Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 114 of 214
Found at i:34711088 original size:42 final size:40
Alignment explanation
Indices: 34711042--34711152 Score: 98
Period size: 42 Copynumber: 2.6 Consensus size: 40
34711032 AATCAAAATC
34711042 AAAATCAAAAACAAAAAGAAAAAAAATCAAAGTCAAAAGAAA
1 AAAAT-AAAAACAAAAAGAAAAAAAATCAAAGTCAAAA-AAA
* ** *
34711084 AAAATAAAAATCAATCAA-AACCAAAATCAAAGTCAAAATAA
1 AAAATAAAAA-CAA-AAAGAAAAAAAATCAAAGTCAAAAAAA
* *
34711125 AATATGAAAAGAGAAAAAGAAAAGAAAA
1 AAAAT-AAAA-ACAAAAAGAAAA-AAAA
34711153 GGAGAGGCCA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
41 13 0.24
42 34 0.63
43 7 0.13
ACGTcount: A:0.73, C:0.09, G:0.08, T:0.10
Consensus pattern (40 bp):
AAAATAAAAACAAAAAGAAAAAAAATCAAAGTCAAAAAAA
Found at i:34712749 original size:86 final size:85
Alignment explanation
Indices: 34712601--34712930 Score: 403
Period size: 86 Copynumber: 3.8 Consensus size: 85
34712591 ATCAGTGAAA
* * * * *
34712601 CAGATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGG-TAAAGAAGTAAATCTTG
1 CAGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCT-GGTTAAAAAAGCAGATCTTG
34712665 CCCTCCTGCATTAACAGCAGAG
65 CCCTCCTGCATTAACAGC-GAG
* *
34712687 CAGATCGAAAACAAAGCCTTACCTCCATCGATTGTAGTGGAGCTGGTTAAAAAAGCAGATCTTGC
1 CAGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAAAAGCAGATCTTGC
*
34712752 CTTCCTGCATTAACAGCGAAG
66 CCTCCTGCATTAACAGCG-AG
* * * * *
34712773 CAGATCGAAAACAAAGCC-TATCCTCTATTGGTTGCAGTGGAGCTGGTTAAAGATGTAGATCTTG
1 CAGATCGAAAACAAAGCCTTA-CCTCCATCGGTTGCAGTGGAGCTGGTTAAAAAAGCAGATCTTG
* * *
34712837 CCTTCCTACATTAACAGCGGAA
65 CCCTCCTGCATTAACAGC-GAG
* * * * *
34712859 CAGATCGAAAACAATGTCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTG
1 CAGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTT-AAAAAAGCAGATCTTG
34712924 CCCTCCT
65 CCCTCCT
34712931 ACGTCGACAG
Statistics
Matches: 210, Mismatches: 28, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
85 5 0.02
86 186 0.89
87 19 0.09
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (85 bp):
CAGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAAAAGCAGATCTTGC
CCTCCTGCATTAACAGCGAG
Found at i:34712887 original size:172 final size:173
Alignment explanation
Indices: 34712601--34712954 Score: 471
Period size: 172 Copynumber: 2.1 Consensus size: 173
34712591 ATCAGTGAAA
*
34712601 CAGATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGGTAAAGAAGTAAATCTTGC
1 CAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGGTAAAGAAGTAAATCTTGC
* * *
34712666 CCTCCTGCATTAACAGCAGAGCAGATCGAAAACAAAGCCTTACCTCCATCGATTGTAGTGGAGCT
66 CCTCCTACATTAACAGCAGAACAGATCGAAAACAAAGCCTTACCTCCATCGATTGCAGTGGAGCT
* * *
34712731 GGTT-AAAAAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAG
131 GGTTGAAAAAAGCAGATCTTGCCCTCCTACATCAACAGCGAAG
* * * *
34712773 CAGATCGAAAACAAAGCCTAT-CCTCTATTGGTTGCAGTGGAGCT-GGTTAAAGATGTAGATCTT
1 CAGATCGAAAACAAAGCCT-TGCCTCCATCGGTTGCAGTGGAGCTAGG-TAAAGAAGTAAATCTT
* * * * * *
34712836 GCCTTCCTACATTAACAGCGGAACAGATCGAAAACAATGTCTTGCCTCCATCGGTTGCAGTGGAG
64 GCCCTCCTACATTAACAGCAGAACAGATCGAAAACAAAGCCTTACCTCCATCGATTGCAGTGGAG
* * * * *
34712901 CTGGTTGAAGATAGCAGATCTTGCCCTCCTACGTCGACAGTGAAG
129 CTGGTTGAAAAAAGCAGATCTTGCCCTCCTACATCAACAGCGAAG
34712946 CAGATCGAA
1 CAGATCGAA
34712955 GATTACAAAT
Statistics
Matches: 157, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
171 2 0.01
172 115 0.73
173 40 0.25
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (173 bp):
CAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGGTAAAGAAGTAAATCTTGC
CCTCCTACATTAACAGCAGAACAGATCGAAAACAAAGCCTTACCTCCATCGATTGCAGTGGAGCT
GGTTGAAAAAAGCAGATCTTGCCCTCCTACATCAACAGCGAAG
Found at i:34713199 original size:44 final size:45
Alignment explanation
Indices: 34713095--34713204 Score: 132
Period size: 45 Copynumber: 2.5 Consensus size: 45
34713085 AAGCAGGTCT
* * * * *
34713095 TATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATCAATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGATCAATCC
* * *
34713140 TATCTCCCTGAAGTTACAGTGGATCAGATTGAAGCCGAT-AATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGATCAATCC
*
34713184 TATCTCCCTGAAGTTATAGTG
1 TATCTCCCTGAAGTTACAGTG
34713205 CAGTGGATTA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
44 24 0.43
45 32 0.57
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (45 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGATCAATCC
Found at i:34713343 original size:85 final size:87
Alignment explanation
Indices: 34713091--34713346 Score: 243
Period size: 85 Copynumber: 2.9 Consensus size: 87
34713081 AAGTAAGCAG
34713091 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATC-AATCTTATCTCCCTGAAGTT
1 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGAT-A-CAAATCTTATCTCCCTGAAGTT
* *
34713155 ACAGTGGATCAGATTGAAGCCGATA
64 GCAGTGGAGCAGATTGAAGCCGA-A
* * * ** ** ** ** *
34713180 ATCCTATCTCCCTGAAGTTATAGTGCAGTGGATTAAAG-TA-ATAGATCTTATCTCTCTGAAGTT
1 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATACA-A-ATCTTATCTCCCTGAAGTT
* ** * *
34713243 GCAGTAGAGTGGATTGCA-TCG-A
64 GCAGTGGAGCAGATTGAAGCCGAA
* *
34713265 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATACAAATCATATCTCCCTGAGGTTGC
1 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATACAAATCTTATCTCCCTGAAGTTGC
34713330 AGTGGAGCAGATTGAAG
66 AGTGGAGCAGATTGAAG
34713347 TCAATAATCC
Statistics
Matches: 124, Mismatches: 37, Indels: 15
0.70 0.21 0.09
Matches are distributed among these distances:
85 58 0.47
86 3 0.02
87 5 0.04
88 31 0.25
89 27 0.22
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (87 bp):
GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATACAAATCTTATCTCCCTGAAGTTGC
AGTGGAGCAGATTGAAGCCGAA
Found at i:34713361 original size:44 final size:43
Alignment explanation
Indices: 34713048--34713364 Score: 201
Period size: 44 Copynumber: 7.3 Consensus size: 43
34713038 TCGCATCGGG
* * * * * * *
34713048 TCTTATCTCCCTAAAATTGTAGCGGAGCAGACT-AAGTAAGCAGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAA-TA-A
* * * *
34713092 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TAAT-AA
* * **
34713137 TCTTATCTCCCTGAAGTTACAGTGGATCAGATTGAAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TAATAA
* ** * ** *
34713181 TCCTATCTCCCTGAAGTTATAGTGCAGTGGATTAAAGTAATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAATA-A
* * ** * ** *
34713225 TCTTATCTCTCTGAAGTTGCAGTAGAGTGGATTGCA-T-CGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAATAA
* * *
34713266 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATACA-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TA-ATAA
* *
34713310 TCATATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCAATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-AATAA
*
34713354 TCCTATCTCCC
1 TCTTATCTCCC
34713365 CAACGTTGCG
Statistics
Matches: 209, Mismatches: 54, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
41 28 0.13
42 1 0.00
43 7 0.03
44 132 0.63
45 38 0.18
46 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAATAA
Found at i:34713373 original size:44 final size:44
Alignment explanation
Indices: 34713281--34713379 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 44
34713271 TCCCCCTGAA
* ** *
34713281 GTTGCAGTGGGGCAGATCGAAGATACAAATCATATCTCCCTGAG
1 GTTGCAGTGGAGCAGATCGAAGATACAAATCATATCTCCCCAAC
* *
34713325 GTTGCAGTGGAGCAGATTGAAG-T-CAATAATCCTATCTCCCCAAC
1 GTTGCAGTGGAGCAGATCGAAGATAC-A-AATCATATCTCCCCAAC
*
34713369 GTTGCGGTGGA
1 GTTGCAGTGGA
34713380 AAGGATCGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.02
43 2 0.04
44 43 0.93
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (44 bp):
GTTGCAGTGGAGCAGATCGAAGATACAAATCATATCTCCCCAAC
Found at i:34713412 original size:173 final size:174
Alignment explanation
Indices: 34713091--34713422 Score: 413
Period size: 173 Copynumber: 1.9 Consensus size: 174
34713081 AAGTAAGCAG
*
34713091 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATCAATCTTATCTCCCTGAAGTTA
1 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATCAATCATATCTCCCTGAAGTTA
* * * * ** * *
34713156 CAGTGGATCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTATAGTGCAGTGGATTAAAGTAA
66 CAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCCTCAAGTTACAGTGCAAAGGATCAAAGCAA
* * *
34713221 TAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATTGCATCGA
131 CAGATCCTATCTCTCTGAAGATGCAGTAGAGTGGATTGCATCGA
*
34713265 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGAT-A-CAAATCATATCTCCCTGAGGTT
1 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATC-AATCATATCTCCCTGAAGTT
* * * * * *
34713328 GCAGTGGAGCAGATTGAAGTCAATAATCCTATCTCCC-CAACGTTGCGGTGGAAAGGATCGAAGC
65 ACAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCCTCAA-GTTACAGTGCAAAGGATCAAAGC
*
34713392 ACCA-ATTCCTATAC-CTCTGAAGATGCAGTAG
129 AACAGA-TCCTAT-CTCTCTGAAGATGCAGTAG
34713423 GATGGAATGA
Statistics
Matches: 134, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
172 4 0.03
173 89 0.66
174 41 0.31
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (174 bp):
GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGATCAATCATATCTCCCTGAAGTTA
CAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCCTCAAGTTACAGTGCAAAGGATCAAAGCAA
CAGATCCTATCTCTCTGAAGATGCAGTAGAGTGGATTGCATCGA
Found at i:34720814 original size:217 final size:220
Alignment explanation
Indices: 34720479--34720878 Score: 641
Period size: 217 Copynumber: 1.8 Consensus size: 220
34720469 TTTATAATGC
* * * * *
34720479 TTAAAATGTTGTTTATATAGATCTTTAATTTAAAATATTTTTATAGCGAGGAGTTTGATGCAGGC
1 TTAAAATGTTGTTTATAAAGATCTTTAATATAAAATAATTTTATAGCAAGGAGTCTGATGCAGGC
*
34720544 GTGAAAGCCTTTTTTTTTAAAAAAATTGTTATGTTTTAATTTTAATATTTATTTAAAATTTTAAG
66 GTGAAAGCCTTTTTTTTTAAAAAAATTGTTATGTTTTAATTTTAATATTTATTTAAAAATTTAAG
*
34720609 GAATATTAATTTTTAATATATAAATTATAAAATTGTGCAATTCAAAATTTTTTAAAAAATAGGCT
131 GAATATTAATTTTTAATATATAAATTATAAAATTGTGCAATCCAAAATTTTTTAAAAAATAGGCT
34720674 TTCACGCCTGCATCAGACTCTTCGT
196 TTCACGCCTGCATCAGACTCTTCGT
*
34720699 TTAAAATGTTGTTTATAAAGAT-TTTTATATAAACA-ACATTTTA-AGCAAGGAGTCTGATGCAG
1 TTAAAATGTTGTTTATAAAGATCTTTAATATAAA-ATA-ATTTTATAGCAAGGAGTCTGATGCAG
34720761 GCGTGAAAGCCTCTTTTTTTT-AAAAAA-T-TTATGTTTTAATTTTAATATTTATTTAAAAATTT
64 GCGTGAAAGCCT-TTTTTTTTAAAAAAATTGTTATGTTTTAATTTTAATATTTATTTAAAAATTT
* *
34720823 AAGTAATATTAATTTTTAATATATAAATTATAAAATTGTGCAATCCAAATTTTTTT
128 AAGGAATATTAATTTTTAATATATAAATTATAAAATTGTGCAATCCAAAATTTTTT
34720879 TATATAATGT
Statistics
Matches: 167, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
217 86 0.51
218 1 0.01
219 45 0.27
220 35 0.21
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (220 bp):
TTAAAATGTTGTTTATAAAGATCTTTAATATAAAATAATTTTATAGCAAGGAGTCTGATGCAGGC
GTGAAAGCCTTTTTTTTTAAAAAAATTGTTATGTTTTAATTTTAATATTTATTTAAAAATTTAAG
GAATATTAATTTTTAATATATAAATTATAAAATTGTGCAATCCAAAATTTTTTAAAAAATAGGCT
TTCACGCCTGCATCAGACTCTTCGT
Found at i:34723165 original size:230 final size:235
Alignment explanation
Indices: 34722759--34723455 Score: 830
Period size: 230 Copynumber: 3.0 Consensus size: 235
34722749 GTAACACGTA
* * * * *
34722759 ATATATTAATCATTATCATATATTATCGTTTATTATTCTA--G-TTGAAATATGCTCTGAGTCCT
1 ATATATTAATTATTATCATATA-TATTGTTTATTATTATACTGATTGAAATATGCTCTAAGTCCC
* * *
34722821 TATACTTTTCCTACATGTGAAAGTTAACCCTCCTACTATAATATATAATGTTATATCATATCATA
65 TATAATTTTCATACATTTGAAAGTTAACCCT--TACTAT-ATATATAATGTTATATCATATCATA
* * *
34722886 TAGTGTATAATATATTAATATTTATATGTATGCATCAATGATTAAACATTATAATATCATGTAAT
127 TAGTATATAATATATTAATAGTTATATATATGCATCAATGATTAAACATTATAATATCATGTAAT
*
34722951 ACTATATCTTTTATTATATTCTATAATATAATAGTAGT-GCAT-T
192 ACTATATCTTTTATTATAATCTATAATATAATA-TAGTAGCATAT
*
34722994 ATATATTAATTATTATCATATATATTTTTTATTATTATACTGATTGAAATATGCTCTAAGTCCCT
1 ATATATTAATTATTATCATATATATTGTTTATTATTATACTGATTGAAATATGCTCTAAGTCCCT
* * * *
34723059 ATAATTTTCGTACATTTGAAAGTT-AGCCTT-C-GTAT-TATAATGTTAGATCATATCAT-TAGT
66 ATAATTTTCATACATTTGAAAGTTAACCCTTACTATATATATAATGTTATATCATATCATATAGT
* *
34723119 ATATAATATATTAATAGCTTATATATATGCATCAATGATCAAACATTATAATATCATCTAATACT
131 ATATAATATATTAATAG-TTATATATATGCATCAATGATTAAACATTATAATATCATGTAATACT
* *
34723184 ATATCTTTTATTATAGTCTATAATATATATAATAGTAGTATAGT
195 ATATCTTTTATTATAATCTATAATATA-AT-ATAGTAGCATA-T
* * * * *
34723228 ATATATTATTTACTAT-ATAT-TATTGTTTATTATTATACT-AGTTGAAATATGTTTTAAGTCTC
1 ATATATTAATTATTATCATATATATTGTTTATTATTATACTGA-TTGAAATATGCTCTAAGTCCC
* * * *
34723290 TATACATTTT-ATACATTTTAAAGTTAATCATCTTCCTATATTATATAATGCTATATCATATCAT
65 TATA-ATTTTCATACATTTGAAAGTTAA-C-CCTTACTATA-TATATAATGTTATATCATATCAT
* * * * * *
34723354 GTAATATGTAATATATTAATAGTT-TATATTTGCATCAATAATTAAACATTATAATACCATGTAA
126 ATAGTATATAATATATTAATAGTTATATATATGCATCAATGATTAAACATTATAATATCATGTAA
*
34723418 TACTATATATTTTATTATAATCTATAATATAATATAGT
191 TACTATATCTTTTATTATAATCTATAATATAATATAGT
34723456 TATATATAAT
Statistics
Matches: 402, Mismatches: 41, Indels: 37
0.84 0.09 0.08
Matches are distributed among these distances:
229 19 0.05
230 90 0.22
231 9 0.02
232 58 0.14
233 11 0.03
234 30 0.07
235 24 0.06
236 11 0.03
237 45 0.11
238 65 0.16
239 21 0.05
240 19 0.05
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.45
Consensus pattern (235 bp):
ATATATTAATTATTATCATATATATTGTTTATTATTATACTGATTGAAATATGCTCTAAGTCCCT
ATAATTTTCATACATTTGAAAGTTAACCCTTACTATATATATAATGTTATATCATATCATATAGT
ATATAATATATTAATAGTTATATATATGCATCAATGATTAAACATTATAATATCATGTAATACTA
TATCTTTTATTATAATCTATAATATAATATAGTAGCATAT
Found at i:34727765 original size:50 final size:50
Alignment explanation
Indices: 34727691--34727830 Score: 235
Period size: 50 Copynumber: 2.8 Consensus size: 50
34727681 TTCTCTGTCC
* * * *
34727691 GTGCTGATGCCATGTCCCAAACATGGTCTTACACTAGCACTCCTCGGTTT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCT
*
34727741 GTGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCT
34727791 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
34727831 ACTTACTACC
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 84 1.00
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (50 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCT
Found at i:34727905 original size:44 final size:44
Alignment explanation
Indices: 34727851--34727945 Score: 172
Period size: 44 Copynumber: 2.2 Consensus size: 44
34727841 ATGGTCCAAC
* *
34727851 CATGGTCTTTTCCGTCAATTCTTTCTTAATTGCCATGTTATAAA
1 CATGGACTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
34727895 CATGGACTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
1 CATGGACTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
34727939 CATGGAC
1 CATGGAC
34727946 CTTGAGATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (44 bp):
CATGGACTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
Found at i:34729556 original size:18 final size:17
Alignment explanation
Indices: 34729526--34729579 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
34729516 TGCATCAATG
34729526 ATTAAACATTATAATATT
1 ATTAAA-ATTATAATATT
*
34729544 ATGTAAAATTATATATTTT
1 AT-TAAAATTATA-ATATT
*
34729563 ATTATAATTGATAATAT
1 ATTAAAATT-ATAATAT
34729580 AATAATAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (17 bp):
ATTAAAATTATAATATT
Found at i:34729908 original size:226 final size:227
Alignment explanation
Indices: 34729485--34729950 Score: 652
Period size: 226 Copynumber: 2.1 Consensus size: 227
34729475 ATGTCATATC
* * * *
34729485 ATATATATAATATATTAATAGCTTATATTTATGCATCAATGATTAAACATTATAATATTATGTAA
1 ATATATATAATATATTAATAGCTTATATATATGCATAAATAATTAAACATTATAATATCATGTAA
* *
34729550 AATTATATATTTTATTATAATTGATAATATAATAATAGTTATATATAATAGTAGTACATTATATA
66 AACTATATATTTTATTATAATTGATAATATAATAATAATTATATATAATAGTAGTACATTATATA
* *
34729615 TTACATATTATTATATATAACTGTTTATTAGTATACTAGTTGAAATATGCTCTAAGTCCCTATAC
131 TTACATATTATTATATATAACTATTTATTAGTATACTAGTTGAAATATGCTCAAAGTCCCTATAC
*
34729680 TTTTCGTACATTTGAAAA-TTAGCTTTCTTGCT
196 TTTTCATACATTT-AAAAGTTAGCTTTCTTGCT
*
34729712 ATATCATATCATATATTAATAG-TT-TATATATGCATAAATAATTAAACATTATAATATCATGTA
1 ATAT-ATATAATATATTAATAGCTTATATATATGCATAAATAATTAAACATTATAATATCATGTA
* * * *
34729775 ATACTATATCTTTTATTATAATCT-ATATTATAATAATAATTATATATAATTGTAGTACATTATA
65 AAACTATATATTTTATTATAAT-TGATAATATAATAATAATTATATATAATAGTAGTACATTATA
* * * * * * *
34729839 TATTGCTTATTGTTATATATTATTATTTATTATTATACTAGTTGAAATATGCTCAAAGTCTCTAT
129 TATTACATATTATTATATATAACTATTTATTAGTATACTAGTTGAAATATGCTCAAAGTCCCTAT
* * *
34729904 ACTTTTCATACATTTAAAAGTTAGCTCTCCTACT
194 ACTTTTCATACATTTAAAAGTTAGCTTTCTTGCT
34729938 ATATTATATAATA
1 ATA-TATATAATA
34729951 CTATCGTATT
Statistics
Matches: 210, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
225 4 0.02
226 182 0.87
227 8 0.04
228 16 0.08
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (227 bp):
ATATATATAATATATTAATAGCTTATATATATGCATAAATAATTAAACATTATAATATCATGTAA
AACTATATATTTTATTATAATTGATAATATAATAATAATTATATATAATAGTAGTACATTATATA
TTACATATTATTATATATAACTATTTATTAGTATACTAGTTGAAATATGCTCAAAGTCCCTATAC
TTTTCATACATTTAAAAGTTAGCTTTCTTGCT
Found at i:34730226 original size:5 final size:5
Alignment explanation
Indices: 34730086--34730213 Score: 249
Period size: 5 Copynumber: 25.8 Consensus size: 5
34730076 ATTTTTAGTA
34730086 ATATT ATA-T ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
34730135 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
34730185 ATATT ATATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
34730214 ATTTTTATTT
Statistics
Matches: 122, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.03
5 118 0.97
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:34730226 original size:15 final size:15
Alignment explanation
Indices: 34730086--34730231 Score: 83
Period size: 15 Copynumber: 9.8 Consensus size: 15
34730076 ATTTTTAGTA
*
34730086 ATATTATATA-TATT
1 ATATTATATATTTTT
*
34730100 ATATTATAT-TATATT
1 ATATTATATAT-TTTT
*
34730115 ATATTATAT-TATATT
1 ATATTATATAT-TTTT
*
34730130 ATATTATAT-TATATT
1 ATATTATATAT-TTTT
*
34730145 ATATTATAT-TATATT
1 ATATTATATAT-TTTT
*
34730160 ATATTATAT-TATATT
1 ATATTATATAT-TTTT
*
34730175 ATATTATAT-TATATT
1 ATATTATATAT-TTTT
*
34730190 ATATTATAT-TATATT
1 ATATTATATAT-TTTT
34730205 ATATTATATATTTTT
1 ATATTATATATTTTT
* *
34730220 ATTTTATGTATT
1 ATATTATATATT
34730232 ATTAATATAC
Statistics
Matches: 126, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
14 9 0.07
15 116 0.92
16 1 0.01
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (15 bp):
ATATTATATATTTTT
Found at i:34732478 original size:21 final size:22
Alignment explanation
Indices: 34732449--34732505 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
34732439 TGTTAAAGAA
34732449 AAACC-CATAAGGGTTGAAC-G
1 AAACCTCATAAGGGTTGAACGG
* * *
34732469 AAAGCTCATAAGAGCTGAACGG
1 AAACCTCATAAGGGTTGAACGG
34732491 AAACCT-ATAAGGGTT
1 AAACCTCATAAGGGTT
34732506 AAATTGAAGC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 4 0.14
21 19 0.66
22 6 0.21
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (22 bp):
AAACCTCATAAGGGTTGAACGG
Found at i:34732501 original size:42 final size:41
Alignment explanation
Indices: 34732449--34732552 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 41
34732439 TGTTAAAGAA
* *
34732449 AAACCCATAAGGGTTGAACGAAAGCTCATAAGAGCTGAACGG
1 AAACCCATAAGGGTTAAACG-AAGCTCAAAAGAGCTGAACGG
* * * *
34732491 AAACCTATAAGGGTTAAATTGAAGCTCAAAATAGCTGAACTG
1 AAACCCATAAGGGTTAAA-CGAAGCTCAAAAGAGCTGAACGG
*
34732533 AAACCCATTAGGGTTAAACG
1 AAACCCATAAGGGTTAAACG
34732553 GAAACTTATA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.02
42 50 0.96
43 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.19
Consensus pattern (41 bp):
AAACCCATAAGGGTTAAACGAAGCTCAAAAGAGCTGAACGG
Found at i:34733534 original size:20 final size:16
Alignment explanation
Indices: 34733488--34733524 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
34733478 CCTAGAAATC
*
34733488 TTTAGAATTCAATTTA
1 TTTAAAATTCAATTTA
34733504 TTTAAAATTCAATTTA
1 TTTAAAATTCAATTTA
34733520 TTTAA
1 TTTAA
34733525 GTTAATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTAAAATTCAATTTA
Found at i:34733744 original size:21 final size:21
Alignment explanation
Indices: 34733719--34733760 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34733709 ATTTTTATTT
*
34733719 AATTAACTATCAAAACTTTAA
1 AATTAACTAACAAAACTTTAA
* *
34733740 AATTATCTAACAGAACTTTAA
1 AATTAACTAACAAAACTTTAA
34733761 TACTAACTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.33
Consensus pattern (21 bp):
AATTAACTAACAAAACTTTAA
Found at i:34740499 original size:21 final size:21
Alignment explanation
Indices: 34740473--34740514 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
34740463 ATCCAGAAAG
*
34740473 TCTAGTACCAGTCAAAATTAA
1 TCTAGTACCAGCCAAAATTAA
34740494 TCTAGTACCAGCCAAAATTAA
1 TCTAGTACCAGCCAAAATTAA
34740515 CTTTCAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (21 bp):
TCTAGTACCAGCCAAAATTAA
Found at i:34743942 original size:14 final size:15
Alignment explanation
Indices: 34743919--34743947 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34743909 TTGTTTTTTG
34743919 GTTTCTTTTTTCTTT
1 GTTTCTTTTTTCTTT
34743934 GTTTC-TTTTTCTTT
1 GTTTCTTTTTTCTTT
34743948 TTTGAGCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (15 bp):
GTTTCTTTTTTCTTT
Found at i:34750120 original size:23 final size:22
Alignment explanation
Indices: 34750068--34750120 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
34750058 TCCACGTCTT
*
34750068 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
34750090 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
34750113 TTTCTTTT
1 TTTCTTTT
34750121 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:34752928 original size:45 final size:45
Alignment explanation
Indices: 34752864--34752963 Score: 148
Period size: 45 Copynumber: 2.2 Consensus size: 45
34752854 CTACATCTGC
*
34752864 GTCACATCCTACTACAACACCTAG-TCCTTCACAAGCAACACCTAT
1 GTCACATCCTACCACAACACCTAGCT-CTTCACAAGCAACACCTAT
* * *
34752909 GTCACATCCTACCACAACACCTAGCTCTTCACATGTAACACCTGT
1 GTCACATCCTACCACAACACCTAGCTCTTCACAAGCAACACCTAT
34752954 GTCACATCCT
1 GTCACATCCT
34752964 GATCGCCACA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 49 0.98
46 1 0.02
ACGTcount: A:0.30, C:0.38, G:0.08, T:0.24
Consensus pattern (45 bp):
GTCACATCCTACCACAACACCTAGCTCTTCACAAGCAACACCTAT
Found at i:34761188 original size:24 final size:23
Alignment explanation
Indices: 34761133--34761194 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
34761123 TTGTTTGTGG
*
34761133 TTAAATGACTGATTTGTCTGTGT
1 TTAAATGACTGATTTGTCTATGT
**
34761156 TTGGTATGACTGATTTGTCTATGAT
1 TT-AAATGACTGATTTGTCTATG-T
34761181 TTAAATGACTGATT
1 TTAAATGACTGATT
34761195 CTGAGCATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 2 0.06
24 27 0.84
25 3 0.09
ACGTcount: A:0.24, C:0.08, G:0.21, T:0.47
Consensus pattern (23 bp):
TTAAATGACTGATTTGTCTATGT
Found at i:34761301 original size:27 final size:27
Alignment explanation
Indices: 34761257--34761322 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
34761247 TATGGAGGAA
*
34761257 ATAC-TGTACTGGTGGCTTTGCCACA-
1 ATACTTGTACTGGTGGCTTGGCCACAT
*
34761282 ATCACTTTTACTGGTGGCTTGGCCACAT
1 AT-ACTTGTACTGGTGGCTTGGCCACAT
34761310 ATACTTGTACTGG
1 ATACTTGTACTGG
34761323 CAGCTTTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.06
26 2 0.06
27 29 0.83
28 2 0.06
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
ATACTTGTACTGGTGGCTTGGCCACAT
Found at i:34761348 original size:26 final size:26
Alignment explanation
Indices: 34761319--34761375 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
34761309 TATACTTGTA
34761319 CTGGCAGCTTTG-TTGCGATACTATTG
1 CTGGCAGCTTTGATT-CGATACTATTG
*
34761345 CTGGCAGCTTTGATTCGATGCTATTG
1 CTGGCAGCTTTGATTCGATACTATTG
*
34761371 ATGGC
1 CTGGC
34761376 TTTGTGCCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.37
Consensus pattern (26 bp):
CTGGCAGCTTTGATTCGATACTATTG
Found at i:34761405 original size:32 final size:32
Alignment explanation
Indices: 34761369--34761568 Score: 260
Period size: 32 Copynumber: 6.3 Consensus size: 32
34761359 TCGATGCTAT
*
34761369 TGATGGCTTTGTGCCGATCATATTACTATTAC
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
* * * *
34761401 TGATGGCTATGTGCCGATCATATTACCATTAT
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
* * *
34761433 TGATGG-TTGTGTACCGATCATATTACTACTAC
1 TGATGGCTT-TGTGCCAATCATATTACTATTAC
* *
34761465 TAATGGCTTTGTGCCAATCATACTACTATTAC
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
*
34761497 TGATGGCTTTGTGCCAATCATATTACTACTAC
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
*
34761529 TGATGGCTTTGTGCCAATCATATTACT-GTAC
1 TGATGGCTTTGTGCCAATCATATTACTATTAC
*
34761560 TTATGGCTT
1 TGATGGCTT
34761569 GTAGCCATTC
Statistics
Matches: 148, Mismatches: 18, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
31 12 0.08
32 134 0.91
33 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (32 bp):
TGATGGCTTTGTGCCAATCATATTACTATTAC
Found at i:34761585 original size:22 final size:22
Alignment explanation
Indices: 34761560--34761611 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
34761550 ATTACTGTAC
* *
34761560 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTTATAGCCATCCTGT
*
34761582 TTATAGCTTATAGCCATCCTGT
1 TTATGGCTTATAGCCATCCTGT
*
34761604 TTACGGCT
1 TTATGGCT
34761612 CTTAGTCGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.42
Consensus pattern (22 bp):
TTATGGCTTATAGCCATCCTGT
Found at i:34768173 original size:42 final size:43
Alignment explanation
Indices: 34768111--34768219 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 43
34768101 AGATTCTCTG
34768111 AGGGGTTGCTAAGTGCTGATTCC-CCGAAT-TATTGACTCT-AA
1 AGGGGTTGCTAAGTGCTGATTCCACCGAATAT-TTGACTCTGAA
* * *
34768152 AGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCCACCGAATATTTGACTCTGAA
*
34768196 AGGGGTTGCTATGTGCTGATTCCA
1 AGGGGTTGCTAAGTGCTGATTCCA
34768220 AGTATCACTG
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
41 3 0.05
42 20 0.33
43 31 0.52
44 6 0.10
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.34
Consensus pattern (43 bp):
AGGGGTTGCTAAGTGCTGATTCCACCGAATATTTGACTCTGAA
Found at i:34768254 original size:41 final size:43
Alignment explanation
Indices: 34768114--34768255 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 43
34768104 TTCTCTGAGG
* * * *
34768114 GGTTGCTAAGTGCTGATTCC-CCGAATTAT-TGACTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACAGTA-TATCTGATTGTAAAGGT
* *
34768156 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACAGTATATCTGATTGT-AAAGGT
*
34768199 GGTTGCTATGTGCTGATTCCA-AGTATCA-CTGAATT-T-AAGGT
1 GGTTGCTAAGTGCTGATTCCACAGTAT-ATCTG-ATTGTAAAGGT
*
34768240 GGTTGCTAAATGCTGA
1 GGTTGCTAAGTGCTGA
34768256 ATCGACCGAG
Statistics
Matches: 86, Mismatches: 8, Indels: 13
0.80 0.07 0.12
Matches are distributed among these distances:
40 4 0.05
41 14 0.16
42 30 0.35
43 33 0.38
44 5 0.06
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACAGTATATCTGATTGTAAAGGT
Found at i:34770359 original size:35 final size:37
Alignment explanation
Indices: 34770300--34770389 Score: 157
Period size: 35 Copynumber: 2.5 Consensus size: 37
34770290 ACCAAAAATT
34770300 TATTTTAAAAATAAAAAATAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATAAAAAATAAAAAAAGTATTTTAAAAA
34770338 TATTTTAAAA-AAAAAAT-AAAAAAGTATTTTAAAAA
1 TATTTTAAAATAAAAAATAAAAAAAGTATTTTAAAAA
34770373 TATTTTAAAATAAAAAA
1 TATTTTAAAATAAAAAA
34770390 ATATGTTTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
35 28 0.55
36 13 0.25
37 4 0.08
38 6 0.12
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (37 bp):
TATTTTAAAATAAAAAATAAAAAAAGTATTTTAAAAA
Found at i:34770384 original size:10 final size:11
Alignment explanation
Indices: 34770321--34770382 Score: 61
Period size: 11 Copynumber: 5.4 Consensus size: 11
34770311 TAAAAAATAA
34770321 AAAAAGTATTTT
1 AAAAA-TATTTT
34770333 AAAAATATTTT
1 AAAAATATTTT
* ** *
34770344 AAAAAAAAAATA
1 -AAAAATATTTT
34770356 AAAAAGTATTTT
1 AAAAA-TATTTT
34770368 AAAAATATTTT
1 AAAAATATTTT
34770379 AAAA
1 AAAA
34770383 TAAAAAAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
11 21 0.52
12 19 0.47
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:34771513 original size:14 final size:14
Alignment explanation
Indices: 34771494--34771533 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
34771484 TTGATTGCCA
34771494 GTAAAATGTTTTCT
1 GTAAAATGTTTTCT
*
34771508 GTAAAATGATTTCT
1 GTAAAATGTTTTCT
*
34771522 GGAAAATGTTTT
1 GTAAAATGTTTT
34771534 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:34771542 original size:20 final size:20
Alignment explanation
Indices: 34771517--34771556 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34771507 TGTAAAATGA
*
34771517 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
34771537 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
34771557 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:34771545 original size:34 final size:35
Alignment explanation
Indices: 34771502--34771568 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
34771492 CAGTAAAATG
*
34771502 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
34771536 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
34771569 TTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:34772834 original size:14 final size:13
Alignment explanation
Indices: 34772805--34772831 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34772795 AGAAGGTAAG
34772805 ACAGATACTTAAA
1 ACAGATACTTAAA
34772818 ACAGATACTTAAA
1 ACAGATACTTAAA
34772831 A
1 A
34772832 ACATGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ACAGATACTTAAA
Found at i:34773888 original size:12 final size:12
Alignment explanation
Indices: 34773858--34773890 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
34773848 AAACCAAATC
*
34773858 AAGGGAAAACGA
1 AAGGGAGAACGA
34773870 AAGGGAGAACGA
1 AAGGGAGAACGA
34773882 AAGGGAGAA
1 AAGGGAGAA
34773891 GGGAGAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.55, C:0.06, G:0.39, T:0.00
Consensus pattern (12 bp):
AAGGGAGAACGA
Found at i:34773894 original size:19 final size:19
Alignment explanation
Indices: 34773870--34773909 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
34773860 GGGAAAACGA
34773870 AAGGGAGAACGAAAGGGAG
1 AAGGGAGAACGAAAGGGAG
* *
34773889 AAGGGAGAATGAACGGGAG
1 AAGGGAGAACGAAAGGGAG
34773908 AA
1 AA
34773910 CAAAACCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.45, T:0.03
Consensus pattern (19 bp):
AAGGGAGAACGAAAGGGAG
Found at i:34775197 original size:40 final size:40
Alignment explanation
Indices: 34775152--34775242 Score: 101
Period size: 40 Copynumber: 2.3 Consensus size: 40
34775142 ATTCGTTAAT
** * *
34775152 ATAAAAATTTACAGTTTAATAATTTATAAGTAAAAAATTA
1 ATAAAAATCAACAATTTAATAATTTATAAGCAAAAAATTA
* * * *
34775192 ATAAAAATCAATAATTTAATAATTTATATGCAACAAGTTA
1 ATAAAAATCAACAATTTAATAATTTATAAGCAAAAAATTA
*
34775232 ATAAAATTCAA
1 ATAAAAATCAA
34775243 TATGCTTTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.35
Consensus pattern (40 bp):
ATAAAAATCAACAATTTAATAATTTATAAGCAAAAAATTA
Found at i:34775243 original size:40 final size:40
Alignment explanation
Indices: 34775166--34775244 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
34775156 AAATTTACAG
*
34775166 TTTAATAATTTATAAGTAAAAAATTAATAAAAATCAATAA
1 TTTAATAATTTATAAGCAAAAAATTAATAAAAATCAATAA
* * * *
34775206 TTTAATAATTTATATGCAACAAGTTAATAAAATTCAATA
1 TTTAATAATTTATAAGCAAAAAATTAATAAAAATCAATA
34775245 TGCTTTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (40 bp):
TTTAATAATTTATAAGCAAAAAATTAATAAAAATCAATAA
Found at i:34780605 original size:21 final size:22
Alignment explanation
Indices: 34780562--34780606 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
34780552 TTAAAATTTG
34780562 TGTTATGTATAGATTAAAATGAT
1 TGTTATGTATAGATT-AAATGAT
34780585 TGTTATGTGATA-ATT-AATGAT
1 TGTTATGT-ATAGATTAAATGAT
34780606 T
1 T
34780607 TGGATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.33
23 11 0.52
24 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.47
Consensus pattern (22 bp):
TGTTATGTATAGATTAAATGAT
Found at i:34781081 original size:21 final size:21
Alignment explanation
Indices: 34781041--34781081 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34781031 ATATGGATTC
*
34781041 TTGAAATGAAAATGTGTGATG
1 TTGAAATGAAAATGTATGATG
34781062 TTGAAA-GAAAATGATATGAT
1 TTGAAATGAAAATG-TATGAT
34781082 TGAGTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (21 bp):
TTGAAATGAAAATGTATGATG
Found at i:34783315 original size:19 final size:19
Alignment explanation
Indices: 34783279--34783315 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
34783269 ATCTCAATTC
34783279 AAATTTATTTTTATCATAA
1 AAATTTATTTTTATCATAA
34783298 AAATATTATTTTTA-CATA
1 AAAT-TTATTTTTATCATA
34783316 TGAAAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATTTATTTTTATCATAA
Found at i:34784204 original size:15 final size:17
Alignment explanation
Indices: 34784186--34784226 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
34784176 ATATTATATT
34784186 TTTATAACATT-TAA-A
1 TTTATAACATTCTAATA
*
34784201 TTTATTA-ATTCTAATA
1 TTTATAACATTCTAATA
34784217 TTTATAACAT
1 TTTATAACAT
34784227 ATATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 3 0.14
15 9 0.43
16 7 0.33
17 2 0.10
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTATAACATTCTAATA
Found at i:34784736 original size:23 final size:24
Alignment explanation
Indices: 34784692--34784737 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
34784682 CCACACACTT
*
34784692 TTTATCATCTTTTTAGGGTTTTAG
1 TTTATCAGCTTTTTAGGGTTTTAG
* *
34784716 TTTATCAGGTTTTT-GGTTTTTA
1 TTTATCAGCTTTTTAGGGTTTTA
34784738 CCTGTTAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.15, C:0.07, G:0.17, T:0.61
Consensus pattern (24 bp):
TTTATCAGCTTTTTAGGGTTTTAG
Found at i:34787752 original size:25 final size:25
Alignment explanation
Indices: 34787724--34787803 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
34787714 AGTAATTGAA
34787724 AAGCTCTTTCGAGCCATATAACGGG
1 AAGCTCTTTCGAGCCATATAACGGG
* *
34787749 AAGCTCATGT-GAGCCATGTAACGGG
1 AAGCTC-TTTCGAGCCATATAACGGG
* * * * *
34787774 AAGTTCTTGCGAGCCAGATATCAGG
1 AAGCTCTTTCGAGCCATATAACGGG
34787799 AAGCT
1 AAGCT
34787804 AGTGAGAGCC
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 1 0.02
25 40 0.93
26 2 0.05
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (25 bp):
AAGCTCTTTCGAGCCATATAACGGG
Found at i:34789284 original size:30 final size:30
Alignment explanation
Indices: 34789248--34789306 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
34789238 AAAACCCTCA
34789248 TAGTATAGAATTAGTTTTAGTTTACTTTCG
1 TAGTATAGAATTAGTTTTAGTTTACTTTCG
34789278 TAGTATAGAATTAGTTTTAGTTTACTTTC
1 TAGTATAGAATTAGTTTTAGTTTACTTTC
34789307 TTTTTGGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (30 bp):
TAGTATAGAATTAGTTTTAGTTTACTTTCG
Found at i:34798120 original size:195 final size:195
Alignment explanation
Indices: 34797788--34798180 Score: 734
Period size: 195 Copynumber: 2.0 Consensus size: 195
34797778 CATTCAGATC
*
34797788 ATCTGACTCAATCTGGATAATCTCATTATTTCAACATCTCAACTCGATCGTCTTTCGTTTGCAAT
1 ATCTGACTCAATCCGGATAATCTCATTATTTCAACATCTCAACTCGATCGTCTTTCGTTTGCAAT
34797853 TTACAATAGTATGGTGCAGTGTTAACCAATCCATACCCAGGATTATATCAAACTCATCAAATGGT
66 TTACAATAGTATGGTGCAGTGTTAACCAATCCATACCCAGGATTATATCAAACTCATCAAATGGT
* *
34797918 AACAACATCAAATCGGTC-GAAAAACAGAAATCTCGAATCATCAACGGGAAGTTCTTGCACACTT
131 AACAACATCAAATCAGTCAG-AAAACAGAAATCTCAAATCATCAACGGGAAGTTCTTGCACACTT
34797982 T
195 T
*
34797983 ATCTGACTCAATCCGGATAATCTCATTATTTCAACATCTCAACTCGATCGTCTTTCGTTTGCAGT
1 ATCTGACTCAATCCGGATAATCTCATTATTTCAACATCTCAACTCGATCGTCTTTCGTTTGCAAT
34798048 TTACAATAGTATGGTGCAGTGTTAACCAATCCATACCCAGGATTATATCAAACTCATCAAATGGT
66 TTACAATAGTATGGTGCAGTGTTAACCAATCCATACCCAGGATTATATCAAACTCATCAAATGGT
34798113 AACAACATCAAATCAGTCAGAAAACAGAAATCTCAAATCATCAACGGGAAGTTCTTGCACACTTT
131 AACAACATCAAATCAGTCAGAAAACAGAAATCTCAAATCATCAACGGGAAGTTCTTGCACACTTT
34798178 ATC
1 ATC
34798181 AACCAAAACA
Statistics
Matches: 193, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
195 192 0.99
196 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (195 bp):
ATCTGACTCAATCCGGATAATCTCATTATTTCAACATCTCAACTCGATCGTCTTTCGTTTGCAAT
TTACAATAGTATGGTGCAGTGTTAACCAATCCATACCCAGGATTATATCAAACTCATCAAATGGT
AACAACATCAAATCAGTCAGAAAACAGAAATCTCAAATCATCAACGGGAAGTTCTTGCACACTTT
Found at i:34808842 original size:58 final size:60
Alignment explanation
Indices: 34808778--34808893 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 60
34808768 ATCACTTTAA
* * *
34808778 TATTAAAATCATATAATACTTA-T-CAAGATAAATATTATATTAAATTTAATATTAAATC
1 TATTAAAATAATAGAATACTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATC
* *
34808836 TATTAAATTAATAGAATACTTATCTACAAGATAAATATTAAATTATATTTAATATTAA
1 TATTAAAATAATAGAATACTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAA
34808894 GATAGTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 19 0.38
60 1 0.02
61 30 0.60
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (60 bp):
TATTAAAATAATAGAATACTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATC
Found at i:34808975 original size:67 final size:70
Alignment explanation
Indices: 34808836--34808977 Score: 159
Period size: 67 Copynumber: 2.1 Consensus size: 70
34808826 ATATTAAATC
* * *
34808836 TATTAAATTAATAGAATACTTATCTACAAGATAAATATTAAATTATATTTAATATTAAGATAGTT
1 TATTAAATTAATAAAATACTTA-CTACAAGATAAATATTAAATTATAATTAATATTAAAATAGTT
**
34808901 ATTTAA
65 AAATAA
* *
34808907 TATTAAATTAATAAAATAC-TA-T-CATGATAAGTATTAAATT-TAATTAATATTAAAACTA-TT
1 TATTAAATTAATAAAATACTTACTACAAGATAAATATTAAATTATAATTAATATTAAAA-TAGTT
34808967 AAAATAA
65 -AAATAA
34808974 TATT
1 TATT
34808978 TTTGGAATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
66 15 0.24
67 26 0.42
68 1 0.02
70 2 0.03
71 18 0.29
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (70 bp):
TATTAAATTAATAAAATACTTACTACAAGATAAATATTAAATTATAATTAATATTAAAATAGTTA
AATAA
Found at i:34809265 original size:19 final size:19
Alignment explanation
Indices: 34809241--34809282 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
34809231 TTCGACCAAT
* *
34809241 TTTTGGGTCTCGATCTCAG
1 TTTTGGGTCTCGAGCCCAG
*
34809260 TTTTGGTTCTCGAGCCCAG
1 TTTTGGGTCTCGAGCCCAG
34809279 TTTT
1 TTTT
34809283 TTATCTCAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.21, G:0.24, T:0.45
Consensus pattern (19 bp):
TTTTGGGTCTCGAGCCCAG
Found at i:34823832 original size:22 final size:21
Alignment explanation
Indices: 34823783--34823832 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
34823773 AAACATCGAC
* *
34823783 GTCATGACTTTGTTTTTTAAT
1 GTCATGACATTGTTTCTTAAT
* *
34823804 GCCATGACATTGTTCTCTTCAT
1 GTCATGACATTGTT-TCTTAAT
34823826 GTCATGA
1 GTCATGA
34823833 TGTTGCCAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (21 bp):
GTCATGACATTGTTTCTTAAT
Found at i:34831350 original size:81 final size:81
Alignment explanation
Indices: 34831215--34831371 Score: 314
Period size: 81 Copynumber: 1.9 Consensus size: 81
34831205 TTTTTTGCAG
34831215 AAATCACACCACTTAAGACTTTTGTCCTTGCTGCCTCAGCTGGGCTTTATTGGCATCAGAAGTCA
1 AAATCACACCACTTAAGACTTTTGTCCTTGCTGCCTCAGCTGGGCTTTATTGGCATCAGAAGTCA
34831280 TTAGGGCTGAAGCAAA
66 TTAGGGCTGAAGCAAA
34831296 AAATCACACCACTTAAGACTTTTGTCCTTGCTGCCTCAGCTGGGCTTTATTGGCATCAGAAGTCA
1 AAATCACACCACTTAAGACTTTTGTCCTTGCTGCCTCAGCTGGGCTTTATTGGCATCAGAAGTCA
34831361 TTAGGGCTGAA
66 TTAGGGCTGAA
34831372 TTCTCAAGTG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (81 bp):
AAATCACACCACTTAAGACTTTTGTCCTTGCTGCCTCAGCTGGGCTTTATTGGCATCAGAAGTCA
TTAGGGCTGAAGCAAA
Found at i:34838180 original size:21 final size:21
Alignment explanation
Indices: 34838156--34838196 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
34838146 ACCAAAAATT
34838156 TATTTCAAAAATTAAAAAAAG
1 TATTTCAAAAATTAAAAAAAG
* *
34838177 TATTTTAAAATTTAAAAAAA
1 TATTTCAAAAATTAAAAAAA
34838197 ATTAAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
TATTTCAAAAATTAAAAAAAG
Found at i:34838241 original size:21 final size:21
Alignment explanation
Indices: 34838167--34838247 Score: 73
Period size: 21 Copynumber: 3.9 Consensus size: 21
34838157 ATTTCAAAAA
34838167 TTAAAAAAAGTATTTTAAAA-T
1 TTAAAAAAA-TATTTTAAAATT
*
34838188 TTAAAAAAA-A-TTAAAAAGTAT
1 TTAAAAAAATATTTTAAAA-T-T
*
34838209 TT-TAAAAATA-TTTAAAATT
1 TTAAAAAAATATTTTAAAATT
34838228 TTAAAAAAAGTATTTTAAAA
1 TTAAAAAAA-TATTTTAAAA
34838248 ATATTTTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
18 6 0.12
19 4 0.08
20 11 0.22
21 21 0.43
22 7 0.14
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
TTAAAAAAATATTTTAAAATT
Found at i:34838264 original size:17 final size:17
Alignment explanation
Indices: 34838242--34838287 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
34838232 AAAAAGTATT
34838242 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
*
34838259 TTAAAAAAATTTTAAAA
1 TTAAAAATATTTTAAAA
* *
34838276 ATAAATATATTT
1 TTAAAAATATTT
34838288 ATTATATCGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:34842919 original size:27 final size:27
Alignment explanation
Indices: 34842889--34842940 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
34842879 ATGAGTAATT
34842889 AAAAACATGAATTAAAAATAAAAAATA
1 AAAAACATGAATTAAAAATAAAAAATA
*
34842916 AAAAACATGTATTAAAAATAAAAAA
1 AAAAACATGAATTAAAAATAAAAAA
34842941 AAATGCTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (27 bp):
AAAAACATGAATTAAAAATAAAAAATA
Found at i:34843501 original size:20 final size:20
Alignment explanation
Indices: 34843473--34843518 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
34843463 CAATCGATCC
* *
34843473 CTATATTTTTTTGTTTCAAG
1 CTATTTTTTTTTCTTTCAAG
* *
34843493 CTATTTTTTTTTCTTTTATG
1 CTATTTTTTTTTCTTTCAAG
34843513 CTATTT
1 CTATTT
34843519 GAACTTTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.15, C:0.11, G:0.07, T:0.67
Consensus pattern (20 bp):
CTATTTTTTTTTCTTTCAAG
Found at i:34844657 original size:22 final size:20
Alignment explanation
Indices: 34844629--34844682 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
34844619 TCAATTGTTT
34844629 AATTAGGGTTTAGCATTTATTA
1 AATTAGGGTTTAG--TTTATTA
*
34844651 AATTAGGGTTATTGTTTATTA
1 AATTAGGGTT-TAGTTTATTA
*
34844672 AATTAAGGTTT
1 AATTAGGGTTT
34844683 TAGTGTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 16 0.55
22 10 0.34
23 2 0.07
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (20 bp):
AATTAGGGTTTAGTTTATTA
Found at i:34844763 original size:21 final size:21
Alignment explanation
Indices: 34844738--34844780 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
34844728 GGAAAAATGA
34844738 TTATTATTAGGGTTTTGGGTT
1 TTATTATTAGGGTTTTGGGTT
34844759 TTATTATTAGGGTTTTGGGTT
1 TTATTATTAGGGTTTTGGGTT
34844780 T
1 T
34844781 GTTTAGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.58
Consensus pattern (21 bp):
TTATTATTAGGGTTTTGGGTT
Found at i:34850223 original size:20 final size:18
Alignment explanation
Indices: 34850176--34850224 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
34850166 CAAGATAAAC
34850176 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
34850193 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
34850213 ATTAAATTAATA
1 ATTAAATTAATA
34850225 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:34850602 original size:180 final size:180
Alignment explanation
Indices: 34850300--34850662 Score: 548
Period size: 180 Copynumber: 2.0 Consensus size: 180
34850290 GAATAGTTAA
* *
34850300 TTCTAAATCAAATTATCTGGTAGAGTCCCATTAGGAGTATAACTCTTTCACTACTCAATCAACAA
1 TTCTAAATCAAATTATCTGGTAGAGTCCCAATAGGAGTATAACTCTTCCACTACTCAATCAACAA
* * * *
34850365 TGACCAATTGTCACCGGCCACTGGGACACCACCGTCGCAGCCACTAGCATCGCCGTGTCCGGTGA
66 TGACCAATCGTCACCGACCACTAGGACACCACCGTCGCAACCACTAGCATCGCCGTGTCCGGTGA
* * *
34850430 TGCAGGGGCGACACCCTTACAGCACCCTGAGCCGGTTCGATTGCTACTAG
131 TGCAGGGGAGACACACTTACAGCACCCAGAGCCGGTTCGATTGCTACTAG
* * *
34850480 TTCTAAATCAAATTCTCTGGTAGAGTCCCAATATGAGTATAACTCTTCCACTGCTCAATCAACAA
1 TTCTAAATCAAATTATCTGGTAGAGTCCCAATAGGAGTATAACTCTTCCACTACTCAATCAACAA
* * *
34850545 TGACCAATCG-CTGCCGACCATTAGGACACCACCGTCGCAACCACTGGCATCGCCGTGTCCGGTG
66 TGACCAATCGTC-ACCGACCACTAGGACACCACCGTCGCAACCACTAGCATCGCCGTGTCCGGTG
* * *
34850609 ATGCAGGTGAGACACACTTACAGCACTCAGAGCCGGTTCGATTGCTGCTAG
130 ATGCAGGGGAGACACACTTACAGCACCCAGAGCCGGTTCGATTGCTACTAG
34850660 TTC
1 TTC
34850663 GGTCTGAGTA
Statistics
Matches: 164, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
179 1 0.01
180 163 0.99
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.24
Consensus pattern (180 bp):
TTCTAAATCAAATTATCTGGTAGAGTCCCAATAGGAGTATAACTCTTCCACTACTCAATCAACAA
TGACCAATCGTCACCGACCACTAGGACACCACCGTCGCAACCACTAGCATCGCCGTGTCCGGTGA
TGCAGGGGAGACACACTTACAGCACCCAGAGCCGGTTCGATTGCTACTAG
Found at i:34851290 original size:86 final size:84
Alignment explanation
Indices: 34851179--34851361 Score: 226
Period size: 86 Copynumber: 2.2 Consensus size: 84
34851169 CTTTTATAAA
* * * * *
34851179 AAACGCTGCTAAAGAACATGGCCTTTAGTGGCGCTTTACCCACAAATGTCGCTAAAGAACATGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTACCCACAAACGTCGCTAAA-AA-ATGAC
34851244 CTTTAAC-AGCGC-TTTACCCAC
64 CTTTAACGA-CGCTTTTA-CCAC
* ***
34851265 AAACGCCGCTAAAGAGCATGACCTTTAGCGACGCTTTTTTCACAAACGTCGCTAAAAAATGACCT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTACCCACAAACGTCGCTAAAAAATGACCT
*
34851330 TTAACGACGCTTTTATCAC
66 TTAACGACGCTTTTACCAC
34851349 AAACGCCGCTAAA
1 AAACGCCGCTAAA
34851362 AATACCGTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
84 31 0.36
85 7 0.08
86 47 0.55
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (84 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTACCCACAAACGTCGCTAAAAAATGACCT
TTAACGACGCTTTTACCAC
Found at i:34851363 original size:41 final size:42
Alignment explanation
Indices: 34851136--34851361 Score: 181
Period size: 43 Copynumber: 5.3 Consensus size: 42
34851126 TTATTTGAAA
* * ** * * *
34851136 AAACGCCGCTATAGAACATGGCCTTTAGTGGCGCTTTTATAAA
1 AAACGCCGCTAAAGAA-ATGACCTTTAACGACGCTTTTATCAC
* * ** * *
34851179 AAACGCTGCTAAAGAACATGGCCTTTAGTGGCGC-TTTACCCAC
1 AAACGCCGCTAAAGAA-ATGACCTTTAACGACGCTTTTA-TCAC
* * *
34851222 AAATGTCGCTAAAGAACATGACCTTTAAC-AGCGC-TTTACCCAC
1 AAACGCCGCTAAAGAA-ATGACCTTTAACGA-CGCTTTTA-TCAC
* * *
34851265 AAACGCCGCTAAAGAGCATGACCTTTAGCGACGCTTTTTTCAC
1 AAACGCCGCTAAAGA-AATGACCTTTAACGACGCTTTTATCAC
*
34851308 AAACGTCGCTAAA-AAATGACCTTTAACGACGCTTTTATCAC
1 AAACGCCGCTAAAGAAATGACCTTTAACGACGCTTTTATCAC
34851349 AAACGCCGCTAAA
1 AAACGCCGCTAAA
34851362 AATACCGTTT
Statistics
Matches: 155, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
41 36 0.23
42 5 0.03
43 110 0.71
44 4 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGAAATGACCTTTAACGACGCTTTTATCAC
Found at i:34856696 original size:40 final size:41
Alignment explanation
Indices: 34856548--34856699 Score: 191
Period size: 41 Copynumber: 3.7 Consensus size: 41
34856538 TTACCTTTCG
*
34856548 GGGCTTTAGCGGCG-TTTCTTGAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTC-GGAAAAGCGCCGCTAATGCTCA
* *
34856589 TGGCTTTAGCGGCGTTTTCGGATAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTCGGAAAAGCGCCGCTAATGCTCA
* * * *
34856630 GGGTTTTAGCGGCGTTTTTGGGAAAGCGCTGCTAATGCTC-
1 GGGCTTTAGCGGCGTTTTCGGAAAAGCGCCGCTAATGCTCA
* **
34856670 GGGCTTTAGCGGCATTTTCAAAAAAGCGCC
1 GGGCTTTAGCGGCGTTTTCGGAAAAGCGCC
34856700 ACAAAAACAT
Statistics
Matches: 94, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 23 0.24
41 67 0.71
42 4 0.04
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.28
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTCGGAAAAGCGCCGCTAATGCTCA
Found at i:34857050 original size:14 final size:14
Alignment explanation
Indices: 34857033--34857069 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
34857023 GGGTTTAATA
*
34857033 TATATTGTTTAGGG
1 TATATGGTTTAGGG
34857047 TATATGGTTTAGGG
1 TATATGGTTTAGGG
34857061 TATATGGTT
1 TATATGGTT
34857070 AATTTAGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:34857195 original size:22 final size:21
Alignment explanation
Indices: 34857170--34857214 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
34857160 GTGTTGTGAT
*
34857170 TTAAGGGTAAGGGAGTTAGAGA
1 TTAAGAGTAAGGGAGTTAG-GA
* *
34857192 TTAAGAGTTAGGGATTTAGGA
1 TTAAGAGTAAGGGAGTTAGGA
34857213 TT
1 TT
34857215 TATGGATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (21 bp):
TTAAGAGTAAGGGAGTTAGGA
Found at i:34857242 original size:26 final size:24
Alignment explanation
Indices: 34857207--34857254 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
34857197 AGTTAGGGAT
34857207 TTAGGATTTATGGATTTAGTATTAGG
1 TTAGGATTTA-GGATTTAG-ATTAGG
* *
34857233 TTAGGGTTTAGGGTTTAGATTA
1 TTAGGATTTAGGATTTAGATTA
34857255 ATTATTGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 7 0.35
26 9 0.45
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (24 bp):
TTAGGATTTAGGATTTAGATTAGG
Found at i:34857327 original size:5 final size:6
Alignment explanation
Indices: 34857311--34857345 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
34857301 TAGGGGTTCA
34857311 GGTTTG GGTTT- GGTTTG GGTTTG GGTTTAG GGTTT
1 GGTTTG GGTTTG GGTTTG GGTTTG GGTTT-G GGTTT
34857346 AGATTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (6 bp):
GGTTTG
Found at i:34857327 original size:11 final size:12
Alignment explanation
Indices: 34857311--34857345 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
34857301 TAGGGGTTCA
34857311 GGTTTGGGTTT-
1 GGTTTGGGTTTG
34857322 GGTTTGGGTTTG
1 GGTTTGGGTTTG
34857334 GGTTTAGGGTTT
1 GGTTT-GGGTTT
34857346 AGATTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 5 0.23
13 6 0.27
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (12 bp):
GGTTTGGGTTTG
Found at i:34857345 original size:7 final size:7
Alignment explanation
Indices: 34857284--34857347 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 7
34857274 TATTAAATAA
34857284 GGTTTAG
1 GGTTTAG
*
34857291 GGGTTAG
1 GGTTTAG
34857298 GG-TTAGG
1 GGTTTA-G
*
34857305 GGTTCA-
1 GGTTTAG
34857311 GGTTT-G
1 GGTTTAG
34857317 GGTTT--
1 GGTTTAG
34857322 GGTTT-G
1 GGTTTAG
34857328 GGTTT-G
1 GGTTTAG
34857334 GGTTTAG
1 GGTTTAG
34857341 GGTTTAG
1 GGTTTAG
34857348 ATTAATTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
5 5 0.10
6 23 0.47
7 19 0.39
8 2 0.04
ACGTcount: A:0.09, C:0.02, G:0.47, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:34857345 original size:13 final size:13
Alignment explanation
Indices: 34857284--34857345 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
34857274 TATTAAATAA
*
34857284 GGTTTAGGGGTTAG
1 GGTTTA-GGGTTTG
**
34857298 GG-TTAGGGGTTCA
1 GGTTTA-GGGTTTG
34857311 GGTTT-GGGTTT-
1 GGTTTAGGGTTTG
34857322 GGTTT-GGGTTTG
1 GGTTTAGGGTTTG
34857334 GGTTTAGGGTTT
1 GGTTTAGGGTTT
34857346 AGATTAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
11 11 0.26
12 10 0.24
13 17 0.40
14 4 0.10
ACGTcount: A:0.08, C:0.02, G:0.47, T:0.44
Consensus pattern (13 bp):
GGTTTAGGGTTTG
Found at i:34861406 original size:43 final size:43
Alignment explanation
Indices: 34861345--34861484 Score: 156
Period size: 43 Copynumber: 3.3 Consensus size: 43
34861335 GCGATATTTT
* *
34861345 TAGCGGGGTTTGTGAGAAAAGCGCCGCTAAAAGCCATGATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTA
* **
34861388 TAGCGGCGTTTGTGAGAAAATCGTTGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * * * * *
34861431 TAGCGACGTTT-TAGGGGAAAGTGCCGTTAAAAGTCTTTATCTA
1 TAGCGGCGTTTGT-GAGAAAAGCGCCGCTAAAAGTCATGATCTA
34861474 TAGCGGCGTTT
1 TAGCGGCGTTT
34861485 TTTTAGAAGC
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 1 0.01
43 79 0.99
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:34861845 original size:21 final size:22
Alignment explanation
Indices: 34861799--34861846 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
34861789 AACATCTAAC
* * *
34861799 CCCTAACCTTTAAATCTTAAAT
1 CCCTAACCCTTAAACCATAAAT
34861821 -CCTAACCCTTAAACCAT-AAT
1 CCCTAACCCTTAAACCATAAAT
34861841 CCCTAA
1 CCCTAA
34861847 TCCATAATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (22 bp):
CCCTAACCCTTAAACCATAAAT
Found at i:34861863 original size:15 final size:14
Alignment explanation
Indices: 34861834--34861875 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
34861824 AACCCTTAAA
34861834 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
34861848 CCATAATCTCTGAAT
1 CCATAATCCCT-AAT
*
34861863 CCATATTCCCTAA
1 CCATAATCCCTAA
34861876 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.31
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:34862183 original size:15 final size:14
Alignment explanation
Indices: 34862141--34862189 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
34862131 TCCCAACCCT
*
34862141 TAAACCATAATACC
1 TAAACCATAATCCC
34862155 TAAACCATAATCCC
1 TAAACCATAATCCC
*
34862169 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
34862184 TAAACC
1 TAAACC
34862190 TTAAAATAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 19 0.59
15 13 0.41
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:34862595 original size:41 final size:41
Alignment explanation
Indices: 34862535--34862975 Score: 445
Period size: 41 Copynumber: 10.8 Consensus size: 41
34862525 ATAAAAAATT
*
34862535 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAACA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
*** * *
34862576 TTAGCAATGCTTTTCCAAAAACACCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
* * * * *
34862617 TTAGCGGTGCTTTTCCAAAAACGCAGCTAAAGCCCTCAACA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
* * * * *
34862658 TTAGAGGCGCTTTTTCAAAAACGCCACTAAAACCTCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
* * *
34862699 TTAGCGGCGC-TTTTAAAAAACGCCGCTAAAACCCCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
* *
34862739 TTAGCGGCACTTTTTCAAAAACGCCGCTAAAG-CCCTAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
* * * * *
34862779 TTAGTGACGCTTTTTCAAAAACGCCGCTAAAACCTCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
* ** * * *
34862820 TTAGCGGCGCTTTTTAAAAAACATCGCTAAAACACCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
* ** * * * *
34862861 TTAGTGTTGCTTTTTCAAAAACGCAGCTAAAACCTCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
* * * *
34862902 TTAGCGGTGCATTTTCAAAAACACCGCTAAAGCCCCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
* * **
34862943 TTGGCGGCGTTTTTTTGAAAACGCCGCTAAAGC
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGC
34862976 TCCTAAAGGT
Statistics
Matches: 332, Mismatches: 66, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
40 71 0.21
41 261 0.79
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCA
Found at i:34866501 original size:114 final size:112
Alignment explanation
Indices: 34866097--34866655 Score: 482
Period size: 115 Copynumber: 4.9 Consensus size: 112
34866087 TATGTTACAG
* *
34866097 TTAGTGGCGTTTAAGGGAAAACGCCGCTATAGCATAATATTAGCGGCG-TTTTGTGAGAAGCGCC
1 TTAGTGGCG-TTAAGGG-AAACGCCGCTAAAGCATACTATTAGCGGCGCTTTT-TGAGAAGCGCC
* * *
34866161 GCAAAATAT-CTTAACCAAAACGCAAAGTTTGGTCTTGAGGTATACAAGAA
63 GCAAAATATGC-TAACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAA
** **
34866211 TTAGTGGCGCAAAGGGAACACGCCGCT-AAGTCATACTATTAGCGGCGCTTTCGGAGAAGCGCCG
1 TTAGTGGCGTTAAGGGAA-ACGCCGCTAAAG-CATACTATTAGCGGCGCTTTTTGAGAAGCGCCG
* * * * * *
34866275 CAATATTTGGTAACCAAAACGCAGTGTTTTTTGTCTTGATGTATAC-AGTTA
64 CAAAATATGCTAACCAAAACGCAGAG--TTTTGTCTTGAGGTATACTAG-AA
** * * **** *
34866326 TTAGTGGCGTATATTA-AAAAACGCCGCTAAATCATAGTATTAGCGGCGCTTGGCAAAAAGCGCC
1 TTAGTGGCGT-TA--AGGGAAACGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAGCGCC
* * *
34866390 GCAAAATATGCTCACCAAAACGCAGAGTTTTTTCTTGAGGTATATTAGAA
63 GCAAAATATGCTAACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAA
* * * *
34866440 TTAGTTGCGCTTACGGGAGAACGCCACTAAAGCATACTATTAGCGGCACTTTTTGAGAAGCGCCG
1 TTAGTGGCG-TTAAGGGA-AACGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAGCGCCG
** * * * *
34866505 CAAAATATATTAACAAAAACGCA-ACGTTTAAGTCTTGATGTATACTGGAA
64 CAAAATATGCTAACCAAAACGCAGA-GTTT-TGTCTTGAGGTATACTAGAA
* * * * * *
34866555 TTAATGGCGTCCACGAGAAATCGCCGCTAAAGCATAGTATTAGTGGCGCTTTTTGAGAAGCGCCG
1 TTAGTGGCGT-TAAGGGAAA-CGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAGCGCCG
* ** *
34866620 GAAAATATTTTAACCAAAACACAGAGTTTTGGTCTT
64 CAAAATATGCTAACCAAAACGCAGAGTTTT-GTCTT
34866656 AATTAACCAT
Statistics
Matches: 355, Mismatches: 69, Indels: 41
0.76 0.15 0.09
Matches are distributed among these distances:
112 4 0.01
113 61 0.17
114 103 0.29
115 124 0.35
116 58 0.16
117 4 0.01
118 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (112 bp):
TTAGTGGCGTTAAGGGAAACGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAGCGCCGCA
AAATATGCTAACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAA
Found at i:34866542 original size:229 final size:229
Alignment explanation
Indices: 34866114--34866655 Score: 561
Period size: 229 Copynumber: 2.4 Consensus size: 229
34866104 CGTTTAAGGG
* * * * ** *
34866114 AAAACGCCGCTATAGCATAATATTAGCGGCGTTTTGTGAGAAGCGCCGCAAAATATCTTAACCAA
1 AAAACGCCGCTAAAGCATAGTATTAGCGGCGCTTGGCAAAAAGCGCCGCAAAATATCTTAACCAA
*
34866179 AACGCAAAGTTTGGTCTTGAGGTATACAAGAATTAGTGGCGCAAAGGGAACACGCCGCTAAGTCA
66 AACGCAAAGTTTGGTCTTGAGGTATACAAGAATTAGTGGCGCAAAGGGAACACGCCACTAAGTCA
* * * * * ** **
34866244 TACTATTAGCGGCGCTTTCGGAGAAGCGCCGCAATATTTGGTAACCAAAACGCAGTGTTTTTTGT
131 TACTATTAGCGGCACTTTCGGAGAAGCGCCGCAAAATATAGTAACAAAAACGCAACGTTTTAAGT
** * * **
34866309 CTTGATGTATACAGTTATTAGTGGCGTATATTAA
196 CTTGATGTATACAGGAATTAATGGCGTACACGAA
* *
34866343 AAAACGCCGCTAAATCATAGTATTAGCGGCGCTTGGCAAAAAGCGCCGCAAAATATGC-TCACCA
1 AAAACGCCGCTAAAGCATAGTATTAGCGGCGCTTGGCAAAAAGCGCCGCAAAATAT-CTTAACCA
* ** ** * * *
34866407 AAACGCAGAGTTTTTTCTTGAGGTATATTAGAATTAGTTGCGCTTACGGGAGA-ACGCCACTAAA
65 AAACGCAAAGTTTGGTCTTGAGGTATACAAGAATTAGTGGCGC-AAAGGGA-ACACGCCACT-AA
** *
34866471 G-CATACTATTAGCGGCACTTTTTGAGAAGCGCCGCAAAATATATTAACAAAAACGCAACG-TTT
127 GTCATACTATTAGCGGCACTTTCGGAGAAGCGCCGCAAAATATAGTAACAAAAACGCAACGTTTT
* * *
34866534 AAGTCTTGATGTATACTGGAATTAATGGCGTCCACGAG
192 AAGTCTTGATGTATACAGGAATTAATGGCGTACACGAA
* * **** * * *
34866572 AAATCGCCGCTAAAGCATAGTATTAGTGGCGCTTTTTGAGAAGCGCCGGAAAATATTTTAACCAA
1 AAAACGCCGCTAAAGCATAGTATTAGCGGCGCTTGGCAAAAAGCGCCGCAAAATATCTTAACCAA
* *
34866637 AACACAGAGTTTTGGTCTT
66 AACGCAAAG-TTTGGTCTT
34866656 AATTAACCAT
Statistics
Matches: 254, Mismatches: 53, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
229 181 0.71
230 69 0.27
231 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (229 bp):
AAAACGCCGCTAAAGCATAGTATTAGCGGCGCTTGGCAAAAAGCGCCGCAAAATATCTTAACCAA
AACGCAAAGTTTGGTCTTGAGGTATACAAGAATTAGTGGCGCAAAGGGAACACGCCACTAAGTCA
TACTATTAGCGGCACTTTCGGAGAAGCGCCGCAAAATATAGTAACAAAAACGCAACGTTTTAAGT
CTTGATGTATACAGGAATTAATGGCGTACACGAA
Found at i:34868839 original size:43 final size:43
Alignment explanation
Indices: 34868503--34868838 Score: 399
Period size: 43 Copynumber: 7.8 Consensus size: 43
34868493 AGAAAAAAAT
* * * *
34868503 GCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTTCTAAAAAC
1 GCCGCTAAAGACCTTGTCCTTTAGCGGCGCTTTTTCCACAAAC
** * *
34868546 GCCGCTAAAGGTCATGTCCTTTAGCGGCGCTTTTAT-C-CAAGC
1 GCCGCTAAAGACCTTGTCCTTTAGCGGCGCTTTT-TCCACAAAC
* *
34868588 GCCGCTAAAGACCTTGTCCTTTAGGGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCTTGTCCTTTAGCGGCGCTTTTTCCACAAAC
* * ** *
34868631 GCCGCGAAAGACCATGTTATTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCTTGTCCTTTAGCGGCGCTTTTTCCACAAAC
* *
34868674 ACTGCTAAAGACCTTGTCCTTTAGCGGCGCTTTTTCCACAAAC
1 GCCGCTAAAGACCTTGTCCTTTAGCGGCGCTTTTTCCACAAAC
* *
34868717 GCTGCTAAAGACCTTGACCTTTAGCGGCGC-TTTTCCTACAAAC
1 GCCGCTAAAGACCTTGTCCTTTAGCGGCGCTTTTTCC-ACAAAC
*
34868760 GCCGCTAAAGACCTTTGTCCTTTAGCGGCGCTTTTTTCACAAAC
1 GCCGCTAAAGACC-TTGTCCTTTAGCGGCGCTTTTTCCACAAAC
* * ** *
34868804 ACCGCTAAAGACCCTAACCTTTAGCGGCACTTTTT
1 GCCGCTAAAGACCTTGTCCTTTAGCGGCGCTTTTT
34868839 TAAAAAACGC
Statistics
Matches: 255, Mismatches: 32, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
42 40 0.16
43 175 0.69
44 35 0.14
45 5 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (43 bp):
GCCGCTAAAGACCTTGTCCTTTAGCGGCGCTTTTTCCACAAAC
Found at i:34869060 original size:19 final size:19
Alignment explanation
Indices: 34869032--34869088 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
34869022 ACAAAAATGT
*
34869032 TAAAATTTAAAATGATAAA
1 TAAAAGTTAAAATGATAAA
*
34869051 TAAAAGTTAAAATGATAAT
1 TAAAAGTTAAAATGATAAA
34869070 TAAAAGTTAAAATGATAAA
1 TAAAAGTTAAAATGATAAA
34869089 AATATTTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (19 bp):
TAAAAGTTAAAATGATAAA
Found at i:34869219 original size:21 final size:21
Alignment explanation
Indices: 34869191--34869239 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
34869181 TCTACGCTGG
*
34869191 TCTGCTTCCCTTGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCC
* * *
34869212 TTTGCTTCTCTCGCTGCCGCC
1 TCTGCTTCCCTCGCTGCAGCC
34869233 TCTGCTT
1 TCTGCTT
34869240 TAAGCTGCAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.41, G:0.18, T:0.39
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCC
Found at i:34869707 original size:13 final size:14
Alignment explanation
Indices: 34869678--34869710 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
34869668 ACAGTAGATG
*
34869678 AAATAAACCATTAA
1 AAATAAACCACTAA
34869692 AAATAAA-CACTAA
1 AAATAAACCACTAA
34869705 AAATAA
1 AAATAA
34869711 TTAAAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (14 bp):
AAATAAACCACTAA
Found at i:34874813 original size:9 final size:9
Alignment explanation
Indices: 34874796--34875139 Score: 253
Period size: 9 Copynumber: 39.8 Consensus size: 9
34874786 TATGTATTTA
*
34874796 GTAAATTAT
1 GTAAGTTAT
34874805 GTAAGTTAT
1 GTAAGTTAT
*
34874814 GTACGTGTA-
1 GTAAGT-TAT
34874823 -TAAGTTAT
1 GTAAGTTAT
34874831 GTAAGTTAT
1 GTAAGTTAT
*
34874840 GT-A-TTAA
1 GTAAGTTAT
*
34874847 GTAAGCTAT
1 GTAAGTTAT
*
34874856 GTAAGTTTT
1 GTAAGTTAT
34874865 GT-A-TTAT
1 GTAAGTTAT
*
34874872 GTAACTTAT
1 GTAAGTTAT
34874881 GTAAGTTAT
1 GTAAGTTAT
** *
34874890 CAAAGTAAT
1 GTAAGTTAT
*
34874899 GTATGTTAT
1 GTAAGTTAT
34874908 GTAAG-T-T
1 GTAAGTTAT
34874915 GTAAGTTAT
1 GTAAGTTAT
34874924 GT-A-TTAT
1 GTAAGTTAT
* *
34874931 GTAACTTGT
1 GTAAGTTAT
34874940 GTAAGTTAT
1 GTAAGTTAT
* *
34874949 -CAAATTAAT
1 GTAAGTT-AT
*
34874958 GTATGTTAT
1 GTAAGTTAT
34874967 GTAAG-T-T
1 GTAAGTTAT
34874974 GTAAGTTAT
1 GTAAGTTAT
*
34874983 -TATGTATTAT
1 GTAAG--TTAT
34874993 GTAAGTTAT
1 GTAAGTTAT
34875002 GTAAGTTAT
1 GTAAGTTAT
34875011 GTAAGTTAT
1 GTAAGTTAT
34875020 GT-A-TTAT
1 GTAAGTTAT
*
34875027 GTAGGTTAT
1 GTAAGTTAT
*
34875036 GTAAGTTGT
1 GTAAGTTAT
*
34875045 GTAAGATAT
1 GTAAGTTAT
*
34875054 TTAAGTTAT
1 GTAAGTTAT
*
34875063 GTAAGTTTT
1 GTAAGTTAT
34875072 GT-A-TTAT
1 GTAAGTTAT
34875079 GTAAGTTAT
1 GTAAGTTAT
* *
34875088 GTATGCTAT
1 GTAAGTTAT
34875097 GT-A-TTAT
1 GTAAGTTAT
34875104 GTAAGTTGTTAT
1 GTAA---GTTAT
*
34875116 GTTA-TTAT
1 GTAAGTTAT
34875124 GTAAGTTAT
1 GTAAGTTAT
*
34875133 GCAAGTT
1 GTAAGTT
34875140 TAAATATAAG
Statistics
Matches: 261, Mismatches: 46, Indels: 56
0.72 0.13 0.15
Matches are distributed among these distances:
7 46 0.18
8 32 0.12
9 164 0.63
10 9 0.03
11 3 0.01
12 7 0.03
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:34874885 original size:34 final size:34
Alignment explanation
Indices: 34874800--34875133 Score: 190
Period size: 34 Copynumber: 10.0 Consensus size: 34
34874790 TATTTAGTAA
*
34874800 ATTATGTAAGTTATGTACGTGTA--TAAGTTATGT
1 ATTATGTAAGTTATGTAAGT-TATGTAAGTTATGT
* * *
34874833 AAGTTATGT-A-TTAAGTAAGCTATGTAAGTTTTGT
1 -A-TTATGTAAGTTATGTAAGTTATGTAAGTTATGT
* *
34874867 ATTATGTAACTTATGTAAGTTAT-CAA---A-GT
1 ATTATGTAAGTTATGTAAGTTATGTAAGTTATGT
*
34874896 A--ATGTATGTTATGTAAG-T-TGTAAGTTATGT
1 ATTATGTAAGTTATGTAAGTTATGTAAGTTATGT
* * * *
34874926 ATTATGTAACTTGTGTAAGTTAT-CAAATTAATGT
1 ATTATGTAAGTTATGTAAGTTATGTAAGTT-ATGT
*
34874960 ATGTTATGTAAG-T-TGTAAGTTAT-TATGTATTATGT
1 A--TTATGTAAGTTATGTAAGTTATGTAAG--TTATGT
34874995 AAGTTATGTAAGTTATGTAAGTTATGT-A-TTATGT
1 -A-TTATGTAAGTTATGTAAGTTATGTAAGTTATGT
* * *
34875029 AGGTTATGTAAGTTGTGTAAGATATTTAAGTTATGT
1 A--TTATGTAAGTTATGTAAGTTATGTAAGTTATGT
* * *
34875065 AAGTTTTGT-A-TTATGTAAGTTATGTATGCTATGT
1 -A-TTATGTAAGTTATGTAAGTTATGTAAGTTATGT
*
34875099 ATTATGTAAGTTGTTATGTTA-TTATGTAAGTTATG
1 ATTATGTAA---GTTATGTAAGTTATGTAAGTTATG
34875134 CAAGTTTAAA
Statistics
Matches: 234, Mismatches: 34, Indels: 62
0.71 0.10 0.19
Matches are distributed among these distances:
25 1 0.00
26 3 0.01
27 14 0.06
29 4 0.02
30 3 0.01
32 26 0.11
33 19 0.08
34 86 0.37
35 23 0.10
36 36 0.15
37 18 0.08
38 1 0.00
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (34 bp):
ATTATGTAAGTTATGTAAGTTATGTAAGTTATGT
Found at i:34874901 original size:59 final size:58
Alignment explanation
Indices: 34874823--34875047 Score: 238
Period size: 59 Copynumber: 3.8 Consensus size: 58
34874813 TGTACGTGTA
** * *
34874823 TAAGTTATGTAAGTTATGTA-TTAAGTAAGCTATGTAAGTTTTGTATTATGTAACTTATG
1 TAAGTTATCAAAGTAATGTAGTTATGTAAG-T-TGTAAGTTTTGTATTATGTAACTTATG
* *
34874882 TAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATGTATTATGTAACTTGTG
1 TAAGTTATCAAAGTAATGTA-GTTATGTAAGTTGTAAGTTTTGTATTATGTAACTTATG
* *
34874941 TAAGTTATCAAATTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTATG
1 TAAGTTATCAAAGTAATGTA-GTTATGTAAGTTGTAAG-T-TT-TGTATTATGTAACTTATG
** * * *
34875003 TAAGTTATGTAAGTTATGTA-TTATGTAGGTTATGTAAGTTGTGTA
1 TAAGTTATCAAAGTAATGTAGTTATGTAAG-T-TGTAAGTTTTGTA
34875048 AGATATTTAA
Statistics
Matches: 143, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
59 83 0.58
60 11 0.08
61 11 0.08
62 38 0.27
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (58 bp):
TAAGTTATCAAAGTAATGTAGTTATGTAAGTTGTAAGTTTTGTATTATGTAACTTATG
Found at i:34874987 original size:19 final size:19
Alignment explanation
Indices: 34874963--34875019 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
34874953 TTAATGTATG
34874963 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
34874982 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
*
34875001 TGTAAGT--TATGTAAGTTA
1 T-TATGTAGTATGTAAGTTA
34875019 T
1 T
34875020 GTATTATGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 14 0.41
19 16 0.47
20 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:34875110 original size:25 final size:25
Alignment explanation
Indices: 34874785--34875106 Score: 167
Period size: 25 Copynumber: 12.3 Consensus size: 25
34874775 GTTACATAAT
*
34874785 TTATGTATT-TAGTAAATTATGTAAG
1 TTATGTATTAT-GTAAGTTATGTAAG
* * *
34874810 TTATGTACGTGTATAAGTTATGTAAG
1 TTATGTA-TTATGTAAGTTATGTAAG
* *
34874836 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
34874861 TTTTGTATTATGTAACTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
34874886 TTATCAAAGTAATGTATGTTATGTAAGTTGTAAG
1 TTAT----GT-AT-TATG-TAAGTTA--TGTAAG
* *
34874920 TTATGTATTATGTAACTTGTGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
** *
34874945 TTATCAAATTAATGTATGTTATGTAAG
1 TTAT-GTATT-ATGTAAGTTATGTAAG
*
34874972 TTGTAAGTTATTATGT-A-TTATGTAAG
1 -T-TATG-TATTATGTAAGTTATGTAAG
34874998 TTATGTAAGTTATGTAAGTTATGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
34875023 TTATGTAGGTTATGTAAGTTGTGTAAG
1 TTATGTA--TTATGTAAGTTATGTAAG
* * *
34875050 ATATTTAAGTTATGTAAGTTTTGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
34875075 TTATGTAAGTTATGTATGCTATGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
34875100 TTATGTA
1 TTATGTA
34875107 AGTTGTTATG
Statistics
Matches: 234, Mismatches: 39, Indels: 49
0.73 0.12 0.15
Matches are distributed among these distances:
23 1 0.00
24 6 0.03
25 108 0.46
26 36 0.15
27 42 0.18
28 10 0.04
29 9 0.04
30 4 0.02
31 4 0.02
32 4 0.02
34 10 0.04
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.47
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:34875123 original size:20 final size:19
Alignment explanation
Indices: 34874973--34875130 Score: 67
Period size: 16 Copynumber: 8.4 Consensus size: 19
34874963 TTATGTAAGT
*
34874973 TGTAAGTTATTATGTATTA
1 TGTAAGTTGTTATGTATTA
34874992 TGTAA---GTTATGTAAGTTA
1 TGTAAGTTGTTATGT-A-TTA
34875010 TGTAA---GTTATGTATTA
1 TGTAAGTTGTTATGTATTA
*
34875026 TGT-AG--GTTATGTAAGTTG
1 TGTAAGTTGTTATGT-A-TTA
*
34875044 TGTAAGATAT-TTAAG--TTA
1 TGTAAG-T-TGTTATGTATTA
34875062 TGTAAG-T-TT-TGTATTA
1 TGTAAGTTGTTATGTATTA
34875078 TGTAAGTTATGTATGCTATGTATTA
1 TGTAAG-T-TG--T--TATGTATTA
34875103 TGTAAGTTGTTATGTTATTA
1 TGTAAGTTGTTATG-TATTA
34875123 TGTAAGTT
1 TGTAAGTT
34875131 ATGCAAGTTT
Statistics
Matches: 112, Mismatches: 5, Indels: 43
0.70 0.03 0.27
Matches are distributed among these distances:
14 1 0.01
15 4 0.04
16 28 0.25
17 3 0.03
18 28 0.25
19 12 0.11
20 13 0.12
21 1 0.01
22 5 0.04
23 2 0.02
24 2 0.02
25 13 0.12
ACGTcount: A:0.29, C:0.01, G:0.21, T:0.49
Consensus pattern (19 bp):
TGTAAGTTGTTATGTATTA
Found at i:34875271 original size:13 final size:13
Alignment explanation
Indices: 34875253--34875277 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34875243 ATATAAGTTT
34875253 ATGTAAGTTATGG
1 ATGTAAGTTATGG
34875266 ATGTAAGTTATG
1 ATGTAAGTTATG
34875278 TATTATGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (13 bp):
ATGTAAGTTATGG
Found at i:34875278 original size:9 final size:9
Alignment explanation
Indices: 34875266--34875406 Score: 50
Period size: 9 Copynumber: 16.2 Consensus size: 9
34875256 TAAGTTATGG
34875266 ATGTAAGTT
1 ATGTAAGTT
34875275 ATGT-A-TT
1 ATGTAAGTT
34875282 ATGTAAGTT
1 ATGTAAGTT
* *
34875291 ATTTAAATT
1 ATGTAAGTT
* *
34875300 ATTTAAATT
1 ATGTAAGTT
*
34875309 GTGT-A-TT
1 ATGTAAGTT
*
34875316 ATGTAAGTC
1 ATGTAAGTT
* *
34875325 ATGTAGGCT
1 ATGTAAGTT
34875334 ATGT--GTT
1 ATGTAAGTT
*
34875341 TTGTAAGTT
1 ATGTAAGTT
34875350 AT-T-A--T
1 ATGTAAGTT
*
34875355 AAGTAAGTT
1 ATGTAAGTT
*
34875364 ATGAAAGTTAT
1 ATGTAAG-T-T
*
34875375 ATATAAGTTTAT
1 ATGTAAG--T-T
*
34875387 ATATAAGTT
1 ATGTAAGTT
34875396 ATGTAAGTT
1 ATGTAAGTT
34875405 AT
1 AT
34875407 TGTGTAAGTT
Statistics
Matches: 101, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
5 2 0.02
6 1 0.01
7 18 0.18
8 5 0.05
9 56 0.55
10 2 0.02
11 6 0.06
12 11 0.11
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:34875287 original size:16 final size:16
Alignment explanation
Indices: 34875266--34875329 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
34875256 TAAGTTATGG
34875266 ATGTAAGTTATGTATT
1 ATGTAAGTTATGTATT
*
34875282 ATGTAAGTTATTTAAATT
1 ATGTAAGTTATGT--ATT
* * *
34875300 ATTTAAATTGTGTATT
1 ATGTAAGTTATGTATT
*
34875316 ATGTAAGTCATGTA
1 ATGTAAGTTATGTA
34875330 GGCTATGTGT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
16 25 0.68
18 12 0.32
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (16 bp):
ATGTAAGTTATGTATT
Found at i:34875389 original size:10 final size:11
Alignment explanation
Indices: 34875368--34875499 Score: 74
Period size: 12 Copynumber: 11.6 Consensus size: 11
34875358 TAAGTTATGA
34875368 AAGTTATATAT
1 AAGTTATATAT
34875379 AAGTTTATATAT
1 AAG-TTATATAT
*
34875391 AAG-T-TATGT
1 AAGTTATATAT
* *
34875400 AAGTTATTGTGT
1 AAGTTA-TATAT
34875412 AAGTTTATATAT
1 AAG-TTATATAT
* * *
34875424 AAATTTTGATTT
1 AAGTTAT-ATAT
*
34875436 AAGTTATGTATGT
1 AAGTTA--TATAT
34875449 AAGTTATATAT
1 AAGTTATATAT
34875460 AAGTTTATATAT
1 AAG-TTATATAT
* *
34875472 AA-CT-TATGT
1 AAGTTATATAT
*
34875481 AAGTTATTATGT
1 AAGTTA-TATAT
34875493 AAGTTAT
1 AAGTTAT
34875500 GTGTTGTGTA
Statistics
Matches: 95, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
9 13 0.14
10 4 0.04
11 14 0.15
12 51 0.54
13 12 0.13
14 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (11 bp):
AAGTTATATAT
Found at i:34875394 original size:32 final size:33
Alignment explanation
Indices: 34875358--34875464 Score: 110
Period size: 33 Copynumber: 3.2 Consensus size: 33
34875348 TTATTATAAG
34875358 TAAGTTATGAAAGTTA-TATATAAGTTTATATA
1 TAAGTTATGAAAGTTATTATATAAGTTTATATA
* * *
34875390 TAAGTTATGTAAGTTATTGTGTAAGTTTATATA
1 TAAGTTATGAAAGTTATTATATAAGTTTATATA
* * *
34875423 TAAATTTTGATTTAAGTTATGTATGTAAG-TTATATA
1 TAAGTTATGA---AAGTTAT-TATATAAGTTTATATA
34875459 TAAGTT
1 TAAGTT
34875465 TATATATAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
32 15 0.24
33 21 0.34
36 19 0.31
37 7 0.11
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (33 bp):
TAAGTTATGAAAGTTATTATATAAGTTTATATA
Found at i:34875420 original size:45 final size:44
Alignment explanation
Indices: 34875371--34875497 Score: 137
Period size: 45 Copynumber: 3.0 Consensus size: 44
34875361 GTTATGAAAG
34875371 TTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTAAGT
1 TTATATATAAGTTTATATATAAGTTATGTAAGTTATT-TGTAAGT
* *
34875416 TTATATATAAATTT-TGATTTAAGTTA--T--G-TA--TGTAAG-
1 TTATATATAAGTTTAT-ATATAAGTTATGTAAGTTATTTGTAAGT
*
34875452 TTATATATAAGTTTATATATAACTTATGTAAGTTATTATGTAAGT
1 TTATATATAAGTTTATATATAAGTTATGTAAGTTATT-TGTAAGT
34875497 T
1 T
34875498 ATGTGTTGTG
Statistics
Matches: 66, Mismatches: 5, Indels: 22
0.71 0.05 0.24
Matches are distributed among these distances:
36 21 0.32
37 7 0.11
38 1 0.02
40 3 0.05
41 3 0.05
43 1 0.02
44 7 0.11
45 23 0.35
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.50
Consensus pattern (44 bp):
TTATATATAAGTTTATATATAAGTTATGTAAGTTATTTGTAAGT
Found at i:34875490 original size:12 final size:12
Alignment explanation
Indices: 34875342--34875499 Score: 65
Period size: 12 Copynumber: 13.8 Consensus size: 12
34875332 CTATGTGTTT
34875342 TGTAAGTTATTA
1 TGTAAGTTATTA
*
34875354 --TAAGTAAGTTA
1 TGTAAGTTA-TTA
*
34875365 TGAAAGTTA-TA
1 TGTAAGTTATTA
*
34875376 TATAAGTT-TATA
1 TGTAAGTTAT-TA
*
34875388 TATAAG---TTA
1 TGTAAGTTATTA
*
34875397 TGTAAGTTATTG
1 TGTAAGTTATTA
34875409 TGTAAGTT-TATA
1 TGTAAGTTAT-TA
* *
34875421 TATAAATT-TTGA
1 TGTAAGTTATT-A
*
34875433 TTTAAGTTATGTA
1 TGTAAGTTAT-TA
34875446 TGTAAGTTA-TA
1 TGTAAGTTATTA
*
34875457 TATAAGTT-TATA
1 TGTAAGTTAT-TA
* *
34875469 TATAA---CTTA
1 TGTAAGTTATTA
34875478 TGTAAGTTATTA
1 TGTAAGTTATTA
34875490 TGTAAGTTAT
1 TGTAAGTTAT
34875500 GTGTTGTGTA
Statistics
Matches: 112, Mismatches: 16, Indels: 36
0.68 0.10 0.22
Matches are distributed among these distances:
9 13 0.12
10 8 0.07
11 22 0.20
12 53 0.47
13 15 0.13
14 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (12 bp):
TGTAAGTTATTA
Found at i:34875499 original size:21 final size:22
Alignment explanation
Indices: 34875342--34875501 Score: 71
Period size: 23 Copynumber: 7.1 Consensus size: 22
34875332 CTATGTGTTT
*
34875342 TGTAAGTTATTATAAGTAAGTTA
1 TGTAAGTTA-TATATGTAAGTTA
*
34875365 TGAAAGTTATATA--TAAGTTTATA
1 TGTAAGTTATATATGTAAG--T-TA
* * * * *
34875388 TATAAGTTATGTAAGTTA-TTG
1 TGTAAGTTATATATGTAAGTTA
* *
34875409 TGTAAGTTTATATAT-AAATTTTGA
1 TGTAAG-TTATATATGTAA-GTT-A
* *
34875433 TTTAAGTTATGTATGTAAGTTATA
1 TGTAAGTTATATATGTAAG-T-TA
* * *
34875457 TATAAGTT-TATATATAACTTA
1 TGTAAGTTATATATGTAAGTTA
34875478 TGTAAGTTAT-TATGTAAGTTA
1 TGTAAGTTATATATGTAAGTTA
34875499 TGT
1 TGT
34875502 GTTGTGTAAG
Statistics
Matches: 101, Mismatches: 23, Indels: 28
0.66 0.15 0.18
Matches are distributed among these distances:
20 4 0.04
21 28 0.28
22 14 0.14
23 36 0.36
24 16 0.16
25 3 0.03
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (22 bp):
TGTAAGTTATATATGTAAGTTA
Found at i:34875596 original size:18 final size:18
Alignment explanation
Indices: 34875561--34875598 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
34875551 GATATGATTG
*
34875561 ATAAATTTTCAAATATAT
1 ATAAATTTTCAAAAATAT
34875579 ATAAATTTT-AATAAATAT
1 ATAAATTTTCAA-AAATAT
34875597 AT
1 AT
34875599 TAAAACTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAAATTTTCAAAAATAT
Found at i:34877976 original size:27 final size:27
Alignment explanation
Indices: 34877928--34877979 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
34877918 TCTTGCATTT
* *
34877928 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
**
34877955 AAATAAATAATTACTTACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
34877980 TTTGTTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:34878062 original size:10 final size:10
Alignment explanation
Indices: 34878047--34878075 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
34878037 TAATAACTAT
34878047 ATATATATCC
1 ATATATATCC
34878057 ATATATATCC
1 ATATATATCC
34878067 ATATATATC
1 ATATATATC
34878076 AAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATATATCC
Found at i:34880836 original size:41 final size:41
Alignment explanation
Indices: 34880767--34881029 Score: 262
Period size: 41 Copynumber: 6.4 Consensus size: 41
34880757 GCGCTTCGGC
* *
34880767 AAAAACGCCGCTAAAGG-TAAATGCATTAGCGGCGCTTAGCT
1 AAAAACGCCGCTAAAGGCTAGA-GCATTAGCGGCGCTTAGAT
** * * * *
34880808 GTAAACGCCGCTAAAGGCTAGAGAATTAGTGGCACTCAGAT
1 AAAAACGCCGCTAAAGGCTAGAGCATTAGCGGCGCTTAGAT
* * * *
34880849 AAAAATGCCACTAAA-GATCCGAGCATTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAAGGCT-AGAGCATTAGCGGCGCTTAGAT
* * ** *
34880890 AAAAACGCCGCTAAAGGCCAGAGGATTAGCGAAGCTAAGAT
1 AAAAACGCCGCTAAAGGCTAGAGCATTAGCGGCGCTTAGAT
** * *
34880931 AAAAACGCCATTAAA-GATCCGAGCATTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAAGGCT-AGAGCATTAGCGGCGCTTAGAT
* * *
34880972 AAAAACGCCGCTAAAGGCCAGAGGATTAGCGGCGCTCAGAT
1 AAAAACGCCGCTAAAGGCTAGAGCATTAGCGGCGCTTAGAT
34881013 AAAAACGCCGCTAAAGG
1 AAAAACGCCGCTAAAGG
34881030 TTTAAAAAAT
Statistics
Matches: 174, Mismatches: 43, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
40 3 0.02
41 166 0.95
42 5 0.03
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGCTAGAGCATTAGCGGCGCTTAGAT
Found at i:34880887 original size:82 final size:81
Alignment explanation
Indices: 34880789--34881028 Score: 345
Period size: 82 Copynumber: 2.9 Consensus size: 81
34880779 AAAGGTAAAT
* ** * *
34880789 GCATTAGCGGCGCTTAGCTGTAAACGCCGCTAAAGGCTAGAGAATTAGTGGCACTCAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGGATTAG-GGCACTCAGATAAAAA
*
34880854 TGCCACTAAAGATCCGA
65 CGCCACTAAAGATCCGA
* * *
34880871 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGGATTAGCGAAGCTAAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGGATTAGGGCA-CTCAGATAAAAA
*
34880936 CGCCATTAAAGATCCGA
65 CGCCACTAAAGATCCGA
*
34880953 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGGATTAGCGGCGCTCAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGGATTAG-GGCACTCAGATAAAAA
*
34881018 CGCCGCTAAAG
65 CGCCACTAAAG
34881029 GTTTAAAAAA
Statistics
Matches: 140, Mismatches: 16, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
81 2 0.01
82 137 0.98
83 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (81 bp):
GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGGATTAGGGCACTCAGATAAAAAC
GCCACTAAAGATCCGA
Found at i:34881198 original size:40 final size:38
Alignment explanation
Indices: 34881067--34881201 Score: 117
Period size: 40 Copynumber: 3.4 Consensus size: 38
34881057 TGGTCTTAGG
* ** * * *
34881067 TTTTTAGTGGCGCTTTATATAAAACGCCGCTAATTCCTA
1 TTTTTAGCGGCGCTTT-GGTAAATCGCCGCTAATGCTTA
* *
34881106 TTTTTAGCGGCGCTTCTGGGAAATCGCCGCTGATGCTCTA
1 TTTTTAGCGGCGCTT-TGGTAAATCGCCGCTAATGCT-TA
**
34881146 CCTTTAGCGGCGCTTTGGCTAAATCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGCTTTGG-TAAATCGCCGCTAATGCTT-A
* *
34881186 TTTTTTGTGGCGCTTT
1 TTTTTAGCGGCGCTTT
34881202 TATTCCAAAC
Statistics
Matches: 76, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
39 31 0.41
40 45 0.59
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (38 bp):
TTTTTAGCGGCGCTTTGGTAAATCGCCGCTAATGCTTA
Found at i:34884231 original size:9 final size:9
Alignment explanation
Indices: 34884205--34884930 Score: 620
Period size: 9 Copynumber: 82.7 Consensus size: 9
34884195 CACAAATTAA
34884205 ATAACTTAC
1 ATAACTTAC
34884214 ATTAA-TTAC
1 A-TAACTTAC
34884223 ATAACTTAC
1 ATAACTTAC
* * *
34884232 AAAAATTAA
1 ATAACTTAC
34884241 ATAACTTAC
1 ATAACTTAC
34884250 ATAACTTAC
1 ATAACTTAC
*
34884259 ATAAATTA-
1 ATAACTTAC
34884267 AGTAACTTAC
1 A-TAACTTAC
34884277 ATAACGTCTTAC
1 ATAA---CTTAC
* * *
34884289 AAAAATTAA
1 ATAACTTAC
34884298 ATAACTTAC
1 ATAACTTAC
34884307 ATAACTTAC
1 ATAACTTAC
34884316 ATAACTTAC
1 ATAACTTAC
*
34884325 ATAAAC-TAA
1 AT-AACTTAC
*
34884334 ATATCTTAC
1 ATAACTTAC
34884343 ATAACTTAC
1 ATAACTTAC
* *
34884352 ATAAATTAA
1 ATAACTTAC
34884361 ATAACTTAC
1 ATAACTTAC
34884370 ATAACTTAC
1 ATAACTTAC
* *
34884379 ATAAATTAA
1 ATAACTTAC
34884388 ATAACTTAC
1 ATAACTTAC
34884397 ATAACTTAC
1 ATAACTTAC
34884406 ATAACTTAC
1 ATAACTTAC
* *
34884415 ATAAATTAA
1 ATAACTTAC
34884424 ATAACTTAC
1 ATAACTTAC
34884433 ATAACTTAC
1 ATAACTTAC
*
34884442 ATAAATTAC
1 ATAACTTAC
*
34884451 ATAAAC-TAA
1 AT-AACTTAC
*
34884460 ATATCTTAC
1 ATAACTTAC
34884469 ATAACTTAC
1 ATAACTTAC
*
34884478 ATAAATT-C
1 ATAACTTAC
34884486 AATAACTTAC
1 -ATAACTTAC
* *
34884496 ATAAATTAA
1 ATAACTTAC
34884505 ATAACTTAC
1 ATAACTTAC
34884514 ATAACTTAC
1 ATAACTTAC
*
34884523 ATAAATT--
1 ATAACTTAC
34884530 AT--CTTAC
1 ATAACTTAC
34884537 ATAACTTAC
1 ATAACTTAC
*
34884546 ATAAATTA-
1 ATAACTTAC
34884554 AGTAACTTAC
1 A-TAACTTAC
34884564 ATAACTTAC
1 ATAACTTAC
* *
34884573 ATAAATTAA
1 ATAACTTAC
*
34884582 ATATCTTAC
1 ATAACTTAC
34884591 ATAACTTAC
1 ATAACTTAC
*
34884600 ATAAATTA-
1 ATAACTTAC
34884608 AGTAACTTAC
1 A-TAACTTAC
*
34884618 ATAACTTAA
1 ATAACTTAC
34884627 ATAACTTAC
1 ATAACTTAC
* *
34884636 ATAAATTAA
1 ATAACTTAC
34884645 ATAACTTAC
1 ATAACTTAC
*
34884654 ATAAATTA-
1 ATAACTTAC
34884662 AGTAACTTAC
1 A-TAACTTAC
34884672 ATAACTTAC
1 ATAACTTAC
*
34884681 ATAAATTA-
1 ATAACTTAC
34884689 AGTAACTTAC
1 A-TAACTTAC
34884699 ATAACTTAC
1 ATAACTTAC
34884708 ATAACTTAC
1 ATAACTTAC
* *
34884717 ATAAATTAA
1 ATAACTTAC
**
34884726 ATAACTGGC
1 ATAACTTAC
34884735 ATAACTTAC
1 ATAACTTAC
*
34884744 ATTA--TAC
1 ATAACTTAC
34884751 ATAACCTT-C
1 ATAA-CTTAC
*
34884760 TTAACTTAC
1 ATAACTTAC
*
34884769 ATTA--TAC
1 ATAACTTAC
* *
34884776 ACAACTCAC
1 ATAACTTAC
* *
34884785 ATAA-TGAT
1 ATAACTTAC
* *
34884793 GT-A-GTAC
1 ATAACTTAC
*
34884800 ACAACTTAC
1 ATAACTTAC
34884809 ATAA--TAC
1 ATAACTTAC
*
34884816 ATTACTTAC
1 ATAACTTAC
*
34884825 ATAGCTTAC
1 ATAACTTAC
*
34884834 ATTACTTAC
1 ATAACTTAC
34884843 AGT-ACTTAC
1 A-TAACTTAC
34884852 ATAA--TAC
1 ATAACTTAC
34884859 ATAA--TAC
1 ATAACTTAC
34884866 ATAACTTAC
1 ATAACTTAC
34884875 ATAACTTAC
1 ATAACTTAC
*
34884884 ATTACTTAC
1 ATAACTTAC
34884893 AGT-ACTTAC
1 A-TAACTTAC
34884902 AGT-ACTTAC
1 A-TAACTTAC
34884911 ATAA--TAC
1 ATAACTTAC
34884918 ATAA--TAC
1 ATAACTTAC
34884925 ATAACT
1 ATAACT
34884931 GGCGTTTTAA
Statistics
Matches: 577, Mismatches: 97, Indels: 86
0.76 0.13 0.11
Matches are distributed among these distances:
5 2 0.00
7 51 0.09
8 22 0.04
9 477 0.83
10 17 0.03
12 8 0.01
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:34884862 original size:50 final size:52
Alignment explanation
Indices: 34884806--34884930 Score: 195
Period size: 50 Copynumber: 2.5 Consensus size: 52
34884796 GTACACAACT
* *
34884806 TACATAATACATTACTTACATAGCTTACATTACTTACAGTACTTACA-TA-A
1 TACATAATACATAACTTACATAACTTACATTACTTACAGTACTTACAGTACA
*
34884856 TACATAATACATAACTTACATAACTTACATTACTTACAGTACTTACAGTACT
1 TACATAATACATAACTTACATAACTTACATTACTTACAGTACTTACAGTACA
34884908 TACATAATACATAA--TACATAACT
1 TACATAATACATAACTTACATAACT
34884931 GGCGTTTTAA
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
50 54 0.77
51 2 0.03
52 14 0.20
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.34
Consensus pattern (52 bp):
TACATAATACATAACTTACATAACTTACATTACTTACAGTACTTACAGTACA
Found at i:34884899 original size:59 final size:59
Alignment explanation
Indices: 34884806--34884930 Score: 202
Period size: 59 Copynumber: 2.2 Consensus size: 59
34884796 GTACACAACT
* *
34884806 TACATAA--TACATTACTTACATAGCTTACATTACTTACAGTACTTACATAATACATAA
1 TACATAACTTACATAACTTACATAGCTTACAGTACTTACAGTACTTACATAATACATAA
34884863 TACATAACTTACATAACTTACATTA-CTTACAGTACTTACAGTACTTACATAATACATAA
1 TACATAACTTACATAACTTACA-TAGCTTACAGTACTTACAGTACTTACATAATACATAA
34884922 TACATAACT
1 TACATAACT
34884931 GGCGTTTTAA
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
57 7 0.11
59 54 0.86
60 2 0.03
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.34
Consensus pattern (59 bp):
TACATAACTTACATAACTTACATAGCTTACAGTACTTACAGTACTTACATAATACATAA
Found at i:34890439 original size:21 final size:21
Alignment explanation
Indices: 34890390--34890440 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
34890380 CTACAACTTA
* *
34890390 AAGCAGACGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
* *
34890411 AAGCAGAGGCTGCAGCTAGAG
1 AAGCAGAGGCGGCAGCGAGAG
34890432 AAGCAGAGG
1 AAGCAGAGG
34890441 TTCAAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:34890920 original size:43 final size:43
Alignment explanation
Indices: 34890816--34890930 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 43
34890806 AAAAATAGTG
* * * *
34890816 GCGTTTTTATACAAAAGTGCCGCTAAAGACCATGTTCTGTAGCG
1 GCGTTTTTATAC-AAAGCGCCGCTAAAGACCATGCTCTCTAGCA
* * **
34890860 GCGTTTGTA-AAAGAAGCGCCGCTAAAGATTATGCTCTCTAGCA
1 GCGTTTTTATACA-AAGCGCCGCTAAAGACCATGCTCTCTAGCA
* *
34890903 GTGTTTTTATACAAAGCGCCGTTAAAGA
1 GCGTTTTTATACAAAGCGCCGCTAAAGA
34890931 ACATATTCTT
Statistics
Matches: 57, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 1 0.02
43 46 0.81
44 10 0.18
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
GCGTTTTTATACAAAGCGCCGCTAAAGACCATGCTCTCTAGCA
Found at i:34890972 original size:42 final size:42
Alignment explanation
Indices: 34890925--34891032 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
34890915 AAAGCGCCGT
* *
34890925 TAAAGAACATATTCTTTAGTGGCGCTTAAT-AAAAAATGCCAC
1 TAAAGAACATATTCTTTAGCGGCGCTT-ATGAAAAAACGCCAC
* * * *
34890967 TAAAGATCATGTTCTTTCGCGGCGCTTATGAAAAAACGCCGC
1 TAAAGAACATATTCTTTAGCGGCGCTTATGAAAAAACGCCAC
* *
34891009 TAAAAAACATGA-TCTTTAACGGCG
1 TAAAGAACAT-ATTCTTTAGCGGCG
34891033 TTTTTGGTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.96
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (42 bp):
TAAAGAACATATTCTTTAGCGGCGCTTATGAAAAAACGCCAC
Found at i:34893712 original size:26 final size:26
Alignment explanation
Indices: 34893683--34893761 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
34893673 TAATCACTTA
34893683 AATATTAAATTAATATAATATTTATC
1 AATATTAAATTAATATAATATTTATC
* * *
34893709 AATATTAGATTAATTTTAATATTAAAT-
1 AATATTAAATTAA-TATAATATT-TATC
* * *
34893736 ATTATTAAAATAATAGAATATTTATC
1 AATATTAAATTAATATAATATTTATC
34893762 TTGTAGATAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
25 2 0.05
26 19 0.46
27 18 0.44
28 2 0.05
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (26 bp):
AATATTAAATTAATATAATATTTATC
Found at i:34896019 original size:17 final size:18
Alignment explanation
Indices: 34895992--34896026 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
34895982 TAGAAAAATA
34895992 ATAATAAATAGAATTTAG
1 ATAATAAATAGAATTTAG
34896010 ATAA-AAATAGAATTTAG
1 ATAATAAATAGAATTTAG
34896027 GAAAAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (18 bp):
ATAATAAATAGAATTTAG
Found at i:34896035 original size:18 final size:17
Alignment explanation
Indices: 34895997--34896035 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
34895987 AAATAATAAT
*
34895997 AAATAGAATTTAGATAA
1 AAATAGAATTTAGAAAA
34896014 AAATAGAATTTAGGAAAA
1 AAATAGAATTTA-GAAAA
34896032 AAAT
1 AAAT
34896036 CTAAGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (17 bp):
AAATAGAATTTAGAAAA
Found at i:34897517 original size:15 final size:14
Alignment explanation
Indices: 34897497--34897526 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
34897487 ATAATTTAGC
34897497 AAAAAAAGAAAAGAA
1 AAAAAAAG-AAAGAA
34897512 AAAAAAAGAAAGAA
1 AAAAAAAGAAAGAA
34897526 A
1 A
34897527 TAGACAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAGAA
Found at i:34898026 original size:31 final size:30
Alignment explanation
Indices: 34897991--34898065 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 30
34897981 TAAATATATT
34897991 TAAAATTTATTAAAAAT-TAGAAAAAAAATGA
1 TAAAATTTA-TAAAAATATAG-AAAAAAATGA
* * *
34898022 TAAAATATATAGAAATATAGAAAAAAATTA
1 TAAAATTTATAAAAATATAGAAAAAAATGA
34898052 TAAAATTTTATAAA
1 TAAAA-TTTATAAA
34898066 GTCGTAAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 20 0.54
31 17 0.46
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (30 bp):
TAAAATTTATAAAAATATAGAAAAAAATGA
Found at i:34898337 original size:28 final size:28
Alignment explanation
Indices: 34898306--34898376 Score: 142
Period size: 28 Copynumber: 2.5 Consensus size: 28
34898296 GCATCTTATA
34898306 ATTTTTTATGATTTTATAACATTTTACC
1 ATTTTTTATGATTTTATAACATTTTACC
34898334 ATTTTTTATGATTTTATAACATTTTACC
1 ATTTTTTATGATTTTATAACATTTTACC
34898362 ATTTTTTATGATTTT
1 ATTTTTTATGATTTT
34898377 TACAATTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (28 bp):
ATTTTTTATGATTTTATAACATTTTACC
Found at i:34898377 original size:19 final size:19
Alignment explanation
Indices: 34898355--34898397 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
34898345 TTTTATAACA
* * *
34898355 TTTTACCATTTTTTATGAT
1 TTTTACAATTTTGTATAAT
34898374 TTTTACAATTTTGTATAAT
1 TTTTACAATTTTGTATAAT
34898393 TTTTA
1 TTTTA
34898398 ATAAAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTACAATTTTGTATAAT
Found at i:34904877 original size:6 final size:6
Alignment explanation
Indices: 34904868--34904917 Score: 91
Period size: 6 Copynumber: 8.3 Consensus size: 6
34904858 TAAGAATAAC
*
34904868 AAACAT AAACAT AAACAT AAACAT AAACAT AAACGT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
34904916 AA
1 AA
34904918 TAATAATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.66, C:0.16, G:0.02, T:0.16
Consensus pattern (6 bp):
AAACAT
Found at i:34904922 original size:3 final size:3
Alignment explanation
Indices: 34904914--34904962 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
34904904 AAACATAAAC
*
34904914 ATA ATA ATA ATA ATA ATA ATA GTA 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
34904962 A
1 A
34904963 CAACAACAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34904923 original size:12 final size:12
Alignment explanation
Indices: 34904872--34904959 Score: 62
Period size: 12 Copynumber: 7.3 Consensus size: 12
34904862 AATAACAAAC
34904872 ATAAACATAA-A
1 ATAAACATAATA
34904883 CATAAACATAA-A
1 -ATAAACATAATA
*
34904895 CATAAACGTAA-A
1 -ATAAACATAATA
34904907 CATAAACATAATA
1 -ATAAACATAATA
34904920 ATAATA-ATAATA
1 ATAA-ACATAATA
*
34904932 ATAGTA-ATAATA
1 ATA-AACATAATA
34904944 ATAATA-ATAATA
1 ATAA-ACATAATA
34904956 ATAA
1 ATAA
34904960 TAACAACAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
12 66 0.97
13 2 0.03
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (12 bp):
ATAAACATAATA
Done.