Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold686
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: 50021
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Found at i:3188 original size:42 final size:42
Alignment explanation
Indices: 3085--3250 Score: 205
Period size: 42 Copynumber: 4.0 Consensus size: 42
3075 ACTTTAGCTT
* * *
3085 TGGTGCTCGAGGCTTCCGCACATCCTAGCACCAAGGT--CGG
1 TGGTGCTCGAGGCTCCCGCACATCCGAGCACCAAGGTGCCGA
* *
3125 TGGTGCTCGAGCCTCTCGCACATCCGAGCACC-AGGTTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCGAGCACCAAGG-TGCCGA
3167 TGGTGGCT-GAGGCTCCCGCACATCCGAGCACCAAGGTGCCGA
1 TGGT-GCTCGAGGCTCCCGCACATCCGAGCACCAAGGTGCCGA
* * *
3209 TGGTGTTCGAGTCTCCCGCATATCCGAGCCACCAAGGTGCCG
1 TGGTGCTCGAGGCTCCCGCACATCCGAG-CACCAAGGTGCCG
3251 GAGACTCTTG
Statistics
Matches: 109, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
39 3 0.03
40 29 0.27
41 2 0.02
42 56 0.51
43 19 0.17
ACGTcount: A:0.17, C:0.34, G:0.30, T:0.19
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCGAGCACCAAGGTGCCGA
Found at i:3197 original size:82 final size:84
Alignment explanation
Indices: 3085--3250 Score: 214
Period size: 82 Copynumber: 2.0 Consensus size: 84
3075 ACTTTAGCTT
* * * *
3085 TGGTGCTCGAGGCTTCCGCACATCCTAGCACCAAGGT-CGGTGGTGCTCGAGCCTCTCGCACATC
1 TGGTGCTCGAGGCTCCCGCACATCCGAGCACCAAGGTCCGATGGTGCTCGAGCCTCCCGCACATC
3149 CGAG-CACC-AGGTTGCCGA
66 CGAGCCACCAAGG-TGCCGA
* * *
3167 TGGTGGCT-GAGGCTCCCGCACATCCGAGCACCAAGGTGCCGATGGTGTTCGAGTCTCCCGCATA
1 TGGT-GCTCGAGGCTCCCGCACATCCGAGCACCAAGGT-CCGATGGTGCTCGAGCCTCCCGCACA
3231 TCCGAGCCACCAAGGTGCCG
64 TCCGAGCCACCAAGGTGCCG
3251 GAGACTCTTG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
82 31 0.43
83 3 0.04
84 26 0.36
85 9 0.12
86 3 0.04
ACGTcount: A:0.17, C:0.34, G:0.30, T:0.19
Consensus pattern (84 bp):
TGGTGCTCGAGGCTCCCGCACATCCGAGCACCAAGGTCCGATGGTGCTCGAGCCTCCCGCACATC
CGAGCCACCAAGGTGCCGA
Found at i:3754 original size:42 final size:42
Alignment explanation
Indices: 3698--3872 Score: 178
Period size: 42 Copynumber: 4.2 Consensus size: 42
3688 CAACAGGGGC
* *
3698 CCAAGTTGCCGATGGTGCTCGAGGCTCCCGCACATCCGAGCA
1 CCAAGGTGCGGATGGTGCTCGAGGCTCCCGCACATCCGAGCA
* * *
3740 CCAAGGTGCGGATGGTGCTCGAGGCTCCGGCACATCCGACCT
1 CCAAGGTGCGGATGGTGCTCGAGGCTCCCGCACATCCGAGCA
* * *
3782 CCTAGGT--GGATGGTGCTCGAGGCT-CCGCAGCATCTGATCA
1 CCAAGGTGCGGATGGTGCTCGAGGCTCCCGCA-CATCCGAGCA
** * * *
3822 CTTAGGTGCGGATGGGGCTTGAGGCTCCC-CACATTCGAGCCA
1 CCAAGGTGCGGATGGTGCTCGAGGCTCCCGCACATCCGAG-CA
*
3864 CCAGGGTGC
1 CCAAGGTGC
3873 CGGTGCTGCC
Statistics
Matches: 109, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 4 0.04
40 30 0.28
41 5 0.05
42 68 0.62
43 2 0.02
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (42 bp):
CCAAGGTGCGGATGGTGCTCGAGGCTCCCGCACATCCGAGCA
Found at i:9220 original size:82 final size:84
Alignment explanation
Indices: 9034--10017 Score: 849
Period size: 82 Copynumber: 11.9 Consensus size: 84
9024 TTTTCTTTAG
* * * *
9034 CCCGCACATCCCAGGCACCAAGGTACCGATGGTACTCGAGGCTCCCGCACATTCAAG-CA-CAAG
1 CCCGCACATCCCA-GCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACA-TCGAGCCACCAA-
* *
9097 GGTTGCCAATGGT-GTCTGAGGCT
63 GG-TGCCGATGCTGGTC-GAGGCT
* * *
9120 CCCGCACATCCCAACACCAAGGTGTCGATGCTGGTCGA-GCTCCCGCACCA-C-AGCCACCAAGG
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCA-CATCGAGCCACCAAGG
*
9182 AGCCGATGCTGGTCGAGGCT
65 TGCCGATGCTGGTCGAGGCT
* *
9202 CCTGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCCGAGCCAACAAGG
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACAT-CGAGCCACCAAGG
* *
9267 TGCCGATGGTGCAT-GAGGCT
65 TGCCGATGCTG-GTCGAGGCT
* * * * * *
9287 CCCCCACATGCAAGCACCAA-G-GCAGATGCTGCTCGAGGCTCCCGCACATTGAGGCACCAAGGT
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCGAGCCACCAAGGT
*
9350 GTCGATGCTGGCTCGAGGCT
66 GCCGATGCTGG-TCGAGGCT
* * * *
9370 CCCGCATATCCCAGCACCAAGGTGCGGATGCTGCTCGAGGCTCCCGTACATCCCAG-CACCAAGG
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACAT-CGAGCCACCAAGG
* *
9434 TGCTGATGGTGGTC-AGGGCT
65 TGCCGATGCTGGTCGA-GGCT
* * * *
9454 CCCGCACATCCAAGCA-CTAGGTGCCGATG-TGCTCAAGGCTCTCGCACATCCGAGCCACCAA-G
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACAT-CGAGCCACCAAGG
* * *
9516 TGCTGACGGTGGTCGAGGCT
65 TGCCGATGCTGGTCGAGGCT
* *
9536 CCCGCACAT--CAGACACCAA-GTGCCGATACCGCTCGAGGCTCCCGCACATCCGAGCCACCAAG
1 CCCGCACATCCCAG-CACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACAT-CGAGCCACCAAG
* *
9598 GTTCCGATGC-GGCTCGGGGCT
64 GTGCCGATGCTGG-TCGAGGCT
* * *
9619 CCCGCACAT-CCAGCACCAAGGATGCCGA-GCTCCTCGAGGCTCCCGCACATCAAG-CACTAAGG
1 CCCGCACATCCCAGCACCAAGG-TGCCGATGCTGCTCGAGGCTCCCGCACATCGAGCCACCAAGG
* *
9681 TGCCGATACTGCTCGAGGCT
65 TGCCGATGCTGGTCGAGGCT
* * * * *
9701 CTCCGCACATCCGAGCCACCAAGGT--CGATGGTGGTCGAGGCT-CCACACATCCAAG-CACCAA
1 C-CCGCACATCCCAG-CACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACAT-CGAGCCACCAA
* * *
9762 AGTGCCGATGCCGCTC--GGCT
63 GGTGCCGATGCTGGTCGAGGCT
* * * * *
9782 CCTGCCACATCCGAGCCACCAAGGTTCCGATGCGGCTCG-GGCTCCCGGCA-ATCCAG-CACCAA
1 CCCG-CACATCCCAG-CACCAAGGTGCCGATGCTGCTCGAGGCTCCC-GCACATCGAGCCACCAA
**
9844 GGTGCCGATGCTCCTCGAGGCT
63 GGTGCCGATGCTGGTCGAGGCT
* * * * * *
9866 CCCACACATCCAAGCACTAAGGTGCCGATGCTTCTCGA--CTCTCGCACATCTGAGCGACCAAGG
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATC-GAGCCACCAAGG
*
9929 TGCCGATGGT-GTCGAGGCT
65 TGCCGATGCTGGTCGAGGCT
* * * * *
9948 -CCGCACAT-CAAGCACC-AGGTGCCAAT-ATGGCTCGAGGCCCCCGCACATCTAG-CACCAA-G
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCT-GCTCGAGGCTCCCGCACATCGAGCCACCAAGG
10007 TGCCGATGCTG
65 TGCCGATGCTG
10018 CCATGTGCTC
Statistics
Matches: 744, Mismatches: 108, Indels: 99
0.78 0.11 0.10
Matches are distributed among these distances:
78 11 0.01
79 19 0.03
80 16 0.02
81 59 0.08
82 239 0.32
83 195 0.26
84 70 0.09
85 119 0.16
86 16 0.02
ACGTcount: A:0.21, C:0.36, G:0.27, T:0.16
Consensus pattern (84 bp):
CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCACATCGAGCCACCAAGGT
GCCGATGCTGGTCGAGGCT
Found at i:9230 original size:42 final size:42
Alignment explanation
Indices: 9034--10018 Score: 863
Period size: 42 Copynumber: 23.8 Consensus size: 42
9024 TTTTCTTTAG
* * *
9034 CCCGCACATCCCAGGCACCAAGGTACCGATGGTACTCGAGGCT
1 CCCGCACATCCCA-GCACCAAGGTGCCGATGCTGCTCGAGGCT
* * * *
9077 CCCGCACATTCAAGCA-CAAGGGTTGCCAATGGTG-TCTGAGGCT
1 CCCGCACATCCCAGCACCAA-GG-TGCCGATGCTGCTC-GAGGCT
* * *
9120 CCCGCACATCCCAACACCAAGGTGTCGATGCTGGTCGA-GCT
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCT
* * *
9161 CCCGCAC--CACAGCCACCAAGGAGCCGATGCTGGTCGAGGCT
1 CCCGCACATCCCAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
*
9202 CCTGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCT
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCT
* * *
9244 CCCGCACATCCGAGCCAACAAGGTGCCGATGGTGCAT-GAGGCT
1 CCCGCACATCCCAG-CACCAAGGTGCCGATGCTGC-TCGAGGCT
* * * *
9287 CCCCCACATGCAAGCACCAA-G-GCAGATGCTGCTCGAGGCT
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCT
** *
9327 CCCGCACAT-TGAGGCACCAAGGTGTCGATGCTGGCTCGAGGCT
1 CCCGCACATCCCA-GCACCAAGGTGCCGATGCT-GCTCGAGGCT
* *
9370 CCCGCATATCCCAGCACCAAGGTGCGGATGCTGCTCGAGGCT
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCT
* * * *
9412 CCCGTACATCCCAGCACCAAGGTGCTGATGGTGGTC-AGGGCT
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGA-GGCT
* * *
9454 CCCGCACATCCAAGCA-CTAGGTGCCGATG-TGCTCAAGGCT
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCT
* * * * * *
9494 CTCGCACATCCGAGCCACCAA-GTGCTGACGGTGGTCGAGGCT
1 CCCGCACATCCCAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
* *
9536 CCCGCACAT--CAGACACCAA-GTGCCGATACCGCTCGAGGCT
1 CCCGCACATCCCAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
* * * *
9576 CCCGCACATCCGAGCCACCAAGGTTCCGATGCGGCTCGGGGCT
1 CCCGCACATCCCAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
*
9619 CCCGCACAT-CCAGCACCAAGGATGCCGA-GCTCCTCGAGGCT
1 CCCGCACATCCCAGCACCAAGG-TGCCGATGCTGCTCGAGGCT
* * *
9660 CCCGCACAT-CAAGCACTAAGGTGCCGATACTGCTCGAGGCT
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCT
* * *
9701 CTCCGCACATCCGAGCCACCAAGGT--CGATGGTGGTCGAGGCT
1 C-CCGCACATCCCAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
* * * *
9743 -CCACACATCCAAGCACCAAAGTGCCGATGCCGCTC--GGCT
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCT
* * * *
9782 CCTGCCACATCCGAGCCACCAAGGTTCCGATGCGGCTCG-GGCT
1 CCCG-CACATCCCAG-CACCAAGGTGCCGATGCTGCTCGAGGCT
*
9825 CCCGGCA-AT-CCAGCACCAAGGTGCCGATGCTCCTCGAGGCT
1 CCC-GCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCT
* * * *
9866 CCCACACATCCAAGCACTAAGGTGCCGATGCTTCTCGA--CT
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCT
* ** *
9906 CTCGCACATCTGAGCGACCAAGGTGCCGATGGTG-TCGAGGCT
1 CCCGCACATCCCAGC-ACCAAGGTGCCGATGCTGCTCGAGGCT
* * * *
9948 -CCGCACAT-CAAGCACC-AGGTGCCAAT-ATGGCTCGAGGCC
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCT-GCTCGAGGCT
*
9987 CCCGCACAT-CTAGCACCAA-GTGCCGATGCTGC
1 CCCGCACATCCCAGCACCAAGGTGCCGATGCTGC
10019 CATGTGCTCC
Statistics
Matches: 772, Mismatches: 122, Indels: 99
0.78 0.12 0.10
Matches are distributed among these distances:
37 1 0.00
38 10 0.01
39 27 0.03
40 188 0.24
41 148 0.19
42 231 0.30
43 153 0.20
44 14 0.02
ACGTcount: A:0.21, C:0.36, G:0.27, T:0.16
Consensus pattern (42 bp):
CCCGCACATCCCAGCACCAAGGTGCCGATGCTGCTCGAGGCT
Found at i:9793 original size:207 final size:210
Alignment explanation
Indices: 9034--10015 Score: 928
Period size: 207 Copynumber: 4.7 Consensus size: 210
9024 TTTTCTTTAG
* * * * * * * *
9034 CCCGCACATCCCAGGCACCAAGGTACCGATGGTACTCGAGGCTCCCGCACATTCAAG-CA-CAAG
1 CCCGCACAT-CCAAGCACTAAGGTGCCGATGCTGCTCGAGGCTCTCGCACATCCGAGCCACCAA-
* * * *
9097 GGTTGCCA-ATGGT-GTCTGAGGCTCCCGCACATCCCAA-CACCAAGGTGTCGATGCTGGTC-GA
64 GG-TG-CAGATGGTGGTC-GAGGCTCCCGCACAT--CAAGCACCAAAGTGCCGATGCCGCTCAG-
* *
9158 GCTCCCGCAC--CAC-AGCCACCAAGGAGCCGATGCTGG-TCGAGGCTCCTGCACATCCCAGCAC
123 GCTCCCGCACATC-CGAGCCACCAAGGTGCCGATGC-GGCTCGAGGCTCCCGCACATCCCAGCAC
*
9219 CAAGGTGCCGATGCTGCTCGAGGCT
186 CAAGGTGCCGATGCTCCTCGAGGCT
* * * * * *
9244 CCCGCACATCCGAGCCAAC-AAGGTGCCGATGGTGCAT-GAGGCTCCCCCACATGCAAG-CACCA
1 CCCGCACATCCAAG-C-ACTAAGGTGCCGATGCTGC-TCGAGGCTCTCGCACATCCGAGCCACCA
* * * * * * *
9306 A-G-GCAGATGCTGCTCGAGGCTCCCGCACATTGAGGCACCAAGGTGTCGATGCTGGCTCGAGGC
63 AGGTGCAGATGGTGGTCGAGGCTCCCGCACA-TCAAGCACCAAAGTGCCGATGC-CGCTC-AGGC
* * * * *
9369 TCCCGCATATCCCAG-CACCAAGGTGCGGATGCTGCTCGAGGCTCCCGTACATCCCAGCACCAAG
125 TCCCGCACATCCGAGCCACCAAGGTGCCGATGCGGCTCGAGGCTCCCGCACATCCCAGCACCAAG
* * **
9433 GTGCTGATGGTGGTC-AGGGCT
190 GTGCCGATGCTCCTCGA-GGCT
*
9454 CCCGCACATCCAAGCACT-AGGTGCCGATG-TGCTCAAGGCTCTCGCACATCCGAGCCACCAA-G
1 CCCGCACATCCAAGCACTAAGGTGCCGATGCTGCTCGAGGCTCTCGCACATCCGAGCCACCAAGG
* * *
9516 TGCTGACGGTGGTCGAGGCTCCCGCACATC-AGACACC-AAGTGCCGATACCGCTCGAGGCTCCC
66 TGCAGATGGTGGTCGAGGCTCCCGCACATCAAG-CACCAAAGTGCCGATGCCGCTC-AGGCTCCC
* *
9579 GCACATCCGAGCCACCAAGGTTCCGATGCGGCTCGGGGCTCCCGCACAT-CCAGCACCAAGGATG
129 GCACATCCGAGCCACCAAGGTGCCGATGCGGCTCGAGGCTCCCGCACATCCCAGCACCAAGG-TG
9643 CCGA-GCTCCTCGAGGCT
193 CCGATGCTCCTCGAGGCT
*
9660 CCCGCACAT-CAAGCACTAAGGTGCCGATACTGCTCGAGGCTCTCCGCACATCCGAGCCACCAAG
1 CCCGCACATCCAAGCACTAAGGTGCCGATGCTGCTCGAGGCTCT-CGCACATCCGAGCCACCAAG
* *
9724 GT-C-GATGGTGGTCGAGGCT-CCACACATCCAAGCACCAAAGTGCCGATGCCGCTC-GGCTCCT
65 GTGCAGATGGTGGTCGAGGCTCCCGCACAT-CAAGCACCAAAGTGCCGATGCCGCTCAGGCTCCC
*
9785 GCCACATCCGAGCCACCAAGGTTCCGATGCGGCTCG-GGCTCCCGGCA-AT-CCAGCACCAAGGT
129 G-CACATCCGAGCCACCAAGGTGCCGATGCGGCTCGAGGCTCCC-GCACATCCCAGCACCAAGGT
9847 GCCGATGCTCCTCGAGGCT
192 GCCGATGCTCCTCGAGGCT
* * * *
9866 CCCACACATCCAAGCACTAAGGTGCCGATGCTTCTCGA--CTCTCGCACATCTGAGCGACCAAGG
1 CCCGCACATCCAAGCACTAAGGTGCCGATGCTGCTCGAGGCTCTCGCACATCCGAGCCACCAAGG
* * * *** *
9929 TGCCGATGGT-GTCGAGGCT-CCGCACATCAAGCACC-AGGTGCCAATATGGCTCGAGGCCCCCG
66 TGCAGATGGTGGTCGAGGCTCCCGCACATCAAGCACCAAAGTGCCGATGCCGCTC-AGGCTCCCG
*
9991 CACAT-CTAG-CACCAA-GTGCCGATGC
130 CACATCCGAGCCACCAAGGTGCCGATGC
10016 TGCCATGTGC
Statistics
Matches: 664, Mismatches: 69, Indels: 87
0.81 0.08 0.11
Matches are distributed among these distances:
201 9 0.01
202 6 0.01
203 15 0.02
204 33 0.05
205 41 0.06
206 127 0.19
207 197 0.30
208 69 0.10
209 41 0.06
210 117 0.18
211 9 0.01
ACGTcount: A:0.21, C:0.36, G:0.27, T:0.16
Consensus pattern (210 bp):
CCCGCACATCCAAGCACTAAGGTGCCGATGCTGCTCGAGGCTCTCGCACATCCGAGCCACCAAGG
TGCAGATGGTGGTCGAGGCTCCCGCACATCAAGCACCAAAGTGCCGATGCCGCTCAGGCTCCCGC
ACATCCGAGCCACCAAGGTGCCGATGCGGCTCGAGGCTCCCGCACATCCCAGCACCAAGGTGCCG
ATGCTCCTCGAGGCT
Found at i:10143 original size:23 final size:23
Alignment explanation
Indices: 10117--10189 Score: 101
Period size: 23 Copynumber: 3.1 Consensus size: 23
10107 CTATATACCG
*
10117 GGATGGATCGCCAGAGCACCGCC
1 GGATGGATCGCCGGAGCACCGCC
* *
10140 GGATGGATCGTCGGAGCACCGCTG
1 GGATGGATCGCCGGAGCACCGC-C
*
10164 GGATGGATCGCTGGAGCACCGCC
1 GGATGGATCGCCGGAGCACCGCC
10187 GGA
1 GGA
10190 AACCTAACTG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 23 0.53
24 20 0.47
ACGTcount: A:0.19, C:0.29, G:0.40, T:0.12
Consensus pattern (23 bp):
GGATGGATCGCCGGAGCACCGCC
Found at i:12008 original size:25 final size:25
Alignment explanation
Indices: 11980--12031 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11970 TTGTCTCAAA
11980 GATTAAGCCATGCATGTGTAAGTAT
1 GATTAAGCCATGCATGTGTAAGTAT
12005 GATTAAGCCATGCATGTGTAAGTAT
1 GATTAAGCCATGCATGTGTAAGTAT
12030 GA
1 GA
12032 ACAATTCAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (25 bp):
GATTAAGCCATGCATGTGTAAGTAT
Found at i:16151 original size:42 final size:42
Alignment explanation
Indices: 16088--16249 Score: 225
Period size: 42 Copynumber: 3.8 Consensus size: 42
16078 CCGGCACCCT
* * *
16088 GGTGGCTCGAATGTGCGGGAGCCTCAAGCACCATCCGCACCTA
1 GGTGG-TCGGATGTGCCGGAGCCTCGAGCACCATCCGCACCTA
* *
16131 GGTGGTCAGATGTGCCGGAGCCTCGAGCACCATCCACACCTA
1 GGTGGTCGGATGTGCCGGAGCCTCGAGCACCATCCGCACCTA
* *
16173 GGAGGTCGGATGTGCCGGAGCCTCGAGCACCATCCGCACCTT
1 GGTGGTCGGATGTGCCGGAGCCTCGAGCACCATCCGCACCTA
* *
16215 GGTGCCTCGGATGTGCGGGAGCCTCGAGCACCATC
1 GGTG-GTCGGATGTGCCGGAGCCTCGAGCACCATC
16250 GGCAACTTTG
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 73 0.69
43 33 0.31
ACGTcount: A:0.19, C:0.33, G:0.32, T:0.17
Consensus pattern (42 bp):
GGTGGTCGGATGTGCCGGAGCCTCGAGCACCATCCGCACCTA
Found at i:16787 original size:42 final size:42
Alignment explanation
Indices: 16723--16887 Score: 190
Period size: 42 Copynumber: 3.9 Consensus size: 42
16713 AGTCTCCGGC
* * * *
16723 ACCTTGGTGGCTCGGATATGCGGGAGACTCGAACACCATCGGT
1 ACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCACCATCGGA
16766 ACCTTGGTGCTCGGATGTGCGGGAGCCTC-AGCCACCATCGGCA
1 ACCTTGGTGCTCGGATGTGCGGGAGCCTCGAG-CACCATCGG-A
* * * *
16809 ACCTTGGTGCTCGGATGTGCGAGAGGCTTGAGCACCA-CCGA
1 ACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCACCATCGGA
* *
16850 CACCTTGGTGCTAGGATGTGCGGAAGCCTCGAGCACCA
1 -ACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCACCA
16888 AAGCTAAAGT
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.02
42 62 0.59
43 39 0.37
44 2 0.02
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.19
Consensus pattern (42 bp):
ACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCACCATCGGA
Found at i:16867 original size:85 final size:85
Alignment explanation
Indices: 16719--16887 Score: 216
Period size: 85 Copynumber: 2.0 Consensus size: 85
16709 CAAGAGTCTC
* * ** *
16719 CGGCACCTTGGTGGCTCGGATATGCGGGAGACTCGAACACCATCGGTACCTTGGTGCTCGGATGT
1 CGGCACCTTGGTGGCTCGGATATGCGAGAGACTCGAACACCACCGACACCTTGGTGCTAGGATGT
*
16784 GCGGGAGCCTC-AGCCACCAT
66 GCGGAAGCCTCGAG-CACCAT
* * * *
16804 CGGCAACCTTGGT-GCTCGGATGTGCGAGAGGCTTGAGCACCACCGACACCTTGGTGCTAGGATG
1 CGGC-ACCTTGGTGGCTCGGATATGCGAGAGACTCGAACACCACCGACACCTTGGTGCTAGGATG
16868 TGCGGAAGCCTCGAGCACCA
65 TGCGGAAGCCTCGAGCACCA
16888 AAGCTAAAGT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
85 62 0.86
86 10 0.14
ACGTcount: A:0.19, C:0.29, G:0.33, T:0.19
Consensus pattern (85 bp):
CGGCACCTTGGTGGCTCGGATATGCGAGAGACTCGAACACCACCGACACCTTGGTGCTAGGATGT
GCGGAAGCCTCGAGCACCAT
Found at i:22333 original size:24 final size:24
Alignment explanation
Indices: 22301--22378 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
22291 CCGGTTAAGT
*
22301 TCCCGGCGGTGCTCC-GACGATCCA
1 TCCCGGCGGTACTCCAG-CGATCCA
22325 TCCCGGCGGTACTCCAGCGATCCA
1 TCCCGGCGGTACTCCAGCGATCCA
* * * *
22349 T-CCGGCGGCACTCCGGTGATCTA
1 TCCCGGCGGTACTCCAGCGATCCA
22372 TCCCGGC
1 TCCCGGC
22379 ATATAGAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 19 0.40
24 27 0.57
25 1 0.02
ACGTcount: A:0.13, C:0.41, G:0.28, T:0.18
Consensus pattern (24 bp):
TCCCGGCGGTACTCCAGCGATCCA
Found at i:22556 original size:42 final size:42
Alignment explanation
Indices: 22477--23272 Score: 853
Period size: 42 Copynumber: 18.7 Consensus size: 42
22467 CATATGGCAG
*
22477 CATCGGCACCTTGGTGGCTCGGATGTGCGGGGGCCTCGAGCAC
1 CATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCAC
** *
22520 CATCGGCACCTTGGTGCTTAGATGTGCGGGAGCCTCGACCAC
1 CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCAC
* * **
22562 CATCAGCACCTTGGTGGCTCGGATGTGTGGGAGCCTCGAGCTG
1 CATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCAC
* * * *
22605 CATCGGCACCTTGGTGCTTGGATGTGTGGGAGCCTCGAGGAG
1 CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCAC
* * * *
22647 CATCCGTACCTTGGTGCTGGGATGTGCGGGAGCCCCGAGC-C
1 CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCAC
* **
22688 GCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCGCGAGCGG
1 -CATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCAC
* * * *
22732 TATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCAACCAC
1 CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCAC
** *
22774 TGTCGGCACCTTGGTGGCTCGGATGTACGGGAGCCTCGAGCAC
1 CATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCAC
* *
22817 CATCGGCACCTTGGTGCTTGGATGTGCGGGAGCC-CTGACCAC
1 CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTC-GAGCAC
* * * *
22859 CATTGGCACCTTGGTGCTGGGATGTGCAGGAGCCTCGAGCAG
1 CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCAC
* * * *
22901 CATCGGCACCTTGGTGCTGGGATGTGCGGGAGACTCGAGTAG
1 CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCAC
* * *
22943 CATCGACACCTTGGTGCCTCGGATGTGCGGGAGCCTCGAGTAG
1 CATCGGCACCTTGGTG-CTCGGATGTGCGGGAGCCTCGAGCAC
* * * * * *
22986 CATCTGCAACTTGGTGCTTGCATGTGAGGGAGCCTCGTGCAC
1 CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCAC
* * * * * *
23028 CATCGGTACCTTGTTGCCTCAGATATGCAGGAGCCTCGAGCAG
1 CATCGGCACCTTGGTG-CTCGGATGTGCGGGAGCCTCGAGCAC
* * * *
23071 CATCGGCACCTTGGTGCTAGGATGTGCGGGAGCCTTGACCAG
1 CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCAC
* * *
23113 CTTCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGACCAG
1 CATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCAC
* * * *
23156 CATCGGCATCTTGGGGGCTCGGATATGCGAGAGCCTCG-GACAC
1 CATCGGCACCTT-GGTGCTCGGATGTGCGGGAGCCTCGAG-CAC
* *
23199 CATCGGCAACCTTGGTGCGT-AGATGTGCGGGAGCCTCGAACAC
1 CATCGGC-ACCTTGGTGC-TCGGATGTGCGGGAGCCTCGAGCAC
*
23242 CATCGGCACCTTGGTGCGTGGGATGTGCGGG
1 CATCGGCACCTTGGTGC-TCGGATGTGCGGG
23273 CTAAAGAAAA
Statistics
Matches: 635, Mismatches: 102, Indels: 32
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.00
42 331 0.52
43 296 0.47
44 7 0.01
ACGTcount: A:0.15, C:0.27, G:0.36, T:0.21
Consensus pattern (42 bp):
CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCAC
Found at i:22583 original size:85 final size:84
Alignment explanation
Indices: 22473--23272 Score: 888
Period size: 85 Copynumber: 9.4 Consensus size: 84
22463 GGAGCATATG
*
22473 GCAGCATCGGCACCTTGGTGGCTCGGATGTGCGGGGGCCTCGAGCACCATCGGCACCTTGGTGCT
1 GCAGCATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCT
**
22538 TAGATGTGCGGGAGCCTCGA
65 CGGATGTGCGGGAGCCTCGA
* * * * **
22558 CCACCATCAGCACCTTGGTGGCTCGGATGTGTGGGAGCCTCGAGCTGCATCGGCACCTTGGTGCT
1 GCAGCATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCT
* *
22623 TGGATGTGTGGGAGCCTCGA
65 CGGATGTGCGGGAGCCTCGA
* * * * *
22643 GGAGCATCCGTACCTTGGTGCTGGGATGTGCGGGAGCCCCGAGC-CGCATCGGCACCTTGGTGGC
1 GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCAC-CATCGGCACCTTGGT-GC
*
22707 TCGGATGTGCGGGAGCCGCGA
64 TCGGATGTGCGGGAGCCTCGA
* * * * * **
22728 GCGGTATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCAACCACTGTCGGCACCTTGGTGGCT
1 GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGT-GCT
*
22793 CGGATGTACGGGAGCCTCGA
65 CGGATGTGCGGGAGCCTCGA
* * * *
22813 GCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCC-CTGACCACCATTGGCACCTTGGTGCT
1 GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTC-GAGCACCATCGGCACCTTGGTGCT
* *
22877 GGGATGTGCAGGAGCCTCGA
65 CGGATGTGCGGGAGCCTCGA
* * * * *
22897 GCAGCATCGGCACCTTGGTGCTGGGATGTGCGGGAGACTCGAGTAGCATCGACACCTTGGTGCCT
1 GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTG-CT
22962 CGGATGTGCGGGAGCCTCGA
65 CGGATGTGCGGGAGCCTCGA
* * * * * * * * *
22982 GTAGCATCTGCAACTTGGTGCTTGCATGTGAGGGAGCCTCGTGCACCATCGGTACCTTGTTGCCT
1 GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTG-CT
* * *
23047 CAGATATGCAGGAGCCTCGA
65 CGGATGTGCGGGAGCCTCGA
* * * * *
23067 GCAGCATCGGCACCTTGGTGCTAGGATGTGCGGGAGCCTTGACCAGCTTCGGCACCTTGGTGGCT
1 GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGT-GCT
23132 CGGATGTGCGGGAGCCTCGA
65 CGGATGTGCGGGAGCCTCGA
* * * * *
23152 CCAGCATCGGCATCTTGGGGGCTCGGATATGCGAGAGCCTCG-GACACCATCGGCAACCTTGGTG
1 GCAGCATCGGCACCTT-GGTGCTCGGATGTGCGGGAGCCTCGAG-CACCATCGGC-ACCTTGGTG
*
23216 CGT-AGATGTGCGGGAGCCTCGA
63 C-TCGGATGTGCGGGAGCCTCGA
* * *
23238 ACACCATCGGCACCTTGGTGCGTGGGATGTGCGGG
1 GCAGCATCGGCACCTTGGTGC-TCGGATGTGCGGG
23273 CTAAAGAAAA
Statistics
Matches: 599, Mismatches: 104, Indels: 23
0.83 0.14 0.03
Matches are distributed among these distances:
84 110 0.18
85 407 0.68
86 73 0.12
87 9 0.02
ACGTcount: A:0.15, C:0.27, G:0.36, T:0.21
Consensus pattern (84 bp):
GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTC
GGATGTGCGGGAGCCTCGA
Found at i:22850 original size:212 final size:211
Alignment explanation
Indices: 22476--23272 Score: 940
Period size: 212 Copynumber: 3.7 Consensus size: 211
22466 GCATATGGCA
* * **
22476 GCATCGGCACCTTGGTGGCTCGGATGTGCGGGGGCCTCGAGCACCATCGGCACCTTGGTGCTTAG
1 GCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTCGG
* ** **
22541 ATGTGCGGGAGCCTCGACCACCATCAGCACCTTGGTGGCTCGGATGTGTGGGAGCCTCGAGCTGC
66 ATGTGCGGGAGCCTCGACCACCATCGGCACCTTGGT-GCTCGGATGTACGGGAGCCTCGAGCACC
* * * *
22606 ATCGGCACCTTGGTGCTTGGATGTGTGGGAGCCTCGAGGAGCATCCGTACCTTGGTGCTGGGATG
130 ATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTGGGATG
*
22671 TGCGGGAGCCCCGAGCC
195 TGCGGGAGCCTCGAGCC
* * * *
22688 GCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCGCGAGCGGTATCGGCACCTTGGTGCTTGG
1 GCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTCGG
* **
22753 ATGTGCGGGAGCCTCAACCACTGTCGGCACCTTGGTGGCTCGGATGTACGGGAGCCTCGAGCACC
66 ATGTGCGGGAGCCTCGACCACCATCGGCACCTTGGT-GCTCGGATGTACGGGAGCCTCGAGCACC
* * *
22818 ATCGGCACCTTGGTGCTTGGATGTGCGGGAGCC-CTGACCACCATTGGCACCTTGGTGCTGGGAT
130 ATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTC-GAGCAGCATCGGCACCTTGGTGCTGGGAT
* *
22882 GTGCAGGAGCCTCGAGCA
194 GTGCGGGAGCCTCGAGCC
* * * *
22900 GCATCGGCACCTTGGT-GCTGGGATGTGCGGGAGACTCGAGTAGCATCGACACCTTGGTGCCTCG
1 GCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTG-CTCG
** * * * * * *
22964 GATGTGCGGGAGCCTCGAGTAGCATCTGCAACTTGGTGCTTGCATGTGA-GGGAGCCTCGTGCAC
65 GATGTGCGGGAGCCTCGACCACCATCGGCACCTTGGTGCTCGGATGT-ACGGGAGCCTCGAGCAC
* * ** * * *
23028 CATCGGTACCTTGTTGCCTCAGATATGCAGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTAGGA
129 CATCGGCACCTTGGTG-CTTGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTGGGA
*
23093 TGTGCGGGAGCCTTGA-CC
193 TGTGCGGGAGCCTCGAGCC
* * * *
23111 AGCTTCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGACCAGCATCGGCATCTTGGGGGCTC
1 -GCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCTT-GGTGCTC
* * * * *
23176 GGATATGCGAGAGCCTCGGA-CACCATCGGCAACCTTGGTGCGT-AGATGTGCGGGAGCCTCGAA
64 GGATGTGCGGGAGCCTC-GACCACCATCGGC-ACCTTGGTGC-TCGGATGTACGGGAGCCTCGAG
*
23239 CACCATCGGCACCTTGGTGCGTGGGATGTGCGGG
126 CACCATCGGCACCTTGGTGC-TTGGATGTGCGGG
23273 CTAAAGAAAA
Statistics
Matches: 491, Mismatches: 81, Indels: 24
0.82 0.14 0.04
Matches are distributed among these distances:
211 74 0.15
212 302 0.62
213 60 0.12
214 54 0.11
215 1 0.00
ACGTcount: A:0.15, C:0.27, G:0.36, T:0.21
Consensus pattern (211 bp):
GCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTCGG
ATGTGCGGGAGCCTCGACCACCATCGGCACCTTGGTGCTCGGATGTACGGGAGCCTCGAGCACCA
TCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTGGGATGT
GCGGGAGCCTCGAGCC
Found at i:28456 original size:27 final size:27
Alignment explanation
Indices: 28426--28603 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
28416 ATATTGAGCC
* *
28426 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
28453 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
28480 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** *
28508 CGCACACTTAGTG-TCGCATGGTCAATT
1 CGCACACTTAGTGCT-ACATAATCAACT
* **
28535 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
28562 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
28589 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
28604 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
27 104 0.83
28 22 0.17
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:28567 original size:82 final size:81
Alignment explanation
Indices: 28447--28601 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 81
28437 TGCTATATAA
* * * *
28447 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
28512 CACTTAGTGTCGCATGG
65 CACTTAGTGTCGCATGG
* * **
28529 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
28593 CACTTAGTG
65 CACTTAGTG
28602 CTGTACAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 48 0.75
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGTCGCATGG
Found at i:36150 original size:27 final size:27
Alignment explanation
Indices: 36120--36297 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
36110 ATATTGAGCC
* *
36120 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36147 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36174 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** *
36202 CGCACACTTAGTG-TCGCATGGTCAATT
1 CGCACACTTAGTGCT-ACATAATCAACT
* **
36229 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
36256 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
36283 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36298 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
27 104 0.83
28 22 0.17
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36261 original size:82 final size:81
Alignment explanation
Indices: 36141--36295 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 81
36131 TGCTATATAA
* * * *
36141 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
36206 CACTTAGTGTCGCATGG
65 CACTTAGTGTCGCATGG
* * **
36223 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36287 CACTTAGTG
65 CACTTAGTG
36296 CTGTACAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 48 0.75
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGTCGCATGG
Found at i:41141 original size:42 final size:42
Alignment explanation
Indices: 41049--41150 Score: 143
Period size: 42 Copynumber: 2.4 Consensus size: 42
41039 TGAATGTTCG
* * *
41049 GGAGCCTCAAGCACCATCCGCACCTAGGCGGTCGGATGTACC
1 GGAGCCTCGAGCACCATCCGCACCTAGGAGGTCAGATGTACC
* *
41091 GGAGCCTCGAGCACCATCTGCACCTAGGAGGTCAGATGTGCC
1 GGAGCCTCGAGCACCATCCGCACCTAGGAGGTCAGATGTACC
41133 GGAGCCTCG-GCCACCATC
1 GGAGCCTCGAG-CACCATC
41151 GGTAACCTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.02
42 53 0.98
ACGTcount: A:0.21, C:0.35, G:0.29, T:0.15
Consensus pattern (42 bp):
GGAGCCTCGAGCACCATCCGCACCTAGGAGGTCAGATGTACC
Found at i:41480 original size:23 final size:23
Alignment explanation
Indices: 41454--41513 Score: 120
Period size: 23 Copynumber: 2.6 Consensus size: 23
41444 CCTGGCGGTT
41454 CTCCGGTGATCCATTCGGTGGTG
1 CTCCGGTGATCCATTCGGTGGTG
41477 CTCCGGTGATCCATTCGGTGGTG
1 CTCCGGTGATCCATTCGGTGGTG
41500 CTCCGGTGATCCAT
1 CTCCGGTGATCCAT
41514 CCCGGTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.10, C:0.28, G:0.32, T:0.30
Consensus pattern (23 bp):
CTCCGGTGATCCATTCGGTGGTG
Found at i:41695 original size:42 final size:41
Alignment explanation
Indices: 41618--42368 Score: 828
Period size: 42 Copynumber: 17.7 Consensus size: 41
41608 CACATGGCAG
*
41618 CATCGGCACCTTGGTGGCTCGGATGTCCGGGAGCCTCGAGCA
1 CATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCA
* *
41660 CTATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGACCA
1 C-ATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCA
*
41702 CCATCGGCAGCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCA
1 -CATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCA
*
41745 GCATCGGCACCTTGGTGCTTGGATGTGC-GGAGCCTCGAGCA
1 -CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCA
* * *
41786 GCATCGGCACCTTGGTGCTAGGATGTGCGGGAGCCCCGAGCCG
1 -CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAG-CA
* ** *
41829 CATCGGCACCTTGGTGGCTCAGATGTGCAAGAGCCTCGAGCGG
1 CATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGC-A
* * *
41872 CATTGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGACCA
1 CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCA
*
41913 CCGTCGGC-CCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCA
1 -CATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCA
* * *
41955 CCATCGGTACCTTGGTGCTTGGATGTGCGGGAGCC-CTGACCA
1 -CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTC-GAGCA
*
41997 CCATCGGCACCTTGGTGCTGGGATGTGCGGGAGCCTCGAGCA
1 -CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCA
* **
42039 GCATCGACACCTTGGTGCCTCGGATGTATGGGAGCCTCGAGCA
1 -CATCGGCACCTTGGTG-CTCGGATGTGCGGGAGCCTCGAGCA
* * * ** * *
42082 GCATCTGCACCTTGCTGCTTGCCTGTGGGGGAGCCTCGTGCA
1 -CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCA
* **
42124 CCATCAGCACCTTATTCGCTCGGATG-GCGGGAGCCTCGAGCA
1 -CATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCA
* *
42166 GCATCGGCACCTTGGTGCTGGGATGTGCGGGAGCCTCGATCA
1 -CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCA
* * *
42208 GCATCGGCACCTTAGTGGCTCGGATGCGCGGGAGCCTCGACCA
1 -CATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCA
*
42251 GCATCGGCACCTTGAGGGCTCGGATGTGCGGGAGCCTCG-GACA
1 -CATCGGCACCTTG-GTGCTCGGATGTGCGGGAGCCTCGAG-CA
* *
42294 CCATCGGCAAACTTGGTGCTTGGATGTGCGGGAGCCTCGAGCA
1 -CATCGGC-ACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCA
*
42337 CCATCGGCACCTTGGTGCTTGGGATGTGCGGG
1 -CATCGGCACCTTGGTGC-TCGGATGTGCGGG
42369 CTAAAGAAAA
Statistics
Matches: 610, Mismatches: 78, Indels: 41
0.84 0.11 0.06
Matches are distributed among these distances:
41 56 0.09
42 299 0.49
43 248 0.41
44 7 0.01
ACGTcount: A:0.15, C:0.29, G:0.36, T:0.21
Consensus pattern (41 bp):
CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCA
Found at i:41948 original size:169 final size:168
Alignment explanation
Indices: 41618--42368 Score: 929
Period size: 169 Copynumber: 4.4 Consensus size: 168
41608 CACATGGCAG
* * *
41618 CATCGGCACCTTGGTGGCTCGGATGTCCGGGAGCCTCGAGCACTATCGGCACCTTGGTGCTTGGA
1 CATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGC-CCATCGGCACCTTGGTGCTGGGA
* * * *
41683 TGTGCGGGAGCCTCGACCACCATCGGCAGCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAGCA
64 TGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGACCAGCA
* *
41748 TCGGCACCTTGGTGCTTGGATGTGC-GGAGCCTCGAGCAG
129 TCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCAC
* * **
41787 CATCGGCACCTTGGTGCTAGGATGTGCGGGAGCCCCGAGCCGCATCGGCACCTTGGTGGCTCAGA
1 CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCC-CATCGGCACCTTGGT-GCTGGGA
** * * * * *
41852 TGTGCAAGAGCCTCGAGCGGCATTGGCACCTTGGT-GCTTGGATGTGCGGGAGCCTCGACCACCG
64 TGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGACCAGCA
41916 TCGGC-CCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAC
129 TCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCAC
* * *
41956 CATCGGTACCTTGGTGCTTGGATGTGCGGGAGCC-CTGACCACCATCGGCACCTTGGTGCTGGGA
1 CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTC-GAGC-CCATCGGCACCTTGGTGCTGGGA
* * ** *
42020 TGTGCGGGAGCCTCGAGCAGCATCGACACCTTGGTGCCTCGGATGTATGGGAGCCTCGAGCAGCA
64 TGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGACCAGCA
* * * ** * *
42085 TCTGCACCTTGCTGCTTGCCTGTGGGGGAGCCTCGTGCAC
129 TCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCAC
* ** *
42125 CATCAGCACCTTATTCGCTCGGATG-GCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTGGGA
1 CATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGC-CCATCGGCACCTTGGTGCTGGGA
* * *
42189 TGTGCGGGAGCCTCGATCAGCATCGGCACCTTAGTGGCTCGGATGCGCGGGAGCCTCGACCAGCA
64 TGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGACCAGCA
*
42254 TCGGCACCTTGAGGGCTCGGATGTGCGGGAGCCTCG-GACAC
129 TCGGCACCTTG-GTGCTCGGATGTGCGGGAGCCTCGAG-CAC
* *
42295 CATCGGCAAACTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGG
1 CATCGGC-ACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGC-CCATCGGCACCTTGGTGC-TGGG
42360 ATGTGCGGG
63 ATGTGCGGG
42369 CTAAAGAAAA
Statistics
Matches: 496, Mismatches: 71, Indels: 27
0.84 0.12 0.05
Matches are distributed among these distances:
167 8 0.02
168 113 0.23
169 273 0.55
170 51 0.10
171 38 0.08
172 13 0.03
ACGTcount: A:0.15, C:0.29, G:0.36, T:0.21
Consensus pattern (168 bp):
CATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCCCATCGGCACCTTGGTGCTGGGATG
TGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGACCAGCATC
GGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCAC
Found at i:42004 original size:211 final size:212
Alignment explanation
Indices: 41617--42368 Score: 1018
Period size: 211 Copynumber: 3.6 Consensus size: 212
41607 GCACATGGCA
*
41617 GCATCGGCACCTTGGTGGCTCGGATGTCCGGGAGCCTCGAGCA-CTATCGGCACCTTGGTGCTTG
1 GCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAGC-ATCGGCACCTTGGTGCTTG
*
41681 GATGTGCGGGAGCCTCGACCACCATCGGCAGCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAG
65 GATGTGCGGGAGCCTCGACCACCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAG
*
41746 CATCGGCACCTTGGTGCTTGGATGTGC-GGAGCCTCGAGCAGCATCGGCACCTTGGTGCTAGGAT
130 CATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGACCAGCATCGGCACCTTGGTGCTAGGAT
*
41810 GTGCGGGAGCCCCGAGCC
195 GTGCGGGAGCCTCGAGCC
* ** * *
41828 GCATCGGCACCTTGGTGGCTCAGATGTGCAAGAGCCTCGAGCGGCATTGGCACCTTGGTGCTTGG
1 GCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGG
* *
41893 ATGTGCGGGAGCCTCGACCACCGTCGGC-CCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCACC
66 ATGTGCGGGAGCCTCGACCACCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAGC
* * *
41957 ATCGGTACCTTGGTGCTTGGATGTGCGGGAGCC-CTGACCACCATCGGCACCTTGGTGCTGGGAT
131 ATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTC-GACCAGCATCGGCACCTTGGTGCTAGGAT
*
42021 GTGCGGGAGCCTCGAGCA
195 GTGCGGGAGCCTCGAGCC
* * ** * * *
42039 GCATCGACACCTTGGTGCCTCGGATGTATGGGAGCCTCGAGCAGCATCTGCACCTTGCTGCTTGC
1 GCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGG
* * ** * ** *
42104 CTGTGGGGGAGCCTCGTGCACCATCAGCACCTTATTCGCTCGGATG-GCGGGAGCCTCGAGCAGC
66 ATGTGCGGGAGCCTCGACCACCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAGC
* * * *
42168 ATCGGCACCTTGGTGCTGGGATGTGCGGGAGCCTCGATCAGCATCGGCACCTTAGTGGCTCGGAT
131 ATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGACCAGCATCGGCACCTTGGT-GCTAGGAT
*
42233 GCGCGGGAGCCTCGA-CC
195 GTGCGGGAGCCTCGAGCC
* *
42250 AGCATCGGCACCTTGAG-GGCTCGGATGTGCGGGAGCCTCG-GACACCATCGGCAAACTTGGTGC
1 -GCATCGGCACCTTG-GTGGCTCGGATGTGCGGGAGCCTCGAG-CAGCATCGGC-ACCTTGGTGC
* *
42313 TTGGATGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGT-GCTTGGGATGTGCGGG
62 TTGGATGTGCGGGAGCCTCGACCACCATCGGCACCTTGGTGGC-TCGGATGTGCGGG
42369 CTAAAGAAAA
Statistics
Matches: 468, Mismatches: 61, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
210 60 0.13
211 275 0.59
212 80 0.17
213 48 0.10
214 5 0.01
ACGTcount: A:0.15, C:0.29, G:0.36, T:0.20
Consensus pattern (212 bp):
GCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGG
ATGTGCGGGAGCCTCGACCACCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCAGC
ATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGACCAGCATCGGCACCTTGGTGCTAGGATG
TGCGGGAGCCTCGAGCC
Found at i:48363 original size:42 final size:43
Alignment explanation
Indices: 48316--48418 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 43
48306 CGAATGTGCG
*
48316 GGAGCCTCGAGCACCATCCGCACCTAGGAG-GTCGGATATGCC
1 GGAGCCTCGAGCACCATCCGCACCTAGGAGCCTCGGATATGCC
* * * * *
48358 GGAGCCTCGAGCACCATCCGCACCTTGGTGCCTCTGATGTGCG
1 GGAGCCTCGAGCACCATCCGCACCTAGGAGCCTCGGATATGCC
*
48401 GGAGCCTCGAGTACCATC
1 GGAGCCTCGAGCACCATC
48419 GGCAACTTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 28 0.53
43 25 0.47
ACGTcount: A:0.18, C:0.34, G:0.30, T:0.17
Consensus pattern (43 bp):
GGAGCCTCGAGCACCATCCGCACCTAGGAGCCTCGGATATGCC
Found at i:48443 original size:43 final size:43
Alignment explanation
Indices: 48309--48444 Score: 123
Period size: 42 Copynumber: 3.2 Consensus size: 43
48299 CGGGGCTCGA
* * * ** *
48309 ATGTGCGGGAGCCTCGAGCACCATCCGCACCTAGGAG-GTCGG
1 ATGTGCGGGAGCCTCGAGCACCATCCGCAACTTGGTGCCCCTG
* * * *
48351 ATATGCCGGAGCCTCGAGCACCATCCGCACCTTGGTGCCTCTG
1 ATGTGCGGGAGCCTCGAGCACCATCCGCAACTTGGTGCCCCTG
* * *
48394 ATGTGCGGGAGCCTCGAGTACCATCGGCAACTTTG-GCCCCTG
1 ATGTGCGGGAGCCTCGAGCACCATCCGCAACTTGGTGCCCCTG
*
48436 TTGGTGCGG
1 AT-GTGCGG
48445 AAGCGTTGGG
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 40 0.51
43 38 0.49
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (43 bp):
ATGTGCGGGAGCCTCGAGCACCATCCGCAACTTGGTGCCCCTG
Found at i:48954 original size:42 final size:42
Alignment explanation
Indices: 48890--49054 Score: 208
Period size: 42 Copynumber: 3.9 Consensus size: 42
48880 AGTCTCCGGT
*
48890 ACCTTGGTGGCTCGGATATGCGGGAGCCTCGAGCACCATCGGC
1 ACCTTGGT-GCTCGGATGTGCGGGAGCCTCGAGCACCATCGGC
48933 ACCTTGGTGCTCGGATGTGCGGGAGCCTCG-GCCACCATCGGC
1 ACCTTGGTGCTCGGATGTGCGGGAGCCTCGAG-CACCATCGGC
* * * **
48975 AACCTTGGTGCTCGGATGTGCGAGAGGCTCGGAGCACCACCGAT
1 -ACCTTGGTGCTCGGATGTGCGGGAGCCTC-GAGCACCATCGGC
* *
49019 A-CTTGGTGCTAGGATGTGCGGAAGCCTCGAGCACCA
1 ACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCACCA
49055 AAGCTAAAGT
Statistics
Matches: 108, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
41 9 0.08
42 54 0.50
43 36 0.33
44 8 0.07
45 1 0.01
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.19
Consensus pattern (42 bp):
ACCTTGGTGCTCGGATGTGCGGGAGCCTCGAGCACCATCGGC
Found at i:49054 original size:85 final size:86
Alignment explanation
Indices: 48890--49047 Score: 221
Period size: 85 Copynumber: 1.8 Consensus size: 86
48880 AGTCTCCGGT
* * * *
48890 ACCTTGGTGGCTCGGATATGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTCGGATGTGCGG
1 ACCTTGGTGGCTCGGATATGCGAGAGCCTCGAGCACCACCGACACCTTGGTGCTAGGATGTGCGG
*
48955 GAGCCTCGGCCACCATCGGCA
66 AAGCCTCGGCCACCATCGGCA
* * *
48976 ACCTTGGT-GCTCGGATGTGCGAGAGGCTCGGAGCACCACCGATA-CTTGGTGCTAGGATGTGCG
1 ACCTTGGTGGCTCGGATATGCGAGAGCCTC-GAGCACCACCGACACCTTGGTGCTAGGATGTGCG
49039 GAAGCCTCG
65 GAAGCCTCG
49048 AGCACCAAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 44 0.70
86 19 0.30
ACGTcount: A:0.16, C:0.28, G:0.35, T:0.20
Consensus pattern (86 bp):
ACCTTGGTGGCTCGGATATGCGAGAGCCTCGAGCACCACCGACACCTTGGTGCTAGGATGTGCGG
AAGCCTCGGCCACCATCGGCA
Found at i:49291 original size:24 final size:24
Alignment explanation
Indices: 49264--49337 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
49254 CCGGTTAGGT
* *
49264 TCCCGGCGATGCTCCGGCGATCCA
1 TCCCGGCGGTGCTCCGGTGATCCA
* *
49288 TCCCGGTGGTGCTCCGGTGACCCA
1 TCCCGGCGGTGCTCCGGTGATCCA
*
49312 T-CCGGCGGCGCTCCGGTGATCCA
1 TCCCGGCGGTGCTCCGGTGATCCA
49335 TCC
1 TCC
49338 TGGCATATAG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 20 0.48
24 22 0.52
ACGTcount: A:0.09, C:0.41, G:0.31, T:0.19
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCGGTGATCCA
Found at i:49324 original size:23 final size:23
Alignment explanation
Indices: 49274--49337 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
49264 TCCCGGCGAT
* * *
49274 GCTCCGGCGATCCATCCCGGTGGT
1 GCTCCGGTGATCCAT-CCGGCGGC
*
49298 GCTCCGGTGACCCATCCGGCGGC
1 GCTCCGGTGATCCATCCGGCGGC
49321 GCTCCGGTGATCCATCC
1 GCTCCGGTGATCCATCC
49338 TGGCATATAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
23 22 0.63
24 13 0.37
ACGTcount: A:0.09, C:0.41, G:0.31, T:0.19
Consensus pattern (23 bp):
GCTCCGGTGATCCATCCGGCGGC
Found at i:49518 original size:42 final size:42
Alignment explanation
Indices: 49436--49946 Score: 522
Period size: 42 Copynumber: 12.2 Consensus size: 42
49426 GGAGCACATG
49436 GCAGCATCGGCACCTTGGTGGCTCGGATGTGCGAGG-GCCTCGA
1 GCAGCATCGGCACCTTGGT-GCTCGGATGTGCG-GGAGCCTCGA
* * *
49479 GCACCATCGACACCTTGTGTGCT-TGATGTGCGGGAGCCTCGA
1 GCAGCATCGGCACCTTG-GTGCTCGGATGTGCGGGAGCCTCGA
* * *
49521 CCACCATCGGCA-CTTGG-GATCGGATGTGCGGGAGCCTCGA
1 GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGA
* * *
49561 GCAGCATCGGCACCTTAGTGCTTGGATGTACGGGAGCCTCGA
1 GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGA
* * *
49603 GGAGCATCGGCACCTTGGTGCTGGGATGTGCGGGAGCCCCGA
1 GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGA
* *
49645 GCCGCATCGGCACCTTGGTGGCTCGGATGTACGGGAGCCTCGA
1 GCAGCATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGA
* * * *
49688 GCGGCATCGGCACATTGGTGCTTGGATGTGCGGGAGCCTCCA
1 GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGA
* *** *
49730 CCATTGTCGGCACCTTGGTGCTCGGATGTGCGGG-GGCTCGA
1 GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGA
** * *
49771 GGTGTAT-TGCACCTTGGTGCT-GGATGTGCGGGAGCC-CGA
1 GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGA
*
49810 GCCA-CATCGGCACCTTGGTGCTCGGATGTACGGGAGCC-CGA
1 G-CAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGA
* * *
49851 GCGGCATCGGCACCTTGGTGCCTTGGATGTGCTGGGAAGCCTCCAA
1 GCAGCATCGGCACCTTGGTG-CTCGGATGTGC-GGG-AGCCT-CGA
* * * * *
49897 CCACCGTCGGCACCTTGGTGGCTCGGGTAT-CGGGAGCCTCGA
1 GCAGCATCGGCACCTTGGT-GCTCGGATGTGCGGGAGCCTCGA
49939 GCACGCAT
1 GCA-GCAT
49947 GCAAGGGCCG
Statistics
Matches: 386, Mismatches: 64, Indels: 36
0.79 0.13 0.07
Matches are distributed among these distances:
39 19 0.05
40 58 0.15
41 51 0.13
42 159 0.41
43 65 0.17
44 9 0.02
45 1 0.00
46 23 0.06
47 1 0.00
ACGTcount: A:0.15, C:0.28, G:0.37, T:0.20
Consensus pattern (42 bp):
GCAGCATCGGCACCTTGGTGCTCGGATGTGCGGGAGCCTCGA
Found at i:49713 original size:127 final size:127
Alignment explanation
Indices: 49436--49946 Score: 507
Period size: 127 Copynumber: 4.1 Consensus size: 127
49426 GGAGCACATG
* * *
49436 GCAGCATCGGCACCTTGGTGGCTCGGATGTGCGAGG-GCCTCGAGCACCATCGACACCTTGTGTG
1 GCAGCATCGGCACCTTGGT-GCTCGGATGTACG-GGAGCCTCGAGCAGCATCGGCACCTTG-GTG
* * * *
49500 CTTGATGTGCGGGAGCCTCGA-CCACCATCGGCA-CTT-G-GGATCGGATGTGCGGGAGCCTCGA
63 CTGGATGTGCGGGAGCCCCGAGCCACCATCGGCACCTTGGTGGCTCGGATGTACGGGAGCCTCGA
* * *
49561 GCAGCATCGGCACCTTAGTGCTTGGATGTACGGGAGCCTCGAGGAGCATCGGCACCTTGGTGCTG
1 GCAGCATCGGCACCTTGGTGCTCGGATGTACGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCT-
*
49626 GGATGTGCGGGAGCCCCGAGCC-GCATCGGCACCTTGGTGGCTCGGATGTACGGGAGCCTCGA
65 GGATGTGCGGGAGCCCCGAGCCACCATCGGCACCTTGGTGGCTCGGATGTACGGGAGCCTCGA
* * * * * * ***
49688 GCGGCATCGGCACATTGGTGCTTGGATGTGCGGGAGCCTCCACCATTGTCGGCACCTTGGTGCTC
1 GCAGCATCGGCACCTTGGTGCTCGGATGTACGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCT-
* * **** * *
49753 GGATGTGCGGG-GGCTCGAG-GTGTAT-TGCACCTTGGT-GCT-GGATGTGCGGGAGCC-CGA
65 GGATGTGCGGGAGCCCCGAGCCACCATCGGCACCTTGGTGGCTCGGATGTACGGGAGCCTCGA
*
49810 GCCA-CATCGGCACCTTGGTGCTCGGATGTACGGGAGCC-CGAGCGGCATCGGCACCTTGGTGCC
1 G-CAGCATCGGCACCTTGGTGCTCGGATGTACGGGAGCCTCGAGCAGCATCGGCACCTTGGTG-C
* *
49873 TTGGATGTGCTGGGAAGCCTCC-AACCACCGTCGGCACCTTGGTGGCTCGG--GTATCGGGAGCC
64 -TGGATGTGC-GGG-AGCC-CCGAGCCACCATCGGCACCTTGGTGGCTCGGATGTA-CGGGAGCC
49935 TCGA
124 TCGA
49939 GCACGCAT
1 GCA-GCAT
49947 GCAAGGGCCG
Statistics
Matches: 316, Mismatches: 48, Indels: 39
0.78 0.12 0.10
Matches are distributed among these distances:
121 17 0.05
122 44 0.14
123 26 0.08
124 60 0.19
125 36 0.11
126 12 0.04
127 99 0.31
128 13 0.04
129 6 0.02
130 3 0.01
ACGTcount: A:0.15, C:0.28, G:0.37, T:0.20
Consensus pattern (127 bp):
GCAGCATCGGCACCTTGGTGCTCGGATGTACGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTG
GATGTGCGGGAGCCCCGAGCCACCATCGGCACCTTGGTGGCTCGGATGTACGGGAGCCTCGA
Found at i:49909 original size:209 final size:208
Alignment explanation
Indices: 49439--49916 Score: 592
Period size: 209 Copynumber: 2.3 Consensus size: 208
49429 GCACATGGCA
*
49439 GCATCGGCACCTTGGTGGCTCGGATGTGCGAGG-GCCTCGAGCACCATCGACACCTTGTGTGCTT
1 GCATCGGCACCTTGGTGGCTCGGATGTGCG-GGAGCCTCGAGCACCATCGGCACCTTG-GTGCTT
*
49503 GATGTGCGGGAGCCTCGACCACCATCGGCACTTGGGATCGGATGTGCGGGAGCCTCGAGCAGCAT
64 GATGTGCGGGAGCCTCCACCACCATCGGCACTTGGGATCGGATGTGCGGGAGCCTCGAGCAGCAT
* * *
49568 CGGCACCTTAGTGCTTGGATGTACGGGAGCCTCGAGGAGCATCGGCACCTTGGTGCTGGGATGTG
129 CGGCACCTTAGTGCTTGGATGTACGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTCGGATGTA
49633 CGGGAGCCCCGAGCC
194 CGGGAGCCCCGAGCC
* ** *
49648 GCATCGGCACCTTGGTGGCTCGGATGTACGGGAGCCTCGAGCGGCATCGGCACATTGGTGCTTGG
1 GCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTT-G
*** * * ** *
49713 ATGTGCGGGAGCCTCCACCATTGTCGGCACCTTGGTGCTCGGATGTGCGGG-GGCTCGAGGTGTA
65 ATGTGCGGGAGCCTCCACCACCATCGGCA-CTTGG-GATCGGATGTGCGGGAGCCTCGAGCAGCA
* * *
49777 T-TGCACCTTGGTGC-TGGATGTGCGGGAGCC-CGAGCCA-CATCGGCACCTTGGTGCTCGGATG
128 TCGGCACCTTAGTGCTTGGATGTACGGGAGCCTCGAG-CAGCATCGGCACCTTGGTGCTCGGATG
*
49838 TACGGGAG-CCCGAGCG
192 TACGGGAGCCCCGAGCC
* * * * *
49854 GCATCGGCACCTTGGTGCCTTGGATGTGCTGGGAAGCCTCCAACCACCGTCGGCACCTTGGTG
1 GCATCGGCACCTTGGTGGCTCGGATGTGC-GGG-AGCCT-CGAGCACCATCGGCACCTTGGTG
49917 GCTCGGGTAT
Statistics
Matches: 231, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
206 33 0.14
207 37 0.16
208 29 0.13
209 103 0.45
210 15 0.06
211 14 0.06
ACGTcount: A:0.15, C:0.28, G:0.37, T:0.21
Consensus pattern (208 bp):
GCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGA
TGTGCGGGAGCCTCCACCACCATCGGCACTTGGGATCGGATGTGCGGGAGCCTCGAGCAGCATCG
GCACCTTAGTGCTTGGATGTACGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTCGGATGTACG
GGAGCCCCGAGCC
Done.