGCCGCTAA
TGCGTCAGCCATTGCGGCATTCTTTGAT
Found at i:116347320 original size:142 final size:142
Alignment explanation
Indices: 116347147--116347439 Score: 496
Period size: 142 Copynumber: 2.1 Consensus size: 142
116347137 ATCAATGAAA
* * * * *
116347147 AGTTTGATTCCAAGGAAAGTAAATAAAATTTGACATACCAAACGTTAGAATTACTTTCCAATTGA
1 AGTTAGATTCAAAGGAAAGCAAATAAAATTTGACATACCAAACGTTAGAATCACTCTCCAATTGA
116347212 TTAAATTTCTAAGAAAATGATTACTTTCCATCATACCAAATGCTACCCAAAAATATCATGAAGAC
66 TTAAATTTCTAAGAAAATGATTACTTTCCATCATACCAAATGCTACCCAAAAATATCATGAAGAC
116347277 CTTTATACTAAG
131 CTTTATACTAAG
*
116347289 AGTTAGATTCAAAGGAAAGCAAATAAAATTTGACATACCAAACGTTAGAATCACTCTCCAGTTGA
1 AGTTAGATTCAAAGGAAAGCAAATAAAATTTGACATACCAAACGTTAGAATCACTCTCCAATTGA
* * *
116347354 TTAAATTTCTAAGAAAGTGATTACTTTCCATCATACCAAATGCTACCCAAAAATATCATGGAGGC
66 TTAAATTTCTAAGAAAATGATTACTTTCCATCATACCAAATGCTACCCAAAAATATCATGAAGAC
116347419 CTTTATACTAAG
131 CTTTATACTAAG
*
116347431 AGTCAGATT
1 AGTTAGATT
116347440 GCATTTTGTC
Statistics
Matches: 141, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 141 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (142 bp):
AGTTAGATTCAAAGGAAAGCAAATAAAATTTGACATACCAAACGTTAGAATCACTCTCCAATTGA
TTAAATTTCTAAGAAAATGATTACTTTCCATCATACCAAATGCTACCCAAAAATATCATGAAGAC
CTTTATACTAAG
Found at i:116350240 original size:26 final size:26
Alignment explanation
Indices: 116350203--116350338 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
116350193 TGATACAAAT
* *
116350203 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
116350229 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
** *
116350255 TGATAATAAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
116350281 TGATAATGGATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
116350307 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
116350333 TAATAA
1 TGATAA
116350339 GAATATCATG
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 99 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:116352408 original size:136 final size:136
Alignment explanation
Indices: 116352124--116352396 Score: 546
Period size: 136 Copynumber: 2.0 Consensus size: 136
116352114 GAGTAGTCTC
116352124 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
116352189 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
116352254 CTGTTA
131 CTGTTA
116352260 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
116352325 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
116352390 CTGTTA
131 CTGTTA
116352396 C
1 C
116352397 TTGAATGGGC
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 137 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:116354109 original size:14 final size:15
Alignment explanation
Indices: 116354090--116354119 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
116354080 ATATCATGTT
116354090 GCATGTTTTG-AATG
1 GCATGTTTTGTAATG
116354104 GCATGTTTTGTAATG
1 GCATGTTTTGTAATG
116354119 G
1 G
116354120 AATAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.20, C:0.07, G:0.30, T:0.43
Consensus pattern (15 bp):
GCATGTTTTGTAATG
Found at i:116355775 original size:35 final size:37
Alignment explanation
Indices: 116355704--116355801 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
116355694 ATAATCTTCA
116355704 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
116355742 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
116355777 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
116355802 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:116355801 original size:17 final size:19
Alignment explanation
Indices: 116355704--116355794 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
116355694 ATAATCTTCA
116355704 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
116355723 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
116355742 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
116355759 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
116355777 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
116355795 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:116355820 original size:22 final size:22
Alignment explanation
Indices: 116355704--116355817 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
116355694 ATAATCTTCA
116355704 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
116355723 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
116355742 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
116355759 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
116355777 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
116355799 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
116355818 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:116356104 original size:17 final size:17
Alignment explanation
Indices: 116356080--116356114 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
116356070 CATGTTTCCC
*
116356080 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
116356098 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
116356115 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:116366419 original size:77 final size:78
Alignment explanation
Indices: 116366187--116366480 Score: 448
Period size: 78 Copynumber: 3.8 Consensus size: 78
116366177 CGAAGAAATA
** * ** * *
116366187 GATTTGGCATCTCCATATTTGACGGAAAGCAGATCGAAGACATAGCAGATCTAACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
*
116366252 GCAGATCTAAGAT
66 GCAGATCAAAGAT
* * *
116366265 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
116366330 GCAGATCAAAGAT
66 GCAGATCAAAGAT
116366343 GATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAAGACATAACAGAT-TAGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
* *
116366406 AGCAGGTCCAAGAT
65 AGCAGATCAAAGAT
116366420 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
116366481 GTGTTTACAT
Statistics
Matches: 199, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
76 1 0.01
77 70 0.35
78 127 0.64
79 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCAAAGAT
Found at i:116366578 original size:44 final size:45
Alignment explanation
Indices: 116366420--116366638 Score: 189
Period size: 44 Copynumber: 4.9 Consensus size: 45
116366410 GGTCCAAGAT
*
116366420 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAG--ATAACA
* * * * * * * * * *
116366467 GATCTGACCT-TCATGTGTTTACATC--GAAACAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAAATCGAAGATAACA
* *
116366512 GATTTGGCATCT-TGTATTAGACGGAGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
* * *
116366556 -ATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
* *
116366599 GATTTGGCGTCTCTGTATTAGACGGGGAGCAAATCAAAGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGA
116366639 CAGCAGATAT
Statistics
Matches: 134, Mismatches: 30, Indels: 19
0.73 0.16 0.10
Matches are distributed among these distances:
42 1 0.01
43 18 0.13
44 74 0.55
45 12 0.09
46 3 0.02
47 21 0.16
48 4 0.03
49 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
Found at i:116367009 original size:17 final size:19
Alignment explanation
Indices: 116366987--116367029 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
116366977 ATGGAAATAT
116366987 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
116367004 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
116367023 AATCTTA
1 AATCTTA
116367030 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:116367019 original size:19 final size:19
Alignment explanation
Indices: 116366995--116367031 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
116366985 ATAATCTTCA
116366995 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
116367014 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
116367032 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:116367057 original size:22 final size:22
Alignment explanation
Indices: 116366995--116367054 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
116366985 ATAATCTTCA
116366995 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
116367014 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
116367036 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
116367055 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:116367345 original size:17 final size:17
Alignment explanation
Indices: 116367321--116367355 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
116367311 TGTTTCCCGG
*
116367321 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
116367339 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
116367356 GTATCATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:116368683 original size:18 final size:19
Alignment explanation
Indices: 116368660--116368696 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
116368650 GATATGATAC
*
116368660 TAAAAT-TATTAAAAAAAT
1 TAAAATATATAAAAAAAAT
116368678 TAAAATATATAAAAAAAAT
1 TAAAATATATAAAAAAAAT
116368697 AGGGAAGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAATATATAAAAAAAAT
Found at i:116368984 original size:22 final size:21
Alignment explanation
Indices: 116368949--116369022 Score: 64
Period size: 22 Copynumber: 3.6 Consensus size: 21
116368939 ATAAGATATC
* *
116368949 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
116368970 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
116368993 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
116369012 TGC-AATCATAT
1 TACAAATCATAT
116369023 ATAAGATTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:116369009 original size:19 final size:19
Alignment explanation
Indices: 116368985--116369075 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
116368975 AATCATATCT
116368985 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
116369004 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
116369022 TATAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
116369039 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
*
116369058 TCTACGATTGCATATCAT
1 TCTAAGATTGCATATCAT
116369076 TGAAGATTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
17 15 0.23
18 15 0.23
19 35 0.54
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:116369039 original size:35 final size:37
Alignment explanation
Indices: 116368987--116369075 Score: 119
Period size: 35 Copynumber: 2.4 Consensus size: 37
116368977 TCATATCTTC
116368987 TAAGATTGCATATCATATCTAAGATTGCA-ATCATATA
1 TAAGATTG-ATATCATATCTAAGATTGCATATCATATA
* *
116369024 TAAGATTG-TATCATATCTAAGATTGTATATCATATC
1 TAAGATTGATATCATATCTAAGATTGCATATCATATA
*
116369060 TACGATTGCATATCAT
1 TAAGATTG-ATATCAT
116369076 TGAAGATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
35 18 0.39
36 14 0.30
37 8 0.17
38 6 0.13
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.38
Consensus pattern (37 bp):
TAAGATTGATATCATATCTAAGATTGCATATCATATA
Found at i:116369683 original size:42 final size:42
Alignment explanation
Indices: 116369631--116369728 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
116369621 TTTTTTCAAT
* *
116369631 TCTTACGAGCTTTTGTTTAACTCTTACGAGTTTCTATTCAGC
1 TCTTACGAGCTTCTGTTCAACTCTTACGAGTTTCTATTCAGC
* * * * *
116369673 TCTTATGAGCTTCTGTTCAACTTTTATGAGTTTCTGTTTAGC
1 TCTTACGAGCTTCTGTTCAACTCTTACGAGTTTCTATTCAGC
116369715 TCTTACGAGCTTCT
1 TCTTACGAGCTTCT
116369729 ATTTAGTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.47
Consensus pattern (42 bp):
TCTTACGAGCTTCTGTTCAACTCTTACGAGTTTCTATTCAGC
Found at i:116369728 original size:21 final size:21
Alignment explanation
Indices: 116369631--116369750 Score: 100
Period size: 21 Copynumber: 5.8 Consensus size: 21
116369621 TTTTTTCAAT
* *
116369631 TCTTACGAGCTTTTGTTTAAC
1 TCTTACGAGCTTCTGTTTAGC
* * *
116369652 TCTTACGAGTTTCTATTCAGC
1 TCTTACGAGCTTCTGTTTAGC
* * *
116369673 TCTTATGAGCTTCTGTTCAAC
1 TCTTACGAGCTTCTGTTTAGC
* * *
116369694 TTTTATGAGTTTCTGTTTAGC
1 TCTTACGAGCTTCTGTTTAGC
*
116369715 TCTTACGAGCTTCTATTTAG-
1 TCTTACGAGCTTCTGTTTAGC
* *
116369735 T-TTTCGGGCTTCTGTT
1 TCTTACGAGCTTCTGTT
116369751 GCAGCATTTG
Statistics
Matches: 79, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
19 12 0.15
20 1 0.01
21 66 0.84
ACGTcount: A:0.16, C:0.19, G:0.17, T:0.48
Consensus pattern (21 bp):
TCTTACGAGCTTCTGTTTAGC
Found at i:116372086 original size:31 final size:30
Alignment explanation
Indices: 116372047--116372105 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
116372037 TTTCACAATA
*
116372047 GAGGTTTTGGCAACCAATTTTTCCAAAACT
1 GAGGTTTTGGCAACCAATTTTGCCAAAACT
*
116372077 GAGGCTTTTGGTAACCAATTTTGCCAAAA
1 GAGG-TTTTGGCAACCAATTTTGCCAAAA
116372106 ATATTTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (30 bp):
GAGGTTTTGGCAACCAATTTTGCCAAAACT
Found at i:116373288 original size:31 final size:30
Alignment explanation
Indices: 116373250--116373309 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
116373240 ATTACCGAAT
116373250 TAAACCTAAAAAAAAGGCTTAGGAACCAAAC
1 TAAACCTAAAAAAAA-GCTTAGGAACCAAAC
*
116373281 TAAACCTAAAAAAAAGCTTAGGTACCAAA
1 TAAACCTAAAAAAAAGCTTAGGAACCAAA
116373310 TTAGCAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 13 0.46
31 15 0.54
ACGTcount: A:0.55, C:0.18, G:0.12, T:0.15
Consensus pattern (30 bp):
TAAACCTAAAAAAAAGCTTAGGAACCAAAC
Found at i:116373294 original size:30 final size:31
Alignment explanation
Indices: 116373250--116373309 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
116373240 ATTACCGAAT
*
116373250 TAAACCTAAAAAAAAGGCTTAGGAACCAAAC
1 TAAACCTAAAAAAAAAGCTTAGGAACCAAAC
*
116373281 TAAACCT-AAAAAAAAGCTTAGGTACCAAA
1 TAAACCTAAAAAAAAAGCTTAGGAACCAAA
116373310 TTAGCAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.55, C:0.18, G:0.12, T:0.15
Consensus pattern (31 bp):
TAAACCTAAAAAAAAAGCTTAGGAACCAAAC
Found at i:116378905 original size:3 final size:3
Alignment explanation
Indices: 116378897--116378943 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
116378887 ATTCGATCTT
116378897 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
116378944 TAAAATATTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:116380549 original size:151 final size:148
Alignment explanation
Indices: 116380305--116380720 Score: 514
Period size: 152 Copynumber: 2.8 Consensus size: 148
116380295 AAGTCAAAAC
116380305 TTTATTTTGAAATAGTT-AAAAAAATCAAAACTTTGTTTTAAAAATTTAAAG-TTTCCTTTAAAA
1 TTTATTTTGAAATAGTTGAAAAAAATCAAAACTTTGTTTTAAAAATTT-AAGCTTTCCTTTAAAA
* * * *
116380368 TGACTTTTATAAATAGATTTTATTTCTCAAAATCTAAACTTTCTCTTTTTTTTTAGAAAAAACAC
65 TAAC--TAAAAAATAGATTTTATTTTTCAAAATCTAAACTTTCTCTTTTTTTTT--AAAAAACAC
116380433 TATTTTTCTTAAAGATTAAAGCT
126 TATTTTTCTTAAAGATTAAAGCT
* * * *
116380456 TTTATTTTGAAGTAGTTGAAAAAAATTAAAATTTTGTTTTAAAAATTTAAGCTTTCCTTTAGAAT
1 TTTATTTTGAAATAGTTGAAAAAAATCAAAACTTTGTTTTAAAAATTTAAGCTTTCCTTTAAAAT
* * * **
116380521 AACTAAAAAATAGATTTTTATTTTTCAAAATCAAAACTTTTTCATTTTTTTTTAAGAAGTACTAT
66 AACTAAAAAATAGA-TTTTATTTTTCAAAATCTAAACTTTCTC-TTTTTTTTTAAAAAACACTAT
116380586 TTTTCTTAAAGATTAAAGCT
129 TTTTCTTAAAGATTAAAGCT
* * * *
116380606 TCTACTTTGAAATAGTTGAAAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAA
1 TTTATTTTGAAATAGTTG--AAAAAAATCAAAACTTTGTTTTAAAAATTTAAGCTTTCCTTTAAA
* * **
116380671 ATAACTAAAAGAAAAAAAAATTATTTGTT-AAAATCTAAACTTTCTCTTTT
64 ATAACT-AAA-AAATAGATTTTATTT-TTCAAAATCTAAACTTTCTCTTTT
116380721 GTAAAAAAAA
Statistics
Matches: 229, Mismatches: 27, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
150 53 0.23
151 44 0.19
152 101 0.44
153 24 0.10
154 7 0.03
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (148 bp):
TTTATTTTGAAATAGTTGAAAAAAATCAAAACTTTGTTTTAAAAATTTAAGCTTTCCTTTAAAAT
AACTAAAAAATAGATTTTATTTTTCAAAATCTAAACTTTCTCTTTTTTTTTAAAAAACACTATTT
TTCTTAAAGATTAAAGCT
Found at i:116381065 original size:3 final size:3
Alignment explanation
Indices: 116381059--116381122 Score: 101
Period size: 3 Copynumber: 21.0 Consensus size: 3
116381049 AATGATGATG
116381059 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
116381107 TTTA CTA ATA ATA ATA
1 -ATA ATA ATA ATA ATA
116381123 GTAGTAGTAG
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 55 0.96
4 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:116381581 original size:42 final size:42
Alignment explanation
Indices: 116381502--116381725 Score: 254
Period size: 42 Copynumber: 5.4 Consensus size: 42
116381492 AAGTAAACTA
** ** *
116381502 GAAAAGTAAACAGACCTCC-CACCTAAGTCTCTAAATGCAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
* *
116381543 GAAAAGTCAAAT-GACCTCCACACCTGGGCCCCCAAATGCAAT
1 GAAAAGT-AAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
* * * *
116381585 GTAAAGTCAATGGACCTCCATACCTGGGTCTCTAAATGCAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
* * * *
116381627 GGAAAGTGAATGGACCTCAACACCCGGGCCTCTAAATGCAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
* *
116381669 GAAAAGTAAATGGACCTCCACACCTGTGCCTCTAAATGCATT
1 GAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
* *
116381711 AAAAAGTGAATGGAC
1 GAAAAGTAAATGGAC
116381726 TTTCATTTCA
Statistics
Matches: 154, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
41 17 0.11
42 137 0.89
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (42 bp):
GAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
Found at i:116389227 original size:4 final size:4
Alignment explanation
Indices: 116389205--116389238 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
116389195 TGAATAAACA
* *
116389205 AATG AACG AATG GATG AATG AATG AATG AATG AA
1 AATG AATG AATG AATG AATG AATG AATG AATG AA
116389239 CAAAATTGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.26, T:0.21
Consensus pattern (4 bp):
AATG
Found at i:116393019 original size:132 final size:132
Alignment explanation
Indices: 116392759--116393106 Score: 375
Period size: 132 Copynumber: 2.6 Consensus size: 132
116392749 TAGAAAATAC
* * * *
116392759 GAGTGAAATTTCGAAGAGACATTCGATTATTTTGAACAAAC-AGGAGAGTGCAACCCAGCACGAT
1 GAGTGAAATTCCGAAGAGATATTCGATTATTTTGAACAAACGA-GAAAGCGCAACCCAGCACGAT
* * * ** *
116392823 AGGGCACTATTCCCCGAATTTCCAAACATCAAACATTTCTTTCATTTTTAAGAGTTTTTAG-AAA
65 AGGGCACGATT-CTCGAATTGCCAAACATCAAACATACCTTTCATTTTAAAGAGTTTTTAGAAAA
**
116392887 ATGT
129 ACAT
* *
116392891 GAGTGAAATTCCGAAGAGATATTCGATTATTTTGAACAAACGAAAAAGCGCAACCCAGCACGGTA
1 GAGTGAAATTCCGAAGAGATATTCGATTATTTTGAACAAACGAGAAAGCGCAACCCAGCACGATA
* * * * * *
116392956 GGGCACGATTTTCGAATTGCCAAACATCGAACGTCACCTTT-GTTTTAAAGGGTTTTCTTGAAAA
66 GGGCACGATTCTCGAATTGCCAAACATCAAACAT-ACCTTTCATTTTAAAGAGTTTT-TAGAAAA
116393020 ACAT
129 ACAT
* * * *
116393024 GAGTGAAA-ACCTAA-AGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGA
1 GAGTGAAATTCCGAAGA-G-ATATTCGATTATTTTGAACAAACGAGAAAGCGCAACCCAGCACGA
*
116393087 TAGGGCATG-TTCTCGAATTG
64 TAGGGCACGATTCTCGAATTG
116393107 TTAAACACTG
Statistics
Matches: 182, Mismatches: 28, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
131 32 0.18
132 87 0.48
133 63 0.35
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (132 bp):
GAGTGAAATTCCGAAGAGATATTCGATTATTTTGAACAAACGAGAAAGCGCAACCCAGCACGATA
GGGCACGATTCTCGAATTGCCAAACATCAAACATACCTTTCATTTTAAAGAGTTTTTAGAAAAAC
AT
Found at i:116394032 original size:2 final size:2
Alignment explanation
Indices: 116394027--116394072 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
116394017 TTTAAGGTAG
116394027 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116394068 AT AT A
1 AT AT A
116394073 AGATACATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:116394185 original size:32 final size:33
Alignment explanation
Indices: 116394117--116394188 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
116394107 GGTAATAAAT
*
116394117 AAAATAT-TTTAAAATAAACAAATAAAGTTTTA
1 AAAATATATTTAAAATAAACAAATAAAGTGTTA
* *
116394149 AAAATATATTTAAAATAAA-ATATAAA-TAGTTC
1 AAAATATATTTAAAATAAACAAATAAAGT-GTTA
116394181 AAAATATA
1 AAAATATA
116394189 ATACATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 1 0.03
32 23 0.66
33 11 0.31
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (33 bp):
AAAATATATTTAAAATAAACAAATAAAGTGTTA
Found at i:116394225 original size:2 final size:2
Alignment explanation
Indices: 116394218--116394246 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
116394208 AAATGGAACA
116394218 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116394247 AAGGTTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:116397813 original size:17 final size:17
Alignment explanation
Indices: 116397791--116397826 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
116397781 TTATCATTTC
116397791 TCTAACTAATTCTATCA
1 TCTAACTAATTCTATCA
116397808 TCTAACTAATTCTATCA
1 TCTAACTAATTCTATCA
116397825 TC
1 TC
116397827 ATGAACCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (17 bp):
TCTAACTAATTCTATCA
Found at i:116398457 original size:20 final size:21
Alignment explanation
Indices: 116398431--116398480 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
116398421 TTAACATGAA
116398431 TTAAAAATTCATAAAAAGTTA-
1 TTAAAAATT-ATAAAAAGTTAT
116398452 TTAAAAATTATAAAAAGTTAT
1 TTAAAAATTATAAAAAGTTAT
116398473 TTAAAAAT
1 TTAAAAAT
116398481 ATAGAGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (21 bp):
TTAAAAATTATAAAAAGTTAT
Found at i:116398683 original size:15 final size:15
Alignment explanation
Indices: 116398663--116398695 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
116398653 TATTAAAAAT
116398663 AAATAAAAGGTTATA
1 AAATAAAAGGTTATA
116398678 AAATAAAAGGTTATA
1 AAATAAAAGGTTATA
116398693 AAA
1 AAA
116398696 ATTATAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (15 bp):
AAATAAAAGGTTATA
Found at i:116399336 original size:17 final size:18
Alignment explanation
Indices: 116399323--116399429 Score: 89
Period size: 17 Copynumber: 5.9 Consensus size: 18
116399313 TAATCTTCAA
116399323 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
116399342 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
*
116399359 T-ATGATACAATCTTAGA-
1 TGAT-ATGCAATCTTAGAG
* *
116399376 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
116399395 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
116399413 TGATATACAATCTTAGA
1 TGATATGCAATCTTAGA
116399430 AGATATGATT
Statistics
Matches: 80, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
16 2 0.03
17 30 0.38
18 17 0.21
19 29 0.36
20 2 0.03
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:116399347 original size:19 final size:19
Alignment explanation
Indices: 116399322--116399429 Score: 163
Period size: 19 Copynumber: 5.9 Consensus size: 19
116399312 ATAATCTTCA
116399322 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
116399341 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
116399360 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
116399377 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
116399394 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
116399412 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
116399430 AGATATGATT
Statistics
Matches: 83, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
17 33 0.40
18 16 0.19
19 34 0.41
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:116405694 original size:7 final size:7
Alignment explanation
Indices: 116405677--116405722 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
116405667 CTATTTCAAA
116405677 AAAAAAGG
1 AAAAAA-G
116405685 AAAAAAG
1 AAAAAAG
*
116405692 AAAGAA-
1 AAAAAAG
116405698 AAAAAA-
1 AAAAAAG
*
116405704 TAAAAAG
1 AAAAAAG
116405711 AAAAAAG
1 AAAAAAG
116405718 AAAAA
1 AAAAA
116405723 TGGAGAGGCG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 10 0.30
7 17 0.52
8 6 0.18
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:116405695 original size:12 final size:10
Alignment explanation
Indices: 116405674--116405722 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 10
116405664 CTTCTATTTC
116405674 AAAAAAAAAGG
1 AAAAAAAAA-G
116405685 AAAAAAGAAAG
1 AAAAAA-AAAG
*
116405696 AAAAAAAATAA
1 AAAAAAAA-AG
116405707 AAAGAAAAAAG
1 AAA-AAAAAAG
116405718 AAAAA
1 AAAAA
116405723 TGGAGAGGCG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 4 0.12
11 21 0.64
12 8 0.24
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:116405701 original size:13 final size:13
Alignment explanation
Indices: 116405674--116405722 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
116405664 CTTCTATTTC
*
116405674 AAAAA-AAAAGGA
1 AAAAAGAAAAAGA
116405686 AAAAAGAAAGAA-A
1 AAAAAGAAA-AAGA
*
116405699 AAAAATAAAAAGA
1 AAAAAGAAAAAGA
116405712 AAAAAGAAAAA
1 AAAAAGAAAAA
116405723 TGGAGAGGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 7 0.23
13 23 0.74
14 1 0.03
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:116405708 original size:19 final size:19
Alignment explanation
Indices: 116405686--116405723 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
116405676 AAAAAAAGGA
116405686 AAAAAGAAAGAAA-AAAAAT
1 AAAAAGAAA-AAAGAAAAAT
116405705 AAAAAGAAAAAAGAAAAAT
1 AAAAAGAAAAAAGAAAAAT
116405724 GGAGAGGCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (19 bp):
AAAAAGAAAAAAGAAAAAT
Found at i:116405717 original size:22 final size:21
Alignment explanation
Indices: 116405675--116405722 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
116405665 TTCTATTTCA
* *
116405675 AAAAAAAAGGAAAAAAGAAAG
1 AAAAAAAAGAAAAAAAAAAAG
*
116405696 AAAAAAAATAAAAAGAAAAAAG
1 AAAAAAAAGAAAAA-AAAAAAG
116405718 AAAAA
1 AAAAA
116405723 TGGAGAGGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (21 bp):
AAAAAAAAGAAAAAAAAAAAG
Found at i:116407021 original size:205 final size:205
Alignment explanation
Indices: 116406663--116407827 Score: 2019
Period size: 205 Copynumber: 5.7 Consensus size: 205
116406653 GATCTGGCTA
* *
116406663 AAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATT
1 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
* * *
116406728 TGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
66 TGGCTTTCACGTGCTTACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
116406793 CAAATCGAAGTTTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGAT
131 CAAATCGAAGTTTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGAT
116406858 GTTTATACTG
196 GTTTATACTG
** *
116406868 AAATAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAATAAATCGAAGACATAGCTGATT
1 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
* *
116406933 TGGCTTTCACGTGTTTACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGCCAGAGAA
66 TGGCTTTCACGTGCTTACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
*
116406998 CAAATCGAAGTTTGGCATCTCCATTTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGAT
131 CAAATCGAAGTTTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGAT
*
116407063 GTTAATACTG
196 GTTTATACTG
*
116407073 AAGCAGATCCAAGATGGTTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
1 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
*
116407138 TGGCTTTCACGTGCTTACGA-TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGCCAGAGA
66 TGGCTTTCACGTGCTTAC-ACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
116407202 ACAAATCGAAGTTTGGCATCACCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGA
130 ACAAATCGAAGTTTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGA
116407267 TGTTTATACTG
195 TGTTTATACTG
*
116407278 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATT
1 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
* *
116407343 TGGCTTTCACGTGCTTACAATGAAGCAAATCTAAGATGATTTGGCATCTCTATATTGTCAGAGAA
66 TGGCTTTCACGTGCTTACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
* * *
116407408 CAAATTGAAGTCTGGCATCTCCATTTCGACGAAGAGCAGATACATAGCAGATCTAACCTTCAGAT
131 CAAATCGAAGTTTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGAT
116407473 GTTTATACTG
196 GTTTATACTG
116407483 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
1 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
*
116407548 TGGCTTTCACGTGCTTACGA-TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAA
66 TGGCTTTCACGTGCTTAC-ACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* * *
116407612 ACAAATCAAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCAGA
130 ACAAATCGAAGTTTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGA
116407677 TGTTTATACTG
195 TGTTTATACTG
*
116407688 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGGCATAGCTGATT
1 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
* * ** *
116407753 TGGTTTTCGCGTGCTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAA
66 TGGCTTTCACGTGCTTACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
116407818 CAAATCGAAG
131 CAAATCGAAG
116407828 AAACAGATTT
Statistics
Matches: 913, Mismatches: 43, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
204 1 0.00
205 910 1.00
206 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (205 bp):
AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
TGGCTTTCACGTGCTTACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
CAAATCGAAGTTTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGAT
GTTTATACTG
Found at i:116408122 original size:261 final size:261
Alignment explanation
Indices: 116407652--116408148 Score: 755
Period size: 261 Copynumber: 1.9 Consensus size: 261
116407642 TGGAGAGCAG
* *
116407652 ATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
1 ATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGGCATCCTT
* * * * * * *
116407717 GTGCTTACAAGGAACAAATCGAAGGCATAGCTGATTTGGTTTTCGCGTGCTTATGCTGAAGCAAA
66 GTGCTTACAAGGAACAAATCAAAGACACAGCAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAA
* * *
116407782 TCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGAAACAGATTTGGCGTCTCT
131 TCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGAAACAGATTTGGCATCTCT
*
116407847 GTATTCGGCGGAGAGCAGATCGAAGATATCAACAGGACAGTAATAAGTTTACAAGAAGTAGATTA
196 GTATTCGACGGAGAGCAGATCGAAGATATCAACAGGACAGTAATAAGTTTACAAGAAGTAGATTA
116407912 A
261 A
* *
116407913 ATACATAGCAGATCTGACCTTCAGATGATTT-TACTGAAATAGATCCAAGATGATTTGGCATCCT
1 ATACATAGCAGATCTAACCTTCAGATG-TTTATACTGAAACAGATCCAAGATGATTTGGCATCCT
* *
116407977 TGTG-TTCACAAGGAGCAAATCAAAGACACAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCA
65 TGTGCTT-ACAAGGAACAAATCAAAGACACAGCAGATTTGGCTTTCACGTGCTTACGCTGAAGCA
* *
116408041 GATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGAAGCAGATTTGGCATCT
129 AATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGAAACAGATTTGGCATCT
* * * *
116408106 CTGTGTTTGACGGAGAGGAGATCGAAGATATCAACATGACAGT
194 CTGTATTCGACGGAGAGCAGATCGAAGATATCAACAGGACAGT
116408149 CTTGAGTTTG
Statistics
Matches: 211, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
260 2 0.01
261 206 0.98
262 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (261 bp):
ATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGGCATCCTT
GTGCTTACAAGGAACAAATCAAAGACACAGCAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAA
TCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGAAACAGATTTGGCATCTCT
GTATTCGACGGAGAGCAGATCGAAGATATCAACAGGACAGTAATAAGTTTACAAGAAGTAGATTA
A
Found at i:116408437 original size:17 final size:18
Alignment explanation
Indices: 116408415--116408457 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
116408405 ATGGAAATAT
*
116408415 AATCTTCAA-TGATATGC
1 AATCTTAAAGTGATATGC
116408432 AATCTTAAATGTGATATGC
1 AATCTTAAA-GTGATATGC
116408451 AATCTTA
1 AATCTTA
116408458 GATATGATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
19 15 0.65
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCTTAAAGTGATATGC
Found at i:116408448 original size:19 final size:19
Alignment explanation
Indices: 116408423--116408548 Score: 165
Period size: 19 Copynumber: 6.9 Consensus size: 19
116408413 ATAATCTTCA
*
116408423 ATGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
*
116408442 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
116408461 ATGATA--CAATCTTATAT
1 ATGATATGCAATCTTAGAT
116408478 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
116408496 ATGATA--CAATCTCAGAT
1 ATGATATGCAATCTTAGAT
116408513 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
116408531 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
116408549 AGATATGATT
Statistics
Matches: 93, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
17 30 0.32
18 30 0.32
19 33 0.35
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:116408472 original size:17 final size:17
Alignment explanation
Indices: 116408431--116408548 Score: 128
Period size: 17 Copynumber: 6.6 Consensus size: 17
116408421 CAATGATATG
* *
116408431 CAATCTTAAATGTGATA
1 CAATCTTAGATATGATA
116408448 TGCAATCTTAGATATGATA
1 --CAATCTTAGATATGATA
* *
116408467 CAATCTTATATATGATTG
1 CAATCTTAGATATGA-TA
116408485 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
* *
116408502 CAATCTCAGATATGATTG
1 CAATCTTAGATATGA-TA
116408520 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
116408539 CAATCTTAGA
1 CAATCTTAGA
116408549 AGATATGATT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
17 29 0.34
18 29 0.34
19 26 0.31
20 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:116408492 original size:35 final size:35
Alignment explanation
Indices: 116408431--116408546 Score: 169
Period size: 35 Copynumber: 3.2 Consensus size: 35
116408421 CAATGATATG
*
116408431 CAATCTTAAATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAAATATGAT-TGCAATCTTAGATATGATA
*
116408467 CAATCTTATATATGATTGCAATCTTAGATATGATA
1 CAATCTTAAATATGATTGCAATCTTAGATATGATA
* *
116408502 CAATCTCAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAAATATGATTGCAATCTTAGATATG--ATA
116408539 CAATCTTA
1 CAATCTTA
116408547 GAAGATATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 49 0.67
36 14 0.19
37 10 0.14
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (35 bp):
CAATCTTAAATATGATTGCAATCTTAGATATGATA
Found at i:116409588 original size:20 final size:20
Alignment explanation
Indices: 116409565--116409685 Score: 63
Period size: 21 Copynumber: 6.0 Consensus size: 20
116409555 TCTATACTTT
116409565 TTTTTATAAATTTTATAATA
1 TTTTTATAAATTTTATAATA
* *
116409585 TTTTTCTAAACAAATTTTATAACA
1 -TTTT-T--ATAAATTTTATAATA
* *
116409609 --TTTAAAAATTTTCT-ATA
1 TTTTTATAAATTTTATAATA
**
116409626 TTTTTATTAGTTTTTATAAT-
1 TTTTTA-TAAATTTTATAATA
*
116409646 TATTTATAAATTTCTAATAAT-
1 TTTTTATAAATTT-T-ATAATA
* *
116409667 TTTTAATGAATTTTATAAT
1 TTTTTATAAATTTTATAAT
116409686 TCATGTTAAA
Statistics
Matches: 76, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
17 2 0.03
18 9 0.12
19 14 0.18
20 14 0.18
21 23 0.30
22 1 0.01
24 13 0.17
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTATAAATTTTATAATA
Found at i:116412354 original size:10 final size:9
Alignment explanation
Indices: 116412335--116412368 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
116412325 AATAGACATG
116412335 AAAATAAAT
1 AAAATAAAT
116412344 AAAACTAAAT
1 AAAA-TAAAT
116412354 AAGAATAAAT
1 AA-AATAAAT
116412364 AAAAT
1 AAAAT
116412369 TACACAAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.30
10 14 0.61
11 2 0.09
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (9 bp):
AAAATAAAT
Found at i:116413259 original size:145 final size:147
Alignment explanation
Indices: 116412946--116413350 Score: 582
Period size: 145 Copynumber: 2.7 Consensus size: 147
116412936 GCAATAATTA
* *
116412946 AAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTCTAAAATGACTTAAAAAAATATATT
1 AAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTCTAAAATAAC-TAAAAAAACATATT
*
116413011 TTTATTTTTCAAAATCTAAACTTTCTCCTTTTTTTATTAAAAAAATACTATTTTTCTTAAAGATT
65 TTTATTTTTCAAAATCTAAACTTTCT-C--TTTTTA--AAAAAAACACTATTTTTCTTAAAGATT
** *
116413076 AAAGCTTTTATTTTGAAGTAGTTG
125 -AAGCTTTTACCTTGAAATAGTTG
* *
116413100 AAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTGTAAAATAACTAAAAAAACATATTT
1 AAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTCTAAAATAACTAAAAAAACATATTT
116413165 TTATTTTTCAAAATCTAAACTTTCTC-TTTTAAAAAAAACACTATTTTTCTTAAAGATT-AGCTT
66 TTATTTTTCAAAATCTAAACTTTCTCTTTTTAAAAAAAACACTATTTTTCTTAAAGATTAAGCTT
116413228 TTACCTTGAAATAGTTG
131 TTACCTTGAAATAGTTG
* * * * *
116413245 AAAAAAATCAAAACTTTGTTTTAAAAATTTAAAATTTCATTTAAAATAACTAAAAAATACAGATT
1 AAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTCTAAAATAACTAAAAAA-ACATATT
116413310 TTTATTTATT-AAAATCTAAACTTTCTCTTTTGTAAAAAAAA
65 TTTATTT-TTCAAAATCTAAACTTTCTCTTTT-TAAAAAAAA
116413351 AATCAAAACT
Statistics
Matches: 233, Mismatches: 14, Indels: 14
0.89 0.05 0.05
Matches are distributed among these distances:
145 71 0.30
146 30 0.13
147 31 0.13
148 9 0.04
149 5 0.02
152 1 0.00
153 39 0.17
154 47 0.20
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (147 bp):
AAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTCTAAAATAACTAAAAAAACATATTT
TTATTTTTCAAAATCTAAACTTTCTCTTTTTAAAAAAAACACTATTTTTCTTAAAGATTAAGCTT
TTACCTTGAAATAGTTG
Found at i:116413395 original size:145 final size:142
Alignment explanation
Indices: 116412947--116413396 Score: 464
Period size: 145 Copynumber: 3.0 Consensus size: 142
116412937 CAATAATTAA
* *
116412947 AAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTCTAAAATGACTTAAAAAAATATATTT
1 AAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTCTAAAATAAC-TAAAAAAACATATTT
*
116413012 TTATTTTTCAAAATCTAAACTTTCTCCTTTTTTTATTAAAAAAAT-ACTATTTTTCTTAAAGATT
65 TTATTTTTCAAAATCTAAACTTTCT-C--TTTTTA-AAAAAAAATCACTATTTTTCTTAAAGATT
* *
116413076 AAAGCTTTTATTTTGAAGTAGTTGA
126 --AGCCTTT-TTTT-AA--A-TT-T
* *
116413101 AAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTGTAAAATAACTAAAAAAACATATTTT
1 AAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTCTAAAATAACTAAAAAAACATATTTT
116413166 TATTTTTCAAAATCTAAACTTTCTC-TTTT-AAAAAAAA-CACTATTTTTCTTAAAGATTAG-CT
66 TATTTTTCAAAATCTAAACTTTCTCTTTTTAAAAAAAAATCACTATTTTTCTTAAAGATTAGCCT
*
116413227 TTTACCTTGAAATAGTT
131 TTT---TTTAAAT--TT
* * * * *
116413244 GAAAAAAATCAAAACTTTGTTTTAAAAATTTAAAATTTCATTTAAAATAACTAAAAAATACAGAT
1 --AAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTCTAAAATAACTAAAAAA-ACATAT
** * **
116413309 TTTTATTTATT-AAAATCTAAACTTTCTCTTTTGTAAAAAAAAAATCAAAACTTTTCCCAAA-AT
63 TTTTATTT-TTCAAAATCTAAACTTTCTCTTTT-T-AAAAAAAAATCACTATTTTTCTTAAAGAT
116413372 TAGGCCTTTTTTTAAATTT
125 TA-GCCTTTTTTTAAATTT
116413391 AAAAAA
1 AAAAAA
116413397 AAGAAAGAAA
Statistics
Matches: 259, Mismatches: 20, Indels: 43
0.80 0.06 0.13
Matches are distributed among these distances:
142 1 0.00
143 2 0.01
144 4 0.02
145 61 0.24
146 32 0.12
147 33 0.13
148 1 0.00
149 10 0.04
150 12 0.05
151 12 0.05
152 6 0.02
153 39 0.15
154 46 0.18
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.41
Consensus pattern (142 bp):
AAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTCTAAAATAACTAAAAAAACATATTTT
TATTTTTCAAAATCTAAACTTTCTCTTTTTAAAAAAAAATCACTATTTTTCTTAAAGATTAGCCT
TTTTTTAAATTT
Found at i:116413800 original size:11 final size:11
Alignment explanation
Indices: 116413786--116413810 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
116413776 TCAAAAAAAG
116413786 AAAGAAAATAA
1 AAAGAAAATAA
116413797 AAAGAAAATAA
1 AAAGAAAATAA
116413808 AAA
1 AAA
116413811 ATAAAAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAGAAAATAA
Found at i:116421707 original size:16 final size:16
Alignment explanation
Indices: 116421688--116421725 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
116421678 CACCGGCATA
*
116421688 AAGCCTGCTAGGCAAC
1 AAGCCTGATAGGCAAC
*
116421704 AAGCCTGATAGGCAAT
1 AAGCCTGATAGGCAAC
116421720 AAGCCT
1 AAGCCT
116421726 AATATCACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (16 bp):
AAGCCTGATAGGCAAC
Found at i:116421711 original size:41 final size:41
Alignment explanation
Indices: 116421633--116421712 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
116421623 AGCCTAGTAT
* * * *
116421633 AATACACTGGCACAGAGCCTGCTAGGTAATAAACCTGATTC
1 AATACACCGGCACAAAGCCTGCTAGGCAACAAACCTGATTC
* *
116421674 AATACACCGGCATAAAGCCTGCTAGGCAACAAGCCTGAT
1 AATACACCGGCACAAAGCCTGCTAGGCAACAAACCTGAT
116421713 AGGCAATAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (41 bp):
AATACACCGGCACAAAGCCTGCTAGGCAACAAACCTGATTC
Found at i:116435667 original size:44 final size:44
Alignment explanation
Indices: 116435598--116435716 Score: 202
Period size: 44 Copynumber: 2.7 Consensus size: 44
116435588 CATGACATAG
*
116435598 GATTCCGATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
1 GATTCTGATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
*
116435642 GATTTTGATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
1 GATTCTGATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
* *
116435686 GCTTCTAATATATGTGTGCGAGTAAGACCAT
1 GATTCTGATATATGTGTGCGAGTAAGACCAT
116435717 ATCTGGGACA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (44 bp):
GATTCTGATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
Found at i:116443776 original size:44 final size:44
Alignment explanation
Indices: 116443713--116443829 Score: 198
Period size: 44 Copynumber: 2.7 Consensus size: 44
116443703 CATGACATAG
*
116443713 GATTCCAATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
1 GATTCTAATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
* *
116443757 GATTCTAATATATATGTGCGAGTACGACCATGGCATCGATATGT
1 GATTCTAATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
*
116443801 GCTTCTAATATATGTGTGCGAGTAAGACC
1 GATTCTAATATATGTGTGCGAGTAAGACC
116443830 CTGTCTGGGA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (44 bp):
GATTCTAATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
Found at i:116462621 original size:29 final size:30
Alignment explanation
Indices: 116462579--116462664 Score: 103
Period size: 29 Copynumber: 3.0 Consensus size: 30
116462569 ACATTTCTTG
*
116462579 GAAT-TGATTCGGG-CTAGATGGGCCATAT
1 GAATATGATTTGGGCCTAGATGGGCCATAT
116462607 GAATATGATTTGGGCCTA-ATGGGCCATAT
1 GAATATGATTTGGGCCTAGATGGGCCATAT
*
116462636 GAATGA-GA-TTGGGCCTAG-TGGGTCATAT
1 GAAT-ATGATTTGGGCCTAGATGGGCCATAT
116462664 G
1 G
116462665 CATGTATGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
28 23 0.44
29 25 0.48
30 4 0.08
ACGTcount: A:0.26, C:0.13, G:0.33, T:0.29
Consensus pattern (30 bp):
GAATATGATTTGGGCCTAGATGGGCCATAT
Found at i:116462657 original size:28 final size:28
Alignment explanation
Indices: 116462579--116462664 Score: 97
Period size: 28 Copynumber: 3.0 Consensus size: 28
116462569 ACATTTCTTG
116462579 GAAT-TGATTCGGG-CTAGATGGGCCATAT
1 GAATATGATT-GGGCCTAG-TGGGCCATAT
*
116462607 GAATATGATTTGGGCCTAATGGGCCATAT
1 GAATATGA-TTGGGCCTAGTGGGCCATAT
*
116462636 GAATGA-GATTGGGCCTAGTGGGTCATAT
1 GAAT-ATGATTGGGCCTAGTGGGCCATAT
116462664 G
1 G
116462665 CATGTATGTA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
28 23 0.45
29 22 0.43
30 6 0.12
ACGTcount: A:0.26, C:0.13, G:0.33, T:0.29
Consensus pattern (28 bp):
GAATATGATTGGGCCTAGTGGGCCATAT
Found at i:116475439 original size:18 final size:18
Alignment explanation
Indices: 116475420--116475455 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
116475410 CTCTTTGGTA
116475420 TTGTTCTTGAACTCTTTAT
1 TTGTT-TTGAACTCTTTAT
*
116475439 TTGTTTTGAGCTCTTTA
1 TTGTTTTGAACTCTTTA
116475456 AGTAACTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.58
Consensus pattern (18 bp):
TTGTTTTGAACTCTTTAT
Found at i:116478492 original size:55 final size:55
Alignment explanation
Indices: 116478403--116478517 Score: 221
Period size: 55 Copynumber: 2.1 Consensus size: 55
116478393 CATACTGAAA
*
116478403 AATAGGACCGTCGAATAAAATGATAAAAATCTGAGCCTCATTTAACAATTGGCCT
1 AATAAGACCGTCGAATAAAATGATAAAAATCTGAGCCTCATTTAACAATTGGCCT
116478458 AATAAGACCGTCGAATAAAATGATAAAAATCTGAGCCTCATTTAACAATTGGCCT
1 AATAAGACCGTCGAATAAAATGATAAAAATCTGAGCCTCATTTAACAATTGGCCT
116478513 AATAA
1 AATAA
116478518 AGGTAAGTCC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (55 bp):
AATAAGACCGTCGAATAAAATGATAAAAATCTGAGCCTCATTTAACAATTGGCCT
Found at i:116483374 original size:13 final size:14
Alignment explanation
Indices: 116483346--116483375 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
116483336 ATCTCCTTCT
116483346 TTTTCTTTTCTCCC
1 TTTTCTTTTCTCCC
116483360 TTTTCTTTT-TCCC
1 TTTTCTTTTCTCCC
116483373 TTT
1 TTT
116483376 CTTCTCTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTCTTTTCTCCC
Found at i:116483380 original size:15 final size:15
Alignment explanation
Indices: 116483344--116483380 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
116483334 ATATCTCCTT
116483344 CTTTTTCTTTTCTCC
1 CTTTTTCTTTTCTCC
116483359 C-TTTTCTTTT-TCC
1 CTTTTTCTTTTCTCC
116483372 CTTTCTTCT
1 CTTT-TTCT
116483381 CTGTTTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.20
14 11 0.55
15 5 0.25
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
CTTTTTCTTTTCTCC
Found at i:116483464 original size:13 final size:13
Alignment explanation
Indices: 116483443--116483473 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
116483433 TATGTTTTAG
116483443 TTATATTATTATA
1 TTATATTATTATA
*
116483456 TTATCTTATTATA
1 TTATATTATTATA
116483469 TTATA
1 TTATA
116483474 ATAATTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATATTATTATA
Found at i:116485391 original size:15 final size:16
Alignment explanation
Indices: 116485362--116485391 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
116485352 CAAACATGCT
116485362 TTAACACATTATCAAA
1 TTAACACATTATCAAA
116485378 TTAACACA-TATCAA
1 TTAACACATTATCAA
116485392 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:116489382 original size:2 final size:2
Alignment explanation
Indices: 116489375--116489407 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
116489365 AAGTTCATTC
116489375 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
116489408 TATTTATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:116490204 original size:21 final size:21
Alignment explanation
Indices: 116490159--116490206 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
116490149 TCTTGAATTG
** *
116490159 TTTTATTTATACGATTGTTAA
1 TTTTATTTATAAAATTATTAA
*
116490180 TTTTATTTATAAAATTATTAT
1 TTTTATTTATAAAATTATTAA
116490201 TTTTAT
1 TTTTAT
116490207 AATTAAATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTATTTATAAAATTATTAA
Found at i:116490294 original size:20 final size:20
Alignment explanation
Indices: 116490250--116490294 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
116490240 TTATTCAAAA
*
116490250 ATATTTTTATAATTTTGTAT
1 ATATTTTTATAAATTTGTAT
*
116490270 CTATTTTTATAAAATTT-TAT
1 ATATTTTTAT-AAATTTGTAT
116490290 ATATT
1 ATATT
116490295 CCTATCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
ATATTTTTATAAATTTGTAT
Found at i:116490467 original size:35 final size:35
Alignment explanation
Indices: 116490416--116490487 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
116490406 TTAAATTTGT
116490416 TGAACTTTTAAAATTAAAACTAAATTGATAAAATC
1 TGAACTTTTAAAATTAAAACTAAATTGATAAAATC
* *
116490451 TGAATTTTTAAAATTAAAATTAAATTGATAAAATC
1 TGAACTTTTAAAATTAAAACTAAATTGATAAAATC
116490486 TG
1 TG
116490488 TAAATATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.38
Consensus pattern (35 bp):
TGAACTTTTAAAATTAAAACTAAATTGATAAAATC
Found at i:116490482 original size:20 final size:20
Alignment explanation
Indices: 116490424--116490484 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
116490414 GTTGAACTTT
*
116490424 TAAAATTAAAACTAAATTGA
1 TAAAATTAAAATTAAATTGA
*
116490444 TAAAATCT-GAATT---TT--
1 TAAAAT-TAAAATTAAATTGA
116490459 TAAAATTAAAATTAAATTGA
1 TAAAATTAAAATTAAATTGA
116490479 TAAAAT
1 TAAAAT
116490485 CTGTAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 14
0.65 0.06 0.29
Matches are distributed among these distances:
14 1 0.03
15 10 0.32
17 2 0.06
18 2 0.06
20 15 0.48
21 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (20 bp):
TAAAATTAAAATTAAATTGA
Found at i:116491134 original size:5 final size:5
Alignment explanation
Indices: 116491124--116491149 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
116491114 TTTAGTGATT
116491124 CGGGC CGGGC CGGGC CGGGC CGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGGC C
116491150 CTGGCTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:116500867 original size:12 final size:12
Alignment explanation
Indices: 116500852--116500944 Score: 56
Period size: 12 Copynumber: 8.2 Consensus size: 12
116500842 GTTGTTGGTG
116500852 GTGCTGTTTTTT
1 GTGCTGTTTTTT
*
116500864 GTGCTG--TTTG
1 GTGCTGTTTTTT
116500874 GTGCTGTTTTTT
1 GTGCTGTTTTTT
* *
116500886 GTACTG--TTTG
1 GTGCTGTTTTTT
*
116500896 GTGCTGTTTTAAT
1 GTGCTGTTTT-TT
*
116500909 GT--TG-TTTTG
1 GTGCTGTTTTTT
*
116500918 GTGCTATTTTTT
1 GTGCTGTTTTTT
*
116500930 GTGGTGTTTTATT
1 GTGCTGTTTT-TT
116500943 GT
1 GT
116500945 TCTTTCGTAG
Statistics
Matches: 59, Mismatches: 13, Indels: 17
0.66 0.15 0.19
Matches are distributed among these distances:
9 2 0.03
10 20 0.34
11 3 0.05
12 28 0.47
13 6 0.10
ACGTcount: A:0.05, C:0.06, G:0.28, T:0.60
Consensus pattern (12 bp):
GTGCTGTTTTTT
Found at i:116500878 original size:22 final size:22
Alignment explanation
Indices: 116500825--116500938 Score: 117
Period size: 22 Copynumber: 5.1 Consensus size: 22
116500815 TTTGCAGGTT
* *
116500825 TTTGGTGCTG-TTTTGGTGTTG
1 TTTGGTGCTGTTTTTTGTGCTG
116500846 TTGGTGGTGCTGTTTTTTGTGCTG
1 TT--TGGTGCTGTTTTTTGTGCTG
*
116500870 TTTGGTGCTGTTTTTTGTACTG
1 TTTGGTGCTGTTTTTTGTGCTG
*
116500892 TTTGGTGCTGTTTTAATGT--TG
1 TTTGGTGCTGTTTT-TTGTGCTG
* *
116500913 TTTTGGTGCTATTTTTTGTGGTG
1 -TTTGGTGCTGTTTTTTGTGCTG
116500936 TTT
1 TTT
116500939 TATTGTTCTT
Statistics
Matches: 80, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
21 7 0.09
22 49 0.61
23 13 0.16
24 11 0.14
ACGTcount: A:0.04, C:0.06, G:0.32, T:0.59
Consensus pattern (22 bp):
TTTGGTGCTGTTTTTTGTGCTG
Found at i:116500879 original size:10 final size:10
Alignment explanation
Indices: 116500825--116500904 Score: 61
Period size: 10 Copynumber: 7.3 Consensus size: 10
116500815 TTTGCAGGTT
116500825 TTTGGTGCTG
1 TTTGGTGCTG
*
116500835 TTTTGGTGTTG
1 -TTTGGTGCTG
116500846 TTGGTGGTGCTG
1 TT--TGGTGCTG
*
116500858 TTTTTTGTGCTG
1 --TTTGGTGCTG
116500870 TTTGGTGCTG
1 TTTGGTGCTG
* *
116500880 TTTTTTGTACTG
1 --TTTGGTGCTG
116500892 TTTGGTGCTG
1 TTTGGTGCTG
116500902 TTT
1 TTT
116500905 TAATGTTGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
10 22 0.40
11 9 0.16
12 22 0.40
14 2 0.04
ACGTcount: A:0.01, C:0.07, G:0.34, T:0.57
Consensus pattern (10 bp):
TTTGGTGCTG
Found at i:116500893 original size:34 final size:35
Alignment explanation
Indices: 116500822--116500905 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 35
116500812 TATTTTGCAG
* *
116500822 GTTTTTGGTGCTGTTTTGGTGTTGTTGGTGGTGCT
1 GTTTTTGGTGCTGTTTTGGTGCTGTTGGTGGTACT
* ** *
116500857 GTTTTTTGTGCTG-TTTGGTGCTGTTTTTTGTACT
1 GTTTTTGGTGCTGTTTTGGTGCTGTTGGTGGTACT
116500891 G--TTTGGTGCTGTTTT
1 GTTTTTGGTGCTGTTTT
116500906 AATGTTGTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
32 9 0.22
33 3 0.07
34 17 0.41
35 12 0.29
ACGTcount: A:0.01, C:0.07, G:0.33, T:0.58
Consensus pattern (35 bp):
GTTTTTGGTGCTGTTTTGGTGCTGTTGGTGGTACT
Found at i:116501692 original size:33 final size:33
Alignment explanation
Indices: 116501649--116501711 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
116501639 AAGTACCACC
*
116501649 AAAACAACATCA-AAACAGCACCAAACAACTCAA
1 AAAACAACATCACAAACAACACCAAA-AACTCAA
* *
116501682 AAAATAACATCACCAACAACACCAAAAACT
1 AAAACAACATCACAAACAACACCAAAAACT
116501712 TGCAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 15 0.58
34 11 0.42
ACGTcount: A:0.60, C:0.30, G:0.02, T:0.08
Consensus pattern (33 bp):
AAAACAACATCACAAACAACACCAAAAACTCAA
Found at i:116501707 original size:25 final size:25
Alignment explanation
Indices: 116501662--116501709 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
116501652 ACAACATCAA
*
116501662 AACAGCACCAAACAACTCAAAAAAT
1 AACAGCACCAAACAACCCAAAAAAT
*
116501687 AACATCACC-AACAACACCAAAAA
1 AACAGCACCAAACAAC-CCAAAAA
116501710 CTTGCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.60, C:0.31, G:0.02, T:0.06
Consensus pattern (25 bp):
AACAGCACCAAACAACCCAAAAAAT
Found at i:116505032 original size:16 final size:18
Alignment explanation
Indices: 116505013--116505046 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
116505003 GCCCGCGAAA
116505013 ATTTGAGT-TT-AATTTT
1 ATTTGAGTGTTCAATTTT
116505029 ATTTGAGTGTTCAATTTT
1 ATTTGAGTGTTCAATTTT
116505047 TGTCGATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 2 0.12
18 6 0.38
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.59
Consensus pattern (18 bp):
ATTTGAGTGTTCAATTTT
Found at i:116505177 original size:2 final size:2
Alignment explanation
Indices: 116505170--116505202 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
116505160 CTTATACTTT
116505170 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
116505203 CCAATAGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:116509830 original size:80 final size:80
Alignment explanation
Indices: 116509688--116509845 Score: 273
Period size: 80 Copynumber: 2.0 Consensus size: 80
116509678 CTCCATATGG
* *
116509688 AGAAAAGAGAGCACGTTGATGTATTGAGTGTGAGACTTTGAAATTTCTATTGGAAAATGATCTAA
1 AGAAAAGAGAGCACGTTGATGTATTGAGTGCGAAACTTTGAAATTTCTATTGGAAAATGATCTAA
116509753 CAGTCCATTTTCAGC
66 CAGTCCATTTTCAGC
116509768 AGAAAAGAGAGCACGTTGATGTATTGAGTGCGAAACTTTGAAATTTCTATTGGGAAAA-GATCTA
1 AGAAAAGAGAGCACGTTGATGTATTGAGTGCGAAACTTTGAAATTTCTATT-GGAAAATGATCTA
*
116509832 ACATTCCATTTTCA
65 ACAGTCCATTTTCA
116509846 ATTACATCAG
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
80 68 0.92
81 6 0.08
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.31
Consensus pattern (80 bp):
AGAAAAGAGAGCACGTTGATGTATTGAGTGCGAAACTTTGAAATTTCTATTGGAAAATGATCTAA
CAGTCCATTTTCAGC
Found at i:116512973 original size:41 final size:41
Alignment explanation
Indices: 116512928--116513045 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
116512918 TGAAAGATAA
116512928 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
116512969 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
116512999 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
116513040 ATGTAG
1 ATGTAG
116513046 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:116512983 original size:71 final size:71
Alignment explanation
Indices: 116512896--116513059 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
116512886 GAGATGTATC
116512896 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
116512961 AGGACA
66 AGGACA
116512967 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
116513032 AGGACA
66 AGGACA
116513038 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
116513060 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:116528525 original size:38 final size:39
Alignment explanation
Indices: 116528443--116528624 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
116528433 AATGTTCGAG
116528443 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
116528482 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
116528520 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
116528559 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
116528599 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
116528625 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 38 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:116533333 original size:24 final size:26
Alignment explanation
Indices: 116533284--116533333 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
116533274 TAAACATCAA
116533284 AATAATTATAAAATAATTATTTCTAT
1 AATAATTATAAAATAATTATTTCTAT
116533310 AATAATTATAAAA-AA-TATTTCTAT
1 AATAATTATAAAATAATTATTTCTAT
116533334 CTCGAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 9 0.38
25 2 0.08
26 13 0.54
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (26 bp):
AATAATTATAAAATAATTATTTCTAT
Found at i:116540845 original size:41 final size:41
Alignment explanation
Indices: 116540800--116540917 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
116540790 TGAAAGATAA
116540800 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
116540841 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
116540871 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
116540912 ATGTAG
1 ATGTAG
116540918 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:116540855 original size:71 final size:71
Alignment explanation
Indices: 116540768--116540931 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
116540758 GAGATGTATC
116540768 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
116540833 AGGACA
66 AGGACA
116540839 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
116540904 AGGACA
66 AGGACA
116540910 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
116540932 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:116572523 original size:30 final size:31
Alignment explanation
Indices: 116572469--116572532 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
116572459 TTATTAAAAG
116572469 AAATATTAAAATGTATAAAGAAT-AATTAAT
1 AAATATTAAAATGTATAAAGAATAAATTAAT
* * *
116572499 AAATCTTAAAA-GTATAAAATAATAAATTATT
1 AAATATTAAAATGTAT-AAAGAATAAATTAAT
116572530 AAA
1 AAA
116572533 ATTCTATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 4 0.14
30 16 0.55
31 9 0.31
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (31 bp):
AAATATTAAAATGTATAAAGAATAAATTAAT
Found at i:116573182 original size:20 final size:20
Alignment explanation
Indices: 116573145--116573185 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
116573135 ATACATGAAA
*
116573145 TTAAAAAAATAACTCTTAAT
1 TTAAAAAAATAACACTTAAT
116573165 TTAAAGAAAATAA-ACTTAAT
1 TTAAA-AAAATAACACTTAAT
116573185 T
1 T
116573186 ATCTAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (20 bp):
TTAAAAAAATAACACTTAAT
Found at i:116573781 original size:17 final size:18
Alignment explanation
Indices: 116573755--116573794 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
116573745 TACTCAACCA
*
116573755 ATTATTTATTTTAA-TTT
1 ATTATATATTTTAATTTT
116573772 ATTATATATTTTAATTTT
1 ATTATATATTTTAATTTT
116573790 ATTAT
1 ATTAT
116573795 GTACATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTATATATTTTAATTTT
Found at i:116583675 original size:20 final size:21
Alignment explanation
Indices: 116583650--116583690 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
116583640 CATGACCTGC
*
116583650 AAACATTTATAAATTA-TTAA
1 AAACATTAATAAATTAGTTAA
*
116583670 AAACATTAATTAATTAGTTAA
1 AAACATTAATAAATTAGTTAA
116583691 TTTGCCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (21 bp):
AAACATTAATAAATTAGTTAA
Found at i:116584862 original size:20 final size:20
Alignment explanation
Indices: 116584837--116584901 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
116584827 CTATAGTTTT
116584837 TTAGGGTTTTGTAAAATAAG
1 TTAGGGTTTTGTAAAATAAG
*
116584857 TTAGGGTTTAGT----T--G
1 TTAGGGTTTTGTAAAATAAG
*
116584871 TTAGGTTTTTGGTAAAATAAG
1 TTAGGGTTTT-GTAAAATAAG
116584892 TTAGGGTTTT
1 TTAGGGTTTT
116584902 AAAGTTTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
14 9 0.26
15 2 0.06
16 1 0.03
19 1 0.03
20 11 0.32
21 10 0.29
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
TTAGGGTTTTGTAAAATAAG
Found at i:116585004 original size:22 final size:24
Alignment explanation
Indices: 116584961--116585013 Score: 83
Period size: 22 Copynumber: 2.3 Consensus size: 24
116584951 AAAAATTATT
*
116584961 TAAATTAAGGTTAATGGTTTTAAA
1 TAAATTAAGGTTAAGGGTTTTAAA
116584985 TAAATTAA-GTT-AGGGTTTTAAA
1 TAAATTAAGGTTAAGGGTTTTAAA
116585007 TAAATTA
1 TAAATTA
116585014 GGGATTGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 17 0.61
23 3 0.11
24 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.42
Consensus pattern (24 bp):
TAAATTAAGGTTAAGGGTTTTAAA
Found at i:116585094 original size:56 final size:54
Alignment explanation
Indices: 116585031--116585522 Score: 202
Period size: 52 Copynumber: 9.1 Consensus size: 54
116585021 GGGTTTATGA
*
116585031 TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTGTAAATAAATTAAGTTAGTG
1 TTTTAAATAGATTAAGTAAATTAGGGTT-TAGGGTT-TAAATAAATTAAGTTAGTG
* * * *
116585087 TTTTAAATA-ACT---TAAATTAGGGTTTAGGGTTT-ATTAAATTAGGATTTATGTT
1 TTTTAAATAGATTAAGTAAATTAGGGTTTAGGGTTTAAATAAATTA--AGTTA-GTG
*
116585139 TTTTAAATAGATTGAGTAAATTAGGGCTTTAGGGTTTTAAATAAATTAAGTTAG-G
1 TTTTAAATAGATTAAGTAAATTAGGG-TTTAGGG-TTTAAATAAATTAAGTTAGTG
* * ** * * * * * *
116585194 TTTT-AA-A-ATAAATTAAATTAACGTTTTGGATTT-ATTAAATTAGGGTTTATATT
1 TTTTAAATAGATTAAGTAAATTAGGGTTTAGGGTTTAAATAAATTA-AG-TTA-GTG
*** * * * *
116585247 TTTTGGTTAAAACTAATTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAG-G
1 TTTTAAAT-AGATTAAGTAAATTAGGGTT-TAGG-GTTTAAATAAATTAAGTTAGTG
* * * * * * *
116585303 GTTT-AA-A-ATAAATTAAATTAGGGTTTTGGGTTT-ATTAAATTAGGCTTA-TAT
1 TTTTAAATAGATTAAGTAAATTAGGGTTTAGGGTTTAAATAAATTAAG-TTAGT-G
*** * * *
116585354 TTTTGGTTCAAATTAATTAAATTAGGTTTCTAGGGTTTTAAATAAATTAAGTTAG-G
1 TTTTAAAT-AGATTAAGTAAATTAGGGTT-TAGGG-TTTAAATAAATTAAGTTAGTG
* * * * *
116585410 GTTTAAACT--A--AATTAAATTAGGGTTTTGGGTTT--ATCAAATTAGGGCTTATGTTT
1 TTTTAAA-TAGATTAAGTAAATTAGGGTTTAGGGTTTAAAT-AAATTA-AG-TTA-G-TG
* *
116585464 TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAATTAGAG
1 TTTTAAATAGATTAAGTAAATTAGGGTT-TAGGG-TTTAAATAAATTAAGTTAGTG
116585520 TTT
1 TTT
116585523 AGGGTTTAAG
Statistics
Matches: 323, Mismatches: 66, Indels: 94
0.67 0.14 0.19
Matches are distributed among these distances:
48 2 0.01
49 31 0.10
50 15 0.05
51 31 0.10
52 65 0.20
53 9 0.03
54 10 0.03
55 23 0.07
56 34 0.11
57 47 0.15
58 25 0.08
59 15 0.05
60 14 0.04
61 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (54 bp):
TTTTAAATAGATTAAGTAAATTAGGGTTTAGGGTTTAAATAAATTAAGTTAGTG
Found at i:116585096 original size:22 final size:22
Alignment explanation
Indices: 116585068--116585111 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
116585058 TCTAGGATTG
* *
116585068 TAAATAAATTAAGTTAGTGTTT
1 TAAATAAATTAAATTAGGGTTT
*
116585090 TAAATAACTTAAATTAGGGTTT
1 TAAATAAATTAAATTAGGGTTT
116585112 AGGGTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (22 bp):
TAAATAAATTAAATTAGGGTTT
Found at i:116585159 original size:108 final size:107
Alignment explanation
Indices: 116584961--116585522 Score: 623
Period size: 109 Copynumber: 5.2 Consensus size: 107
116584951 AAAAATTATT
* *** ** * *
116584961 TAAATTAAGGTTAATGGTTTTAAATAAATTAAGTTAGGGTTTTAAATAAATTAGGGATTGGGGTT
1 TAAATTAA-GTT-A-GGTTTTAAATAAATTAAATTAGGGTTTTGGGTTTATTA--AATTAGGGTT
* * *
116585026 TATG-ATTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTGTAAA
61 TATGTTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAAA
* * *
116585072 TAAATTAAGTTAGTGTTTTAAATAACTTAAATTAGGGTTTAGGGTTTATTAAATTAGGATTTATG
1 TAAATTAAGTTAG-GTTTTAAATAAATTAAATTAGGGTTTTGGGTTTATTAAATTAGGGTTTATG
*
116585137 TTTTTTAAATAGATTGAGTAAATTAGGGCTT-TAGGGTTTTAAA
65 TTTTTTAAATAGATTAAGTAAATTAGGG-TTCTAGGGTTTTAAA
** * *
116585180 TAAATTAAGTTAGGTTTTAAAATAAATTAAATTAACGTTTTGGATTTATTAAATTAGGGTTTATA
1 TAAATTAAGTTAGGTTTT-AAATAAATTAAATTAGGGTTTTGGGTTTATTAAATTAGGGTTTATG
*** * * * *
116585245 TTTTTTGGTTAAAACTAATTAAATTAGGGTTCTAGGATTTTAAA
65 TTTTTTAAAT-AGATTAAGTAAATTAGGGTTCTAGGGTTTTAAA
* *
116585289 TAAATTAAGTTAGGGTTTAAAATAAATTAAATTAGGGTTTTGGGTTTATTAAATTAGGCTTATAT
1 TAAATTAAGTTA-GGTTTTAAATAAATTAAATTAGGGTTTTGGGTTTATTAAATTAGGGTT-TAT
* * *
116585354 -TTTTGGTT-CA-A-ATTAATTAAATTAGGTTTCTAGGGTTTTAAA
64 GTTTT--TTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAAA
* * *
116585396 TAAATTAAGTTAGGGTTTAAACTAAATTAAATTAGGGTTTTGGGTTTATCAAATTAGGGCTTATG
1 TAAATTAAGTTAGGTTTTAAA-TAAATTAAATTAGGGTTTTGGGTTTATTAAATTAGGGTTTATG
116585461 TTTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAAA
65 -TTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAAA
*
116585505 TAAATTAAATTAGAGTTT
1 TAAATTAAGTTAG-GTTT
116585523 AGGGTTTAAG
Statistics
Matches: 384, Mismatches: 50, Indels: 35
0.82 0.11 0.07
Matches are distributed among these distances:
106 12 0.03
107 93 0.24
108 103 0.27
109 152 0.40
110 14 0.04
111 10 0.03
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (107 bp):
TAAATTAAGTTAGGTTTTAAATAAATTAAATTAGGGTTTTGGGTTTATTAAATTAGGGTTTATGT
TTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAAA
Found at i:116585311 original size:22 final size:22
Alignment explanation
Indices: 116585277--116585328 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
116585267 ATTAGGGTTC
* * *
116585277 TAGGATTTTAAATAAATTAAGT
1 TAGGGTTTAAAATAAATTAAAT
116585299 TAGGGTTTAAAATAAATTAAAT
1 TAGGGTTTAAAATAAATTAAAT
116585321 TAGGGTTT
1 TAGGGTTT
116585329 TGGGTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (22 bp):
TAGGGTTTAAAATAAATTAAAT
Found at i:116585412 original size:22 final size:23
Alignment explanation
Indices: 116585384--116585436 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
116585374 ATTAGGTTTC
*
116585384 TAGGGTTTTAAA-TAAATTAAGT
1 TAGGGTTTTAAACTAAATTAAAT
116585406 TAGGG-TTTAAACTAAATTAAAT
1 TAGGGTTTTAAACTAAATTAAAT
116585428 TAGGGTTTT
1 TAGGGTTTT
116585437 GGGTTTATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 6 0.21
22 19 0.68
23 3 0.11
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.42
Consensus pattern (23 bp):
TAGGGTTTTAAACTAAATTAAAT
Found at i:116585486 original size:216 final size:217
Alignment explanation
Indices: 116585031--116585523 Score: 667
Period size: 216 Copynumber: 2.3 Consensus size: 217
116585021 GGGTTTATGA
* * *
116585031 TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTGTAAATAAATTAAGTTAGTGTTTTAAATA
1 TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGAGTTTAAAATA
* *
116585096 ACTTAAATTAGGGTTTAGGGTTTATTAAATTAGGATTTATGTTTTTTAAATAGATTGAGTAAATT
66 AATTAAATTAGGGTTTAGGGTTTATTAAATTAGGATTTATGTTTTTTAAATAGATTAAGTAAATT
*
116585161 AGGGCTTTAGGGTTTTAAATAAATTAAGTTAGGTTTTAAAATAAATTAAATTAACGTTTTGGATT
131 AGGGCTTTAGGGTTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATTAACGTTTTGGATT
* *
116585226 TATTAAATTAGGGTTTATATTT
196 TATCAAATTAGGGCTTATATTT
* * * *
116585248 TTTGGTTAA-A-ACTAATTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAA
1 TTT--TAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGAGTTTAAAA
* * * *
116585311 TAAATTAAATTAGGGTTTTGGGTTTATTAAATTAGGCTTATAT-TTTTGGTT-CA-A-ATTAATT
64 TAAATTAAATTAGGGTTTAGGGTTTATTAAATTAGGATT-TATGTTTT--TTAAATAGATTAAGT
* * **
116585372 AAATTA-GGTTTCTAGGGTTTTAAATAAATTAAGTTAGGGTTTAAACTAAATTAAATTAGGGTTT
126 AAATTAGGGCTT-TAGGGTTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATTAACGTTT
* *
116585436 TGGGTTTATCAAATTAGGGCTTATGTTT
190 TGGATTTATCAAATTAGGGCTTATATTT
* *
116585464 TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAATTAGAGTTTA
1 TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGAGTTTA
116585524 GGGTTTAAGG
Statistics
Matches: 241, Mismatches: 27, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
214 3 0.01
215 5 0.02
216 131 0.54
217 92 0.38
218 5 0.02
219 5 0.02
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (217 bp):
TTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGAGTTTAAAATA
AATTAAATTAGGGTTTAGGGTTTATTAAATTAGGATTTATGTTTTTTAAATAGATTAAGTAAATT
AGGGCTTTAGGGTTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATTAACGTTTTGGATT
TATCAAATTAGGGCTTATATTT
Found at i:116585549 original size:35 final size:37
Alignment explanation
Indices: 116585484--116585559 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 37
116585474 ATTAAGTAAA
* *
116585484 TTAGGGTTCTAGGGTTTTAAATAAATTAAATTAGAGT
1 TTAGGGTTCTAAGGTTTAAAATAAATTAAATTAGAGT
* *
116585521 TTAGGGTT-TAAGG-TTAAAATTAATTAAATTAGGGT
1 TTAGGGTTCTAAGGTTTAAAATAAATTAAATTAGAGT
116585556 TTAG
1 TTAG
116585560 TTTTTTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 23 0.66
36 4 0.11
37 8 0.23
ACGTcount: A:0.36, C:0.01, G:0.22, T:0.41
Consensus pattern (37 bp):
TTAGGGTTCTAAGGTTTAAAATAAATTAAATTAGAGT
Found at i:116585842 original size:119 final size:121
Alignment explanation
Indices: 116585615--116585909 Score: 371
Period size: 119 Copynumber: 2.4 Consensus size: 121
116585605 TTTTACCTTA
* * * *
116585615 AAAAAATATTTTTGAGAAGACGTTTCTAAATAAATAGTGTTAAAAACGCTTCAAGCAGGATGCAT
1 AAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCAAAAACGC-T--A--AGGATGCAA
* * * **
116585680 TGTCAGCAAAAATATAGAAAAAAGCTCCCACATGGACGCTCTTTTGCTATATTAGTTCCTG
61 TGCCAGCAAAAATATAGAAAAAAGCTCCCACATAGACGCTCTTTTGCTACAGCAGTTCCTG
* *
116585741 AAAAAATAAATTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACG-T-AGGATGCAATGCCA
1 AAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCAAAAACGCTAAGGATGCAATGCCA
* * * *
116585804 GC-AAAATTTCTGAAAAAAGCTCCCACGTAGACGCTCTTTTTCTACAGCAGTTCCTG
66 GCAAAAATAT-AGAAAAAAGCTCCCACATAGACGCTCTTTTGCTACAGCAGTTCCTG
*
116585860 AAAAAATAATTTTGAGAAGACGTTTCCAAACAAATAGTGTCAAAAACGCT
1 AAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCAAAAACGCT
116585910 TCAAGCAAGT
Statistics
Matches: 149, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
118 6 0.04
119 98 0.66
120 1 0.01
124 1 0.01
126 43 0.29
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (121 bp):
AAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCAAAAACGCTAAGGATGCAATGCCA
GCAAAAATATAGAAAAAAGCTCCCACATAGACGCTCTTTTGCTACAGCAGTTCCTG
Found at i:116586847 original size:3 final size:3
Alignment explanation
Indices: 116586839--116586863 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
116586829 GGTTCAGATA
116586839 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
116586864 TTCGCGATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:116589455 original size:18 final size:18
Alignment explanation
Indices: 116589432--116589467 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
116589422 AAAAAGGAAA
*
116589432 ATATAAGGGTTAGGATAC
1 ATATAAGGGCTAGGATAC
116589450 ATATAAGGGCTAGGATAC
1 ATATAAGGGCTAGGATAC
116589468 GCACCTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAC
Found at i:116591049 original size:51 final size:52
Alignment explanation
Indices: 116590981--116591096 Score: 171
Period size: 51 Copynumber: 2.2 Consensus size: 52
116590971 AAAAAAATAT
* *
116590981 AAAATAAAAATTAATTAAAATTACATAAAT-AAAAATATTAAATAATATTCA
1 AAAATTAAAATTAATTAAAATTACATAAATGAAAAATATTAAAAAATATTCA
116591032 AAAATTAAAATTAATTAAAATTACATAAATGGAAAAAATATTAAAAAATATTCA
1 AAAATTAAAATTAATTAAAATTACATAAAT-G-AAAAATATTAAAAAATATTCA
**
116591086 AAGCTTAAAAT
1 AAAATTAAAAT
116591097 AAATCGTTAC
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
51 29 0.50
54 29 0.50
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (52 bp):
AAAATTAAAATTAATTAAAATTACATAAATGAAAAATATTAAAAAATATTCA
Found at i:116593607 original size:40 final size:40
Alignment explanation
Indices: 116593552--116593632 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
116593542 AAATTGCAGC
116593552 AATTAGCCCTCCACCCATTAACTCCTTTGATTCTTAAACT
1 AATTAGCCCTCCACCCATTAACTCCTTTGATTCTTAAACT
116593592 AATTAGCCCTCCACCCATTAACTCCTTTGATTCTTAAACT
1 AATTAGCCCTCCACCCATTAACTCCTTTGATTCTTAAACT
116593632 A
1 A
116593633 CTTGCTGCTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.28, C:0.32, G:0.05, T:0.35
Consensus pattern (40 bp):
AATTAGCCCTCCACCCATTAACTCCTTTGATTCTTAAACT
Found at i:116595079 original size:10 final size:10
Alignment explanation
Indices: 116595064--116595094 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
116595054 ATTAGTTTTT
116595064 AATTAATAAA
1 AATTAATAAA
116595074 AATTAATAAA
1 AATTAATAAA
116595084 AATTAAATAAA
1 AATT-AATAAA
116595095 TATATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.70
11 6 0.30
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AATTAATAAA
Found at i:116595272 original size:2 final size:2
Alignment explanation
Indices: 116595267--116595333 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
116595257 GAATATATCC
116595267 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116595309 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
116595334 CCCTAAATAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:116599564 original size:17 final size:17
Alignment explanation
Indices: 116599536--116599569 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
116599526 AACTTTTTAG
116599536 CTTTTTTACATT-ATTT
1 CTTTTTTACATTGATTT
116599552 CTTTTTTACCATTGATTT
1 CTTTTTTA-CATTGATTT
116599570 GAAAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.18, C:0.15, G:0.03, T:0.65
Consensus pattern (17 bp):
CTTTTTTACATTGATTT
Found at i:116622872 original size:48 final size:48
Alignment explanation
Indices: 116622775--116622904 Score: 134
Period size: 48 Copynumber: 2.7 Consensus size: 48
116622765 TATGCACGGA
* **
116622775 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATCTACGAT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAGACGAT
* * * **
116622823 CCCACGTAGGACCATGTCTGGGACATGGTATTGGCATCGGTAGGTGAT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAGACGAT
* * * * * *
116622871 CCCATGTAAAACCATATTTGGGATATGACATTGG
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGG
116622905 TATCCTACCA
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (48 bp):
CCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAGACGAT
Found at i:116629695 original size:48 final size:48
Alignment explanation
Indices: 116629643--116629779 Score: 159
Period size: 48 Copynumber: 2.9 Consensus size: 48
116629633 ATCGATATGT
* * **
116629643 GATCCCTTGTAAGACCATGTTTGGGACATGACATTGGCATCGATCTAC
1 GATCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCAATAGAC
* * **
116629691 GATCCCATGTAAGACCATGTCTGGCACATGGA-ATTGGCATCAATAGGT
1 GATCCCATGTAAGACCATGTTTGGGACAT-GACATTGGCATCAATAGAC
* * *
116629739 GATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTTTGGGACATGACATTGGCATC
116629780 CTACCATGTG
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
47 1 0.01
48 71 0.96
49 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCAATAGAC
Found at i:116631346 original size:37 final size:37
Alignment explanation
Indices: 116631287--116631395 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
116631277 AGCTCAGATG
* *
116631287 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
116631324 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
116631361 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
116631396 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Done.