Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 69 of 170
Found at i:20696610 original size:178 final size:177
Alignment explanation
Indices: 20696305--20696989 Score: 704
Period size: 178 Copynumber: 3.9 Consensus size: 177
20696295 TGAAACCACA
* * * *
20696305 AATCCTATCTCCCTGAGGTTGTAGTGGAGCG-GATTAAAGTTACAAGTCCTATCTCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGAGATTAAAGTTACAAATCCTATCTCCCTAAAGTT
** * * * * *
20696369 GTAGTGGAATAGACTAAAGAAAGCAAGTCTTATTCCCTTGAAGTTGTAGTGGGGCATACTGAAGA
66 GTAGTGGAGCAGACTAAAGAAA-CAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGA
*
20696434 TGGCAAATCTCATCTCCCTGAAGTTGCAGTAGAGAAAATTAAAGCCAAT
130 TAGCAAATCTCATCTCCCTGAAGTTGCAGT-GAGAAAATTAAAGCCAAT
* * *
20696483 AATCCTATCTCTCTGAAGTTGCAGTGGAGCGA-ATTAAAGTTACAAGTCTTATCTCCCTAAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGAGATTAAAGTTACAAATCCTATCTCCCTAAAGTT
* * * * *
20696547 GTAGTGGAGCAGACTCAAGAAAACAAGTCTTATCCCCCTGATGTTACAGTGGGGTAGACTGAAGA
66 GTAGTGGAGCAGACTAAAG-AAACAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGA
* * * *
20696612 TGGCGAATCGT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
130 TAGCAAATC-TCATCTCCCTGAAGTTGCAGT-GAGAAAATTAAAGCCAAT
* * * *
20696661 AATCCTATCTCCTTGAAGTTACAGTGGAG-AAGATTAAAGTTACAAATCCTATCTCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGAGATTAAAGTTACAAATCCTATCTCCCTAAAGTT
* * * ** * * * *
20696725 GCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGAA
66 GTAGTGGAGCAGACTAAAGAAACAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGAT
* * * * * *
20696790 AGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGACAAACTGAAGATGGC-A-
131 AGCAAATCTCATCTCCCTGAAGTTGCAGTGAGA-AAA-TTAA-A-GCCAAT
* * ** *
20696839 AATCCTATCTCCCTGAAGTTGTACTGGAGC-AGATTAAAGCCA-ATAATCCTATCTCCCTAAGGT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGAGATTAAAGTTACA-AATCCTATCTCCCTAAAGT
* * ** *
20696902 T-TCAGTGGAGCGGATTAAAGTTACAAGTCTTATTCCCCTAAAGTTGCAGTGGGGCAGACTGAAG
65 TGT-AGTGGAGCAGACTAAAGAAACAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAG
* * *
20696966 ATAGCGAATCTCATTTTCCTGAAG
129 ATAGCAAATCTCATCTCCCTGAAG
20696990 CTCTAGTGAA
Statistics
Matches: 426, Mismatches: 69, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
176 3 0.01
177 63 0.15
178 352 0.83
179 6 0.01
180 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (177 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGAGATTAAAGTTACAAATCCTATCTCCCTAAAGTT
GTAGTGGAGCAGACTAAAGAAACAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGAT
AGCAAATCTCATCTCCCTGAAGTTGCAGTGAGAAAATTAAAGCCAAT
Found at i:20696723 original size:222 final size:222
Alignment explanation
Indices: 20696445--20696953 Score: 745
Period size: 222 Copynumber: 2.3 Consensus size: 222
20696435 GGCAAATCTC
* * * ** *
20696445 ATCTCCCTGAAGTTGCAGTAGAGAAAATTAAAGCCA-ATAATCCTATCTCTCTGAAGTTGCAGTG
1 ATCTCCCTGAAGTTACAGTGGAGAAGATTAAAGTTACA-AATCCTATCTCCCTGAAGTTGCAGTG
20696509 GAGCGAATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTCAAGAAAACAAG
65 GAGCGAATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTCAAGAAAACAAG
* ** * * *
20696574 TCTTATCCCCCTGATGTTACAGTGGGGTAGACTGAAGATGGCGAATCGTATCTCCCTGAAGTTGC
130 TCTTATCCCCCTGAAGTTACAGTGGGACAAACTGAAGATGGCAAATCCTATCTCCCTGAAGTTGC
*
20696639 AGTGGAGCAGATTAAAGCCAATAATCCT
195 ACTGGAGCAGATTAAAGCCAATAATCCT
*
20696667 ATCTCCTTGAAGTTACAGTGGAGAAGATTAAAGTTACAAATCCTATCTCCCTGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTACAGTGGAGAAGATTAAAGTTACAAATCCTATCTCCCTGAAGTTGCAGTGG
* * *
20696732 AGCGGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGAAAGCAAGT
66 AGCGAATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTCAAGAAAACAAGT
* *
20696797 CTTATCCCCCTGAAGTTGCAGTGGGACAAACTGAAGATGGCAAATCCTATCTCCCTGAAGTTGTA
131 CTTATCCCCCTGAAGTTACAGTGGGACAAACTGAAGATGGCAAATCCTATCTCCCTGAAGTTGCA
20696862 CTGGAGCAGATTAAAGCCAATAATCCT
196 CTGGAGCAGATTAAAGCCAATAATCCT
* ** * * *
20696889 ATCTCCCT-AAGGTTTCAGTGGAGCGGATTAAAGTTACAAGTCTTAT-TCCCCTAAAGTTGCAGT
1 ATCTCCCTGAA-GTTACAGTGGAGAAGATTAAAGTTACAAATCCTATCT-CCCTGAAGTTGCAGT
20696952 GG
64 GG
20696954 GGCAGACTGA
Statistics
Matches: 258, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
221 3 0.01
222 254 0.98
223 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (222 bp):
ATCTCCCTGAAGTTACAGTGGAGAAGATTAAAGTTACAAATCCTATCTCCCTGAAGTTGCAGTGG
AGCGAATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTCAAGAAAACAAGT
CTTATCCCCCTGAAGTTACAGTGGGACAAACTGAAGATGGCAAATCCTATCTCCCTGAAGTTGCA
CTGGAGCAGATTAAAGCCAATAATCCT
Found at i:20697116 original size:225 final size:226
Alignment explanation
Indices: 20696617--20697415 Score: 714
Period size: 225 Copynumber: 3.6 Consensus size: 226
20696607 GAAGATGGCG
* * *
20696617 AATCGTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCTTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTG
** * * * * * * * *
20696682 CAGTGGAGAAGATTAAAGTTACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTA
66 CAGTGGAGCGGATTGAAG-TACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA
* * * * * * * ** * *
20696747 -CAAGTCTTATCTCCCTAAAGTTG-TAGTGGAGCAGA-C-TGA--AGAAAGC--AAG-TCTTATC
130 GCAAATCTCATCTCCCTGAAGATGCTAGTGAAACAAATCAAAACTATAAATCATAAGATCTTATC
* * * * * * * *
20696803 CCCCTGAAGTTGCAGT-GGGACAAACTGAAGATGGCA
195 TCTCTAAAGTTACAGTAGAG-CAGA-T-CACAT--CA
* * *
20696839 AATCCTATCTCCCTGAAGTTGTACTGGAGCAGATTAAAGCCAATAATCCTATCTCCCT-AAGGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAA-GTT
* * *
20696903 TCAGTGGAGCGGATTAAAGTTACAAGTCTTAT-TCCCCTAAAGTTGCAGTGGGGCAGACTGAAGA
65 GCAGTGGAGCGGATTGAAG-TACAAGTCTTATCT-CCCTAAAGTTGCAGTGGAGCAGACTGAAGA
* * * * * *
20696967 TAGCGAATCTCATTTTCCTGAAGCT-CTAGTGAAACAAATTAAAACTATAAATCA-CAGATCTTA
128 TAGCAAATCTCATCTCCCTGAAGATGCTAGTGAAACAAATCAAAACTATAAATCATAAGATCTTA
* ** * *
20697030 TTTCTCTAAAGTTGTAGTAGAGTAGATCATGA-CA
193 TCTCTCTAAAGTTACAGTAGAGCAGATCA-CATCA
*
20697064 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTG
* * * * * *
20697129 AAGTAGAGCGGATTGAAGT-GAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGATAG
66 CAGTGGAGCGGATTGAAGTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAG
* * * * * *
20697193 CAAATCTCATCTCCCTGAAGATGGTAGTGGAATAGATCAAAGCTATAAATCATAAGATTTTATCT
131 CAAATCTCATCTCCCTGAAGATGCTAGTGAAACAAATCAAAACTATAAATCATAAGATCTTATCT
20697258 CTCTAAAGTTACAGTAGAGCAGATCACATCA
196 CTCTAAAGTTACAGTAGAGCAGATCACATCA
* * *** ** *
20697289 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATACCAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTG
* * *
20697354 CAGTGGAGTGGATTGAAGCTACTAA-TCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
66 CAGTGGAGCGGATTGAAG-TAC-AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
20697416 CTACTAATCC
Statistics
Matches: 469, Mismatches: 88, Indels: 35
0.79 0.15 0.06
Matches are distributed among these distances:
221 3 0.01
222 110 0.23
223 80 0.17
224 26 0.06
225 180 0.38
226 3 0.01
227 38 0.08
228 7 0.01
229 20 0.04
230 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (226 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTG
CAGTGGAGCGGATTGAAGTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAG
CAAATCTCATCTCCCTGAAGATGCTAGTGAAACAAATCAAAACTATAAATCATAAGATCTTATCT
CTCTAAAGTTACAGTAGAGCAGATCACATCA
Found at i:20697697 original size:89 final size:89
Alignment explanation
Indices: 20697445--20697671 Score: 292
Period size: 89 Copynumber: 2.6 Consensus size: 89
20697435 GAATTAGCAG
* * *
20697445 CGAAGCAGATGGAAGATACCAGCCTTGCCTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCA
1 CGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAGACTGAAGATAGCA
* * *
20697510 GATCTTATCTTCTTATATTGGCAA
66 GATCTTGTCTTCCTATACTGGCAA
* * * * * *
20697534 CAAAGCAGATCGAAGACACCAACCTTGCCTCCCTGAGTTCGTAGTGGAGCAGACTGAAAATAACA
1 CGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAGACTGAAGATAGCA
* * *
20697599 GATCTTGTCTTCCTGTACTGGTAG
66 GATCTTGTCTTCCTATACTGGCAA
* * *
20697623 TGAAGCAGATCGAAAACACCAGCCTTGCCTCTCTGAGTTTGCAGTGGAG
1 CGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAGTGGAG
20697672 TAGGTTGAAG
Statistics
Matches: 116, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
89 116 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (89 bp):
CGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAGACTGAAGATAGCA
GATCTTGTCTTCCTATACTGGCAA
Found at i:20697819 original size:132 final size:131
Alignment explanation
Indices: 20697665--20698039 Score: 420
Period size: 130 Copynumber: 2.9 Consensus size: 131
20697655 CTGAGTTTGC
* * *
20697665 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAATTGTGAAGCAGATCAGATACGA
1 AGTGGAGTAGGTTGAAGATTGTACATCCTGTCTCCCTAAGCAATAGTGGAGCAGATCAGATACGA
* ** *
20697730 CGAATCTTATCTTCCCAAGGTAGTAAGGAAGAAAATTTAAGACAGTAGTCCTATCTCC-GTGAGC
66 CGAATCTTATCTTCCC-AGGTAGTAAGGAAGCAAATTTAAGACACCAGTCCTATC-CCTCTGAG-
20697794 AACT
128 AACT
* * * * *
20697798 -GTGGAGTAGGTTGAAGATTGTACATCCTATCTTCCTAAGCAGTAGTGGAGGAGATTGAAGAT--
1 AGTGGAGTAGGTTGAAGATTGTACATCCTGTCTCCCTAAGCAATAGTGGAGCAGA-T-CAGATAC
* * * *
20697860 GACAAATCTTATCTTCCC-GATA-TAGAGGAAGCAAATTTAAGCCACCAGTCGTATCCCTCTGAG
64 GACGAATCTTATCTTCCCAGGTAGTA-AGGAAGCAAATTTAAGACACCAGTCCTATCCCTCTGAG
* *
20697923 TAGT
128 AACT
* * *
20697927 AGTGGAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAATAGTGGAGCAGATCAAAGACGA
1 AGTGGAGTAGGTTGAAGATTGTACATCCTGTCTCCCTAAGCAATAGTGGAGCAGATCAGATACGA
* * * *
20697992 CGAGTCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAG
66 CGAATCTTATCTTCCC-AGGTAGTAAGGAAGCAAATTTAAGACACCAG
20698040 ACTTATCTCA
Statistics
Matches: 201, Mismatches: 31, Indels: 21
0.79 0.12 0.08
Matches are distributed among these distances:
128 2 0.01
129 7 0.03
130 97 0.48
132 88 0.44
133 3 0.01
134 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (131 bp):
AGTGGAGTAGGTTGAAGATTGTACATCCTGTCTCCCTAAGCAATAGTGGAGCAGATCAGATACGA
CGAATCTTATCTTCCCAGGTAGTAAGGAAGCAAATTTAAGACACCAGTCCTATCCCTCTGAGAAC
T
Found at i:20702055 original size:29 final size:31
Alignment explanation
Indices: 20702031--20702088 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
20702021 TGTTTATTTA
20702031 TAAGATAA-ACATTAA-ATTAAATTTAATAT
1 TAAGATAATACATTAATATTAAATTTAATAT
*
20702060 TAAGATAATACTTTAATATTAAA-TTAATA
1 TAAGATAATACATTAATATTAAATTTAATA
20702089 AAATACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
30 12 0.46
31 6 0.23
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (31 bp):
TAAGATAATACATTAATATTAAATTTAATAT
Found at i:20702087 original size:19 final size:18
Alignment explanation
Indices: 20702041--20702146 Score: 69
Period size: 19 Copynumber: 5.8 Consensus size: 18
20702031 TAAGATAAAC
20702041 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
20702058 ATTAAGA-TAATACTTTAAT
1 ATTAA-ATTAATA-TTTAAT
** *
20702077 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
20702096 ATTAAGA-TAAGTA-TTAA-
1 ATTAA-ATTAA-TATTTAAT
*
20702113 ATTAAATTTAATATTAAACT
1 ATTAAA-TTAATATTTAA-T
*
20702133 ATTAAAATAATATT
1 ATTAAATTAATATT
20702147 ATTTTTGGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
16 1 0.01
17 15 0.21
18 11 0.16
19 34 0.49
20 9 0.13
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:20703756 original size:17 final size:17
Alignment explanation
Indices: 20703734--20703776 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
20703724 AGATCTCTGA
20703734 CGAGCTTCCAAACCGAT
1 CGAGCTTCCAAACCGAT
*
20703751 CGAGCTTCCAAACCGGT
1 CGAGCTTCCAAACCGAT
20703768 CGAGCTTCC
1 CGAGCTTCC
20703777 GATAATCTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.37, G:0.21, T:0.19
Consensus pattern (17 bp):
CGAGCTTCCAAACCGAT
Found at i:20704049 original size:20 final size:20
Alignment explanation
Indices: 20704022--20704073 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
20704012 TATGAACTAC
20704022 TCCATTTACTTACTTTACAT
1 TCCATTTACTTACTTTACAT
* * *
20704042 TTCATTTACTTTCTTTCCAT
1 TCCATTTACTTACTTTACAT
20704062 TCCATTTACTTA
1 TCCATTTACTTA
20704074 GCATAAGCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.00, T:0.54
Consensus pattern (20 bp):
TCCATTTACTTACTTTACAT
Found at i:20721214 original size:15 final size:15
Alignment explanation
Indices: 20721191--20721225 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
20721181 AAAGAGTTCA
*
20721191 AGTATGATTAAACTT
1 AGTACGATTAAACTT
20721206 AGTACGATTAAACTT
1 AGTACGATTAAACTT
20721221 AGTAC
1 AGTAC
20721226 TTTAATACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (15 bp):
AGTACGATTAAACTT
Found at i:20723064 original size:16 final size:16
Alignment explanation
Indices: 20723043--20723073 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20723033 CTATGCATGT
*
20723043 AAAATATAAAAGACAA
1 AAAATAAAAAAGACAA
20723059 AAAATAAAAAAGACA
1 AAAATAAAAAAGACA
20723074 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATAAAAAAGACAA
Found at i:20724878 original size:50 final size:48
Alignment explanation
Indices: 20724839--20725025 Score: 140
Period size: 50 Copynumber: 3.8 Consensus size: 48
20724829 TATTGAGGTT
*
20724839 ATGAGAGGTCCCACGTAAGATCATGTCTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATT-G-ACCGAG
* * * *
20724889 ATGAGAGGTCCCCCGTAAGACCCTGTCTGGGACATGGCATGGACACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTG--ACCGAG
** * * * * * * * *
20724939 ATGAGAACTCTCATGTAAGACCATATCTAGGATATGGCATTGGCAGTAC
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGACCG-AG
* * ** * *
20724988 AAGAAACATCCCATGTAAGACCATGTCTGTGACATGGC
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGC
20725026 TTTGGCATGT
Statistics
Matches: 108, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
48 2 0.02
49 31 0.29
50 75 0.69
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (48 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGACCGAG
Found at i:20725260 original size:20 final size:20
Alignment explanation
Indices: 20725235--20725283 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
20725225 TGAGTTATTT
20725235 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
20725255 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
20725275 AAG-AAGCAA
1 AAGTAAGCAA
20725284 AGACCATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:20731950 original size:34 final size:34
Alignment explanation
Indices: 20731907--20731974 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
20731897 TCCTCTGTTT
20731907 TCACCTAGTGATGAAGATTAGGATAATTTTAATA
1 TCACCTAGTGATGAAGATTAGGATAATTTTAATA
*
20731941 TCACCTAGTGATGAAGATTGGGATAATTTTAATA
1 TCACCTAGTGATGAAGATTAGGATAATTTTAATA
20731975 CACTCATATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (34 bp):
TCACCTAGTGATGAAGATTAGGATAATTTTAATA
Found at i:20732427 original size:23 final size:22
Alignment explanation
Indices: 20732392--20732437 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
20732382 ATTGATAATA
*
20732392 TGTTTTGATATAAAAAATTAAAG
1 TGTTTTGAAAT-AAAAATTAAAG
*
20732415 TGTTTTTAAATAAAAATTAAAG
1 TGTTTTGAAATAAAAATTAAAG
20732437 T
1 T
20732438 TGAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (22 bp):
TGTTTTGAAATAAAAATTAAAG
Found at i:20736982 original size:24 final size:24
Alignment explanation
Indices: 20736938--20737009 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
20736928 TATAACAAGA
*
20736938 AGCTCACAAAGAG-CCTATAACGGGT
1 AGCTC-CAAAGAGTCAT-TAACGGGT
* *
20736963 AGCTCCAAAGAGTCATTAACAGAT
1 AGCTCCAAAGAGTCATTAACGGGT
**
20736987 AGCTCTGAAGAGAT-ATTAACGGG
1 AGCTCCAAAGAG-TCATTAACGGG
20737010 AAGCACCGGA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
24 30 0.79
25 8 0.21
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (24 bp):
AGCTCCAAAGAGTCATTAACGGGT
Found at i:20737085 original size:26 final size:27
Alignment explanation
Indices: 20737050--20737112 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
20737040 CAAGCGAGTA
20737050 TTAA-CGGGAAGCTCACAAAGAGCC-T
1 TTAATCGGGAAGCTCACAAAGAGCCAT
* *
20737075 TTAATCGGGAAGCTTACGAAGAGCCAT
1 TTAATCGGGAAGCTCACAAAGAGCCAT
*
20737102 ATAAT-GGGAAG
1 TTAATCGGGAAG
20737113 ATCATTGAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.12
26 24 0.73
27 5 0.15
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (27 bp):
TTAATCGGGAAGCTCACAAAGAGCCAT
Found at i:20743221 original size:24 final size:23
Alignment explanation
Indices: 20743194--20743238 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
20743184 AAGATTAAAT
* *
20743194 ACATACATTTCATATTATTATTTA
1 ACATACATGTCAGA-TATTATTTA
*
20743218 ACATTCATGTCAGATATTATT
1 ACATACATGTCAGATATTATT
20743239 CATAAAGTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (23 bp):
ACATACATGTCAGATATTATTTA
Found at i:20745719 original size:21 final size:23
Alignment explanation
Indices: 20745674--20745720 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
20745664 TCACCTGCAA
* *
20745674 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
20745697 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
20745718 TAA
1 TAA
20745721 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:20751072 original size:15 final size:15
Alignment explanation
Indices: 20751052--20751103 Score: 81
Period size: 14 Copynumber: 3.6 Consensus size: 15
20751042 TAGCTTCTTC
20751052 TTTTTTTCACGAAAT
1 TTTTTTTCACGAAAT
20751067 TTTTTTTCACG-AAT
1 TTTTTTTCACGAAAT
*
20751081 TTTTTTT-ACGAATT
1 TTTTTTTCACGAAAT
20751095 TTTTTTTCA
1 TTTTTTTCA
20751104 ACTTGATATC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
13 3 0.09
14 19 0.56
15 12 0.35
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (15 bp):
TTTTTTTCACGAAAT
Found at i:20751101 original size:14 final size:14
Alignment explanation
Indices: 20751052--20751100 Score: 82
Period size: 13 Copynumber: 3.5 Consensus size: 14
20751042 TAGCTTCTTC
20751052 TTTTTTTCACGAAAT
1 TTTTTTTCACG-AAT
20751067 TTTTTTTCACGAAT
1 TTTTTTTCACGAAT
20751081 TTTTTTT-ACGAAT
1 TTTTTTTCACGAAT
20751094 TTTTTTT
1 TTTTTTT
20751101 TCAACTTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.38
14 10 0.29
15 11 0.32
ACGTcount: A:0.20, C:0.10, G:0.06, T:0.63
Consensus pattern (14 bp):
TTTTTTTCACGAAT
Found at i:20751160 original size:9 final size:10
Alignment explanation
Indices: 20751145--20751192 Score: 71
Period size: 10 Copynumber: 4.7 Consensus size: 10
20751135 AAACCAAATT
20751145 TTTTTTTGAA
1 TTTTTTTGAA
20751155 TTTTTTT-AA
1 TTTTTTTGAA
20751164 TTTTTTTTGAA
1 -TTTTTTTGAA
20751175 TTTTTTTTGAA
1 -TTTTTTTGAA
20751186 TTTTTTT
1 TTTTTTT
20751193 TGAAGAAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
9 2 0.06
10 21 0.58
11 13 0.36
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:20751160 original size:11 final size:11
Alignment explanation
Indices: 20751144--20751196 Score: 92
Period size: 11 Copynumber: 5.0 Consensus size: 11
20751134 GAAACCAAAT
20751144 TTTTTTTTGAA
1 TTTTTTTTGAA
20751155 -TTTTTTT-AA
1 TTTTTTTTGAA
20751164 TTTTTTTTGAA
1 TTTTTTTTGAA
20751175 TTTTTTTTGAA
1 TTTTTTTTGAA
20751186 TTTTTTTTGAA
1 TTTTTTTTGAA
20751197 GAAACTACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
9 2 0.05
10 14 0.35
11 24 0.60
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.74
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:20752230 original size:21 final size:23
Alignment explanation
Indices: 20752185--20752231 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
20752175 TCACCTGCAG
* *
20752185 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
20752208 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
20752229 TAA
1 TAA
20752232 TCATAACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:20753102 original size:21 final size:21
Alignment explanation
Indices: 20753078--20753117 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20753068 ATTTAACATG
* *
20753078 AATTGAATACAATTTACATTC
1 AATTCAATACAATTCACATTC
*
20753099 AATTCAATCCAATTCACAT
1 AATTCAATACAATTCACAT
20753118 CTTAGGCAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (21 bp):
AATTCAATACAATTCACATTC
Found at i:20754417 original size:18 final size:18
Alignment explanation
Indices: 20754359--20754424 Score: 96
Period size: 18 Copynumber: 3.6 Consensus size: 18
20754349 TAACTAAGTA
*
20754359 AGTTAAAAGAACTTAGTG
1 AGTTTAAAGAACTTAGTG
* *
20754377 AGTTCAAAGAACCTAGTG
1 AGTTTAAAGAACTTAGTG
20754395 AGTTTAAAGAACTTAGTG
1 AGTTTAAAGAACTTAGTG
20754413 AGTTTAAGAGAA
1 AGTTTAA-AGAA
20754425 AGACATTGCA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
18 39 0.91
19 4 0.09
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (18 bp):
AGTTTAAAGAACTTAGTG
Found at i:20755972 original size:27 final size:27
Alignment explanation
Indices: 20755875--20755973 Score: 128
Period size: 27 Copynumber: 3.6 Consensus size: 27
20755865 ACAAAATTTT
*
20755875 CCACAAAGGC-ATTCCTTTCAGAGTTCG
1 CCACAAAGGCTATT-CTTTCAGAGTTTG
* *
20755902 CCACAAAGGTTATTTCTTTCAGACTTTG
1 CCACAAAGGCTA-TTCTTTCAGAGTTTG
*
20755930 CCACAAAGTCTATTCTTTCAGAGTTTG
1 CCACAAAGGCTATTCTTTCAGAGTTTG
*
20755957 GCACAAAGGCTATTCTT
1 CCACAAAGGCTATTCTT
20755974 AGCTGTCATG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
27 38 0.61
28 22 0.35
29 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (27 bp):
CCACAAAGGCTATTCTTTCAGAGTTTG
Found at i:20767066 original size:79 final size:82
Alignment explanation
Indices: 20766955--20767139 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
20766945 GCTACTCGTT
* *
20766955 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20767018 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
20767035 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
20767098 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
20767115 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20767140 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:20767139 original size:40 final size:40
Alignment explanation
Indices: 20766936--20767139 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
20766926 CGGAATTTAA
** *
20766936 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20766976 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20767016 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20767055 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20767095 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20767135 CCGGA
1 CCGGA
20767140 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20774942 original size:20 final size:19
Alignment explanation
Indices: 20774919--20774983 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
20774909 AAGCTCAAAC
20774919 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
20774939 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
20774959 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
20774979 GAGCT
1 GAGCT
20774984 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:20775581 original size:20 final size:19
Alignment explanation
Indices: 20775558--20775622 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
20775548 AAGCTCAAAC
20775558 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
20775578 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
20775598 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
20775618 GAGCT
1 GAGCT
20775623 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:20777431 original size:33 final size:33
Alignment explanation
Indices: 20777393--20777455 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
20777383 GATTACTCAC
20777393 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
20777426 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
20777456 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:20777482 original size:21 final size:21
Alignment explanation
Indices: 20777453--20777508 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
20777443 CAAGCTCTCT
*
20777453 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
20777474 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
20777495 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
20777509 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:20777501 original size:14 final size:14
Alignment explanation
Indices: 20777452--20777508 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
20777442 TCAAGCTCTC
20777452 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
20777465 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
20777479 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
20777493 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
20777507 TT
1 TT
20777509 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:20777537 original size:17 final size:17
Alignment explanation
Indices: 20777517--20777573 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
20777507 TTCTCTCACT
20777517 TTTTCGATTTCTTTTTC
1 TTTTCGATTTCTTTTTC
* *
20777534 TTTTGCAATTTCTTTTTT
1 TTTT-CGATTTCTTTTTC
* *
20777552 TTTTCGTTTTCTTTTTG
1 TTTTCGATTTCTTTTTC
20777569 TTTTC
1 TTTTC
20777574 TTTCAATTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 19 0.56
18 15 0.44
ACGTcount: A:0.05, C:0.14, G:0.07, T:0.74
Consensus pattern (17 bp):
TTTTCGATTTCTTTTTC
Found at i:20777561 original size:11 final size:12
Alignment explanation
Indices: 20777458--20777576 Score: 66
Period size: 12 Copynumber: 9.6 Consensus size: 12
20777448 TCTCTTTCAA
20777458 TTTCTTTTTTCGCTT
1 TTTC-TTTTTCG--T
*
20777473 TTTCTTTTTCAAT
1 TTTCTTTTTC-GT
*
20777486 TTTCTTTTCTTCAT
1 TTTC-TTT-TTCGT
20777500 TTTCTTTTTC-T
1 TTTCTTTTTCGT
** *
20777511 CTCACTTTTTCGA
1 -TTTCTTTTTCGT
20777524 TTTCTTTTTC-T
1 TTTCTTTTTCGT
**
20777535 TTTGCAATTTC-T
1 TTT-CTTTTTCGT
*
20777547 TTTTTTTTTCGT
1 TTTCTTTTTCGT
20777559 TTTCTTTTT-GT
1 TTTCTTTTTCGT
20777570 TTTCTTT
1 TTTCTTT
20777577 CAATTTCTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
11 17 0.20
12 37 0.44
13 8 0.10
14 15 0.18
15 7 0.08
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (12 bp):
TTTCTTTTTCGT
Found at i:20777567 original size:18 final size:18
Alignment explanation
Indices: 20777516--20777588 Score: 67
Period size: 17 Copynumber: 3.9 Consensus size: 18
20777506 TTTCTCTCAC
*
20777516 TTTTTCGATTTCTTTTTC
1 TTTTTCGATTTCTTTTTT
* *
20777534 TTTTGCAATTTC-TTTTT
1 TTTTTCGATTTCTTTTTT
*
20777551 TTTTTCGTTTTCTTTTTGTT
1 TTTTTCGATTTC-TTTT-TT
*
20777571 TTCTTTCAATTTCTTTTT
1 TT-TTTCGATTTCTTTTT
20777589 CAATCTCTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
17 13 0.30
18 10 0.23
19 4 0.09
20 8 0.19
21 8 0.19
ACGTcount: A:0.07, C:0.14, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTTCGATTTCTTTTTT
Found at i:20777588 original size:35 final size:34
Alignment explanation
Indices: 20777516--20777606 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 34
20777506 TTTCTCTCAC
20777516 TTTTTCGATTTCTTTTTCTTTTGCAATTTCTTTTT
1 TTTTTCGATTTCTTTTTCTTTTGC-ATTTCTTTTT
* * * *
20777551 TTTTTCGTTTTCTTTTTGTTTT-C-TTTCAATTTC
1 TTTTTCGATTTCTTTTTCTTTTGCATTTC-TTTTT
* *
20777584 TTTTTCAATCTCTTTTTCCTTTT
1 TTTTTCGATTTCTTTTT-CTTTT
20777607 CTCGCTCAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
32 4 0.09
33 17 0.37
34 5 0.11
35 20 0.43
ACGTcount: A:0.08, C:0.16, G:0.04, T:0.71
Consensus pattern (34 bp):
TTTTTCGATTTCTTTTTCTTTTGCATTTCTTTTT
Found at i:20777589 original size:6 final size:6
Alignment explanation
Indices: 20777470--20777576 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
20777460 TCTTTTTTCG
* * * **
20777470 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
20777521 CGATTT CTTTTT CTTTTG CAATTT CTTTTT -TTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
20777568 -GTTTT CTTT
1 CTTTTT CTTT
20777577 CAATTTCTTT
Statistics
Matches: 72, Mismatches: 25, Indels: 8
0.69 0.24 0.08
Matches are distributed among these distances:
5 9 0.12
6 51 0.71
7 9 0.12
8 3 0.04
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.72
Consensus pattern (6 bp):
CTTTTT
Found at i:20778605 original size:13 final size:13
Alignment explanation
Indices: 20778589--20778646 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
20778579 TTAACTTGAT
20778589 TTTTTTTGCTCAC
1 TTTTTTTGCTCAC
* **
20778602 TTTTTTTTCTTTC
1 TTTTTTTGCTCAC
20778615 TTTTTTTTGCTCGA-
1 -TTTTTTTGCTC-AC
20778629 TTTTTTT--TCAC
1 TTTTTTTGCTCAC
20778640 TTTTTTT
1 TTTTTTT
20778647 TTTGAATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
10 1 0.03
11 9 0.25
13 17 0.47
14 9 0.25
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTTTTTGCTCAC
Found at i:20778618 original size:27 final size:27
Alignment explanation
Indices: 20778573--20778650 Score: 88
Period size: 27 Copynumber: 2.8 Consensus size: 27
20778563 ACTTTTCACT
*
20778573 TTTTTTTTAACTTGATTTTTTTTGCTC-A
1 TTTTTTTTCACTT--TTTTTTTTGCTCGA
*
20778601 CTTTTTTTTC-TTTCTTTTTTTTGCTCGA
1 -TTTTTTTTCACTT-TTTTTTTTGCTCGA
20778629 TTTTTTTTCACTTTTTTTTTTG
1 TTTTTTTTCACTTTTTTTTTTG
20778651 AATTTTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
27 30 0.70
28 5 0.12
29 8 0.19
ACGTcount: A:0.08, C:0.13, G:0.06, T:0.73
Consensus pattern (27 bp):
TTTTTTTTCACTTTTTTTTTTGCTCGA
Found at i:20778656 original size:12 final size:12
Alignment explanation
Indices: 20778641--20778667 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20778631 TTTTTTCACT
20778641 TTTTTTTTTGAA
1 TTTTTTTTTGAA
20778653 TTTTTTTTTGAA
1 TTTTTTTTTGAA
20778665 TTT
1 TTT
20778668 CAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:20780185 original size:20 final size:19
Alignment explanation
Indices: 20780162--20780226 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
20780152 AAGCTCAAAC
20780162 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
20780182 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
20780202 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
20780222 GAGCT
1 GAGCT
20780227 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:20782003 original size:79 final size:82
Alignment explanation
Indices: 20781886--20782070 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
20781876 GCTACTCGTT
* * *
20781886 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20781949 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
20781966 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
20782029 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
20782046 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20782071 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:20782070 original size:40 final size:40
Alignment explanation
Indices: 20781867--20782070 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
20781857 CGGAATTTAA
** *
20781867 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
20781907 CCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20781947 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20781986 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20782026 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20782066 CCGGA
1 CCGGA
20782071 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20790664 original size:39 final size:40
Alignment explanation
Indices: 20790522--20790668 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
20790512 AGCACAAATC
* * * * * *
20790522 TGCATTCAGGGGAACCGAATTGA-AAACAAGGACACATATG
1 TGCATTCAAGGGTACCGAAGT-ACAAACAGGGTCACAGATG
* * * *
20790562 TGCATACAGGGGTACTGAAGTACAAATAGGGTCACAGATG
1 TGCATTCAAGGGTACCGAAGTACAAACAGGGTCACAGATG
** * *
20790602 TGCATTCAAATGTATCGAAGTACAAACAGAGG-CATAGAT-
1 TGCATTCAAGGGTACCGAAGTACAAACAG-GGTCACAGATG
*
20790641 TGCATTCAAGGGTACCGAGGTACAAACA
1 TGCATTCAAGGGTACCGAAGTACAAACA
20790669 TGGGCACTTC
Statistics
Matches: 85, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
39 25 0.29
40 58 0.68
41 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (40 bp):
TGCATTCAAGGGTACCGAAGTACAAACAGGGTCACAGATG
Found at i:20796654 original size:102 final size:104
Alignment explanation
Indices: 20796477--20796741 Score: 446
Period size: 103 Copynumber: 2.6 Consensus size: 104
20796467 TAACCGTTAT
* *
20796477 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
20796542 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
20796580 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
20796644 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
20796683 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
20796742 TTATATACAA
Statistics
Matches: 153, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
102 56 0.37
103 72 0.47
104 25 0.16
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:20797096 original size:29 final size:29
Alignment explanation
Indices: 20797063--20797126 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
20797053 TAATCCACCA
20797063 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
20797092 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
20797122 CCCAA
1 CCCAA
20797127 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:20797100 original size:30 final size:30
Alignment explanation
Indices: 20797070--20797126 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20797060 CCACCCAACT
20797070 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
20797099 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
20797127 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:20804114 original size:104 final size:103
Alignment explanation
Indices: 20803948--20804150 Score: 302
Period size: 104 Copynumber: 2.0 Consensus size: 103
20803938 CCACTGAATC
* * *
20803948 GGGGAATCAGCACTTAGCAACCCCCTTTTCATTTCAAAGATACAGTGGATATCGCACTTAGCACC
1 GGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAGTGGATATCGCACATAGCACC
**
20804013 ACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCG
66 ACCAATGAATC-GGGGAATCAGCACACAGCAACCCCTCG
**
20804051 GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGGATCA-CGCACATAGCA
1 GGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAGTGGAT-ATCGCACATAGCA
20804115 CCACCAATGAATCGGGGAATCAGCACACAGCAACCC
64 CCACCAATGAATCGGGGAATCAGCACACAGCAACCC
20804151 TTTATATACA
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
103 27 0.30
104 61 0.68
105 2 0.02
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.19
Consensus pattern (103 bp):
GGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAGTGGATATCGCACATAGCACC
ACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCG
Found at i:20807029 original size:22 final size:20
Alignment explanation
Indices: 20806986--20807024 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
20806976 CAATTTAAAA
20806986 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
20807006 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
20807025 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:20807147 original size:20 final size:20
Alignment explanation
Indices: 20807122--20807161 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
20807112 AAATATTTTC
20807122 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
20807142 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
20807162 TCATTTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:20807788 original size:24 final size:24
Alignment explanation
Indices: 20807756--20807827 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
20807746 TTTTACTGCA
20807756 ATATTCAGTGGCTTGACCACAACG
1 ATATTCAGTGGCTTGACCACAACG
*
20807780 ATATTCAGTGGCTTGACCACAATG
1 ATATTCAGTGGCTTGACCACAACG
* *
20807804 TTATTCAGTGGCTTGACCCCAACG
1 ATATTCAGTGGCTTGACCACAACG
20807828 TGTAGCTTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (24 bp):
ATATTCAGTGGCTTGACCACAACG
Found at i:20812757 original size:21 final size:21
Alignment explanation
Indices: 20812711--20812757 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
20812701 TTCAGTGGTA
* *
20812711 ATTTTTATTTCTTTTGTTATT
1 ATTTTTATTTCTTATGTTACT
*
20812732 GTTTTTATTTACTTAT-TTACT
1 ATTTTTATTT-CTTATGTTACT
20812753 ATTTT
1 ATTTT
20812758 GCCTGGGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.72
Consensus pattern (21 bp):
ATTTTTATTTCTTATGTTACT
Found at i:20829091 original size:19 final size:19
Alignment explanation
Indices: 20829069--20829106 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
20829059 TCAATCATCC
20829069 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
20829088 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
20829107 ACTCCTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:20831508 original size:50 final size:50
Alignment explanation
Indices: 20831380--20831665 Score: 292
Period size: 50 Copynumber: 5.7 Consensus size: 50
20831370 GATAATAACA
* * *
20831380 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCCTGTAT--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-TGG
* * *
20831429 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTGG
* * *** ** *
20831479 TGCCCATTCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCT-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAT-TGG
*
20831529 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTGG
* *** ** * *
20831579 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTGG
* *
20831629 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
20831666 CCTCTTTACC
Statistics
Matches: 191, Mismatches: 41, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
48 4 0.02
49 38 0.20
50 148 0.77
51 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTGG
Found at i:20831560 original size:100 final size:100
Alignment explanation
Indices: 20831429--20831665 Score: 420
Period size: 100 Copynumber: 2.4 Consensus size: 100
20831419 TTTCCTGTAT
* * * *
20831429 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATTCCATGTC
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATGTC
*
20831494 CCAGACATGGTCTTATGGGGGACCTCTCATCTCTG
66 CCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
*
20831529 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATGTC
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATGTC
20831594 CCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
66 CCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
20831629 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGA
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGA
20831666 CCTCTTTACC
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 130 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (100 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATGTC
CCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
Found at i:20831650 original size:150 final size:149
Alignment explanation
Indices: 20831380--20831658 Score: 355
Period size: 150 Copynumber: 1.9 Consensus size: 149
20831370 GATAATAACA
* * *
20831380 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTATTGCCAATGTCATATCC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATATATTGCCAATGCCATATCC
* * ** * * ** *
20831445 CAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATTCCATGTCCCAGACATGGTCTTAT
66 CAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACGCCATATCCCAGACATGGTCTTAT
20831510 GGGGGACCTCTCATCTCTG
131 GGGGGACCTCTCATCTCTG
* * *
20831529 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-TGGTGCCCATGCCATG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCATATAT--TGCCAATGCCATA
** *
20831592 TCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTGCCAACGCCATATCCCAGACATGGTCT
63 TCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACGCCATATCCCAGACATGGTCT
20831657 TA
128 TA
20831659 CATGGGACCT
Statistics
Matches: 109, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
148 4 0.04
149 40 0.37
150 65 0.60
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.29
Consensus pattern (149 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATATATTGCCAATGCCATATCC
CAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACGCCATATCCCAGACATGGTCTTAT
GGGGGACCTCTCATCTCTG
Found at i:20838436 original size:50 final size:50
Alignment explanation
Indices: 20838311--20838546 Score: 251
Period size: 50 Copynumber: 4.7 Consensus size: 50
20838301 GATAATAACA
* * * * **
20838311 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTT-TCCT-GTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATTGG
* * * * *
20838360 CGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTGG
* * *** ** * *
20838410 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTGG
20838460 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTGG
* *
20838510 TGCCAACGCCATGTCCGAAACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
20838547 CCTCTTTACC
Statistics
Matches: 152, Mismatches: 33, Indels: 3
0.81 0.18 0.02
Matches are distributed among these distances:
48 3 0.02
49 34 0.22
50 115 0.76
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTGG
Found at i:20843603 original size:17 final size:18
Alignment explanation
Indices: 20843576--20843630 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
20843566 AAAGTTACAT
*
20843576 GGGCACGGACACGGGTTG
1 GGGCACAGACACGGGTTG
*
20843594 GGG-ACAGACACGGATTG
1 GGGCACAGACACGGGTTG
*
20843611 GGGCACAAACACGGGTTG
1 GGGCACAGACACGGGTTG
20843629 GG
1 GG
20843631 ACATGGCCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.24, C:0.20, G:0.45, T:0.11
Consensus pattern (18 bp):
GGGCACAGACACGGGTTG
Found at i:20845707 original size:132 final size:132
Alignment explanation
Indices: 20845314--20845711 Score: 724
Period size: 132 Copynumber: 3.0 Consensus size: 132
20845304 AATGGAGAAA
* *
20845314 GTTCTTCGCAGTTCAATAATCGACTGGTAATGGGAGAAAATGGGGTTGATACGGGCTCTTTACCC
1 GTTCTTCGCAGTTCAATAGTCGACTGGTAATGGGAGAAAATGGGGTCGATACGGGCTCTTTACCC
* *
20845379 CTATTAAAATATCAAAAATTGGGCCCATTGCGCAAACCCAACCTTTACAAGTCTTTGTCAAATTA
66 CTATTAAAATATCAAAAATTGGGCCCATTGCCCAAACCCAACCTTTACAAGTCTTTGTCAAATTG
20845444 TG
131 TG
*
20845446 ATTCTTCGCAGTTCAATAGTCGACTGGTAATGGGAGAAAATGGGGTCGATACGGGCTCTTTACCC
1 GTTCTTCGCAGTTCAATAGTCGACTGGTAATGGGAGAAAATGGGGTCGATACGGGCTCTTTACCC
20845511 CTATTAAAATATCAAAAATTGGGCCCATTGCCCAAACCCAACCTTTACAAGTCTTTGTCAAATTG
66 CTATTAAAATATCAAAAATTGGGCCCATTGCCCAAACCCAACCTTTACAAGTCTTTGTCAAATTG
20845576 TG
131 TG
* *
20845578 GTTCTTCGCAGTTCAATAGTCGACTGGTAATGGGAGAAAATGGGGTCAATGCGGGCTCTTTACCC
1 GTTCTTCGCAGTTCAATAGTCGACTGGTAATGGGAGAAAATGGGGTCGATACGGGCTCTTTACCC
*
20845643 CTATTAAAATATCAAAAATTGGGCCCATTGCCCAAACCCAACCTTTACTAGTCTTTGTCAAATTG
66 CTATTAAAATATCAAAAATTGGGCCCATTGCCCAAACCCAACCTTTACAAGTCTTTGTCAAATTG
20845708 TG
131 TG
20845710 GT
1 GT
20845712 CTAATTCTTT
Statistics
Matches: 257, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 257 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (132 bp):
GTTCTTCGCAGTTCAATAGTCGACTGGTAATGGGAGAAAATGGGGTCGATACGGGCTCTTTACCC
CTATTAAAATATCAAAAATTGGGCCCATTGCCCAAACCCAACCTTTACAAGTCTTTGTCAAATTG
TG
Found at i:20848054 original size:9 final size:9
Alignment explanation
Indices: 20848032--20848116 Score: 107
Period size: 9 Copynumber: 9.4 Consensus size: 9
20848022 TTTGGTTAAA
*
20848032 AATTACCCG
1 AATTAACCG
20848041 AATTAACCG
1 AATTAACCG
* *
20848050 GATTACCCG
1 AATTAACCG
20848059 AATTAACCG
1 AATTAACCG
* *
20848068 GATTACCCG
1 AATTAACCG
20848077 AATTAACCG
1 AATTAACCG
*
20848086 AATTACCCG
1 AATTAACCG
*
20848095 AATTAACCA
1 AATTAACCG
20848104 AATTAACCG
1 AATTAACCG
20848113 AATT
1 AATT
20848117 GAATCACTAC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 63 1.00
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:20848056 original size:18 final size:18
Alignment explanation
Indices: 20848032--20848116 Score: 134
Period size: 18 Copynumber: 4.7 Consensus size: 18
20848022 TTTGGTTAAA
20848032 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
*
20848050 GATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
*
20848068 GATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
*
20848086 AATTACCCGAATTAACCA
1 AATTACCCGAATTAACCG
*
20848104 AATTAACCGAATT
1 AATTACCCGAATT
20848117 GAATCACTAC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.24
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:20848167 original size:6 final size:6
Alignment explanation
Indices: 20848156--20848184 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
20848146 ACTTTTAGAC
20848156 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
20848185 AATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:20848208 original size:20 final size:20
Alignment explanation
Indices: 20848140--20848197 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 20
20848130 ATTAAATTAT
* *
20848140 TTTTAGACTTTTAGACTTTAG
1 TTTTAGAATTTTAG-TTTTAG
20848161 TTTTAG--TTTTAGTTTTAG
1 TTTTAGAATTTTAGTTTTAG
*
20848179 TTTTAGAATTTTATTTTTA
1 TTTTAGAATTTTAGTTTTA
20848198 TTTATTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 11 0.33
19 6 0.18
20 10 0.30
21 6 0.18
ACGTcount: A:0.22, C:0.03, G:0.12, T:0.62
Consensus pattern (20 bp):
TTTTAGAATTTTAGTTTTAG
Found at i:20857533 original size:27 final size:27
Alignment explanation
Indices: 20857500--20857553 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
20857490 AAATTGTTTC
* *
20857500 TTGTTCTATTTTTAATTCATGATTGTT
1 TTGTTCTATGTTTAATCCATGATTGTT
* *
20857527 TTGTTCTGTGTTTGATCCATGATTGTT
1 TTGTTCTATGTTTAATCCATGATTGTT
20857554 CAAGCAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.09, G:0.17, T:0.59
Consensus pattern (27 bp):
TTGTTCTATGTTTAATCCATGATTGTT
Found at i:20871909 original size:27 final size:27
Alignment explanation
Indices: 20871874--20871946 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
20871864 TACAGAATAT
*
20871874 GCCACAAAGGCTATTCATTCATAGTAC
1 GCCACAAAGGCTATTCATTCAGAGTAC
*
20871901 GCCATAAAGGCTATTCATTCAGAGTAC
1 GCCACAAAGGCTATTCATTCAGAGTAC
20871928 GCCACAAAGGCTATTCATT
1 GCCACAAAGGCTATTCATT
20871947 GCTATCGTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (27 bp):
GCCACAAAGGCTATTCATTCAGAGTAC
Found at i:20874373 original size:12 final size:12
Alignment explanation
Indices: 20874335--20874376 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
20874325 ATTGGTCATA
20874335 GAGAGATTTGAG
1 GAGAGATTTGAG
20874347 GAGGGAGATTT--G
1 GA--GAGATTTGAG
20874359 GAGAGATTTGAG
1 GAGAGATTTGAG
20874371 GAGAGA
1 GAGAGA
20874377 ATATTGGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 7 0.27
12 12 0.46
14 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.45, T:0.21
Consensus pattern (12 bp):
GAGAGATTTGAG
Found at i:20875204 original size:107 final size:107
Alignment explanation
Indices: 20874991--20875248 Score: 311
Period size: 107 Copynumber: 2.4 Consensus size: 107
20874981 TTACATTGTT
* * * * * *
20874991 ATGACTGAAATACCCTCACAGGGTAGAATGACCGAAGTACCCTCATAAGGTAAAATGACCAAAAT
1 ATGACCGAAATACCCCCATAGGATAGAATGACCGAAATACCC-CATAAGGTAAAATAACCAAAAT
* * * * *
20875056 ACCCTCATAGGATAGAATGACCGAAACAGCCTCATAAGGTAGA
65 ACCCCCATAGGATAGAATAACCAAAACACCCCCATAAGGTAGA
** * * *
20875099 ATGACCGAAATACTTCCATAGGATAGAATGACCGAAATACCCCATAGGGTAGAATAACCGAAATA
1 ATGACCGAAATACCCCCATAGGATAGAATGACCGAAATACCCCATAAGGTAAAATAACCAAAATA
* *
20875164 CCCCCATAGGGTAGAATAACCAAAATACCCCCATAAGGTAGA
66 CCCCCATAGGATAGAATAACCAAAACACCCCCATAAGGTAGA
* *
20875206 ATGACCGAAATACCCCCATAGGGTA-AAGTGACCAAAATACCCC
1 ATGACCGAAATACCCCCATAGGATAGAA-TGACCGAAATACCCC
20875249 TGTAGGATAA
Statistics
Matches: 127, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
106 2 0.02
107 90 0.71
108 35 0.28
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.17
Consensus pattern (107 bp):
ATGACCGAAATACCCCCATAGGATAGAATGACCGAAATACCCCATAAGGTAAAATAACCAAAATA
CCCCCATAGGATAGAATAACCAAAACACCCCCATAAGGTAGA
Found at i:20875254 original size:27 final size:27
Alignment explanation
Indices: 20874991--20875248 Score: 295
Period size: 27 Copynumber: 9.6 Consensus size: 27
20874981 TTACATTGTT
* * *
20874991 ATGACTGAAATACCCTCACAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * * *
20875018 ATGACCGAAGTACCCTCATAAGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * *
20875045 ATGACCAAAATACCCTCATAGGATAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * * *
20875072 ATGACCGAAACAGCCTCATAAGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
** *
20875099 ATGACCGAAATACTTCCATAGGATAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
20875126 ATGACCGAAATA-CCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
*
20875152 ATAACCGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * *
20875179 ATAACCAAAATACCCCCATAAGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
20875206 ATGACCGAAATACCCCCATAGGGTA-A
1 ATGACCGAAATACCCCCATAGGGTAGA
*
20875232 AGTGACCAAAATACCCC
1 A-TGACCGAAATACCCC
20875249 TGTAGGATAA
Statistics
Matches: 197, Mismatches: 32, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
26 24 0.12
27 173 0.88
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.17
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAGA
Found at i:20875255 original size:134 final size:135
Alignment explanation
Indices: 20874991--20875263 Score: 338
Period size: 134 Copynumber: 2.0 Consensus size: 135
20874981 TTACATTGTT
* * * * *
20874991 ATGACTGAAATACCCTCACAGGGTAGAATGACCGAAGTACCCTCATAAGGTAAAATGACCAAAAT
1 ATGACCGAAATACCCTCACAGGGTAGAATAACCGAAATACCCCCATAAGGTAAAATAACCAAAAT
* * * * *
20875056 ACCCTCATAGGATAGAATGACCGAAACAGCCTCATAAGGTAGAATGACCGAAATACTTCCATAGG
66 ACCCCCATAGGATAGAATGACCGAAACACCCCCATAAGGTAGAATGACCAAAATACTCCCATAGG
*
20875121 ATAGA
131 ATAAA
* * *
20875126 ATGACCGAAATACCC-CATAGGGTAGAATAACCGAAATACCCCCATAGGGTAGAATAACCAAAAT
1 ATGACCGAAATACCCTCACAGGGTAGAATAACCGAAATACCCCCATAAGGTAAAATAACCAAAAT
* * *
20875190 ACCCCCATAAGG-TAGAATGACCGAAATACCCCCATAGGGTA-AAGTGACCAAAATAC-CCCTGT
66 ACCCCCAT-AGGATAGAATGACCGAAACACCCCCATAAGGTAGAA-TGACCAAAATACTCCC-AT
20875252 AGGATAAA
128 AGGATAAA
20875260 ATGA
1 ATGA
20875264 TTGTTATACC
Statistics
Matches: 118, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
133 4 0.03
134 97 0.82
135 17 0.14
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (135 bp):
ATGACCGAAATACCCTCACAGGGTAGAATAACCGAAATACCCCCATAAGGTAAAATAACCAAAAT
ACCCCCATAGGATAGAATGACCGAAACACCCCCATAAGGTAGAATGACCAAAATACTCCCATAGG
ATAAA
Found at i:20890300 original size:5 final size:5
Alignment explanation
Indices: 20890290--20890315 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20890280 AAACATATTA
20890290 AAACC AAACC AAACC AAACC AAACC A
1 AAACC AAACC AAACC AAACC AAACC A
20890316 TTCATATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACC
Found at i:20896664 original size:38 final size:39
Alignment explanation
Indices: 20896587--20896673 Score: 113
Period size: 38 Copynumber: 2.3 Consensus size: 39
20896577 TATAATTGCC
* * *
20896587 ATAATTATAATAATGTTTGACCAAAAAATTACAATTACA
1 ATAATTATAATAATATTCGACCAAAAAATTACAACTACA
* * *
20896626 ATAATTATAATAATATTCGATC-ATAAATTATAACTACA
1 ATAATTATAATAATATTCGACCAAAAAATTACAACTACA
20896664 ATAATTATAA
1 ATAATTATAA
20896674 CAAGGATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 23 0.55
39 19 0.45
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (39 bp):
ATAATTATAATAATATTCGACCAAAAAATTACAACTACA
Found at i:20897963 original size:27 final size:27
Alignment explanation
Indices: 20897922--20897979 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
20897912 CAAGTCAAAA
* *
20897922 ATTG-CTCACCGTGTTGTGACACTAAC
1 ATTGCCTCACCATGTTGCGACACTAAC
20897948 ATTGCCTCACCATGTTGCGACACTAAC
1 ATTGCCTCACCATGTTGCGACACTAAC
20897975 ATTGC
1 ATTGC
20897980 ATGTCATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (27 bp):
ATTGCCTCACCATGTTGCGACACTAAC
Found at i:20915865 original size:21 final size:21
Alignment explanation
Indices: 20915841--20915889 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
20915831 TGGACTGAAT
*
20915841 ATAAAAATTAAACTAAAT-AAA
1 ATAAAAAATAAA-TAAATAAAA
20915862 ATAAATAAATAAATAAATAAAA
1 ATAAA-AAATAAATAAATAAAA
20915884 ATAAAA
1 ATAAAA
20915890 CTTTACAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (21 bp):
ATAAAAAATAAATAAATAAAA
Found at i:20915867 original size:4 final size:4
Alignment explanation
Indices: 20915849--20915882 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
20915839 ATATAAAAAT
20915849 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
20915883 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:20916961 original size:12 final size:12
Alignment explanation
Indices: 20916944--20916987 Score: 65
Period size: 11 Copynumber: 3.8 Consensus size: 12
20916934 AGTTTCTTGA
20916944 AAAAAAAACTCG
1 AAAAAAAACTCG
*
20916956 AAAAAAAATTC-
1 AAAAAAAACTCG
20916967 AAAAAAAA-TCG
1 AAAAAAAACTCG
20916978 AAAAAAAACT
1 AAAAAAAACT
20916988 AGTTTCCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 2 0.07
11 16 0.55
12 11 0.38
ACGTcount: A:0.73, C:0.11, G:0.05, T:0.11
Consensus pattern (12 bp):
AAAAAAAACTCG
Found at i:20917041 original size:13 final size:13
Alignment explanation
Indices: 20917023--20917060 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
20917013 GGATATCAAG
20917023 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
20917036 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
*
20917049 AT-TGAAAAAAAA
1 TTGTGAAAAAAAA
20917061 GAGAGAGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (13 bp):
TTGTGAAAAAAAA
Found at i:20917047 original size:14 final size:14
Alignment explanation
Indices: 20917023--20917060 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
20917013 GGATATCAAG
20917023 TTGTG-AAAAAAAA
1 TTGTGAAAAAAAAA
20917036 TTGTGAAAAAAAAA
1 TTGTGAAAAAAAAA
20917050 -T-TGAAAAAAAA
1 TTGTGAAAAAAAA
20917061 GAGAGAGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.42
13 6 0.25
14 8 0.33
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (14 bp):
TTGTGAAAAAAAAA
Found at i:20923963 original size:4 final size:4
Alignment explanation
Indices: 20923954--20923985 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
20923944 AAGTTTTATT
20923954 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTT
20923986 TAAATTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:20923980 original size:9 final size:9
Alignment explanation
Indices: 20923947--20923987 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
20923937 GTTTGTAAAG
*
20923947 TTTTATTTT
1 TTTTATTTA
20923956 TATTTATTTA
1 T-TTTATTTA
20923966 -TTTATTTA
1 TTTTATTTA
20923974 TTTTATTTA
1 TTTTATTTA
20923983 TTTTA
1 TTTTA
20923988 AATTTTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.28
9 14 0.48
10 7 0.24
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTATTTA
Found at i:20923994 original size:21 final size:20
Alignment explanation
Indices: 20923942--20923995 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
20923932 CCCAAGTTTG
20923942 TAAAGTTTTATTTTTATTTATT
1 TAAA-TTTTA-TTTTATTTATT
**
20923964 TATTTATTTATTTTATTTATTT
1 TAAAT-TTTATTTTATTTA-TT
20923986 TAAATTTTAT
1 TAAATTTTAT
20923996 ATTCAGTCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TAAATTTTATTTTATTTATT
Found at i:20945609 original size:26 final size:26
Alignment explanation
Indices: 20945573--20945624 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
20945563 GAAATGTGAA
*
20945573 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
20945599 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
20945625 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:20945839 original size:199 final size:202
Alignment explanation
Indices: 20945497--20945863 Score: 620
Period size: 199 Copynumber: 1.8 Consensus size: 202
20945487 TTGTATATAA
** *
20945497 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
*
20945562 TGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGTT
66 TGAAATGTAAAAGGGGTTGCTATGTGCTGATTCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGTT
20945627 CATTGGTGGTGCTAAGTGCGATATCCAC-TATCTTTGAAATGAAAGGGGGTTGCTATGTGCTGAT
131 CATTGGTGGTGCTAAGTGCGATATCCACGTATCTTTGAAATGAAAGGGGGTTGCTATGTGCTGAT
20945691 TCCCCCG
196 TCCCCCG
20945698 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGAT-ATCCA-C-TATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
20945759 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCC
65 TTGAAATGTAAAA-GGGGTTGCTATGTGCTGATT-CCCCGAGGGGTTGCTAAGTGCTGATTCCCC
20945823 GTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTTTG
128 GTTCATTGGTGGTGCTAAGTGCGATATCCAC-GTATCTTTG
20945864 CTAAGTGCGA
Statistics
Matches: 157, Mismatches: 4, Indels: 10
0.92 0.02 0.06
Matches are distributed among these distances:
197 3 0.02
198 33 0.21
199 62 0.39
200 26 0.17
201 33 0.21
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.32
Consensus pattern (202 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTAAAAGGGGTTGCTATGTGCTGATTCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGTT
CATTGGTGGTGCTAAGTGCGATATCCACGTATCTTTGAAATGAAAGGGGGTTGCTATGTGCTGAT
TCCCCCG
Found at i:20945841 original size:100 final size:100
Alignment explanation
Indices: 20945497--20945863 Score: 600
Period size: 100 Copynumber: 3.6 Consensus size: 100
20945487 TTGTATATAA
** *
20945497 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGAT-ATCCA-CATATCT
20945561 TTGAAATGTGAAA-GGGGTTGCTATGTGCTGATT-CCCCG
63 TTGAAA--TGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
20945599 AGGGGTTGCTAAGTGCTGATTCCCCGTTCATTGGTGGTGCTAAGTGCGATATCCAC-TATCTTTG
1 AGGGGTTGCTAAGTGCTGATTCCCCGTTCATTGGTGGTGCTAAGTGCGATATCCACATATCTTTG
20945663 AAATGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 AAATGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
20945698 AGGGGTTGCTAAGTGCTGATTCCCCGTTCATTGGTGGTGCTAAGTGCGATATCCAC-TATCTTTG
1 AGGGGTTGCTAAGTGCTGATTCCCCGTTCATTGGTGGTGCTAAGTGCGATATCCACATATCTTTG
20945762 AAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 AAATG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
20945798 AGGGGTTGCTAAGTGCTGATTCCCCGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGTTCATTGGTGGTGCTAAGTGCGATATCCAC-ATATCTTT
20945863 G
65 G
20945864 CTAAGTGCGA
Statistics
Matches: 256, Mismatches: 3, Indels: 12
0.94 0.01 0.04
Matches are distributed among these distances:
97 5 0.02
98 20 0.08
99 85 0.33
100 87 0.34
101 26 0.10
102 33 0.13
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.32
Consensus pattern (100 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTTCATTGGTGGTGCTAAGTGCGATATCCACATATCTTTG
AAATGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:20953328 original size:103 final size:103
Alignment explanation
Indices: 20953100--20953672 Score: 1001
Period size: 103 Copynumber: 5.6 Consensus size: 103
20953090 TTGTATATAA
** * **
20953100 AGGGGTTGCTGTGTGCTGATTCCCC-GATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATC
1 AGGGGTTGCTAAGTGCTGATTCCCCAG-TTCATTGGTGGTGCTAAGTGCGAT-ATCCACTGTATC
*
20953163 TTTGAAATGTGAAAAGGGGGTTTCTATGTGCTGATTCCCCCG
64 TTTGAAA--TGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
20953205 AGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTT
20953270 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
20953308 AGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTT
20953373 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
20953411 AGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTT
20953476 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
20953514 AGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTT
20953579 TGAAATG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
20953616 AGGGGTTGCTAAGTGCTGATTCCCC-GATTCAGTGGTGGTGCTAAGTGCGAGATCCAC
1 AGGGGTTGCTAAGTGCTGATTCCCCAG-TTCATTGGTGGTGCTAAGTGCGATATCCAC
20953673 CAATAACGGT
Statistics
Matches: 457, Mismatches: 8, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
101 1 0.00
102 83 0.18
103 310 0.68
105 61 0.13
106 2 0.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTT
TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:20958943 original size:21 final size:21
Alignment explanation
Indices: 20958917--20958979 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
20958907 TTGGTATTTG
** *
20958917 GGAATTGGTTTGAAATTGTAT
1 GGAATTGGTACGAAATGGTAT
20958938 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
20958959 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
20958980 ATGGTTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 20 0.56
22 16 0.44
ACGTcount: A:0.29, C:0.03, G:0.32, T:0.37
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:20964433 original size:23 final size:22
Alignment explanation
Indices: 20964382--20964433 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
20964372 TCTCATCTTT
*
20964382 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
20964404 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
20964427 TTCTTTT
1 TTCTTTT
20964434 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:20967213 original size:20 final size:20
Alignment explanation
Indices: 20967166--20967213 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
20967156 AGTAAGCTCG
20967166 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
20967186 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
20967206 GTTGAGCT
1 GTTGAGCT
20967214 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:20968884 original size:11 final size:12
Alignment explanation
Indices: 20968854--20968885 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
20968844 TTTCACTCTT
20968854 CTCTTTTTCAAA
1 CTCTTTTTCAAA
20968866 CTCTTTTTCAAA
1 CTCTTTTTCAAA
*
20968878 TTCTTTTT
1 CTCTTTTT
20968886 TCGCTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (12 bp):
CTCTTTTTCAAA
Found at i:20968897 original size:27 final size:27
Alignment explanation
Indices: 20968867--20968928 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
20968857 TTTTTCAAAC
*
20968867 TCTTTTTCAAATTCTT-TTTTC-GCTTTT
1 TCTTTTTC-AATT-TTCTTTTCTGCATTT
*
20968894 TCTTTTTCAATTTTCTTTTCTTCATTT
1 TCTTTTTCAATTTTCTTTTCTGCATTT
20968921 TCTTTTTC
1 TCTTTTTC
20968929 TTTCACTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.06
26 9 0.29
27 20 0.65
ACGTcount: A:0.10, C:0.19, G:0.02, T:0.69
Consensus pattern (27 bp):
TCTTTTTCAATTTTCTTTTCTGCATTT
Found at i:20968907 original size:13 final size:12
Alignment explanation
Indices: 20968891--20969010 Score: 72
Period size: 12 Copynumber: 10.0 Consensus size: 12
20968881 TTTTTTCGCT
20968891 TTTTCTTTTTCAA
1 TTTTCTTTTTC-A
20968904 TTTTCTTTTCTTCA
1 TTTTC-TTT-TTCA
20968918 TTTTCTTTTTC-
1 TTTTCTTTTTCA
* *
20968929 TTTCACTTTTTTGA
1 TTT-TC-TTTTTCA
20968943 -TTTCTTTTTC-
1 TTTTCTTTTTCA
** *
20968953 TTTTGCAATTTCT
1 TTTT-CTTTTTCA
*
20968966 TTTTCTTTTTCG
1 TTTTCTTTTTCA
*
20968978 TTTTCTTTTT-G
1 TTTTCTTTTTCA
20968989 TTTTC--TTTCA
1 TTTTCTTTTTCA
*
20968999 ATTTCTTTTTCA
1 TTTTCTTTTTCA
20969011 ATCTCTTTCT
Statistics
Matches: 85, Mismatches: 11, Indels: 23
0.71 0.09 0.19
Matches are distributed among these distances:
9 3 0.04
10 4 0.05
11 17 0.20
12 30 0.35
13 19 0.22
14 9 0.11
15 3 0.04
ACGTcount: A:0.08, C:0.17, G:0.03, T:0.72
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:20968920 original size:14 final size:14
Alignment explanation
Indices: 20968869--20968927 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
20968859 TTTCAAACTC
*
20968869 TTTTTCAA-ATTCT
1 TTTTTCAATTTTCT
**
20968882 TTTTTCGCTTTT-T
1 TTTTTCAATTTTCT
20968895 CTTTTTCAATTTTCT
1 -TTTTTCAATTTTCT
20968910 TTTCTTC-ATTTTCT
1 TTT-TTCAATTTTCT
20968924 TTTT
1 TTTT
20968928 CTTTCACTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
13 8 0.22
14 25 0.68
15 4 0.11
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTTTCAATTTTCT
Found at i:20968927 original size:15 final size:15
Alignment explanation
Indices: 20968891--20968930 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
20968881 TTTTTTCGCT
20968891 TTTTCTTTTTC--AA
1 TTTTCTTTTTCTTAA
*
20968904 TTTTC-TTTTCTTCA
1 TTTTCTTTTTCTTAA
20968918 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
20968931 TCACTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 6 0.26
15 7 0.30
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTCTTTTTCTTAA
Found at i:20969009 original size:6 final size:6
Alignment explanation
Indices: 20968889--20968996 Score: 76
Period size: 6 Copynumber: 17.7 Consensus size: 6
20968879 TCTTTTTTCG
* * **
20968889 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTTTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
* * ** *
20968940 -TGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CT-TTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
20968988 -GTTTT CTTT
1 CTTTTT CTTT
20968997 CAATTTCTTT
Statistics
Matches: 76, Mismatches: 21, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
5 5 0.07
6 58 0.76
7 10 0.13
8 3 0.04
ACGTcount: A:0.06, C:0.17, G:0.04, T:0.73
Consensus pattern (6 bp):
CTTTTT
Found at i:20970077 original size:19 final size:20
Alignment explanation
Indices: 20970055--20970111 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
20970045 TGTCACTTCT
20970055 TTTTTTTCCTTTTTTTTG-A
1 TTTTTTTCCTTTTTTTTGAA
**
20970074 TTTTTTTAATTTTTTTTGAA
1 TTTTTTTCCTTTTTTTTGAA
*
20970094 TTTTCTTCTCTTTTTTTT
1 TTTTTTTC-CTTTTTTTT
20970112 TAAATCCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.52
20 7 0.23
21 8 0.26
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.79
Consensus pattern (20 bp):
TTTTTTTCCTTTTTTTTGAA
Found at i:20971668 original size:20 final size:20
Alignment explanation
Indices: 20971621--20971668 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
20971611 AGTAAGCTCG
20971621 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
** * *
20971641 AATAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
20971661 GTTGAGCT
1 GTTGAGCT
20971669 GGACGGTGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:20985678 original size:50 final size:50
Alignment explanation
Indices: 20985578--20985867 Score: 330
Period size: 50 Copynumber: 5.7 Consensus size: 50
20985568 AATGAGATCT
* *
20985578 CATGTATGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCC
* * * *
20985634 CATGTAAGACCATGTTTGGGACATGGCGTTGGCTCCGAGATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* *
20985684 CATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * *
20985734 CCCGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * * **
20985784 CCCGTAAGACCATGTCTAGGACATGGCATGGGCACCG-GTATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG-ATGAGAGGTCC
* *
20985834 CATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
20985868 GTACGGAAAA
Statistics
Matches: 207, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.00
50 172 0.83
53 3 0.01
55 1 0.00
56 30 0.14
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:20985759 original size:100 final size:101
Alignment explanation
Indices: 20985575--20985867 Score: 365
Period size: 100 Copynumber: 2.9 Consensus size: 101
20985565 GGGAATGAGA
* * *
20985575 TCTCATGTATGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTA
1 TCTCATGTAAGACCATGTCTAGGACATGGCATTGGCA-C--CGAG--TATGAGAGGTCCCATGTA
* *
20985640 AGACCATGTTTGGGACATGGCGTTGGCTCCGAGATGAGAGG
61 AGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
* **
20985681 TCTCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG-ATGAGAGGTCCCCCGTAAGACC
1 TCTCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGTATGAGAGGTCCCATGTAAGACC
*
20985745 ATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
66 ATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
* ** * **
20985781 TCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCG-GTATGAGAACTCCCATGTAAGACC
1 TCTCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGTATGAGAGGTCCCATGTAAGACC
* * *
20985845 ATATCTGGGATATGGCATTGGCA
66 ATGTCTGGGACATGGCGTTGGCA
20985868 GTACGGAAAA
Statistics
Matches: 165, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
99 1 0.01
100 126 0.76
103 3 0.02
105 1 0.01
106 34 0.21
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (101 bp):
TCTCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGTATGAGAGGTCCCATGTAAGACC
ATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
Found at i:20985806 original size:150 final size:153
Alignment explanation
Indices: 20985585--20985867 Score: 367
Period size: 150 Copynumber: 1.8 Consensus size: 153
20985575 TCTCATGTAT
* *
20985585 GACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCATGTT
1 GACCATGTCTGGGACATGGCATTGGCATCA-TGAG--TATGAGAGGTCCCACGTAAGACCATGTC
* * * * ** * * *
20985650 TGGGACATGGCGTTGGCTCCGAG-ATGAGAGGTCTCATGTAAGACCATGTCTAGGACATGGCGTT
63 TAGGACATGGCATGGGCACCG-GTATGAGAACTCCCATGTAAGACCATATCTAGGACATGGCATT
20985714 GGCACCGAGATGAGAGGTCCCCCGTAA
127 GGCACCGAGATGAGAGGTCCCCCGTAA
* *
20985741 GACCATGTCTGGGACATGGCGTTGGCA-C-TGAG-ATGAGAGGTCCCCCGTAAGACCATGTCTAG
1 GACCATGTCTGGGACATGGCATTGGCATCATGAGTATGAGAGGTCCCACGTAAGACCATGTCTAG
* *
20985803 GACATGGCATGGGCACCGGTATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
66 GACATGGCATGGGCACCGGTATGAGAACTCCCATGTAAGACCATATCTAGGACATGGCATTGGCA
20985868 GTACGGAAAA
Statistics
Matches: 111, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
149 1 0.01
150 79 0.71
153 4 0.04
155 1 0.01
156 26 0.23
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.23
Consensus pattern (153 bp):
GACCATGTCTGGGACATGGCATTGGCATCATGAGTATGAGAGGTCCCACGTAAGACCATGTCTAG
GACATGGCATGGGCACCGGTATGAGAACTCCCATGTAAGACCATATCTAGGACATGGCATTGGCA
CCGAGATGAGAGGTCCCCCGTAA
Found at i:20986147 original size:16 final size:16
Alignment explanation
Indices: 20986121--20986162 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
20986111 TTATTTAAGT
*
20986121 AAGCAAGTAAGTAAAC
1 AAGCGAGTAAGTAAAC
* *
20986137 AAGTGAGTAAGTAAAG
1 AAGCGAGTAAGTAAAC
20986153 AAGCGAGTAA
1 AAGCGAGTAA
20986163 AGATTCTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.52, C:0.07, G:0.26, T:0.14
Consensus pattern (16 bp):
AAGCGAGTAAGTAAAC
Found at i:20992188 original size:16 final size:16
Alignment explanation
Indices: 20992167--20992200 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
20992157 ACTTCAACTA
*
20992167 TATTTTGGTATTTTAT
1 TATTTTGGGATTTTAT
20992183 TATTTTGGGATTTTAT
1 TATTTTGGGATTTTAT
20992199 TA
1 TA
20992201 AGCTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.65
Consensus pattern (16 bp):
TATTTTGGGATTTTAT
Found at i:21021832 original size:27 final size:26
Alignment explanation
Indices: 21021771--21022197 Score: 345
Period size: 27 Copynumber: 15.9 Consensus size: 26
21021761 GTATAACAGT
*
21021771 CATTTTACCCTAT-GGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTC-GA
* * *
21021797 CAATCTACCTTATGGGGGTATTTCAGA
1 CATTTTACCCTATGGGGGTATTTC-GA
* * *
21021824 CATTTTACCTTATGAGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTC-GA
* * * *
21021851 TAGTTTACCCTATGGAGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTC-GA
**
21021878 CATTTTACTTTATGGGGGTATTTCGA
1 CATTTTACCCTATGGGGGTATTTCGA
* *
21021904 TCATTTTACCCTATGAGGGTATTTCGGT
1 -CATTTTACCCTATGGGGGTATTTC-GA
* *
21021932 CAATTTACCCTATGAGGGTATTTCGA
1 CATTTTACCCTATGGGGGTATTTCGA
*
21021958 TCATTTTACCCTATAGGGGTATTTCGA
1 -CATTTTACCCTATGGGGGTATTTCGA
* *
21021985 TCATTTTACCATATGGGGGTATTTCGCT
1 -CATTTTACCCTATGGGGGTATTTCG-A
* *
21022013 CATTTTACCTTATGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTC-GA
* * *
21022040 CATTCTACCCTATGGGAGTATTTTGA
1 CATTTTACCCTATGGGGGTATTTCGA
* * *
21022066 TCATTCTACCTTCTGGGGGTATTTCGA
1 -CATTTTACCCTATGGGGGTATTTCGA
* * *
21022093 TCATTTTACCGTATGGGGATATTTCAGT
1 -CATTTTACCCTATGGGGGTATTTC-GA
* * *
21022121 CATTCTATCCTATGGGGGGATTTCGA
1 CATTTTACCCTATGGGGGTATTTCGA
* * * *
21022147 TTATTTTACCTTATGGGGGTATTTTGGT
1 -CATTTTACCCTATGGGGGTA-TTTCGA
* *
21022175 CATTTTACTCTAT-GGAGTATTTC
1 CATTTTACCCTATGGGGGTATTTC
21022198 CGTCATAACA
Statistics
Matches: 325, Mismatches: 66, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
25 3 0.01
26 19 0.06
27 296 0.91
28 7 0.02
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (26 bp):
CATTTTACCCTATGGGGGTATTTCGA
Found at i:21021865 original size:54 final size:52
Alignment explanation
Indices: 21021771--21022197 Score: 397
Period size: 54 Copynumber: 8.0 Consensus size: 52
21021761 GTATAACAGT
* * *
21021771 CATTTTACCCTATGGGGTATTTCGGTCAATCTACCTTATGGGGGTATTTCAGA
1 CATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC-GA
* * * * *
21021824 CATTTTACCTTATGAGGGTATTTCGGTTAGTTTACCCTATGGAGGTATTTCGGT
1 CATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC-GA
** * * *
21021878 CATTTTACTTTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGT
1 CATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC-GA
* * *
21021932 CAATTTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGA
1 CATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGA
* * * *
21021985 TCATTTTACCATATGGGGGTATTTCGCTCATTTTACCTTATGGGGGTATTTCGGT
1 -CATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC-GA
* * * * * *
21022040 CATTCTACCCTATGGGAGTATTTTGATCATTCTACCTTCTGGGGGTATTTCGA
1 CATTTTACCCTATGGG-GTATTTCGGTCATTTTACCCTATGGGGGTATTTCGA
* * * * *
21022093 TCATTTTACCGTATGGGGATATTTCAGTCATTCTATCCTATGGGGGGATTTCGA
1 -CATTTTACCCTATGGGG-TATTTCGGTCATTTTACCCTATGGGGGTATTTCGA
* * * * *
21022147 TTATTTTACCTTATGGGGGTATTTTGGTCATTTTACTCTAT-GGAGTATTTC
1 -CATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
21022198 CGTCATAACA
Statistics
Matches: 313, Mismatches: 51, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
53 28 0.09
54 278 0.89
55 7 0.02
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (52 bp):
CATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGA
Found at i:21021896 original size:81 final size:81
Alignment explanation
Indices: 21021769--21022203 Score: 529
Period size: 81 Copynumber: 5.4 Consensus size: 81
21021759 GGGTATAACA
* *
21021769 GTCATTTTACCCTATGG-GGTATTTCGGTCAATCTACCTTATGGGGGTATTTCAGA-CATTTTAC
1 GTCATTTTACCCTATGGAGGTATTTCGGTCATTCTACCCTATGGGGGTATTTC-GATCATTTTAC
*
21021832 CTTATGAGGGTATTTCG
65 CTTATGGGGGTATTTCG
* * * **
21021849 GTTAGTTTACCCTATGGAGGTATTTCGGTCATTTTACTTTATGGGGGTATTTCGATCATTTTACC
1 GTCATTTTACCCTATGGAGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTTTACC
* *
21021914 CTATGAGGGTATTTCG
66 TTATGGGGGTATTTCG
* * * *
21021930 GTCAATTTACCCTAT-GAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGATCATTTTAC
1 GTCATTTTACCCTATGGA-GGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTTTAC
*
21021994 CATATGGGGGTATTTCG
65 CTTATGGGGGTATTTCG
* * * * * *
21022011 CTCATTTTACCTTATGGGGGTATTTCGGTCATTCTACCCTATGGGAGTATTTTGATCATTCTACC
1 GTCATTTTACCCTATGGAGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTTTACC
*
21022076 TTCTGGGGGTATTTCG
66 TTATGGGGGTATTTCG
* * * * * *
21022092 ATCATTTTACCGTATGG-GGATATTTCAGTCATTCTATCCTATGGGGGGATTTCGATTATTTTAC
1 GTCATTTTACCCTATGGAGG-TATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTTTAC
*
21022156 CTTATGGGGGTATTTTG
65 CTTATGGGGGTATTTCG
* *
21022173 GTCATTTTACTCTATGGA-GTATTTCCGTCAT
1 GTCATTTTACCCTATGGAGGTATTTCGGTCAT
21022204 AACAGTGTAA
Statistics
Matches: 308, Mismatches: 41, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
80 32 0.10
81 275 0.89
82 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (81 bp):
GTCATTTTACCCTATGGAGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTTTACC
TTATGGGGGTATTTCG
Found at i:21024990 original size:54 final size:54
Alignment explanation
Indices: 21024932--21025135 Score: 279
Period size: 54 Copynumber: 3.8 Consensus size: 54
21024922 GGGTAGAATA
* *
21024932 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTAG
*
21024986 GTCATTTTACCTTATGGGGGTATTTCCG-TCATTCTACCCTATGGGGGTATTTCA-
1 GTCATTTTACCCTATGGGGGTATTT-CGATCATTCTACCCTATGGGGGTATTT-AG
* * * * *
21025040 GTTATTTTACCTTAT-GGGGTATTTTGGTCATTCTACCCTTTGGGGGTATTTAG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTAG
* *
21025093 GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATG
21025136 AGGCTATTCT
Statistics
Matches: 132, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
52 2 0.02
53 44 0.33
54 84 0.64
55 2 0.02
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTAG
Found at i:21025099 original size:80 final size:80
Alignment explanation
Indices: 21024932--21025135 Score: 313
Period size: 80 Copynumber: 2.5 Consensus size: 80
21024922 GGGTAGAATA
* *
21024932 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACC
1 GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTAT-GGGGTATTTTGGTCATTCTACC
*
21024997 TTATGGGGGTATTTCC
65 TTATGGGGGTATTTAC
* *
21025013 GTCATTCTACCCTATGGGGGTATTTC-AGTTATTTTACCTTATGGGGTATTTTGGTCATTCTACC
1 GTCATTCTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGGGGTATTTTGGTCATTCTA-C
*
21025077 CTT-TGGGGGTATTTAG
64 CTTATGGGGGTATTTAC
21025093 GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATG
1 GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATG
21025136 AGGCTATTCT
Statistics
Matches: 112, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
80 70 0.62
81 42 0.38
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.43
Consensus pattern (80 bp):
GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGTATTTTGGTCATTCTACCT
TATGGGGGTATTTAC
Found at i:21025143 original size:27 final size:27
Alignment explanation
Indices: 21024933--21025135 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
21024923 GGTAGAATAG
21024933 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
21024960 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGA
*
21024987 TCATTTTACCTTATGGGGGTATTTCCG-
1 TCATTTTACCCTATGGGGGTATTT-CGA
*
21025014 TCATTCTACCCTATGGGGGTATTTC-A
1 TCATTTTACCCTATGGGGGTATTTCGA
* * * *
21025040 GTTATTTTACCTTAT-GGGGTATTTTGG
1 -TCATTTTACCCTATGGGGGTATTTCGA
* * * *
21025067 TCATTCTACCCTTTGGGGGTATTTAGG
1 TCATTTTACCCTATGGGGGTATTTCGA
*
21025094 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
21025121 TCATTTTACCCTATG
1 TCATTTTACCCTATG
21025136 AGGCTATTCT
Statistics
Matches: 151, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 20 0.13
27 130 0.86
28 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:21056516 original size:50 final size:50
Alignment explanation
Indices: 21056449--21056567 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 50
21056439 ATTGCAAATT
* * * * * *
21056449 CCATATCCCAGATATGGTCATACATGAG-AGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCATACA-GAGAAGTTCTCATATCAGTACCAACG
* * *
21056499 CCATGTCCCAGACATGGTCTTACAGGGAAGTTCTCATCTCAGTACCAACG
1 CCATGTCCCAGACATGGTCATACAGAGAAGTTCTCATATCAGTACCAACG
*
21056549 CCATGTCCTAGACATGGTC
1 CCATGTCCCAGACATGGTC
21056568 TTACGTGGGA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 2 0.03
50 56 0.97
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCATACAGAGAAGTTCTCATATCAGTACCAACG
Found at i:21056568 original size:50 final size:54
Alignment explanation
Indices: 21056498--21056628 Score: 155
Period size: 50 Copynumber: 2.5 Consensus size: 54
21056488 CGGTGCCCAT
* ** *
21056498 GCCATGTCCCAGACATGGTCTTACAG-GGAAGTTCTCAT-CTCAGT-A-CCAAC
1 GCCATGTCCTAGACATGGTCTTACAGTGGAACCTCTCATACTCAATAAGCCAAC
*
21056548 GCCATGTCCTAGACATGGTCTTAC-GTGGGACCTCTCATAACCTCAATAATGCCAAC
1 GCCATGTCCTAGACATGGTCTTACAGTGGAACCTCTCAT-A-CTCAATAA-GCCAAC
21056604 GCCATGTCCTAGACATGGTCTTACA
1 GCCATGTCCTAGACATGGTCTTACA
21056629 TGGGGTCTCA
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
49 1 0.01
50 32 0.47
53 5 0.07
54 1 0.01
56 29 0.43
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (54 bp):
GCCATGTCCTAGACATGGTCTTACAGTGGAACCTCTCATACTCAATAAGCCAAC
Found at i:21058029 original size:48 final size:48
Alignment explanation
Indices: 21057958--21058051 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
21057948 ACCCCATGCC
21057958 TATTCCATAATACTTTAACAAGTGCAATACTTTTGTTTCTTAGTTGAT
1 TATTCCATAATACTTTAACAAGTGCAATACTTTTGTTTCTTAGTTGAT
*
21058006 TATTCCATAATACTTTCACAAGTGCAATACTTTTGTTTCTTAGTTG
1 TATTCCATAATACTTTAACAAGTGCAATACTTTTGTTTCTTAGTTG
21058052 CTTGGCCTCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.46
Consensus pattern (48 bp):
TATTCCATAATACTTTAACAAGTGCAATACTTTTGTTTCTTAGTTGAT
Found at i:21069468 original size:30 final size:30
Alignment explanation
Indices: 21069434--21069491 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
21069424 TCAAACTTTG
21069434 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
* * *
21069464 GGGCAAAATTGTAAATTTGCCAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
21069492 GAGTCGAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAA
Found at i:21069900 original size:56 final size:53
Alignment explanation
Indices: 21069834--21070021 Score: 172
Period size: 50 Copynumber: 3.6 Consensus size: 53
21069824 GGGATGAGAC
* * * **
21069834 CCCATGTAAGACCATGTTTGGGACATGGCATTGGCATTATTGAGCTTATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCAGTACCGAG---ATGAGAGGT
*
21069890 CCCACGTAAGACCATGTCTGGGACATGGCGTT--C-GTACCGAGATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCAGTACCGAGATGAGAGGT
* * * **
21069940 CCCTCGTAAGACCATGTCTGGGACATGGCA-TGG--GCACCGATATGAGAACT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCAGTACCGAGATGAGAGGT
* * * *
21069990 CTCATGTAAGACCATATCTGGGATATGGCATT
1 CCCACGTAAGACCATGTCTGGGACATGGCATT
21070022 TGTAGTATAG
Statistics
Matches: 112, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
49 1 0.01
50 75 0.67
51 1 0.01
53 5 0.04
54 1 0.01
56 29 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (53 bp):
CCCACGTAAGACCATGTCTGGGACATGGCATTGGCAGTACCGAGATGAGAGGT
Found at i:21079695 original size:50 final size:50
Alignment explanation
Indices: 21079571--21079809 Score: 230
Period size: 50 Copynumber: 4.7 Consensus size: 50
21079561 GATAATAACA
* * ** * *
21079571 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
21079620 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
21079670 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
21079720 TGCTAATGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
21079776 TGCCAATGTCATGTCCTAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
21079810 AGATCTCTTT
Statistics
Matches: 155, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.25
50 82 0.53
53 2 0.01
56 31 0.20
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:21085851 original size:20 final size:21
Alignment explanation
Indices: 21085826--21085865 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
21085816 TATGAGAATG
21085826 TCAGTGCAACTTTT-CAAAAA
1 TCAGTGCAACTTTTACAAAAA
*
21085846 TCAGTGCAAGTTTTACAAAA
1 TCAGTGCAACTTTTACAAAA
21085866 TTTTCCTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (21 bp):
TCAGTGCAACTTTTACAAAAA
Found at i:21085963 original size:24 final size:24
Alignment explanation
Indices: 21085936--21086028 Score: 100
Period size: 24 Copynumber: 3.9 Consensus size: 24
21085926 AAACACTCCA
*
21085936 CGTTGTGGCCAAGCCACTCAATAT
1 CGTTGTGGACAAGCCACTCAATAT
* **
21085960 CGTTGTGGTCAAGCCACTCGTTAGT
1 CGTTGTGGACAAGCCACTCAATA-T
* *
21085985 -GTTGTGGGCAAGCCATTC-ATAT
1 CGTTGTGGACAAGCCACTCAATAT
*
21086007 CGTTGTGGATAAGCCACTCAAT
1 CGTTGTGGACAAGCCACTCAAT
21086029 TTTTGTAGTA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
22 1 0.02
23 17 0.30
24 38 0.67
25 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.29
Consensus pattern (24 bp):
CGTTGTGGACAAGCCACTCAATAT
Found at i:21087427 original size:23 final size:23
Alignment explanation
Indices: 21087400--21087475 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
21087390 AGTCTTATTG
21087400 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
21087423 TTCAGTGGTAGCTACGGTTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
21087446 ATCGGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
21087469 ATCAGTG
1 ATCAGTG
21087476 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:21088787 original size:42 final size:42
Alignment explanation
Indices: 21088735--21088850 Score: 126
Period size: 42 Copynumber: 2.8 Consensus size: 42
21088725 ATTATCAGTA
21088735 GGCATGCTTAACATGCAAATCAAATCT-AATATCAACATAGTC
1 GGCATGCTTAACATGCAAATCAAATCTCAAT-TCAACATAGTC
* * * * * * * *
21088777 GGCATACTTAACATACAAATCATATCTCAGTTTATCATTGTT
1 GGCATGCTTAACATGCAAATCAAATCTCAATTCAACATAGTC
* *
21088819 GGCATGTTTAACATGCAAATCAAATATCAATT
1 GGCATGCTTAACATGCAAATCAAATCTCAATT
21088851 AATATAACAG
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
42 57 0.97
43 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (42 bp):
GGCATGCTTAACATGCAAATCAAATCTCAATTCAACATAGTC
Found at i:21090011 original size:13 final size:14
Alignment explanation
Indices: 21089993--21090023 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
21089983 TAATAGTTAT
21089993 ATAGATACAAAA-A
1 ATAGATACAAAATA
21090006 ATAGATACAAAATA
1 ATAGATACAAAATA
21090020 ATAG
1 ATAG
21090024 TAGTTATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (14 bp):
ATAGATACAAAATA
Found at i:21090086 original size:13 final size:13
Alignment explanation
Indices: 21090068--21090097 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21090058 AATAATAGTT
21090068 ATATAGATACAAA
1 ATATAGATACAAA
*
21090081 ATATAGATATAAA
1 ATATAGATACAAA
21090094 ATAT
1 ATAT
21090098 TCTACTGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (13 bp):
ATATAGATACAAA
Done.