Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 83 of 427
Found at i:21422425 original size:45 final size:48
Alignment explanation
Indices: 21422308--21422427 Score: 122
Period size: 50 Copynumber: 2.5 Consensus size: 48
21422298 ATCGAAATTG
* * * *
21422308 ATGCCGACGCCATGTTCCAGACATGGTCTTACACTGGCTCTCACATCTAC
1 ATGCCGATGTCATGTCCCAGACATGGTCTTACACTGG--CACACATCTAC
* *
21422358 GTGCCGATGTCATGTGCCAGACATGGTCTTACACT-G-ACACATCT-C
1 ATGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCACACATCTAC
*
21422403 ATAGTCGATG-CATGTCCCAGACATG
1 AT-GCCGATGTCATGTCCCAGACATG
21422428 TATCGGACAT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
45 16 0.26
46 13 0.21
49 1 0.02
50 31 0.51
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (48 bp):
ATGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCACACATCTAC
Found at i:21422525 original size:46 final size:47
Alignment explanation
Indices: 21422466--21422631 Score: 155
Period size: 47 Copynumber: 3.6 Consensus size: 47
21422456 AGAGCTAGTT
*
21422466 TAAG-ACATATCTGGGACAT-GCATCGACCTCGAGATGTAAGTCAGTG
1 TAAGAACATGTCTGGGACATGGCATCGA-CTCGAGATGTAAGTCAGTG
*
21422512 TAA-AACATGTCTGGAACAT-GCATC-AGCTACGAGATG-ATAGTCAGTG
1 TAAGAACATGTCTGGGACATGGCATCGA-CT-CGAGATGTA-AGTCAGTG
* * * * * * *
21422558 TAAGACCGTGTCTGGGACATGGCATCGACTTGAAATATGAGCCAGTG
1 TAAGAACATGTCTGGGACATGGCATCGACTCGAGATGTAAGTCAGTG
* *
21422605 TAAGACCATGTCTGGGGCATGGCATCG
1 TAAGAACATGTCTGGGACATGGCATCG
21422632 GCACCTTACC
Statistics
Matches: 100, Mismatches: 13, Indels: 13
0.79 0.10 0.10
Matches are distributed among these distances:
45 4 0.04
46 39 0.39
47 49 0.49
48 7 0.07
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
TAAGAACATGTCTGGGACATGGCATCGACTCGAGATGTAAGTCAGTG
Found at i:21429752 original size:46 final size:46
Alignment explanation
Indices: 21429665--21429785 Score: 163
Period size: 46 Copynumber: 2.6 Consensus size: 46
21429655 TATGATAGCA
* **
21429665 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACG-AGAGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCATCGAGACGTA-AGCC
* *
21429713 AGTGTAAGACATGTTTGGGACATGCATTGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCATCGAGACGTAAGCC
21429759 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
21429786 CGGCTACGAG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 43 0.65
47 14 0.21
48 9 0.14
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCATCGAGACGTAAGCC
Found at i:21429796 original size:46 final size:46
Alignment explanation
Indices: 21429665--21429827 Score: 154
Period size: 46 Copynumber: 3.5 Consensus size: 46
21429655 TATGATAGCA
* **
21429665 AGTGTAAGACCATGTCTGGGACATGGCATTGGC-ATTGAGACGAGAGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTA-CGAGACGAGAGCC
*
21429713 AGTGTAAGACATGTTTGGGACATGCATTGGCCT-CGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGG-CTACGAGACG-AGAGCC
* * * *
21429759 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGACGAGAGCC
* *
21429805 AATGTAAGAC-CGTTCTGGGACAT
1 AGTGTAAGACATG-TCTGGGACAT
21429828 CGTATTGACT
Statistics
Matches: 99, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
45 4 0.04
46 71 0.72
47 15 0.15
48 9 0.09
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGACGAGAGCC
Found at i:21432998 original size:47 final size:47
Alignment explanation
Indices: 21432900--21433001 Score: 134
Period size: 47 Copynumber: 2.2 Consensus size: 47
21432890 AATCGATAAG
* * ** *
21432900 TACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTTATCTCGGAG
1 TACCTATACCATAGCTCGTAGCCAAATCAAGGTAACTCATCTCAAAA
*
21432947 TACCTATACCATAGCTCGTAGCCAAATCAAGAG-AACTCCTCTCAAAA
1 TACCTATACCATAGCTCGTAGCCAAATCAAG-GTAACTCATCTCAAAA
21432994 TACCTATA
1 TACCTATA
21433002 TCAAGGTAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
47 47 0.98
48 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (47 bp):
TACCTATACCATAGCTCGTAGCCAAATCAAGGTAACTCATCTCAAAA
Found at i:21443063 original size:40 final size:39
Alignment explanation
Indices: 21443018--21443147 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
21443008 CGGAATACAA
21443018 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
21443058 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
21443098 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
21443138 CCGGATATAA
1 CCGGATATAA
21443148 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:21451140 original size:39 final size:40
Alignment explanation
Indices: 21451069--21451194 Score: 143
Period size: 39 Copynumber: 3.2 Consensus size: 40
21451059 CGGAATACAA
*
21451069 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATAGAACCACGTGCACGAATGCCTTCGGGTCTTAGC
* *
21451108 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACCACGTGCACGAATGCCTTCGGGTCTTAGC
* * *
21451148 CCGGAT-GTAGC-CGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATAGAACCACG-T-GCACGAA-TGCCTTCGGGTCTTAGC
21451188 CCGGATA
1 CCGGATA
21451195 TAATTTCCAG
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
38 1 0.01
39 41 0.55
40 32 0.43
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGATAGAACCACGTGCACGAATGCCTTCGGGTCTTAGC
Found at i:21451175 original size:40 final size:41
Alignment explanation
Indices: 21451085--21451193 Score: 138
Period size: 40 Copynumber: 2.7 Consensus size: 41
21451075 ATAACCACGT
*
21451085 GCACGAATGCCTTCGGGTCTTAG-CCGGA-TAGAACGACTT
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTA
*
21451124 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-CCG-CTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTA
*
21451164 GCAC-AATTGCCTTCGGGTCTTAACCCGGAT
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT
21451194 ATAATTTCCA
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
39 25 0.40
40 33 0.52
41 2 0.03
42 3 0.05
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.24
Consensus pattern (41 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTA
Found at i:21459166 original size:40 final size:39
Alignment explanation
Indices: 21459121--21459250 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
21459111 CGGAATACAA
21459121 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
21459161 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
21459201 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
21459241 CCGGATATAA
1 CCGGATATAA
21459251 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:21467232 original size:40 final size:39
Alignment explanation
Indices: 21467187--21467316 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
21467177 CGGAATACAA
21467187 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
21467227 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
21467267 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
21467307 CCGGATATAA
1 CCGGATATAA
21467317 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:21470865 original size:22 final size:22
Alignment explanation
Indices: 21470840--21470910 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
21470830 CCATGTCTTG
*
21470840 AGACATATAGCCTTTTT-TTTCA
1 AGACATATAG-CTTTTTGTCTCA
* *
21470862 AGACAAATAGGTTTTTGTCTCA
1 AGACATATAGCTTTTTGTCTCA
*
21470884 AGACATGCA-AGC-TTTTGTCTAA
1 AGACAT--ATAGCTTTTTGTCTCA
21470906 AGACA
1 AGACA
21470911 GTAGCCCCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
21 5 0.12
22 32 0.80
23 2 0.05
24 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (22 bp):
AGACATATAGCTTTTTGTCTCA
Found at i:21471823 original size:31 final size:31
Alignment explanation
Indices: 21471782--21471845 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
21471772 CCTTTTCATA
*
21471782 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
21471813 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
21471844 TT
1 TT
21471846 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:21472089 original size:23 final size:23
Alignment explanation
Indices: 21472059--21472178 Score: 195
Period size: 23 Copynumber: 5.1 Consensus size: 23
21472049 CCTAGCTTCT
21472059 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
21472082 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
21472105 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
21472129 TTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
21472153 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
21472176 TTT
1 TTT
21472179 TTCACTTCCT
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
23 47 0.51
24 45 0.49
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:21472118 original size:24 final size:24
Alignment explanation
Indices: 21472057--21472179 Score: 205
Period size: 24 Copynumber: 5.2 Consensus size: 24
21472047 GGCCTAGCTT
21472057 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
21472081 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
21472104 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
21472128 CTTTTGATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
21472152 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
21472175 CTTTT
1 CTTTT
21472180 TCACTTCCTC
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
23 44 0.47
24 49 0.53
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:21472179 original size:47 final size:48
Alignment explanation
Indices: 21472057--21472179 Score: 205
Period size: 47 Copynumber: 2.6 Consensus size: 48
21472047 GGCCTAGCTT
*
21472057 CTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCC
* *
21472104 CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCC
21472152 C-TTTAATAACTGGGGCATAAGCCCTTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTTT
21472180 TCACTTCCTC
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
47 50 0.70
48 21 0.30
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (48 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCC
Found at i:21472252 original size:9 final size:9
Alignment explanation
Indices: 21472238--21472314 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
21472228 ATCTCGTGTG
21472238 CATATCATA
1 CATATCATA
*
21472247 CATATCATGTG
1 CATATCA--TA
21472258 CATATCATA
1 CATATCATA
* *
21472267 CATGTCATGTG
1 CATATCA--TA
21472278 CATATCATA
1 CATATCATA
*
21472287 CATATCATGTG
1 CATATCA--TA
21472298 CATATCATA
1 CATATCATA
21472307 CATATCAT
1 CATATCAT
21472315 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:21472257 original size:20 final size:20
Alignment explanation
Indices: 21472234--21472316 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
21472224 GAACATCTCG
21472234 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
21472254 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
21472274 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
21472294 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
21472314 TGT
1 TGT
21472317 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:21472263 original size:11 final size:11
Alignment explanation
Indices: 21472234--21472305 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
21472224 GAACATCTCG
21472234 TGTGCATATCA
1 TGTGCATATCA
*
21472245 --TACATATCA
1 TGTGCATATCA
21472254 TGTGCATATCA
1 TGTGCATATCA
* *
21472265 --TACATGTCA
1 TGTGCATATCA
21472274 TGTGCATATCA
1 TGTGCATATCA
*
21472285 --TACATATCA
1 TGTGCATATCA
21472294 TGTGCATATCA
1 TGTGCATATCA
21472305 T
1 T
21472306 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:21472399 original size:25 final size:25
Alignment explanation
Indices: 21472353--21472400 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
21472343 ATATATAAAC
* * * *
21472353 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
21472378 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
21472401 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:21473044 original size:24 final size:24
Alignment explanation
Indices: 21473012--21473057 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
21473002 ACACATTCGG
21473012 CACAATGGCCCTTGGGTTCATATC
1 CACAATGGCCCTTGGGTTCATATC
21473036 CACAATGGCCCTTGGGTTCATA
1 CACAATGGCCCTTGGGTTCATA
21473058 CCCGAAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (24 bp):
CACAATGGCCCTTGGGTTCATATC
Found at i:21475630 original size:15 final size:17
Alignment explanation
Indices: 21475599--21475630 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
21475589 AATTTTTTTG
21475599 ATTTATAAATGATTATT
1 ATTTATAAATGATTATT
21475616 ATTT-TAAAT-ATTATT
1 ATTTATAAATGATTATT
21475631 TACATTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTATAAATGATTATT
Found at i:21476317 original size:15 final size:15
Alignment explanation
Indices: 21476297--21476325 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21476287 GTTAGTTAAT
21476297 TTTTTATTTTTATTA
1 TTTTTATTTTTATTA
21476312 TTTTTATTTTTATT
1 TTTTTATTTTTATT
21476326 TTGTTTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTATTTTTATTA
Found at i:21484924 original size:37 final size:37
Alignment explanation
Indices: 21484874--21484964 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
21484864 TTATTACGAA
21484874 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
21484911 GTCTTACTCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
21484948 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
21484965 TTTCCAAGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 45 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:21485062 original size:48 final size:48
Alignment explanation
Indices: 21485004--21485179 Score: 307
Period size: 48 Copynumber: 3.7 Consensus size: 48
21484994 TGTTACAACA
21485004 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
21485052 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
21485100 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
21485148 TTCACATTAGCCATTAGGCCTTATCACATATA
1 TTCACATTAGCCATTCGGCTTTACCACATATA
21485180 TATACACTTT
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 121 1.00
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:21485210 original size:49 final size:49
Alignment explanation
Indices: 21485157--21485419 Score: 464
Period size: 49 Copynumber: 5.5 Consensus size: 49
21485147 TTTCACATTA
21485157 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
21485206 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCATATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
21485255 GCCATTAGGCCTTATCGCATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
21485304 GCCATTAGGCC-T-T---ATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
21485348 GCCATTAGGCCTTATCGCATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
21485397 GCCATTAGGCCTTATCACATATA
1 GCCATTAGGCCTTATCACATATA
21485420 CTATTATGTA
Statistics
Matches: 205, Mismatches: 4, Indels: 10
0.94 0.02 0.05
Matches are distributed among these distances:
44 42 0.20
45 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 159 0.78
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
Found at i:21485368 original size:93 final size:93
Alignment explanation
Indices: 21485157--21485420 Score: 447
Period size: 93 Copynumber: 2.8 Consensus size: 93
21485147 TTTCACATTA
*
21485157 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-T-T-
*
21485222 ACATATATATACACTTTCACATTCATCATATCG
63 --ATATATATACACTTTCACATTCATCACATCG
21485255 GCCATTAGGCCTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATA
1 GCCATTAGGCCTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATA
21485320 TATATACACTTTCACATTCATCACATCG
66 TATATACACTTTCACATTCATCACATCG
21485348 GCCATTAGGCCTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-
*
21485413 ACATATAC
65 ATATATAC
21485421 TATTATGTAC
Statistics
Matches: 162, Mismatches: 3, Indels: 6
0.95 0.02 0.04
Matches are distributed among these distances:
93 94 0.58
94 7 0.04
96 1 0.01
97 1 0.01
98 59 0.36
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (93 bp):
GCCATTAGGCCTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATA
TATATACACTTTCACATTCATCACATCG
Found at i:21490209 original size:40 final size:40
Alignment explanation
Indices: 21490132--21490386 Score: 415
Period size: 40 Copynumber: 6.4 Consensus size: 40
21490122 AAACTAAGTA
* * * *
21490132 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
21490171 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21490211 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21490251 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21490291 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21490331 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21490371 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
21490387 TGGTTATCAT
Statistics
Matches: 204, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.06
40 191 0.94
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21493043 original size:52 final size:52
Alignment explanation
Indices: 21492986--21493097 Score: 152
Period size: 52 Copynumber: 2.2 Consensus size: 52
21492976 GTCACATGGT
* * * * *
21492986 CGTGTCTGGTGTTGTTTGCTTCTCCCACGCCCGTGTATGCAATCCCCACACC
1 CGTGTCTAGCGTTGTTCGCTTCTCCCACGCCCGTGTATGCAAGCCCCACACA
* * *
21493038 CGTGTCTAGCGTTGTTCGTTTCTCCCACGCCTGTGTATGCAAGCCCCACGCA
1 CGTGTCTAGCGTTGTTCGCTTCTCCCACGCCCGTGTATGCAAGCCCCACACA
21493090 CGTGTCTA
1 CGTGTCTA
21493098 TCTAACAGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.12, C:0.35, G:0.22, T:0.30
Consensus pattern (52 bp):
CGTGTCTAGCGTTGTTCGCTTCTCCCACGCCCGTGTATGCAAGCCCCACACA
Found at i:21503706 original size:49 final size:49
Alignment explanation
Indices: 21503634--21503848 Score: 378
Period size: 49 Copynumber: 4.4 Consensus size: 49
21503624 TTTACCACAT
*
21503634 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
21503683 ATATATATACATTTTCACATTCATCACATCGGCCATGAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
21503732 ATATATATAC-CTTTTCACATTCATCACATCGGCCATTAGGTCTTATCAC
1 ATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
21503781 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
21503830 ATATATATACACTTTCACA
1 ATATATATACACTTTCACA
21503849 AATTTTGATA
Statistics
Matches: 157, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
49 156 0.99
50 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:21507459 original size:16 final size:15
Alignment explanation
Indices: 21507413--21507461 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
21507403 ATTTGGGTGA
21507413 TTTATTTATTTTTAT
1 TTTATTTATTTTTAT
* **
21507428 TTAAAAATATTTTTAT
1 TT-TATTTATTTTTAT
21507444 TTTATTTATTTATTAT
1 TTTATTTATTT-TTAT
21507460 TT
1 TT
21507462 CGCTTAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTATTTTTAT
Found at i:21508732 original size:28 final size:28
Alignment explanation
Indices: 21508696--21508754 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
21508686 TAGAGGTATA
21508696 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
21508724 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
21508752 TCG
1 TCG
21508755 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:21509429 original size:26 final size:27
Alignment explanation
Indices: 21509374--21509434 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 27
21509364 GGGCAAAATG
21509374 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* *
21509401 GTAATTTTACCCTAC-AGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
21509427 GTAATTTT
1 GTAATTTT
21509435 TCAAACCATG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 18 0.56
27 14 0.44
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:21509435 original size:27 final size:26
Alignment explanation
Indices: 21509385--21509540 Score: 97
Period size: 27 Copynumber: 5.8 Consensus size: 26
21509375 TAATTTTACC
* *
21509385 CCACAAGGGTATTTCAGTAA-TTTTAC
1 CCAC-AGGGTATTTTAGTAATTTTTAA
21509411 CCTACAGGGTATTTTAGTAATTTTTCAAA
1 CC-ACAGGGTATTTTAGTAATTTTT--AA
* *
21509440 CCA-TGGGTATTTTGGTAATTTTATAA
1 CCACAGGGTATTTTAGTAATTTT-TAA
* *
21509466 ACAAAGGGTATTTTAGTAA-TTTT-A
1 CCACAGGGTATTTTAGTAATTTTTAA
* * *
21509490 CAAACTAGGGGTATTTTGGTGATTTTATAAA
1 C-CAC-A-GGGTATTTTAGTAATTTT-T-AA
*
21509521 CCA-AGGGTATTTTGGTAATT
1 CCACAGGGTATTTTAGTAATT
21509541 CTGTAAATTG
Statistics
Matches: 103, Mismatches: 14, Indels: 25
0.73 0.10 0.18
Matches are distributed among these distances:
24 1 0.01
25 2 0.02
26 24 0.23
27 63 0.61
28 6 0.06
29 4 0.04
30 1 0.01
31 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (26 bp):
CCACAGGGTATTTTAGTAATTTTTAA
Found at i:21509487 original size:54 final size:54
Alignment explanation
Indices: 21509416--21509540 Score: 196
Period size: 54 Copynumber: 2.3 Consensus size: 54
21509406 TTTACCCTAC
* *
21509416 AGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
* * *
21509470 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
*
21509524 AGGGTATTTTGGTAATT
1 AGGGTATTTTAGTAATT
21509541 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.42
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
Found at i:21509536 original size:81 final size:80
Alignment explanation
Indices: 21509389--21509540 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 80
21509379 TTTACCCCAC
* *
21509389 AAGGGTATTTCAGTAATTTTACCCTACAGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTG
1 AAGGGTATTTCAGTAATTTTACACTACAGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTG
21509454 GTAATTTTATAAACA
66 GTAATTTTATAAACA
* * * *
21509469 AAGGGTATTTTAGTAATTTTACAAACTA-GGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATT
1 AAGGGTATTTCAGTAATTTTAC--ACTACAGGGTATTTTAGTAATTTT-TCAAACCAAGGGTATT
21509532 TTGGTAATT
63 TTGGTAATT
21509541 CTGTAAATTG
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
80 21 0.33
81 38 0.60
82 4 0.06
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (80 bp):
AAGGGTATTTCAGTAATTTTACACTACAGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTG
GTAATTTTATAAACA
Found at i:21509556 original size:27 final size:27
Alignment explanation
Indices: 21509416--21509540 Score: 162
Period size: 27 Copynumber: 4.6 Consensus size: 27
21509406 TTTACCCTAC
*
21509416 AGGGTATTTTAGTAATTTT-TCAAACCA
1 AGGGTATTTTGGTAATTTTAT-AAACCA
* *
21509443 TGGGTATTTTGGTAATTTTATAAACAA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
21509470 AGGGTATTTTAGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
21509497 GGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
21509524 AGGGTATTTTGGTAATT
1 AGGGTATTTTGGTAATT
21509541 CTGTAAATTG
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 82 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.42
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACCA
Found at i:21511482 original size:30 final size:31
Alignment explanation
Indices: 21511446--21511509 Score: 121
Period size: 30 Copynumber: 2.1 Consensus size: 31
21511436 CCTTTTCATA
21511446 TTTCATATTTCATATTACT-GGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
21511476 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
21511507 TTT
1 TTT
21511510 ACTGTAAACG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 19 0.58
31 14 0.42
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:21511744 original size:23 final size:23
Alignment explanation
Indices: 21511699--21511836 Score: 147
Period size: 23 Copynumber: 6.0 Consensus size: 23
21511689 GCTTTATCAT
*
21511699 ATAACTGGAGGCCT-AGCCTCTTTA
1 ATAACTGG-GGCATAAGCC-CTTTA
* * *
21511723 ATAATTGGGGCAAAATCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTT-A
*
21511747 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTA
* *
21511769 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCC-TTTA
*
21511793 A-AACTGGGGCATAAGCCCTTTG
1 ATAACTGGGGCATAAGCCCTTTA
21511815 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
21511837 TTCACTTCCT
Statistics
Matches: 98, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.10
23 68 0.69
24 20 0.20
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:21511837 original size:46 final size:46
Alignment explanation
Indices: 21511713--21511837 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 46
21511703 CTGGAGGCCT
* * *
21511713 AGCCTCTTTAATAATTGGGGCAAAATCCCTTTCAATAACTGGGCATA
1 AGCC-CTTTAATAATTGGGGCATAAGCCCTTTTAATAACTGGGCATA
* *
21511760 AGCCCTTTTATAATTGGGGCATAAGCCCTTTTGA-AACTGGGGCATA
1 AGCCCTTTAATAATTGGGGCATAAGCCCTTTTAATAACT-GGGCATA
* *
21511806 AGCCCTTTGATAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTAATAATTGGGGCATAAGCCCTTTT
21511838 TCACTTCCTC
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
45 4 0.06
46 62 0.89
47 4 0.06
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (46 bp):
AGCCCTTTAATAATTGGGGCATAAGCCCTTTTAATAACTGGGCATA
Found at i:21511911 original size:20 final size:20
Alignment explanation
Indices: 21511886--21511945 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
21511876 TATGATTACC
21511886 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
21511906 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
21511926 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
21511946 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:21512020 original size:25 final size:25
Alignment explanation
Indices: 21511988--21512035 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21511978 ATACATAAAC
* * *
21511988 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGATCATTTTTA
21512013 CCTAGGGGCAAAATGATCATTTT
1 CCTAGGGGCAAAATGATCATTTT
21512036 CATGGTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGATCATTTTTA
Found at i:21518132 original size:27 final size:27
Alignment explanation
Indices: 21518099--21518625 Score: 609
Period size: 27 Copynumber: 19.6 Consensus size: 27
21518089 AAAGTACTCC
21518099 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
21518126 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
21518153 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
21518180 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
21518207 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
21518234 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
21518261 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * **
21518288 TGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
21518315 TGATTTATAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
21518342 CGATTTGTAAAATTACCGTTTTACCAT
1 CGATTTACAGAATTACCGTTTTACCCT
*
21518369 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
21518396 C-AGTTTACAGAATTA-C-TATTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
21518421 CGATTTATAGAATTATCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
21518447 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
21518475 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
21518502 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
21518529 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
21518556 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
21518583 TGATTTACAGAATTTCTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
21518610 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
21518626 TAAAATACCC
Statistics
Matches: 436, Mismatches: 52, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
25 20 0.05
26 8 0.02
27 404 0.93
28 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:21518648 original size:27 final size:27
Alignment explanation
Indices: 21518604--21518689 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
21518594 ATTTCTGTTT
* **
21518604 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCAATTTGTAAAATTACTAAAA
*** **
21518631 TACCCTTGGTTTGTAAAATTACTGCAA
1 TACCCTCAATTTGTAAAATTACTAAAA
* *
21518658 TACCCTCAATTTGTAAAACTACCAAAA
1 TACCCTCAATTTGTAAAATTACTAAAA
21518685 TACCC
1 TACCC
21518690 CTGTATGGTA
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.30
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACTAAAA
Found at i:21519960 original size:9 final size:9
Alignment explanation
Indices: 21519948--21520024 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
21519938 TTTGATAAAC
21519948 ATGATATGT
1 ATGATATGT
*
21519957 ATGATATGCAC
1 ATGATATG--T
21519968 ATGATATGT
1 ATGATATGT
*
21519977 ATGATATGCAC
1 ATGATATG--T
**
21519988 ATGACGTGT
1 ATGATATGT
*
21519997 ATGATATGCAC
1 ATGATATG--T
21520008 ATGATATGT
1 ATGATATGT
21520017 ATGATATG
1 ATGATATG
21520025 CACACGAGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:21519971 original size:20 final size:20
Alignment explanation
Indices: 21519946--21520028 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
21519936 ATTTTGATAA
21519946 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
21519966 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
**
21519986 ACATGACGTGTATGATATGC
1 ACATGATATGTATGATATGC
21520006 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
21520026 ACA
1 ACA
21520029 CGAGATGTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:21519973 original size:11 final size:11
Alignment explanation
Indices: 21519957--21520028 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
21519947 CATGATATGT
21519957 ATGATATGCAC
1 ATGATATGCAC
*
21519968 ATGATATG--T
1 ATGATATGCAC
21519977 ATGATATGCAC
1 ATGATATGCAC
** *
21519988 ATGACGTG--T
1 ATGATATGCAC
21519997 ATGATATGCAC
1 ATGATATGCAC
*
21520008 ATGATATG--T
1 ATGATATGCAC
21520017 ATGATATGCAC
1 ATGATATGCAC
21520028 A
1 A
21520029 CGAGATGTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
9 22 0.49
11 23 0.51
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:21520139 original size:24 final size:23
Alignment explanation
Indices: 21520083--21520249 Score: 219
Period size: 24 Copynumber: 7.0 Consensus size: 23
21520073 GAGGAAGTGA
21520083 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
21520106 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
21520129 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
21520153 CAAAAGGGCTTACGCCCTAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
21520177 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
21520200 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
21520225 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
21520249 A
1 A
21520250 TGATAAAGCA
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
23 42 0.33
24 75 0.59
25 11 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:21520152 original size:47 final size:47
Alignment explanation
Indices: 21520083--21520249 Score: 221
Period size: 47 Copynumber: 3.5 Consensus size: 47
21520073 GAGGAAGTGA
*
21520083 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
21520129 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCTAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
21520177 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
21520225 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
21520250 TGATAAAGCA
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
47 64 0.60
48 30 0.28
49 12 0.11
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:21520199 original size:71 final size:71
Alignment explanation
Indices: 21520083--21520248 Score: 253
Period size: 71 Copynumber: 2.3 Consensus size: 71
21520073 GAGGAAGTGA
* *
21520083 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
21520148 GTTATC
66 GTTATC
* *
21520154 AAAAGGGCTTACGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
21520219 GTTATT
66 GTTATC
*
21520225 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
21520249 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
71 76 0.88
72 10 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:21520477 original size:31 final size:31
Alignment explanation
Indices: 21520442--21520505 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
21520432 CGTTTACAGT
* *
21520442 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
**
21520473 AAAGGCTTCGACCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
21520504 AA
1 AA
21520506 TATGAAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:21533476 original size:29 final size:29
Alignment explanation
Indices: 21533434--21533513 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
21533424 CTTAATAATC
*
21533434 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
21533464 AACTCGTACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
21533493 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
21533514 TCTCTCAACC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:21537604 original size:40 final size:40
Alignment explanation
Indices: 21537559--21537725 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
21537549 CGGAATATAA
21537559 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
21537599 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** ** * *
21537639 CCGGATATAGCCACTAGCACATTTACCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
21537679 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
21537718 CCGGATAT
1 CCGGATAT
21537726 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21543428 original size:27 final size:27
Alignment explanation
Indices: 21543398--21543489 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
21543388 ATTACCAAAG
* *
21543398 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
21543425 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
21543452 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
21543479 TACCCTCGATT
1 TACCCTCGATT
21543490 GTGAAATTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:21543445 original size:54 final size:54
Alignment explanation
Indices: 21543387--21543489 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 54
21543377 CGACTTGTAA
* * ** *
21543387 AATTACCAAAGTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAG
* ***
21543441 AATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 AATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
21543490 GTGAAATTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 40 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
AATTACCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAG
Found at i:21543511 original size:27 final size:26
Alignment explanation
Indices: 21543481--21543627 Score: 82
Period size: 27 Copynumber: 5.3 Consensus size: 26
21543471 TACCATTTTA
*
21543481 CCCTCGATTGTGAAATTACTAAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
21543508 CCCT-ATAGGGTAGAATTACCAAAATAC
1 CCCTGATTGTG-A-AATTACCAAAATAC
* *
21543535 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
21543562 CACTGGTTAGTTTGTGAAATTACCGAAATA-
1 CCCT-G--A--TTGTGAAATTACCAAAATAC
* * * *
21543592 CCTTCAATTTATAAAATTACCAAAATAC
1 CCCT-GA-TTGTGAAATTACCAAAATAC
21543620 CCCTGATT
1 CCCTGATT
21543628 TACAAAATTA
Statistics
Matches: 90, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
25 4 0.04
26 3 0.03
27 57 0.63
28 5 0.06
29 2 0.02
30 2 0.02
31 17 0.19
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCAAAATAC
Found at i:21543628 original size:27 final size:29
Alignment explanation
Indices: 21543521--21543637 Score: 93
Period size: 27 Copynumber: 4.2 Consensus size: 29
21543511 TATAGGGTAG
*
21543521 AATTACCAAAATACCCCT--AGTTTGTAA
1 AATTACCAAAATACCCCTCGAGTTTATAA
* * * *
21543548 AATTACCAAAATACCACTGGTTAGTTTGTGA
1 AATTACCAAAATACCCCTCG--AGTTTATAA
* * *
21543579 AATTACCGAAATA-CCTTC-AATTTATAA
1 AATTACCAAAATACCCCTCGAGTTTATAA
*
21543606 AATTACCAAAATACCCCT-GA-TTTACAA
1 AATTACCAAAATACCCCTCGAGTTTATAA
21543633 AATTA
1 AATTA
21543638 TAGAAATACC
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
27 46 0.64
28 4 0.06
30 2 0.03
31 20 0.28
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (29 bp):
AATTACCAAAATACCCCTCGAGTTTATAA
Found at i:21543644 original size:27 final size:27
Alignment explanation
Indices: 21543614--21543692 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 27
21543604 AAAATTACCA
**
21543614 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCATTGATTTACAAAATTATAG
*
21543641 AAATACCTTTGACTTT-CTAAAAATTATAG
1 AAATACCATTGA-TTTAC--AAAATTATAG
*
21543670 AAATACCATTGGTTTACAAAATT
1 AAATACCATTGATTTACAAAATT
21543693 GCTGAAATAC
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 17 0.39
28 6 0.14
29 21 0.48
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATACCATTGATTTACAAAATTATAG
Found at i:21543795 original size:27 final size:27
Alignment explanation
Indices: 21543752--21543825 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
21543742 AAATGACTAA
*
21543752 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
21543779 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
21543806 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
21543826 TAACGAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:21544714 original size:24 final size:25
Alignment explanation
Indices: 21544638--21544707 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
21544628 AGGAAGTGCT
* *
21544638 AAAAGGGCTATGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
21544663 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
21544688 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
21544708 ATTAAAAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:21553016 original size:39 final size:38
Alignment explanation
Indices: 21552958--21553101 Score: 135
Period size: 40 Copynumber: 3.7 Consensus size: 38
21552948 CCGCACCAAG
* * * *
21552958 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACGACTAGCACAAT
* * * *
21552997 GCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATA-TACGACTAGCAC-AAT
* * *
21553037 GCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATA-CGACTAGCACAA-T
*
21553077 GCCTTCGGGTCTTAACCCGGTTATA
1 GCCTTCGGGTCTTAACCCGGATATA
21553102 ATTTCCAGCA
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 31 0.36
40 55 0.64
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (38 bp):
GCCTTCGGGTCTTAACCCGGATATACGACTAGCACAAT
Found at i:21553032 original size:79 final size:80
Alignment explanation
Indices: 21552949--21553096 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 80
21552939 TATGGTAACC
* * * *
21552949 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAA-TGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAA
21553012 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * *
21553028 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
21553093 CCGG
66 CCGG
21553097 TTATAATTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
78 1 0.02
79 36 0.63
80 20 0.35
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:21557536 original size:19 final size:19
Alignment explanation
Indices: 21557508--21557551 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
21557498 TCAATTAGCC
*
21557508 TCTCATTTGAGCTGATTTT
1 TCTCAATTGAGCTGATTTT
21557527 TCTCAATTGAGCTGATTTT
1 TCTCAATTGAGCTGATTTT
21557546 TCTCAA
1 TCTCAA
21557552 CTAGTTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (19 bp):
TCTCAATTGAGCTGATTTT
Found at i:21560171 original size:52 final size:52
Alignment explanation
Indices: 21560056--21560172 Score: 144
Period size: 52 Copynumber: 2.2 Consensus size: 52
21560046 TGTGGGTGCA
* * ***
21560056 CACGGCCGTGTCTGACGTTGTTCGCTTCTCCCACGCCTGTGTATGCAATTTC
1 CACGCCCGTGTCTGACATTGTTCGCTTCTCCCACGCCTGTGTATGCAAGCCC
* * * *
21560108 CGCGCCCGTGTCTGGCATTGTTCGCTTCTCTCACGCTTGTGTATGCAAGCCC
1 CACGCCCGTGTCTGACATTGTTCGCTTCTCCCACGCCTGTGTATGCAAGCCC
*
21560160 CACGCCTGTGTCT
1 CACGCCCGTGTCT
21560173 ATCTAACAGC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.10, C:0.34, G:0.24, T:0.32
Consensus pattern (52 bp):
CACGCCCGTGTCTGACATTGTTCGCTTCTCCCACGCCTGTGTATGCAAGCCC
Found at i:21562236 original size:39 final size:41
Alignment explanation
Indices: 21562122--21562305 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
21562112 GCTACTCGTT
* *
21562122 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
21562162 TAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
21562202 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
21562241 CAAATGCCTTC-GGATCTTAGTCCGG-ATATAG-CACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
21562281 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21562306 CATCATTCGA
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
38 2 0.02
39 51 0.40
40 73 0.58
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:21562239 original size:79 final size:81
Alignment explanation
Indices: 21562122--21562305 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
21562112 GCTACTCGTT
* * *
21562122 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21562185 GGATTTAGTAAC-TCGCA
65 GGATATAG-AACTTAGCA
**
21562202 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
21562265 GATATAGCACTTAGCA
66 GATATAGAACTTAGCA
21562281 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21562306 CATCATTCGA
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
78 14 0.15
79 63 0.68
80 15 0.16
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGAACTTAGCA
Found at i:21570352 original size:79 final size:82
Alignment explanation
Indices: 21570241--21570425 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 82
21570231 GCTACTCGTT
* * *
21570241 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21570304 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
**
21570321 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
21570384 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
21570401 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21570426 CATCATTCGA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.60
80 34 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:21570425 original size:40 final size:40
Alignment explanation
Indices: 21570222--21570425 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
21570212 CGGAATTTAA
** *
21570222 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
21570262 CCGGTTATAGTAACTCGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21570302 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21570341 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
21570381 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21570421 CCGGA
1 CCGGA
21570426 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 34 0.24
40 94 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21594033 original size:21 final size:21
Alignment explanation
Indices: 21593990--21594031 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
21593980 CAAGCTTCAT
21593990 ATTCTACTAAAAAAACATCAA
1 ATTCTACTAAAAAAACATCAA
21594011 ATTCTACT-AAAAAACATCAA
1 ATTCTACTAAAAAAACATCAA
21594031 A
1 A
21594032 ATAAACACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.24
Consensus pattern (21 bp):
ATTCTACTAAAAAAACATCAA
Found at i:21599021 original size:30 final size:30
Alignment explanation
Indices: 21598986--21599043 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
21598976 CCTTAACTCT
21598986 AACTTTTGCAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* * *
21599016 AACTTTTGCATATTTACACTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
21599044 AAAGCTCCAA
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:0.28, C:0.26, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Found at i:21601126 original size:24 final size:24
Alignment explanation
Indices: 21601093--21601149 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
21601083 CTGGAGGCCT
21601093 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCCT-TTTTAATGAACTGGGGCAA
**
21601117 AGCCCTTTTTGGTGAACTGGGGCAA
1 AG-CCTTTTTAATGAACTGGGGCAA
21601142 AGCCTTTT
1 AGCCTTTT
21601150 CGCACTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (24 bp):
AGCCTTTTTAATGAACTGGGGCAA
Found at i:21601224 original size:21 final size:21
Alignment explanation
Indices: 21601197--21601256 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
21601187 TATAATGAGT
21601197 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* *
21601218 ATCTCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
21601239 ATATCAT-GTCATATCATG
1 ATATCATAG-CATATCATG
21601257 CATAACAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:21601334 original size:25 final size:25
Alignment explanation
Indices: 21601306--21601368 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
21601296 TAGGGGGTAT
21601306 AATGGTCATTTTTACCTAGGGGCAA
1 AATGGTCATTTTTACCTAGGGGCAA
*
21601331 AATGGTCATTTTTACCTAGGTGCAA
1 AATGGTCATTTTTACCTAGGGGCAA
21601356 AATGGTCATTTTT
1 AATGGTCATTTTT
21601369 CATATTATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (25 bp):
AATGGTCATTTTTACCTAGGGGCAA
Found at i:21608379 original size:22 final size:21
Alignment explanation
Indices: 21608341--21608400 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
21608331 GCCTTCTAAT
*
21608341 TATGGCTTCGTGTCAACCT-ACA
1 TATGGCTT-GTGCCAACCTGA-A
*
21608363 TATGGCTCTGTGCCAACCTGAT
1 TATGGCT-TGTGCCAACCTGAA
21608385 TATGGCTGTGTGCCAA
1 TATGGCT-TGTGCCAA
21608401 ACGTATTTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 31 0.94
23 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (21 bp):
TATGGCTTGTGCCAACCTGAA
Found at i:21608589 original size:27 final size:27
Alignment explanation
Indices: 21608559--21608660 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 27
21608549 ATTCTGTTAA
* * *
21608559 GTGGCTTTGCTACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
21608586 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
21608613 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * **
21608640 GTGACTCTATCACAATATCTG
1 GTGGCTATGCCACAATATCTG
21608661 ATAACTGAGC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.78
28 7 0.11
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:21608835 original size:6 final size:6
Alignment explanation
Indices: 21608797--21608940 Score: 109
Period size: 6 Copynumber: 23.3 Consensus size: 6
21608787 TTGCATTCAC
* * * *
21608797 ATTCTG ATTTTAG ATTCT- ATTACTTG ATACTG ATTCTG ATTTTG ACTCTG
1 ATTCTG ATTCT-G ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
21608847 -TTACCTG ATCCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
21608897 ATTCTG ATT-TCG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCT-G ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
21608941 AATGTTTCTT
Statistics
Matches: 110, Mismatches: 14, Indels: 28
0.72 0.09 0.18
Matches are distributed among these distances:
5 7 0.06
6 85 0.77
7 14 0.13
8 4 0.04
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:21608864 original size:31 final size:31
Alignment explanation
Indices: 21608797--21608877 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
21608787 TTGCATTCAC
* *
21608797 ATTCTGATTTTAGATTCTATTACTTGATACTG
1 ATTCTGATTTT-GATTCTGTTACCTGATACTG
* *
21608829 ATTCTGATTTTGACTCTGTTACCTGATCCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
21608860 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
21608878 ATTCTGATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 32 0.74
32 11 0.26
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:21608890 original size:43 final size:42
Alignment explanation
Indices: 21608820--21608931 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 42
21608810 ATTCTATTAC
* * * * *
21608820 TTGATACTGATTCTGATTTTGACTCTGTTACCTGATCCTGAT
1 TTGATTCTGATTCTGATTCTGATTCTGTCACCTAATCCTGAT
*
21608862 TCTGATTCTGATTCTGATTCTGATTCTGTCACCTAATTCTGAT
1 T-TGATTCTGATTCTGATTCTGATTCTGTCACCTAATCCTGAT
21608905 TTCGATTCTGATTCTGATTCTGATTCT
1 TT-GATTCTGATTCTGATTCTGATTCT
21608932 AGTTCTGATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
42 2 0.03
43 60 0.97
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (42 bp):
TTGATTCTGATTCTGATTCTGATTCTGTCACCTAATCCTGAT
Found at i:21615286 original size:47 final size:47
Alignment explanation
Indices: 21615232--21615777 Score: 912
Period size: 47 Copynumber: 11.6 Consensus size: 47
21615222 TATTTGAATA
21615232 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
21615279 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
21615326 AATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
21615373 AATGTAAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
21615420 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
21615467 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
21615516 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
21615563 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
21615610 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
21615657 AATGTGAAAGTGTATATATGTGATAAGTCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
21615704 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
21615751 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
21615778 TCCCGAAGGG
Statistics
Matches: 478, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 432 0.90
49 46 0.10
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:21615418 original size:22 final size:22
Alignment explanation
Indices: 21615390--21615465 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
21615380 AAGTGTATAT
21615390 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
21615412 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
21615436 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
21615459 ATGTGAT
1 ATGTGAT
21615466 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:21616878 original size:24 final size:25
Alignment explanation
Indices: 21616851--21616901 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
21616841 GCCTAGCCTC
21616851 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATGAACTGGGGCAAAGCCCT
**
21616875 TTTTGGTGAACTGGGGCAAAGCCCT
1 TTTTAATGAACTGGGGCAAAGCCCT
21616900 TT
1 TT
21616902 CGCACTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (25 bp):
TTTTAATGAACTGGGGCAAAGCCCT
Found at i:21616976 original size:21 final size:21
Alignment explanation
Indices: 21616949--21617009 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
21616939 TATAATGAGT
21616949 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* * *
21616970 ATCTCATAACAAATCATGTGC
1 ATATCATAGCATATCATGTGC
21616991 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
21617010 ATAACAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:21617008 original size:10 final size:10
Alignment explanation
Indices: 21616949--21617009 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
21616939 TATAATGAGT
21616949 ATATCATAG-C
1 ATATCAT-GTC
21616959 ATATCATGTGC
1 ATATCATGT-C
* **
21616970 ATCTCATAAC
1 ATATCATGTC
*
21616980 AAATCATGTGC
1 ATATCATGT-C
21616991 ATATCATGTC
1 ATATCATGTC
21617001 ATATCATGT
1 ATATCATGT
21617010 ATAACAATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
9 1 0.03
10 23 0.57
11 16 0.40
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (10 bp):
ATATCATGTC
Found at i:21623964 original size:48 final size:48
Alignment explanation
Indices: 21623906--21624243 Score: 550
Period size: 48 Copynumber: 7.0 Consensus size: 48
21623896 ATATACACAC
* * *
21623906 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
21623954 ATCTCATACATATTTCACACTAGCCATTCGGATTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
21624002 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
21624050 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
21624098 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
21624146 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
21624194 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21624242 AT
1 AT
21624244 ATTTATCTTG
Statistics
Matches: 272, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 272 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:21634852 original size:23 final size:23
Alignment explanation
Indices: 21634826--21634876 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
21634816 TTTAAATTTG
21634826 TTTTATGTATTATTCA-TTTTAAA
1 TTTT-TGTATTATTCACTTTTAAA
* *
21634849 TTTTTTTATTATTTACTTTTAAA
1 TTTTTGTATTATTCACTTTTAAA
21634872 TTTTT
1 TTTTT
21634877 TTATATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTTTGTATTATTCACTTTTAAA
Found at i:21634859 original size:22 final size:23
Alignment explanation
Indices: 21634833--21634880 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
21634823 TTGTTTTATG
21634833 TATTATTCA-TTTTAAATTTTTT
1 TATTATTCACTTTTAAATTTTTT
*
21634855 TATTATTTACTTTTAAATTTTTT
1 TATTATTCACTTTTAAATTTTTT
21634878 TAT
1 TAT
21634881 ATATAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTATTCACTTTTAAATTTTTT
Found at i:21634900 original size:50 final size:51
Alignment explanation
Indices: 21634805--21634912 Score: 132
Period size: 50 Copynumber: 2.1 Consensus size: 51
21634795 GCTTTGTACC
* * * *
21634805 ATTATTTACTTTTTAAATTTGTTTTATGTATTATTCATTTTAAATTTTTTT
1 ATTATTTACTTTTTAAATTTGTTTTATATATTAATCATTTCAAATTTTTAT
21634856 ATTATTTAC-TTTTAAATTT-TTTTATATA-TAATCAAATTTCAAATTTTTAT
1 ATTATTTACTTTTTAAATTTGTTTTATATATTAATC--ATTTCAAATTTTTAT
21634906 ATGTATT
1 AT-TATT
21634913 ATCCCTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
48 4 0.08
49 8 0.16
50 25 0.50
51 13 0.26
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (51 bp):
ATTATTTACTTTTTAAATTTGTTTTATATATTAATCATTTCAAATTTTTAT
Found at i:21635061 original size:26 final size:27
Alignment explanation
Indices: 21634973--21635062 Score: 85
Period size: 26 Copynumber: 3.4 Consensus size: 27
21634963 TGTGTAGTAC
* * *
21634973 TTATTTTGAATTTCTTTTTACATAACAT
1 TTATTTT-AAATTCATTTTACATATCAT
* * *
21635001 TTACTTTAAATTCA-TTTATATATTAT
1 TTATTTTAAATTCATTTTACATATCAT
*
21635027 TTATCTTAAATT-ATTTTACATATCAT
1 TTATTTTAAATTCATTTTACATATCAT
*
21635053 TTGTTTTAAA
1 TTATTTTAAA
21635063 CTTTCTTTCC
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
25 1 0.02
26 37 0.76
27 5 0.10
28 6 0.12
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (27 bp):
TTATTTTAAATTCATTTTACATATCAT
Found at i:21639286 original size:30 final size:30
Alignment explanation
Indices: 21639242--21639330 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
21639232 CAAAGATAAC
21639242 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
21639271 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
21639301 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
21639331 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:21639290 original size:15 final size:15
Alignment explanation
Indices: 21639242--21639321 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
21639232 CAAAGATAAC
*
21639242 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
21639256 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
21639271 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
21639286 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
21639301 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
21639316 AAGAAA
1 AAGAAA
21639322 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:21639330 original size:15 final size:15
Alignment explanation
Indices: 21639253--21639330 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
21639243 AGAAAACCGA
21639253 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
21639268 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
21639282 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
21639297 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
21639313 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
21639328 ATA
1 ATA
21639331 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:21642395 original size:46 final size:48
Alignment explanation
Indices: 21642275--21642404 Score: 146
Period size: 46 Copynumber: 2.8 Consensus size: 48
21642265 TGTAACCCGC
*
21642275 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * *
21642325 CTC-T---CGAACTCGGACTCAATTCAACGAGTTCGGA-C-ATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
21642368 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21642405 TGCCCAAACA
Statistics
Matches: 68, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
42 1 0.01
43 8 0.12
44 1 0.01
46 28 0.41
47 27 0.40
50 2 0.03
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:21642423 original size:46 final size:46
Alignment explanation
Indices: 21642280--21642423 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
21642270 CCCGCCCATA
*
21642280 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * * *
21642329 --CGAACTCGGACTCAATTCAACGAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* *
21642372 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
21642419 AGTGA
1 AGTGA
21642424 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 33 0.43
47 28 0.37
48 6 0.08
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:21644475 original size:24 final size:24
Alignment explanation
Indices: 21644442--21644503 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
21644432 ATGCAAAGGG
21644442 ATATGCAAGAGCAATTACAAGCGC
1 ATATGCAAGAGCAATTACAAGCGC
*
21644466 ATATGGAAGAGCAATTACAAGCGC
1 ATATGCAAGAGCAATTACAAGCGC
21644490 ATATGCAAGAGCAA
1 ATATGCAAGAGCAA
21644504 CTGGCTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.16
Consensus pattern (24 bp):
ATATGCAAGAGCAATTACAAGCGC
Found at i:21649459 original size:93 final size:93
Alignment explanation
Indices: 21649352--21649522 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
21649342 GCCCCTAAGT
* * * *
21649352 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAATTCGGATTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21649417 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
21649445 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21649510 CGAGTTCGGATGC
66 CGAGTTCGGATGC
21649523 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:21649519 original size:46 final size:46
Alignment explanation
Indices: 21649347--21649519 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
21649337 AACCCGCCCC
* * *
21649347 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * * *
21649393 TAAGTGAATTCGGATTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
21649441 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
21649486 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21649520 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.57
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:21654047 original size:14 final size:14
Alignment explanation
Indices: 21654028--21654059 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
21654018 CTGAAATGGG
21654028 ACTAATTAGTTTGA
1 ACTAATTAGTTTGA
21654042 ACTAATTAGTTTGA
1 ACTAATTAGTTTGA
21654056 ACTA
1 ACTA
21654060 CCCAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (14 bp):
ACTAATTAGTTTGA
Found at i:21654505 original size:44 final size:44
Alignment explanation
Indices: 21654392--21654686 Score: 207
Period size: 44 Copynumber: 6.7 Consensus size: 44
21654382 CTACCAATAG
* *
21654392 CAAATCTTATCTCCCTGAAGTCACAGTGGAGCAAATTAAAGCCA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCA
* * * * * * *
21654436 CAAACCTCATCCCCCTAAAGATACAGTGAAGCAAGTTAAAGTTC-
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAG-CCA
***
21654480 CAAGTTTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCA
* * * * * **
21654524 CAAACCTTATCTCCCTGAAGTTGCAGAGGAGTAGATTGAAGTTA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCA
* * ** ** * * **
21654568 CAGATCTTATCTCCCTGAAGTTGTAGTGGAATAGATCAAAGATA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCA
* * * * * **
21654612 GCAAACCTTATCCCCCTGAATTTGCAGTGGGGCAAGTTAAA-ATA
1 -CAAACCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCA
** *
21654656 CAAGTCTTATCTCCCTGAAGTTACAATGGAG
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAG
21654687 TAGACTGAAT
Statistics
Matches: 193, Mismatches: 55, Indels: 7
0.76 0.22 0.03
Matches are distributed among these distances:
43 25 0.13
44 138 0.72
45 30 0.16
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.26
Consensus pattern (44 bp):
CAAACCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCA
Found at i:21654566 original size:88 final size:87
Alignment explanation
Indices: 21654396--21654686 Score: 307
Period size: 88 Copynumber: 3.3 Consensus size: 87
21654386 CAATAGCAAA
* * * * *
21654396 TCTTATCTCCCTGAAGTCACAGTGGAGCAAATTAAAGCCACAAACCTCATCCCCCTAAAGATACA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCACAAACCTTATCCCCCTGAAGTTGCA
* *
21654461 GTGAAGCAAGTTAAAGTTCCAAG
66 GTGGAGCAAGTT-AAGTTACAAG
* *
21654484 TTTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCACAAACCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCACAAACCTTATCCCCCTGAAGTTGCA
* *
21654549 GAGGAG-TAGATTGAAGTTAC-AG
66 GTGGAGCAAG-TT-AAGTTACAAG
** ** * * ** *
21654571 ATCTTATCTCCCTGAAGTTGTAGTGGAATAGATCAAAGATAGCAAACCTTATCCCCCTGAATTTG
1 -TCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCA-CAAACCTTATCCCCCTGAAGTTG
* **
21654636 CAGTGGGGCAAGTTAAAATACAAG
64 CAGTGGAGCAAGTTAAGTTACAAG
*
21654660 TCTTATCTCCCTGAAGTTACAATGGAG
1 TCTTATCTCCCTGAAGTTACAGTGGAG
21654687 TAGACTGAAT
Statistics
Matches: 166, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
87 4 0.02
88 129 0.78
89 31 0.19
90 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCACAAACCTTATCCCCCTGAAGTTGCA
GTGGAGCAAGTTAAGTTACAAG
Found at i:21654641 original size:45 final size:44
Alignment explanation
Indices: 21654486--21654741 Score: 160
Period size: 44 Copynumber: 5.8 Consensus size: 44
21654476 GTTCCAAGTT
* ** * * **
21654486 TTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCACAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAATAGATCAAAGATACAAACC
* * ** * * *
21654530 TTATCTCCCTGAAGTTGCAGAGGAGTAGATTGAAGTTACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAATAGATCAAAGATACAAACC
*
21654574 TTATCTCCCTGAAGTTGTAGTGGAATAGATCAAAGATAGCAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAATAGATCAAAGATA-CAAACC
* * * * **
21654619 TTATCCCCCTGAATTTGCAGTGGGGCA-AG-TTAAA-ATACAAGTC
1 TTATCTCCCTGAAGTTGCAGT--GGAATAGATCAAAGATACAAACC
* * * * * *
21654662 TTATCTCCCTGAAGTTACAATGGAGTAGA-CTGAATATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAATAGATC-AAAGATA-CAAACC
* * * *
21654707 TTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAG
1 TTATCTCCCTGAAGTTGCAGTGGAATAGATCAAAG
21654742 CTATAAATCC
Statistics
Matches: 163, Mismatches: 40, Indels: 17
0.74 0.18 0.08
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 23 0.14
44 73 0.45
45 58 0.36
46 2 0.01
47 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAATAGATCAAAGATACAAACC
Found at i:21654740 original size:88 final size:87
Alignment explanation
Indices: 21654480--21654740 Score: 251
Period size: 88 Copynumber: 3.0 Consensus size: 87
21654470 GTTAAAGTTC
* * * **
21654480 CAAGTTTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCA-CAAACCTTATCTCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGA-TAAAGATAGCAAACCTTATCTCCCTGAAG
**
21654544 TTGCAG-AGGAGTAGATTGAAGTTA
65 TTGCAGTA-GAGTAGATT-AAAATA
** * *
21654568 C-AGATCTTATCTCCCTGAAGTTGTAGTGGAATAGATCAAAGATAGCAAACCTTATCCCCCTGAA
1 CAAG-TCTTATCTCCCTGAAGTTACAGTGGAGTAGAT-AAAGATAGCAAACCTTATCTCCCTGAA
* * * *
21654632 TTTGCAGTGGGGCA-AGTTAAAATA
64 GTTGCAGTAGAGTAGA-TTAAAATA
* * * * *
21654656 CAAGTCTTATCTCCCTGAAGTTACAATGGAGTAGACTGAATATAGCAAATCTTATCTCTCTGAAG
1 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGA-TAAAGATAGCAAACCTTATCTCCCTGAAG
21654721 TTGCAGTAGAGTAGATTAAA
65 TTGCAGTAGAGTAGATTAAA
21654741 GCTATAAATC
Statistics
Matches: 137, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
87 3 0.02
88 101 0.74
89 33 0.24
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (87 bp):
CAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGATAAAGATAGCAAACCTTATCTCCCTGAAGT
TGCAGTAGAGTAGATTAAAATA
Found at i:21659032 original size:5 final size:5
Alignment explanation
Indices: 21659015--21659045 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
21659005 ATTTGAGTGG
*
21659015 TTTAT TTTGT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
21659046 ATTTTTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:21662032 original size:41 final size:41
Alignment explanation
Indices: 21661918--21662048 Score: 117
Period size: 41 Copynumber: 3.2 Consensus size: 41
21661908 TTTACTAATT
* *
21661918 CACCAGCATAAAGCCTGCTAGGCAT-AAGCCTG-TATCACA
1 CACCAGCACAAAGCCTGCTAGGCATAAAGCCTGATTTCACA
* * * * *
21661957 CACCAGCACAAGGCCTGCTAGAC-TCAAAGTCTGATTTTATA
1 CACCAGCACAAAGCCTGCTAGGCAT-AAAGCCTGATTTCACA
* * **
21661998 CACCGGCA-ATAAGCCTGCTAGGCATAAAGCCTGATTTAATT
1 CACCAGCACA-AAGCCTGCTAGGCATAAAGCCTGATTTCACA
21662039 CACCAGCACA
1 CACCAGCACA
21662049 TTGCTTCCTA
Statistics
Matches: 72, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
39 20 0.28
40 7 0.10
41 42 0.58
42 2 0.03
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.21
Consensus pattern (41 bp):
CACCAGCACAAAGCCTGCTAGGCATAAAGCCTGATTTCACA
Found at i:21677008 original size:2 final size:2
Alignment explanation
Indices: 21677001--21677030 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21676991 CGGCTCTAGC
21677001 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21677031 GTTTGCACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21679168 original size:29 final size:29
Alignment explanation
Indices: 21679135--21679266 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
21679125 GTGACGAGAT
21679135 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
21679164 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
21679193 TGGCACTAAATGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
21679222 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
21679251 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
21679267 GGCTTAAATT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:21691478 original size:40 final size:40
Alignment explanation
Indices: 21691433--21691634 Score: 228
Period size: 40 Copynumber: 5.0 Consensus size: 40
21691423 TGAATGATAC
* * ** *
21691433 CCGGGCTAAGTCCCGAAGGCTTTTATGCTA-ATGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTG-TTATAT
21691473 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
*
21691513 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
* * *** *
21691553 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
* * * *
21691593 TCGGGTTAAGACCCGAAGGCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCTAGTTGTTATAT
21691633 CC
1 CC
21691635 AGCTAAATTC
Statistics
Matches: 138, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
40 133 0.96
41 5 0.04
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
Found at i:21695921 original size:20 final size:21
Alignment explanation
Indices: 21695886--21695942 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
21695876 TGATACGTGG
21695886 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
21695904 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
21695925 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
21695943 GTATTCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:21696063 original size:25 final size:26
Alignment explanation
Indices: 21695992--21696101 Score: 147
Period size: 26 Copynumber: 4.3 Consensus size: 26
21695982 GAGGAAGTGC
21695992 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
21696018 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
***
21696044 AAAAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
21696069 AAAAAGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
21696092 AAAAGAGGCT
1 AAAAG-GGCT
21696102 AGGCCTCTAG
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
23 4 0.05
24 7 0.09
25 29 0.38
26 36 0.47
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:21696281 original size:42 final size:42
Alignment explanation
Indices: 21696234--21696325 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
21696224 TAGTCTCCCT
** *
21696234 AAATGGGCTTGCATACAT-TCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCT-ATTGACATTACATATGATATTG
*
21696276 AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCTATTGACATTACATATGATATTG
21696318 AAATGGGC
1 AAATGGGC
21696326 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCTATTGACATTACATATGATATTG
Found at i:21700030 original size:671 final size:671
Alignment explanation
Indices: 21698739--21700076 Score: 2311
Period size: 671 Copynumber: 2.0 Consensus size: 671
21698729 TCTGTTTTTG
* * * *
21698739 TATAAGACCCTATCTGGGACAGAGCCATCGATACTGAATTACATGTAAGACCACGTCTCGGATGT
1 TATAAGACCCTATCTAGGACAGAGCCATCGATACTGAATTACATATAAGACCACGTATCGGACGT
21698804 CGGCATTGTACTTGTCTGTGAATATCTATTCTGTTCCTGAATTGTCCGACGATAAAGTATGAGAT
66 CGGCATTGTACTTGTCTGTGAATATCTATTCTGTTCCTGAATTGTCCGACGATAAAGTATGAGAT
* *
21698869 ATGAAGTGTATAATTCCTATAGATACGTTAGTATCGTACTTAATTTCTGAATATGAAAGACTCTA
131 ATGAAATGTATAATTCCTACAGATACGTTAGTATCGTACTTAATTTCTGAATATGAAAGACTCTA
21698934 TTTCTGTGAAGTAGGTTCGGAATCATGGAAATGAATATGATATGCTTACAAGCAAATAGGCATGG
196 TTTCTGTGAAGTAGGTTCGGAATCATGGAAATGAATATGATATGCTTACAAGCAAATAGGCATGG
* *
21698999 TTAAGTTTATGAACAACTTTGAGAAATGGCTATGAATTCTTATTGTTGTTTTGAACTACATATAT
261 TTAAGTTTATGAACAACTCTAAGAAATGGCTATGAATTCTTATTGTTGTTTTGAACTACATATAT
* * *
21699064 ATGCTTTATGTAATTAAACCAATTGTGTTTGGCTTACTAAACCCTTTGTAGCTTACTCTGTTTGC
326 ATGCTTTATGTAATTAAACCAATTGTGTTTGGCTTACTAAACCCTTCGTAGCTTACTCTATGTGC
*
21699129 TTACTGTCTGTTTTACAGTTATCGTAGCTACTGAAGGCTCGAGAATAGTCCAGGATTGTCATCAC
391 TTACTGTCTGTTTTACAGTTATCGTAGCTACTGAAGGCTCGAGAATAGTCCAGGATTATCATCAC
* * * * *
21699194 ACCAGCAAACTCTTTTTGGTTCTTTTAGAAATGTGCATAATTATGTATGGCATGTATAAGCTACA
456 ACCAGCAAACTCTTTTTGATACTTTCAGAAATGTACATAATTATGTATAGCATGTATAAGCTACA
21699259 ATGGATTAGTTGATATGTATGTGCAACTTATGCCATTTGAATTGGCTAGCAAATGATATATTTGT
521 ATGGATTAGTTGATATGTATGTGCAACTTATGCCATTTGAATTGGCTAGCAAATGATATATTTGT
* *
21699324 GTATTGTTTTGGTGTATGTCTTAATTTGTTATGTTCTAATGTGATTTGGTCATATTTGAACATTG
586 GTATTGTTTTGGTGTATGTCTTAATGTGCTATGTTCTAATGTGATTTGGTCATATTTGAACATTG
21699389 AATTGGTTGGAAATGTTTACA
651 AATTGGTTGGAAATGTTTACA
* * * * * *
21699410 TATAAGACTCTGTCTAGGACAGAGGCATTGGTACTGAATTACATATAAGACCACGTATGGGACGT
1 TATAAGACCCTATCTAGGACAGAGCCATCGATACTGAATTACATATAAGACCACGTATCGGACGT
* * *
21699475 CGGCATTGTACTTGTCTGTGAATATCTATTCTGTTTCTGGATTGTCCGATGATAAAGTATGAGAT
66 CGGCATTGTACTTGTCTGTGAATATCTATTCTGTTCCTGAATTGTCCGACGATAAAGTATGAGAT
* *
21699540 ATGAAATGTATAATTCCTACAGGTACGTTCGTATCGTACTTAATTTCTGAATATGAAAGACTCTA
131 ATGAAATGTATAATTCCTACAGATACGTTAGTATCGTACTTAATTTCTGAATATGAAAGACTCTA
21699605 TTTCT-TCGAAGTAGGTTCGGAATCATGGAAATGAATATGATATGCTTACAAGCAAAT-GAGCAT
196 TTTCTGT-GAAGTAGGTTCGGAATCATGGAAATGAATATGATATGCTTACAAGCAAATAG-GCAT
21699668 GGTTAAGTTTATGAACAACTCTAAGAAATGGCTATGAATTCTTATTGTTGTTTTGAACTACATAT
259 GGTTAAGTTTATGAACAACTCTAAGAAATGGCTATGAATTCTTATTGTTGTTTTGAACTACATAT
* *
21699733 ATATGCTTTATGTAATTAAACCAATTGTGTTTGGCTTACTAAGCTCTTCGTAGCTTACTCTATGT
324 ATATGCTTTATGTAATTAAACCAATTGTGTTTGGCTTACTAAACCCTTCGTAGCTTACTCTATGT
* *
21699798 GCTTACTGTCTGTTTTACAGTTATCGTAGCTACTGAAGGCTCGGGAATAGTCGAGGATTATCATC
389 GCTTACTGTCTGTTTTACAGTTATCGTAGCTACTGAAGGCTCGAGAATAGTCCAGGATTATCATC
21699863 ACACCAGCAAACTCTTTTTGATACTTTCAGAAATGTACATAATTATGTATAGCATGTATAAGCTA
454 ACACCAGCAAACTCTTTTTGATACTTTCAGAAATGTACATAATTATGTATAGCATGTATAAGCTA
* *
21699928 GAATGGATTAGTTGATATGTATGTGCAAGTTATGCCATTTGAATTGGCTAGCAAATGATATATTT
519 CAATGGATTAGTTGATATGTATGTGCAACTTATGCCATTTGAATTGGCTAGCAAATGATATATTT
*
21699993 GTGTATTGTTTTGGTGTATGTCTTAATGTGCTATGTTCTAATGTGATTTGGTCATATTTGAGCAT
584 GTGTATTGTTTTGGTGTATGTCTTAATGTGCTATGTTCTAATGTGATTTGGTCATATTTGAACAT
21700058 TGAATTGGTTGGAAATGTT
649 TGAATTGGTTGGAAATGTT
21700077 GGTATACTTG
Statistics
Matches: 628, Mismatches: 37, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
670 2 0.00
671 626 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (671 bp):
TATAAGACCCTATCTAGGACAGAGCCATCGATACTGAATTACATATAAGACCACGTATCGGACGT
CGGCATTGTACTTGTCTGTGAATATCTATTCTGTTCCTGAATTGTCCGACGATAAAGTATGAGAT
ATGAAATGTATAATTCCTACAGATACGTTAGTATCGTACTTAATTTCTGAATATGAAAGACTCTA
TTTCTGTGAAGTAGGTTCGGAATCATGGAAATGAATATGATATGCTTACAAGCAAATAGGCATGG
TTAAGTTTATGAACAACTCTAAGAAATGGCTATGAATTCTTATTGTTGTTTTGAACTACATATAT
ATGCTTTATGTAATTAAACCAATTGTGTTTGGCTTACTAAACCCTTCGTAGCTTACTCTATGTGC
TTACTGTCTGTTTTACAGTTATCGTAGCTACTGAAGGCTCGAGAATAGTCCAGGATTATCATCAC
ACCAGCAAACTCTTTTTGATACTTTCAGAAATGTACATAATTATGTATAGCATGTATAAGCTACA
ATGGATTAGTTGATATGTATGTGCAACTTATGCCATTTGAATTGGCTAGCAAATGATATATTTGT
GTATTGTTTTGGTGTATGTCTTAATGTGCTATGTTCTAATGTGATTTGGTCATATTTGAACATTG
AATTGGTTGGAAATGTTTACA
Found at i:21701020 original size:6 final size:6
Alignment explanation
Indices: 21701002--21701169 Score: 112
Period size: 6 Copynumber: 27.3 Consensus size: 6
21700992 AAGAAACATT
* *
21701002 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAGA ATCAGA ACCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
21701050 ATTAG- GTGACAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CCGA ATCAAA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * *
21701100 ATCAGA ATCAGC ATCAGGTA A-CAGA ATTAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
21701151 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
21701170 GTGAATGCAA
Statistics
Matches: 124, Mismatches: 24, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
5 8 0.06
6 101 0.81
7 11 0.09
8 4 0.03
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:21701067 original size:31 final size:31
Alignment explanation
Indices: 21701029--21701169 Score: 201
Period size: 31 Copynumber: 4.5 Consensus size: 31
21701019 AATCAGAATT
* * * * *
21701029 AGAATCAGAACCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
21701060 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
21701091 CGAATCAAAATCAGAATCAGCATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
21701122 AGAATTAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
21701153 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
21701170 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 99 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:21701365 original size:26 final size:27
Alignment explanation
Indices: 21701301--21701367 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
21701291 GCTCAGTTAT
* *
21701301 CAGATATTGTGACAGAGTCACCAGAAA
1 CAGATATTGTGGCAGAGCCACCAGAAA
* *
21701328 TAGATATTGTGGCAGAGCCACCAG-AG
1 CAGATATTGTGGCAGAGCCACCAGAAA
*
21701354 CAGATAATGTGGCA
1 CAGATATTGTGGCA
21701368 AATCCACTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGAAA
Found at i:21701561 original size:22 final size:22
Alignment explanation
Indices: 21701533--21701597 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
21701523 GTAAATACGT
*
21701533 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
21701555 TTGGCACAAAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
**
21701577 TTAACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
21701598 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:21702082 original size:27 final size:27
Alignment explanation
Indices: 21702023--21702270 Score: 322
Period size: 27 Copynumber: 9.2 Consensus size: 27
21702013 AGGGGTAAAA
* * *
21702023 TGGTAATTTTACCCCACA-AGGTA-TC
1 TGGTAATTCTACCCTACAGGGGTATTC
* * *
21702048 TCGGTAATTCCACCCTACAGGGATATTT
1 T-GGTAATTCTACCCTACAGGGGTATTC
* *
21702076 TAGTAATTCTACCCTACAGAGGTATT-
1 TGGTAATTCTACCCTACAGGGGTATTC
*
21702102 TCGGTAATTCTACCCTACTGGGGTATTC
1 T-GGTAATTCTACCCTACAGGGGTATTC
21702130 TGGTAATTCTACCCTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTC
* *
21702157 TGGTAATTCTACCCTATAGGGATATTC
1 TGGTAATTCTACCCTACAGGGGTATTC
*
21702184 TGGTAATTCTACCTTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTC
*
21702211 CGGTAATTCTACCCTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTC
* *
21702238 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTC
21702265 TGGTAA
1 TGGTAA
21702271 CTTTGTAAAT
Statistics
Matches: 195, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
25 1 0.01
26 15 0.08
27 176 0.90
28 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTC
Found at i:21702287 original size:27 final size:26
Alignment explanation
Indices: 21702257--21702537 Score: 78
Period size: 27 Copynumber: 10.5 Consensus size: 26
21702247 TACCCTACAG
21702257 GGGTATTTTGGTAACTTTGTAAATCGA
1 GGGTATTTTGGTAA-TTTGTAAATCGA
***
21702284 GGGTAAAATGGTAATTTTGTAAATC-A
1 GGGTATTTTGGTAA-TTTGTAAATCGA
* *
21702310 GGGGTACTTTGGTAA-TTCTACAAGTCGA
1 -GGGTATTTTGGTAATTTGTA-AA-TCGA
*** *
21702338 GGGTATTTCAATAATTT-TACAGGTCGA
1 GGGTATTTTGGTAATTTGTA-A-ATCGA
** **
21702365 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTTGGTAATTT-GTAAATCGA
* *
21702391 GGGATATTTTGGTAATTT-TACAAGCTAA
1 GGG-TATTTTGGTAATTTGTA-AATC-GA
* * *
21702419 GGGTA--TTGATAATTT-TACAAACTA
1 GGGTATTTTGGTAATTTGTA-AATCGA
** *
21702443 GGGGTATTTTGGTAATTTACAAA-CCA
1 -GGGTATTTTGGTAATTTGTAAATCGA
* * * *
21702469 GGGGTATTTTGGTGATTTTATAAACCAA
1 -GGGTATTTTGGT-AATTTGTAAATCGA
* * * *
21702497 GGGTATTCTAGTAATTT-TACAAACCA
1 GGGTATTTTGGTAATTTGTA-AATCGA
21702523 GTGGTATTTTGGTAA
1 G-GGTATTTTGGTAA
21702538 ACTAAAGTAT
Statistics
Matches: 198, Mismatches: 36, Indels: 40
0.72 0.13 0.15
Matches are distributed among these distances:
24 1 0.01
25 27 0.14
26 34 0.17
27 124 0.63
28 11 0.06
29 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTGTAAATCGA
Found at i:21702297 original size:81 final size:81
Alignment explanation
Indices: 21702050--21702299 Score: 222
Period size: 81 Copynumber: 3.1 Consensus size: 81
21702040 AAGGTATCTC
* * ***
21702050 GGTAATTCCACCCTACAGGGATATTTTAGTAATTCTACCCTACAGAGG-TATT-TCGGTAATTCT
1 GGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG-GGATATTCT-GGTAATTCT
** * ***
21702113 ACCCTACTGGGGTATTCT
64 ACAATACAGGGGTAAAAT
* *
21702131 GGTAATTCTACCCTACAGGGGTATTCTGGTAATTCTACCCTATAGGGATATTCTGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGATATTCTGGTAATTCTAC
** ****
21702196 CTTACAGGGGTATTCC
66 AATACAGGGGTAAAAT
* * *
21702212 GGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTTGGTAACTTTGT
1 GGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGATATTCTGGTAA--TTCT
21702277 A-AAT-C-GAGGGTAAAAT
64 ACAATACAG-GGGTAAAAT
21702293 GGTAATT
1 GGTAATT
21702300 TTGTAAATCA
Statistics
Matches: 145, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
80 3 0.02
81 136 0.94
82 2 0.01
83 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGATATTCTGGTAATTCTAC
AATACAGGGGTAAAAT
Found at i:21702464 original size:26 final size:27
Alignment explanation
Indices: 21702365--21702537 Score: 181
Period size: 27 Copynumber: 6.5 Consensus size: 27
21702355 TACAGGTCGA
** * *
21702365 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
21702392 GGATATTTTGGTAATTTTACAAGCTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
21702419 GGGTA--TTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
21702444 GGGTATTTTGGTAA-TTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
21702470 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
21702497 GGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
21702524 TGGTATTTTGGTAA
1 GGGTATTTTGGTAA
21702538 ACTAAAGTAT
Statistics
Matches: 118, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
25 22 0.19
26 24 0.20
27 72 0.61
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:21702532 original size:54 final size:53
Alignment explanation
Indices: 21702430--21702535 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 53
21702420 GGTATTGATA
* * * *
21702430 ATTTTACAAACTAGGGGTATTTTGGTAATTTACAAACCAGGGGTATTTTGGTG
1 ATTTTACAAACCAAGGGTATTCTAGTAATTTACAAACCAGGGGTATTTTGGTG
* *
21702483 ATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAGTGGTATTTTGGT
1 ATTTTACAAACCAAGGGTATTCTAGTAA-TTTACAAACCAGGGGTATTTTGGT
21702536 AAACTAAAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 23 0.50
54 23 0.50
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (53 bp):
ATTTTACAAACCAAGGGTATTCTAGTAATTTACAAACCAGGGGTATTTTGGTG
Found at i:21705815 original size:38 final size:38
Alignment explanation
Indices: 21705759--21705843 Score: 134
Period size: 38 Copynumber: 2.2 Consensus size: 38
21705749 ATGGATTTTG
21705759 TTTCAGGTTTGCCCCTATCTCCACGAAAAAAAGGTGCTA
1 TTTC-GGTTTGCCCCTATCTCCACGAAAAAAAGGTGCTA
* *
21705798 TTTCGGTTTGCCCCTATCTCCATGAAAGAAAGGTGCTA
1 TTTCGGTTTGCCCCTATCTCCACGAAAAAAAGGTGCTA
*
21705836 TTTGGGTT
1 TTTCGGTT
21705844 CTGGTTTATC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
38 39 0.91
39 4 0.09
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (38 bp):
TTTCGGTTTGCCCCTATCTCCACGAAAAAAAGGTGCTA
Found at i:21707996 original size:22 final size:22
Alignment explanation
Indices: 21707956--21708013 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 22
21707946 CTTTAGCCAT
21707956 TTTTATTTTTATTGCAATT-TAA
1 TTTT-TTTTTATTGCAATTATAA
**
21707978 TTTTGTTTTTATTTTAATTACTAA
1 TTTT-TTTTTATTGCAATTA-TAA
21708002 TTTTTCTTTTAT
1 TTTTT-TTTTAT
21708014 CTGCTTTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 16 0.53
23 1 0.03
24 13 0.43
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.69
Consensus pattern (22 bp):
TTTTTTTTTATTGCAATTATAA
Done.