Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014470.1 Kokia drynarioides strain JFW-HI SEQ_129509, whole genome shotgun sequence
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: 254776
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Warning! 63 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:144746 original size:43 final size:42
Alignment explanation
Indices: 144699--145295 Score: 145
Period size: 43 Copynumber: 14.0 Consensus size: 42
144689 GTAGTGCAGG
*
144699 ACCATCGGCACCTTGATGCCTTGGATGTGCGAGAGCATCGGA
1 ACCATCGGTACCTTGATGCCTTGGATGTGCGAGAGCATCGGA
* * * * * * *
144741 CACCATCGATAACTT-AAGCCGATGG-TGGTACGAGACCATTGGGA
1 -ACCATCGGTACCTTGATGCC-TTGGAT-GTGCGAGAGCA-TCGGA
*
144785 ACCATCGGTACCTTGATGCCTTGGATGTACGAGAGCATC-GA
1 ACCATCGGTACCTTGATGCCTTGGATGTGCGAGAGCATCGGA
* * * * *
144826 CACCATCGGTAACTTAAACTG--ATGG-TAGTGCGAGACCATTGGGA
1 -ACCATCGGTACCTT-GA-TGCCTTGGAT-GTGCGAGAGCA-TCGGA
** * * *
144870 AGTATCGGCACCTTGGTGCCTTGGATGTGCGGGAGCATCGGA
1 ACCATCGGTACCTTGATGCCTTGGATGTGCGAGAGCATCGGA
** * * * * * *
144912 TACCATCGACAACTT-AGGCCGATGG-TG-GTGTGACCATCGGGA
1 -ACCATCGGTACCTTGATGCC-TTGGATGTGCGAGAGCATC-GGA
*** *
144954 AGTTTCGGTACCTTTG-TGCCTTGGATGTGCTAGAGCATCGGA
1 ACCATCGGTACC-TTGATGCCTTGGATGTGCGAGAGCATCGGA
* * * ** *
144996 CACCATCGGTAACTT-AGGCCGAT-GATGGTTTTG-GACCATCGAGA
1 -ACCATCGGTACCTTGATGCC-TTGGAT-G-TGCGAGAGCATCG-GA
* * * ** * * *
145040 AGCATCAGTACCTTGGTGCCTTACATGTGTGGGAGCATCGAA
1 ACCATCGGTACCTTGATGCCTTGGATGTGCGAGAGCATCGGA
** * * *
145082 AGTATCGGTACCTTGGTGCCTTGGATGTGC-AGGAGTATTGGA
1 ACCATCGGTACCTTGATGCCTTGGATGTGCGA-GAGCATCGGA
* ** * * * * *
145124 CACCATCGGGAATTTAAACTG--ATGG-TGGTACGGGACCATCGGGA
1 -ACCATCGGTACCTT-GA-TGCCTTGGAT-GTGCGAGAGCATC-GGA
*
145168 ACCATCGGTACCTTCG-TGCCTTGGATGTGCGAGAGAATCGGA
1 ACCATCGGTACCTT-GATGCCTTGGATGTGCGAGAGCATCGGA
* * * ** * * *
145210 CACTATCGGTAACTT-AGGTCGATGG-TGGTGCGGGACCATCAGGT
1 -ACCATCGGTACCTTGATG-CCTTGGAT-GTGCGAGAGCATC-GGA
** * * *
145254 AGTATCGGCACCTTGGTGCCTTGGATGTGCGGGAGCATCGGA
1 ACCATCGGTACCTTGATGCCTTGGATGTGCGAGAGCATCGGA
145296 CACTATCGTT
Statistics
Matches: 385, Mismatches: 122, Indels: 95
0.64 0.20 0.16
Matches are distributed among these distances:
41 24 0.06
42 105 0.27
43 224 0.58
44 30 0.08
45 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.24
Consensus pattern (42 bp):
ACCATCGGTACCTTGATGCCTTGGATGTGCGAGAGCATCGGA
Found at i:144869 original size:85 final size:85
Alignment explanation
Indices: 144699--145019 Score: 387
Period size: 85 Copynumber: 3.8 Consensus size: 85
144689 GTAGTGCAGG
144699 ACCATCGGCACCTTGATGCCTTGGATGTGCGAGAGCATCGGACACCATCGATAACTTAAGCCGAT
1 ACCATCGGCACCTTGATGCCTTGGATGTGCGAGAGCATCGGACACCATCGATAACTTAAGCCGAT
*
144764 GGTGGTACGAGACCATTGGGA
66 GGT-GTGCGAGACCATTGGGA
* * * * *
144785 ACCATCGGTACCTTGATGCCTTGGATGTACGAGAGCATC-GACACCATCGGTAACTTAAACTGAT
1 ACCATCGGCACCTTGATGCCTTGGATGTGCGAGAGCATCGGACACCATCGATAACTTAAGCCGAT
144849 GGTAGTGCGAGACCATTGGGA
66 GGT-GTGCGAGACCATTGGGA
** * * * * *
144870 AGTATCGGCACCTTGGTGCCTTGGATGTGCGGGAGCATCGGATACCATCGACAACTTAGGCCGAT
1 ACCATCGGCACCTTGATGCCTTGGATGTGCGAGAGCATCGGACACCATCGATAACTTAAGCCGAT
* * *
144935 GGTG-GTGTGACCATCGGGA
66 GGTGTGCGAGACCATTGGGA
*** * * * *
144954 AGTTTCGGTACCTTTG-TGCCTTGGATGTGCTAGAGCATCGGACACCATCGGTAACTTAGGCCGA
1 ACCATCGGCACC-TTGATGCCTTGGATGTGCGAGAGCATCGGACACCATCGATAACTTAAGCCGA
145018 TG
65 TG
145020 ATGGTTTTGG
Statistics
Matches: 204, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
84 67 0.33
85 78 0.38
86 59 0.29
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (85 bp):
ACCATCGGCACCTTGATGCCTTGGATGTGCGAGAGCATCGGACACCATCGATAACTTAAGCCGAT
GGTGTGCGAGACCATTGGGA
Found at i:145076 original size:86 final size:86
Alignment explanation
Indices: 144701--145079 Score: 415
Period size: 86 Copynumber: 4.4 Consensus size: 86
144691 AGTGCAGGAC
* *
144701 CATCGGCACCTTGATGCCTTGGATGTGCGAGAGCATCGGACACCATCGATAACTTAAGCCGATGG
1 CATCGGTACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGATAACTTAAGCCGATGG
* * *
144766 TGGTACGAGACCATTGGGAAC
66 TGGTGCGAGACCATCGGGAAG
* * * * *
144787 CATCGGTACCTTGATGCCTTGGATGTACGAGAGCATC-GACACCATCGGTAACTTAAACTGATGG
1 CATCGGTACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGATAACTTAAGCCGATGG
* *
144851 TAGTGCGAGACCATTGGGAAG
66 TGGTGCGAGACCATCGGGAAG
* * * * * *
144872 TATCGGCACCTTGGTGCCTTGGATGTGCGGGAGCATCGGATACCATCGACAACTTAGGCCGATGG
1 CATCGGTACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGATAACTTAAGCCGATGG
*
144937 TGGT--GTGACCATCGGGAAG
66 TGGTGCGAGACCATCGGGAAG
** * * * * *
144956 TTTCGGTACCTTTGTGCCTTGGATGTGCTAGAGCATCGGACACCATCGGTAACTTAGGCCGATGA
1 CATCGGTACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGATAACTTAAGCCGATGG
** *
145021 TGGTTTTG-GACCATCGAGAAG
66 TGG-TGCGAGACCATCGGGAAG
* ** * *
145042 CATCAGTACCTTGGTGCCTTACATGTGTGGGAGCATCG
1 CATCGGTACCTTGGTGCCTTGGATGTGCGAGAGCATCG
145080 AAAGTATCGG
Statistics
Matches: 248, Mismatches: 41, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
84 72 0.29
85 75 0.30
86 100 0.40
87 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (86 bp):
CATCGGTACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGATAACTTAAGCCGATGG
TGGTGCGAGACCATCGGGAAG
Found at i:145196 original size:128 final size:128
Alignment explanation
Indices: 144953--145189 Score: 305
Period size: 128 Copynumber: 1.9 Consensus size: 128
144943 GACCATCGGG
* * * **
144953 AAGTTTCGGTACCTTTGTGCCTTGGATGTGCTAGAGCATCGGACACCATCGGTAACTTAGGCCGA
1 AAGTATCGGTACCTTGGTGCCTTGGATGTGCTAGAGCATCGGACACCATCGGGAACTTAAACCGA
*** * *
145018 TGATGGTTTTGGACCATCGAGAAGCATCAGTACCTTGGTGCCTTACATGTGTGGGAGCATCGA
66 TGATGGTACGGGACCATCGAGAACCATCAGTACCTTCGTGCCTTACATGTGTGGGAGCATCGA
* * * *
145081 AAGTATCGGTACCTTGGTGCCTTGGATGTGC-AGGAGTATTGGACACCATCGGGAATTTAAACTG
1 AAGTATCGGTACCTTGGTGCCTTGGATGTGCTA-GAGCATCGGACACCATCGGGAACTTAAACCG
* * *
145145 ATGGTGGTACGGGACCATCGGGAACCATCGGTACCTTCGTGCCTT
65 ATGATGGTACGGGACCATCGAGAACCATCAGTACCTTCGTGCCTT
145190 GGATGTGCGA
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
127 1 0.01
128 90 0.99
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (128 bp):
AAGTATCGGTACCTTGGTGCCTTGGATGTGCTAGAGCATCGGACACCATCGGGAACTTAAACCGA
TGATGGTACGGGACCATCGAGAACCATCAGTACCTTCGTGCCTTACATGTGTGGGAGCATCGA
Found at i:145234 original size:86 final size:86
Alignment explanation
Indices: 145081--145420 Score: 362
Period size: 86 Copynumber: 4.0 Consensus size: 86
145071 GGAGCATCGA
* * * * * *
145081 AAGTATCGGTACCTTGGTGCCTTGGATGTGC-AGGAGTATTGGACACCATCGGGAATTTAAACTG
1 AAGTATCGGTACCTTGGTGCCTTGGATGTGCGA-GAGCATCGGACACCATCGGTAACTTAGACCG
*
145145 ATGGTGGTACGGGACCATCGGG
65 ATGGTGGTACGGGACCATCAGG
** * * * **
145167 AACCATCGGTACCTTCGTGCCTTGGATGTGCGAGAGAATCGGACACTATCGGTAACTTAGGTCGA
1 AAGTATCGGTACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGACCGA
*
145232 TGGTGGTGCGGGACCATCAGG
66 TGGTGGTACGGGACCATCAGG
* * * * * *
145253 TAGTATCGGCACCTTGGTGCCTTGGATGTGCGGGAGCATCGGACACTATCGTTAGCTTAGACCGA
1 AAGTATCGGTACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGACCGA
* *
145318 TGATGGTACGAGACCATCTA-G
66 TGGTGGTACGGGACCATC-AGG
* * * *
145339 AAGTATCAGTACCTTGGTGCCTTGTATGTGTG-GAAGCATCGGACACCATCGGTAACTTAGGCCG
1 AAGTATCGGTACCTTGGTGCCTTGGATGTGCGAG-AGCATCGGACACCATCGGTAACTTAGACCG
* * *
145403 ATAGTGGTGCAGGACCAT
65 ATGGTGGTACGGGACCAT
145421 TGAGAAGCAT
Statistics
Matches: 209, Mismatches: 42, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
85 1 0.00
86 206 0.99
87 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (86 bp):
AAGTATCGGTACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGACCGA
TGGTGGTACGGGACCATCAGG
Found at i:145248 original size:214 final size:212
Alignment explanation
Indices: 144869--145293 Score: 537
Period size: 214 Copynumber: 2.0 Consensus size: 212
144859 GACCATTGGG
* * **
144869 AAGTATCGGCACCTTGGTGCCTTGGATGTGCGGGAGCATCGGATACCATCGACAACTTAGGCCGA
1 AAGTATCGGCACCTTGGTGCCTTGGATGTGCAGGAGCATCGGACACCATCGACAACTTAAACCGA
* *** * * *
144934 TGGTGGTGTGACCATCGGGAAGTTTCGGTACCTTTGTGCCTTGGATGTGCTAGAGCATCGGACAC
66 TGGTGGTGGGACCATCGGGAACCATCGGTACCTTCGTGCCTTGGATGTGCGAGAGAATCGGACAC
*** *
144999 CATCGGTAACTTAGGCCGATGATGGTTTTGGACCATC-GAGAAGCATCAGTACCTTGGTGCCTTA
131 CATCGGTAACTTAGGCCGATGATGGTGCGGGACCATCAG-GAAGCATCAGCACCTTGGTGCCTTA
*
145063 CATGTGTGGGAGCATCGA
195 CATGTGCGGGAGCATCGA
* * * ** * *
145081 AAGTATCGGTACCTTGGTGCCTTGGATGTGCAGGAGTATTGGACACCATCGGGAATTTAAACTGA
1 AAGTATCGGCACCTTGGTGCCTTGGATGTGCAGGAGCATCGGACACCATCGACAACTTAAACCGA
145146 TGGTGGTACGGGACCATCGGGAACCATCGGTACCTTCGTGCCTTGGATGTGCGAGAGAATCGGAC
66 TGGTGGT--GGGACCATCGGGAACCATCGGTACCTTCGTGCCTTGGATGTGCGAGAGAATCGGAC
* * * * * *
145211 ACTATCGGTAACTTAGGTCGATGGTGGTGCGGGACCATCAGGTAGTATCGGCACCTTGGTGCCTT
129 ACCATCGGTAACTTAGGCCGATGATGGTGCGGGACCATCAGGAAGCATCAGCACCTTGGTGCCTT
**
145276 GGATGTGCGGGAGCATCG
194 ACATGTGCGGGAGCATCG
145294 GACACTATCG
Statistics
Matches: 179, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
212 61 0.34
214 117 0.65
215 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.25
Consensus pattern (212 bp):
AAGTATCGGCACCTTGGTGCCTTGGATGTGCAGGAGCATCGGACACCATCGACAACTTAAACCGA
TGGTGGTGGGACCATCGGGAACCATCGGTACCTTCGTGCCTTGGATGTGCGAGAGAATCGGACAC
CATCGGTAACTTAGGCCGATGATGGTGCGGGACCATCAGGAAGCATCAGCACCTTGGTGCCTTAC
ATGTGCGGGAGCATCGA
Found at i:145303 original size:43 final size:43
Alignment explanation
Indices: 144872--145303 Score: 160
Period size: 43 Copynumber: 10.1 Consensus size: 43
144862 CATTGGGAAG
* *
144872 TATCGGCACCTTGGTGCCTTGGATGTGCGGGAGCATCGGATAC
1 TATCGGTACCTTGGTGCCTTGGATGTGCGGGAGCATCGGACAC
* ** * * * * * * *
144915 CATCGACAACTTAG-GCCGATGG-TG-GTGTGACCATCGGGA-AG
1 TATCGGTACCTTGGTGCC-TTGGATGTGCGGGAGCATC-GGACAC
* * **
144956 TTTCGGTACCTTTGTGCCTTGGATGTGCTAGAGCATCGGACAC
1 TATCGGTACCTTGGTGCCTTGGATGTGCGGGAGCATCGGACAC
* * * * *** *
144999 CATCGGTAACTTAG-GCCGAT-GATGGTTTTGGACCATCGAGA-AGC
1 TATCGGTACCTTGGTGCC-TTGGAT-GTGCGGGAGCATCG-GACA-C
* ** * * *
145043 -ATCAGTACCTTGGTGCCTTACATGTGTGGGAGCATC-GAAAG
1 TATCGGTACCTTGGTGCCTTGGATGTGCGGGAGCATCGGACAC
* * *
145084 TATCGGTACCTTGGTGCCTTGGATGTGCAGGAGTATTGGACAC
1 TATCGGTACCTTGGTGCCTTGGATGTGCGGGAGCATCGGACAC
* * * ** * *
145127 CATCGGGA-ATT--TAAACTGATGG-TGGTACGGGACCATCGGGA-AC
1 TATCGGTACCTTGGT-GCCT--TGGAT-GTGCGGGAGCATC-GGACAC
* * * *
145170 CATCGGTACCTTCGTGCCTTGGATGTGCGAGAGAATCGGACAC
1 TATCGGTACCTTGGTGCCTTGGATGTGCGGGAGCATCGGACAC
* ** * * *
145213 TATCGGTAACTTAGGT-CGATGG-TGGTGCGGGACCATCAGG-TAG
1 TATCGGTACCTT-GGTGCCTTGGAT-GTGCGGGAGCATC-GGACAC
*
145256 TATCGGCACCTTGGTGCCTTGGATGTGCGGGAGCATCGGACAC
1 TATCGGTACCTTGGTGCCTTGGATGTGCGGGAGCATCGGACAC
145299 TATCG
1 TATCG
145304 TTAGCTTAGA
Statistics
Matches: 275, Mismatches: 83, Indels: 62
0.65 0.20 0.15
Matches are distributed among these distances:
40 1 0.00
41 24 0.09
42 64 0.23
43 164 0.60
44 19 0.07
45 2 0.01
46 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.25
Consensus pattern (43 bp):
TATCGGTACCTTGGTGCCTTGGATGTGCGGGAGCATCGGACAC
Found at i:145382 original size:172 final size:172
Alignment explanation
Indices: 145082--145420 Score: 428
Period size: 172 Copynumber: 2.0 Consensus size: 172
145072 GAGCATCGAA
* * * * *
145082 AGTATCGGTACCTTGGTGCCTTGGATGTGCAGGAGTATTGGACACCATCGGGAATTTAAACTGAT
1 AGTATCGGCACCTTGGTGCCTTGGATGTGCAGGAGCATCGGACACCATCGGGAACTTAAACCGAT
* * * *
145147 GGTGGTACGGGACCATCGGGAACCATCGGTACCTTCGTGCCTTGGATGTGCGAGAGAATCGGACA
66 GATGGTACGAGACCATCGAGAACCATCAGTACCTTCGTGCCTTGGATGTGCGAGAGAATCGGACA
* * * *
145212 CTATCGGTAACTTAGGTCGATGGTGGTGCGGGACCATCAGGT
131 CCATCGGTAACTTAGGCCGATAGTGGTGCAGGACCATCAGGT
* * ** * *
145254 AGTATCGGCACCTTGGTGCCTTGGATGTGCGGGAGCATCGGACACTATCGTTAGCTTAGACCGAT
1 AGTATCGGCACCTTGGTGCCTTGGATGTGCAGGAGCATCGGACACCATCGGGAACTTAAACCGAT
* ** * * * *
145319 GATGGTACGAGACCATCTAGAAGTATCAGTACCTTGGTGCCTTGTATGTGTG-GAAGCATCGGAC
66 GATGGTACGAGACCATCGAGAACCATCAGTACCTTCGTGCCTTGGATGTGCGAG-AGAATCGGAC
145383 ACCATCGGTAACTTAGGCCGATAGTGGTGCAGGACCAT
130 ACCATCGGTAACTTAGGCCGATAGTGGTGCAGGACCAT
145421 TGAGAAGCAT
Statistics
Matches: 140, Mismatches: 26, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
171 1 0.01
172 139 0.99
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (172 bp):
AGTATCGGCACCTTGGTGCCTTGGATGTGCAGGAGCATCGGACACCATCGGGAACTTAAACCGAT
GATGGTACGAGACCATCGAGAACCATCAGTACCTTCGTGCCTTGGATGTGCGAGAGAATCGGACA
CCATCGGTAACTTAGGCCGATAGTGGTGCAGGACCATCAGGT
Found at i:145427 original size:86 final size:86
Alignment explanation
Indices: 145081--145476 Score: 334
Period size: 86 Copynumber: 4.6 Consensus size: 86
145071 GGAGCATCGA
* * * * * * *
145081 AAGTATCGGTACCTTGGTGCCTTGGATGTGCAGG-AGTATTGGACACCATCGGGAATTTAAACTG
1 AAGTATCGGTACCTTGGTGCCTTGGATGTG-TGGAAGCATCGGACACCATCGGTAACTTAGACCG
* *
145145 ATGGTGGTACGGGACCATCGGG
65 ATGGTGGTACGGGACCATTGAG
** * * * * **
145167 AACCATCGGTACCTTCGTGCCTTGGATGTG-CGAGAGAATCGGACACTATCGGTAACTTAGGTCG
1 AAGTATCGGTACCTTGGTGCCTTGGATGTGTGGA-AGCATCGGACACCATCGGTAACTTAGACCG
* *
145231 ATGGTGGTGCGGGACCA-TCAGG
65 ATGGTGGTACGGGACCATTGA-G
* * * * * * *
145253 TAGTATCGGCACCTTGGTGCCTTGGATGTGCGGGAGCATCGGACACTATCGTTAGCTTAGACCGA
1 AAGTATCGGTACCTTGGTGCCTTGGATGTGTGGAAGCATCGGACACCATCGGTAACTTAGACCGA
* *
145318 TGATGGTACGAGACCATCT-AG
66 TGGTGGTACGGGACCAT-TGAG
* * *
145339 AAGTATCAGTACCTTGGTGCCTTGTATGTGTGGAAGCATCGGACACCATCGGTAACTTAGGCCGA
1 AAGTATCGGTACCTTGGTGCCTTGGATGTGTGGAAGCATCGGACACCATCGGTAACTTAGACCGA
* * *
145404 TAGTGGTGCAGGACCATTGAG
66 TGGTGGTACGGGACCATTGAG
* *** * * * *
145425 AAGCATCAACACATTAGTGCCTTGCATGTGTGGGAA-CATGGGACACCATCGG
1 AAGTATCGGTACCTTGGTGCCTTGGATGTGT-GGAAGCATCGGACACCATCGG
145477 GCTAAAAAAA
Statistics
Matches: 248, Mismatches: 54, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
84 1 0.00
85 1 0.00
86 239 0.96
87 6 0.02
88 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (86 bp):
AAGTATCGGTACCTTGGTGCCTTGGATGTGTGGAAGCATCGGACACCATCGGTAACTTAGACCGA
TGGTGGTACGGGACCATTGAG
Found at i:145447 original size:172 final size:172
Alignment explanation
Indices: 145097--145477 Score: 406
Period size: 172 Copynumber: 2.2 Consensus size: 172
145087 CGGTACCTTG
* * * * * * *
145097 GTGCCTTGGATGTGCAGGAGTATTGGACACCATCGGGAATTTAAACTGATGGTGGTACGGGACCA
1 GTGCCTTGGATGTGCGGGAGCATCGGACACCATCGGGAACTTAAACCGATGATGGTACGAGACCA
* * *
145162 TCGGGAACCATCGGTACCTTCGTGCCTTGGATGTGCGAGAGAATCGGACACTATCGGTAACTTAG
66 TCGAGAACCATCAGTACCTTCGTGCCTTGGATGTGCGAGAGAATCGGACACCATCGGTAACTTAG
* * * * * ** * *
145227 GTCGATGGTGGTGCGGGACCATCAGGTAGTATCGGCACCTTG
131 GCCGATAGTGGTGCAGGACCATCAGGAAGCATCAACACATTA
* ** * *
145269 GTGCCTTGGATGTGCGGGAGCATCGGACACTATCGTTAGCTTAGACCGATGATGGTACGAGACCA
1 GTGCCTTGGATGTGCGGGAGCATCGGACACCATCGGGAACTTAAACCGATGATGGTACGAGACCA
* ** * * * *
145334 TCTAGAAGTATCAGTACCTTGGTGCCTTGTATGTGTG-GAAGCATCGGACACCATCGGTAACTTA
66 TCGAGAACCATCAGTACCTTCGTGCCTTGGATGTGCGAG-AGAATCGGACACCATCGGTAACTTA
*
145398 GGCCGATAGTGGTGCAGGACCAT-TGAGAAGCATCAACACATTA
130 GGCCGATAGTGGTGCAGGACCATCAG-GAAGCATCAACACATTA
* * * *
145441 GTGCCTTGCATGTGTGGGAACATGGGACACCATCGGG
1 GTGCCTTGGATGTGCGGGAGCATCGGACACCATCGGG
145478 CTAAAAAAAG
Statistics
Matches: 168, Mismatches: 39, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
171 2 0.01
172 166 0.99
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (172 bp):
GTGCCTTGGATGTGCGGGAGCATCGGACACCATCGGGAACTTAAACCGATGATGGTACGAGACCA
TCGAGAACCATCAGTACCTTCGTGCCTTGGATGTGCGAGAGAATCGGACACCATCGGTAACTTAG
GCCGATAGTGGTGCAGGACCATCAGGAAGCATCAACACATTA
Found at i:146362 original size:86 final size:85
Alignment explanation
Indices: 146116--146413 Score: 391
Period size: 86 Copynumber: 3.5 Consensus size: 85
146106 TATTTTAGAC
* * *
146116 ATGTGCGAGAGCATCGGACACCATCGGCAACTTAGGCCGATGGTGGTGTGGGATCATCGCGAAGC
1 ATGTGCGGGAGCATCGGACACCATCGGCAACTTAGGCCGATGGTGGTGCGGGACCATCG-GAAGC
146181 ATCAGCACCTTGGTGCCTTGG
65 ATCAGCACCTTGGTGCCTTGG
* * * * *
146202 ATATACGGGAGCATCGGACACCA-CTGCAACTTAGGCCGGTGATGGTGCGGGACCATCGGGAAGC
1 ATGTGCGGGAGCATCGGACACCATCGGCAACTTAGGCCGATGGTGGTGCGGGACCATC-GGAAGC
* *
146266 ATCGGCACCTTGGTGCCTTAG
65 ATCAGCACCTTGGTGCCTTGG
* * ** *
146287 ATGTGCTGGAGCATCGGACACCATCGGTAACTTAGGCTAATGGTGGTGCGGGACCATCAGGAAGT
1 ATGTGCGGGAGCATCGGACACCATCGGCAACTTAGGCCGATGGTGGTGCGGGACCATC-GGAAGC
*
146352 ATCAGTACCTTGGTGCCTTGG
65 ATCAGCACCTTGGTGCCTTGG
** *
146373 ATGTGCGGGCTCATCGGACACCATCGGTAACTTAGGCCGAT
1 ATGTGCGGGAGCATCGGACACCATCGGCAACTTAGGCCGAT
146414 AATGCAAATA
Statistics
Matches: 181, Mismatches: 29, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
85 73 0.40
86 108 0.60
ACGTcount: A:0.22, C:0.24, G:0.33, T:0.21
Consensus pattern (85 bp):
ATGTGCGGGAGCATCGGACACCATCGGCAACTTAGGCCGATGGTGGTGCGGGACCATCGGAAGCA
TCAGCACCTTGGTGCCTTGG
Found at i:148242 original size:30 final size:30
Alignment explanation
Indices: 148201--148355 Score: 170
Period size: 30 Copynumber: 5.2 Consensus size: 30
148191 GTTTAGGGTC
* ** *
148201 AAATGTGATTTTAAAAAAGTTTAAGGGTGA
1 AAATGTAATTTTGGAAAAGTTTAAGGGTTA
148231 AAATGTAATTTTGGAAAAGTTT-AGGTGTTA
1 AAATGTAATTTTGGAAAAGTTTAAGG-GTTA
*
148261 AAATGTAATTTTGGAGAAGTTTAAGGGTTA
1 AAATGTAATTTTGGAAAAGTTTAAGGGTTA
** * * *
148291 AAATAAAAATTTAGAAAA-TTTTAGGAGTTA
1 AAATGTAATTTTGGAAAAGTTTAAGG-GTTA
* *
148321 AAATGTAATTTTGGAGAAGTTTAAGGGTCA
1 AAATGTAATTTTGGAAAAGTTTAAGGGTTA
148351 AAATG
1 AAATG
148356 ACCTACTATG
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
29 9 0.09
30 85 0.83
31 9 0.09
ACGTcount: A:0.42, C:0.01, G:0.23, T:0.35
Consensus pattern (30 bp):
AAATGTAATTTTGGAAAAGTTTAAGGGTTA
Found at i:148272 original size:60 final size:60
Alignment explanation
Indices: 148217--148356 Score: 208
Period size: 60 Copynumber: 2.3 Consensus size: 60
148207 GATTTTAAAA
* * * * *
148217 AAGTTTAAGGGTGAAAATGTAATTTTGGAAAAGTTTAGGTGTTAAAATGTAATTTTGGAG
1 AAGTTTAAGGGTCAAAATGAAAATTTAGAAAAGTTTAGGAGTTAAAATGTAATTTTGGAG
* * *
148277 AAGTTTAAGGGTTAAAATAAAAATTTAGAAAATTTTAGGAGTTAAAATGTAATTTTGGAG
1 AAGTTTAAGGGTCAAAATGAAAATTTAGAAAAGTTTAGGAGTTAAAATGTAATTTTGGAG
148337 AAGTTTAAGGGTCAAAATGA
1 AAGTTTAAGGGTCAAAATGA
148357 CCTACTATGT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 71 1.00
ACGTcount: A:0.41, C:0.01, G:0.24, T:0.34
Consensus pattern (60 bp):
AAGTTTAAGGGTCAAAATGAAAATTTAGAAAAGTTTAGGAGTTAAAATGTAATTTTGGAG
Found at i:150901 original size:209 final size:209
Alignment explanation
Indices: 150280--151063 Score: 960
Period size: 209 Copynumber: 3.8 Consensus size: 209
150270 GCTTTATTTC
* * * * *
150280 TTGGTCTACTTCTCTATATCTTATCAGGAAGATGACCGTTTTATTGC-TTCGATCCACTTCTCTG
1 TTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCTTTC-ACCCACTTCTCAG
* * * * ** *
150344 TATCTCATCAATAAGAT-AAGGGTTTGAAGTTTCACTCGCATTGAACTTTGCTTCATTTGATTTG
65 TATCTCATCAAGAAGATGGA-GGTTCGAAGTTTCACTCACATTGAACTTCACTTCA-TCGATTTG
* * * * *
150408 GTCTACTTCTCTATATCTCATCAGGAAGATGACCACCTCGTTTATTTTAATCCACTTCTTTGTAT
128 GTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTC-ATTGTTTTAATCCACTTCTCTGTAT
* *
150473 CTCATCAGGAAGGCGGAT
192 CTCATTAGGAAGACGGAT
* *
150491 TTGGTCCACTTCTCTGTATCTCATCAGGAAGAT----GCTTTATTGCTTTGACCCACTTCTCAGT
1 TTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCTTTCACCCACTTCTCAGT
* * * **
150552 ATCTCATCAAGAAGATGG-GGTTCGAAGTTTCACTCATATTGAGCTTCACTTCCTTTATTTGGTC
66 ATCTCATCAAGAAGATGGAGGTTCGAAGTTTCACTCACATTGAACTTCACTTCATCGATTTGGTC
* * * *
150616 TACTTCTCTGTATCTCATCAAGAAGATGACTGCATCACTTGTTTTAATCCGCTTCTCTGTATCTC
131 TACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCA-TTGTTTTAATCCACTTCTCTGTATCTC
150681 ATCTA-GAAGACGGAT
195 AT-TAGGAAGACGGAT
* *
150696 TTGGTCCACTTCTCTATATCTCATCAGGAAGACGATCGCTTTATTGCTTTCACCCACTTCTCAGT
1 TTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCTTTCACCCACTTCTCAGT
* * * * *
150761 ATATCGTC-AGAAAGATGGAGGTTCGAAGTTTCGCTCACATTGAGCTTCGCTTCATCGATTTGGT
66 ATCTCATCAAG-AAGATGGAGGTTCGAAGTTTCACTCACATTGAACTTCACTTCATCGATTTGGT
* **
150825 CTACTTCTTTGTATCTCATCAGGAAGATGACCGCCTCATTGTTCCAATCCACTTCTCTGTATCTC
130 CTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATCTC
*
150890 ATTAGGAAGACGAAT
195 ATTAGGAAGACGGAT
* * ** * ** *
150905 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCTCTTTATTATTTTAACCTGCTTCTCTGT
1 TTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCTTTCACCCACTTCTCAGT
* * *
150970 ATCTCATCAGGAAGATGGGGGTTTGAA--TTCACTCACATTGAACTTCACTTCATCGATTTGGTC
66 ATCTCATCAAGAAGATGGAGGTTCGAAGTTTCACTCACATTGAACTTCACTTCATCGATTTGGTC
151033 TACTTCTCTGTATCTCATCAGGAAGATGACC
131 TACTTCTCTGTATCTCATCAGGAAGATGACC
151064 TTTTTAATTT
Statistics
Matches: 495, Mismatches: 66, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
205 107 0.22
206 29 0.06
207 99 0.20
208 6 0.01
209 150 0.30
210 74 0.15
211 30 0.06
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (209 bp):
TTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTGCTTTCACCCACTTCTCAGT
ATCTCATCAAGAAGATGGAGGTTCGAAGTTTCACTCACATTGAACTTCACTTCATCGATTTGGTC
TACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATCTCA
TTAGGAAGACGGAT
Found at i:150965 original size:85 final size:85
Alignment explanation
Indices: 150818--150984 Score: 228
Period size: 85 Copynumber: 2.0 Consensus size: 85
150808 CGCTTCATCG
* * *
150818 ATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCCTCATTGTTCCAATCCACTTCTCT
1 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTATTCCAATCCACTTCTCT
*
150883 GTATCTCATTAGGAAGACGA
66 GTATCTCATCAGGAAGACGA
* * * ** *
150903 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCTCTTTATTATTTTAA-CCTGCTTCTC
1 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTATTCCAATCC-ACTTCTC
150967 TGTATCTCATCAGGAAGA
65 TGTATCTCATCAGGAAGA
150985 TGGGGGTTTG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 2 0.03
85 69 0.97
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (85 bp):
ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTATTCCAATCCACTTCTCT
GTATCTCATCAGGAAGACGA
Found at i:155096 original size:48 final size:48
Alignment explanation
Indices: 155025--155172 Score: 269
Period size: 48 Copynumber: 3.1 Consensus size: 48
155015 ATCATCTTCA
*
155025 AAGTACTGAAGTTCTTCTAAACACATATCTTGCTCGTAACGAGGCTCT
1 AAGTACTGAAGTTCTTCTAAACACATATCTTGCTCGAAACGAGGCTCT
* *
155073 AAGTACTAAAGTTCTTCTAAACACATATCTTGCTCGAAATGAGGCTCT
1 AAGTACTGAAGTTCTTCTAAACACATATCTTGCTCGAAACGAGGCTCT
155121 AAGTACTGAAGTTCTTCTAAACACATATCTTGCTCGAAACGAGGCTCT
1 AAGTACTGAAGTTCTTCTAAACACATATCTTGCTCGAAACGAGGCTCT
155169 AAGT
1 AAGT
155173 TAGCATCAGG
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 95 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (48 bp):
AAGTACTGAAGTTCTTCTAAACACATATCTTGCTCGAAACGAGGCTCT
Found at i:158858 original size:12 final size:12
Alignment explanation
Indices: 158828--158866 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
158818 ACATTCTTAT
158828 CATTTGTTCTTG
1 CATTTGTTCTTG
* *
158840 TAATTGTTCTTG
1 CATTTGTTCTTG
*
158852 CATTTGTTCCTG
1 CATTTGTTCTTG
158864 CAT
1 CAT
158867 CTCTCTTTGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.13, C:0.18, G:0.15, T:0.54
Consensus pattern (12 bp):
CATTTGTTCTTG
Found at i:162784 original size:29 final size:29
Alignment explanation
Indices: 162705--162868 Score: 129
Period size: 29 Copynumber: 5.6 Consensus size: 29
162695 TTTCGGATGA
* * *
162705 TTTAGGGTTAAAATGTAATTTT-GGAAGAA
1 TTTAGGGTTAAAATATGATTTTAGGAA-AG
* *** *
162734 TTCGAGGGTTAAAATGCAATTTTATGAAAG
1 TT-TAGGGTTAAAATATGATTTTAGGAAAG
* *
162764 TTTGGGGTTAAAATATGATTTTAGGGAAG
1 TTTAGGGTTAAAATATGATTTTAGGAAAG
* *
162793 TTTAGGGTTAAAATATGA-TTTCGAGAAGG
1 TTTAGGGTTAAAATATGATTTTAG-GAAAG
*
162822 TTTAAGGTT-AAATATGATTTT-GGAAAAG
1 TTTAGGGTTAAAATATGATTTTAGG-AAAG
*
162850 TTTAGGGGTGAAAATATGA
1 TTTA-GGGTTAAAATATGA
162869 AATTTAGTGG
Statistics
Matches: 109, Mismatches: 19, Indels: 13
0.77 0.13 0.09
Matches are distributed among these distances:
27 1 0.01
28 20 0.18
29 56 0.51
30 29 0.27
31 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (29 bp):
TTTAGGGTTAAAATATGATTTTAGGAAAG
Found at i:162942 original size:30 final size:30
Alignment explanation
Indices: 162871--163086 Score: 242
Period size: 30 Copynumber: 7.2 Consensus size: 30
162861 AAATATGAAA
* * *
162871 TTTAGTGGTCAAAATGTAATTTTAGAAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
*
162901 -TTAGGGGGGTTAAAATGTAATTTTAGAAAAG
1 TTTA--GGGGTTAAAATGTAATTTTGGAAAAG
162932 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* *
162962 TTTAGGGGCTAAAATGTAATTTTGGAGAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
*** *
162992 TTTAACTGTTAAAATGTAACTTTGG-AAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
*
163021 TTTA-GGGTTAAAATGTAATTTTGGAGAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* * * *
163050 TTTTA-GGGTCAAAATATGATTTTTGAAAAG
1 -TTTAGGGGTTAAAATGTAATTTTGGAAAAG
163080 TTTAGGG
1 TTTAGGG
163087 ACCTACTGGG
Statistics
Matches: 160, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
28 17 0.11
29 17 0.11
30 99 0.62
31 24 0.15
32 3 0.02
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
TTTAGGGGTTAAAATGTAATTTTGGAAAAG
Found at i:163051 original size:88 final size:90
Alignment explanation
Indices: 162909--163083 Score: 248
Period size: 88 Copynumber: 2.0 Consensus size: 90
162899 AGTTAGGGGG
*
162909 GTTAAAATGTAATTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAG-TTTAGGGGCTA
1 GTTAAAATGTAACTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGGC-A
* *
162973 AAATGTAATTTTGGAGAAGTTTAACT
65 AAATATAATTTTGGAAAAGTTTAACT
* * *
162999 GTTAAAATGTAACTTT-GGAAAGTTTA-GGGTTAAAATGTAATTTTGGAGAAGTTTTAGGGTCAA
1 GTTAAAATGTAACTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGGCAA
* *
163062 AATATGATTTTTGAAAAGTTTA
66 AATATAATTTTGGAAAAGTTTA
163084 GGGACCTACT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
88 44 0.58
89 17 0.22
90 15 0.20
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (90 bp):
GTTAAAATGTAACTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGGCAA
AATATAATTTTGGAAAAGTTTAACT
Found at i:163668 original size:35 final size:35
Alignment explanation
Indices: 163629--163703 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
163619 TGTAAATCCC
* * *
163629 TTTATTATTATTATTATT-TTTTTTTTTAAATTTGT
1 TTTATTATTATTACTATTATTTTTCTTT-AATTTCT
* *
163664 TTTATTTTTTTTACTATTATTTTTCTTTAATTTCT
1 TTTATTATTATTACTATTATTTTTCTTTAATTTCT
163699 TTTAT
1 TTTAT
163704 AAAAATATAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 26 0.76
36 8 0.24
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (35 bp):
TTTATTATTATTACTATTATTTTTCTTTAATTTCT
Found at i:164575 original size:3 final size:3
Alignment explanation
Indices: 164567--164593 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
164557 TAAATTTAAA
164567 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
164594 GGGTTCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:174672 original size:15 final size:15
Alignment explanation
Indices: 174654--174683 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
174644 TTACACCTTT
*
174654 AAAAATTACTTATTC
1 AAAAATTAATTATTC
174669 AAAAATTAATTATTC
1 AAAAATTAATTATTC
174684 TACGATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAAATTAATTATTC
Found at i:177540 original size:16 final size:17
Alignment explanation
Indices: 177512--177545 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
177502 GAAGGATATG
177512 TCATATACAAATACATA
1 TCATATACAAATACATA
177529 TCATAT-CAAATACATA
1 TCATATACAAATACATA
177545 T
1 T
177546 TCAAATTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (17 bp):
TCATATACAAATACATA
Found at i:182357 original size:24 final size:25
Alignment explanation
Indices: 182330--182377 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
182320 TACAAAAACT
*
182330 AAAGA-AACAAATTAA-AGTAAAATA
1 AAAGACAA-AAATTAACAGAAAAATA
182354 AAAGACAAAAATTAACAGAAAAAT
1 AAAGACAAAAATTAACAGAAAAAT
182378 TACAATGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (25 bp):
AAAGACAAAAATTAACAGAAAAATA
Found at i:197637 original size:15 final size:14
Alignment explanation
Indices: 197613--197651 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
197603 CATTTTTACA
197613 TTTTCTTTTATTTG
1 TTTTCTTTTATTTG
197627 TTTTACTTTTATTTG
1 TTTT-CTTTTATTTG
*
197642 TTTTGTTTTA
1 TTTTCTTTTA
197652 AATTCTTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.10, C:0.05, G:0.08, T:0.77
Consensus pattern (14 bp):
TTTTCTTTTATTTG
Found at i:200583 original size:16 final size:16
Alignment explanation
Indices: 200553--200582 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
200543 AGAAAATGAG
200553 AAAAAGAAAGAAAAAT
1 AAAAAGAAAGAAAAAT
200569 AAAAAG-AAGAAAAA
1 AAAAAGAAAGAAAAA
200583 AATTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAGAAAAAT
Found at i:203798 original size:23 final size:23
Alignment explanation
Indices: 203770--203813 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
203760 ATTAAAGGAC
203770 TAAAGAATAAAATT-AACCCAATT
1 TAAAGAAT-AAATTAAACCCAATT
*
203793 TAAAGAATTAATTAAACCCAA
1 TAAAGAATAAATTAAACCCAA
203814 ATTATTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.25
Consensus pattern (23 bp):
TAAAGAATAAATTAAACCCAATT
Found at i:203868 original size:25 final size:25
Alignment explanation
Indices: 203815--203879 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 25
203805 TAAACCCAAA
*
203815 TTATTAATAAA-AT-ATTTTATAAT
1 TTATTATTAAATATAATTTTATAAT
** *
203838 AAATTATTAAATATAATTTTATATT
1 TTATTATTAAATATAATTTTATAAT
* *
203863 TTATTATTTAATTTAAT
1 TTATTATTAAATATAAT
203880 CATGCTTTGC
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 8 0.25
24 2 0.06
25 22 0.69
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TTATTATTAAATATAATTTTATAAT
Found at i:217076 original size:60 final size:59
Alignment explanation
Indices: 217010--217445 Score: 267
Period size: 60 Copynumber: 7.4 Consensus size: 59
217000 TTTTGGATAC
* * * * *
217010 TCGAGGGCAAAATGGTAATTTTGGGAAAAGTCGGGAGTCAAAAATGAAATTTTTAGAAGT
1 TCGAGGGTAAAATGGTAATTTTGGAAAAAATCGAG-GTCAAAAATGAAATTTTTGGAAGT
* * * * * *
217070 TCGAGGGTAAAATAGTCATTTT-TAGAAAAATCGAGGTTAAAAATGGAATTTTGGGAAGTT
1 TCGAGGGTAAAATGGTAATTTTGGA-AAAAATCGAGGTCAAAAATGAAATTTTTGGAAG-T
* * * *
217130 TGGGGGGTAAAATGTTAATTTTGGAAAAAAAT-GAGGTCAAAAATGGAATTTTTGGAAGT
1 TCGAGGGTAAAATGGTAATTTTGG-AAAAAATCGAGGTCAAAAATGAAATTTTTGGAAGT
* * * *
217189 T-TAGGAT-AAATGGTAATTTTTGAAAAAAT-TAGGGTCAAAAATGAAA-TTTTGGAATGTT
1 TCGAGGGTAAAATGGTAATTTTGGAAAAAATCGA-GGTCAAAAATGAAATTTTTGGAA-G-T
* * * *
217247 TGGGGGGTAAAAAT-GTAATTTTTGG-AAAAATCGAGGTTAAAAATGGAATTTTTGGAAAGT
1 TCGAGGGT-AAAATGGTAA-TTTTGGAAAAAATCGAGGTCAAAAATGAAATTTTTGG-AAGT
** * * * ** * *
217307 TTAAGGGTAAAAAT-GTAATTTT-TAGAATATCGAGGTTGAAAATGGAATTTTAGAGAA-T
1 TCGAGGGT-AAAATGGTAATTTTGGAAAAAATCGAGGTCAAAAATGAAATTTTTG-GAAGT
* ** * * * *
217365 TCG-GGGTAAAAAT-GTAATTTTTGAAAATTTAG-GGT-TAAAAGGGAA-TTTTGGAAGT
1 TCGAGGGT-AAAATGGTAATTTTGGAAAAAATCGAGGTCAAAAATGAAATTTTTGGAAGT
217420 TCGAGGGTAAAAAT-GTAATTTATGGA
1 TCGAGGGT-AAAATGGTAATTT-TGGA
217446 CAGTTTAGGG
Statistics
Matches: 305, Mismatches: 51, Indels: 43
0.76 0.13 0.11
Matches are distributed among these distances:
54 3 0.01
55 8 0.03
56 41 0.13
57 51 0.17
58 13 0.04
59 55 0.18
60 108 0.35
61 23 0.08
62 3 0.01
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (59 bp):
TCGAGGGTAAAATGGTAATTTTGGAAAAAATCGAGGTCAAAAATGAAATTTTTGGAAGT
Found at i:217248 original size:117 final size:118
Alignment explanation
Indices: 217018--217391 Score: 351
Period size: 117 Copynumber: 3.2 Consensus size: 118
217008 ACTCGAGGGC
* * * * * * *
217018 AAAATGGTAATTTTGGGAAAAGTCGGGAGTCAAAAATGAAATTTTTAGAAGTTCGAGGGTAAAAT
1 AAAAT-GTAATTTTTGGAAAAATCGAG-GTCAAAAATGGAATTTTTGGAAGTT-TAGGATAAAAT
* * * *
217083 AGTCATTTTTAGAAAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTTGGGGGGT-
63 AGTAATTTTTAGAAAAATAGAGGTCAAAAATGAAATTTTGGGAAGTTTGGGGGGTA
217138 AAAATGTTAA-TTTTGGAAAAAAAT-GAGGTCAAAAATGGAATTTTTGGAAGTTTAGGAT-AAAT
1 AAAATG-TAATTTTTGG--AAAAATCGAGGTCAAAAATGGAATTTTTGGAAGTTTAGGATAAAAT
*
217200 GGTAATTTTT-GAAAAAATTAG-GGTCAAAAATGAAATTTT-GGAATGTTTGGGGGGTA
63 AGTAATTTTTAG-AAAAA-TAGAGGTCAAAAATGAAATTTTGGGAA-GTTTGGGGGGTA
* *
217256 AAAATGTAATTTTTGGAAAAATCGAGGTTAAAAATGGAATTTTTGGAAAGTTTAAGGGTAAAA-A
1 AAAATGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGG-AAGTTT-AGGATAAAATA
* * ** * * *
217320 TGTAATTTTTAG-AATATCGAGGTTGAAAATGGAATTTTAGAGAA--TT-CGGGGTA
64 -GTAATTTTTAGAAAAATAGAGGTCAAAAATGAAATTTT-GGGAAGTTTGGGGGGTA
217373 AAAATGTAATTTTT-GAAAA
1 AAAATGTAATTTTTGGAAAA
217392 TTTAGGGTTA
Statistics
Matches: 215, Mismatches: 22, Indels: 38
0.78 0.08 0.14
Matches are distributed among these distances:
116 16 0.07
117 89 0.41
118 28 0.13
119 51 0.24
120 22 0.10
121 9 0.04
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (118 bp):
AAAATGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGTTTAGGATAAAATAGT
AATTTTTAGAAAAATAGAGGTCAAAAATGAAATTTTGGGAAGTTTGGGGGGTA
Found at i:217349 original size:29 final size:29
Alignment explanation
Indices: 217251--217440 Score: 131
Period size: 30 Copynumber: 6.6 Consensus size: 29
217241 AATGTTTGGG
* *
217251 GGGTAAAAATGTAATTTTTGGAAAAATCGA
1 GGGTAAAAATGTAATTTTTAG-AATATCGA
* * * **
217281 GGTTAAAAATGGAATTTTTGGAA-AGTTTAA
1 GGGTAAAAATGTAATTTTTAGAATA--TCGA
217311 GGGTAAAAATGTAATTTTTAGAATATCGA
1 GGGTAAAAATGTAATTTTTAGAATATCGA
* * * *
217340 GGTTGAAAATGGAATTTTAGAGAAT-TCG-
1 GGGTAAAAATGTAATTTT-TAGAATATCGA
* **
217368 GGGTAAAAATGTAATTTTT-GAAAATTTA
1 GGGTAAAAATGTAATTTTTAGAATATCGA
* * * *
217396 GGGTTAAAAGGGAA-TTTTGGAAGT-TCGA
1 GGGTAAAAATGTAATTTTTAGAA-TATCGA
217424 GGGTAAAAATGTAATTT
1 GGGTAAAAATGTAATTT
217441 ATGGACAGTT
Statistics
Matches: 122, Mismatches: 29, Indels: 19
0.72 0.17 0.11
Matches are distributed among these distances:
26 3 0.02
27 5 0.04
28 43 0.35
29 24 0.20
30 46 0.38
31 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTAGAATATCGA
Found at i:217376 original size:28 final size:28
Alignment explanation
Indices: 217251--217440 Score: 136
Period size: 28 Copynumber: 6.6 Consensus size: 28
217241 AATGTTTGGG
* *
217251 GGGTAAAAATGTAATTTTTGGAAAAATCGA
1 GGGTAAAAATGTAA-TTTT-GAGAATTCGA
* * **
217281 GGTTAAAAATGGAATTTTTG-GAAAGTTTAA
1 GGGTAAAAATGTAA-TTTTGAG-AA-TTCGA
*
217311 GGGTAAAAATGTAATTTTTAGAATATCGA
1 GGGTAAAAATGTAATTTTGAGAAT-TCGA
* * *
217340 GGTTGAAAATGGAATTTTAGAGAATTCG-
1 GGGTAAAAATGTAATTTT-GAGAATTCGA
* *
217368 GGGTAAAAATGTAATTTTTGAAAATT-TA
1 GGGTAAAAATGTAA-TTTTGAGAATTCGA
* * *
217396 GGGTTAAAAGGGAATTTTG-GAAGTTCGA
1 GGGTAAAAATGTAATTTTGAGAA-TTCGA
217424 GGGTAAAAATGTAATTT
1 GGGTAAAAATGTAATTT
217441 ATGGACAGTT
Statistics
Matches: 123, Mismatches: 28, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
26 2 0.02
27 7 0.06
28 44 0.36
29 33 0.27
30 37 0.30
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (28 bp):
GGGTAAAAATGTAATTTTGAGAATTCGA
Found at i:218544 original size:3 final size:3
Alignment explanation
Indices: 218517--218610 Score: 59
Period size: 3 Copynumber: 30.7 Consensus size: 3
218507 TTTCTTTTTT
* * **
218517 TTA TTA GTTA TTA AT- TTA ATA TTA TTA TTA TTA TTA TTA ACA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
218562 TTA -AA GTTA -CA TTTA TTA TTA TTA TTA TTA TTAA ATA GTTA TTA TTA
1 TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA
218609 TT
1 TT
218611 TTTTAGAAAC
Statistics
Matches: 69, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
2 3 0.04
3 57 0.83
4 9 0.13
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:230519 original size:42 final size:41
Alignment explanation
Indices: 230473--230650 Score: 196
Period size: 42 Copynumber: 4.2 Consensus size: 41
230463 ACCGAACTGT
* *
230473 ATCATCGGATAAACTGAAGCAAATATACTGGCACATAAGTGC
1 ATCATCGGAT-AACTAAAGAAAATATACTGGCACATAAGTGC
* *
230515 ATCATCGGATGAACCAAAGAAAATATACTGGCACATTAGTGC
1 ATCATCGGAT-AACTAAAGAAAATATACTGGCACATAAGTGC
* * * *
230557 ATCATCGGATTAACTGAAGGAAATATA-TCGACACGTAAGTGC
1 ATCATCGGA-TAACTAAAGAAAATATACT-GGCACATAAGTGC
* * *
230599 ATCATCAGACTAACTAAAAAAAAATATACTCGCACATAAGTGC
1 ATCATCGGA-TAACT-AAAGAAAATATACTGGCACATAAGTGC
230642 ATCATCGGA
1 ATCATCGGA
230651 CAAGCCGAAG
Statistics
Matches: 112, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 82 0.73
43 28 0.25
44 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (41 bp):
ATCATCGGATAACTAAAGAAAATATACTGGCACATAAGTGC
Found at i:230599 original size:84 final size:85
Alignment explanation
Indices: 230473--230650 Score: 236
Period size: 84 Copynumber: 2.1 Consensus size: 85
230463 ACCGAACTGT
* * * *
230473 ATCATCGGATAAACTGAAGCAAATATACTGGCACATAAGTGCATCATCGGA-TGAAC-CAAAGAA
1 ATCATCGGATAAACTGAAGCAAATATACTGACACATAAGTGCATCATCAGACT-AACTAAAAAAA
* *
230536 AATATACTGGCACATTAGTGC
65 AATATACTCGCACATAAGTGC
* * *
230557 ATCATCGGATTAACTGAAGGAAATATA-TCGACACGTAAGTGCATCATCAGACTAACTAAAAAAA
1 ATCATCGGATAAACTGAAGCAAATATACT-GACACATAAGTGCATCATCAGACTAACTAAAAAAA
230621 AATATACTCGCACATAAGTGC
65 AATATACTCGCACATAAGTGC
230642 ATCATCGGA
1 ATCATCGGA
230651 CAAGCCGAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
83 1 0.01
84 47 0.57
85 34 0.41
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (85 bp):
ATCATCGGATAAACTGAAGCAAATATACTGACACATAAGTGCATCATCAGACTAACTAAAAAAAA
ATATACTCGCACATAAGTGC
Found at i:238392 original size:26 final size:26
Alignment explanation
Indices: 238339--238401 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
238329 AAATATTTAT
** *
238339 AAAAATTATAAAAATTCTATTTTTAA
1 AAAAATTATAAAAATTCTAAATTCAA
* *
238365 AAAAATTATAATAATTTTAAATTC-A
1 AAAAATTATAAAAATTCTAAATTCAA
238390 AAAAA-TATAAAA
1 AAAAATTATAAAA
238402 GAAGTTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
24 6 0.19
25 6 0.19
26 19 0.61
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (26 bp):
AAAAATTATAAAAATTCTAAATTCAA
Found at i:238611 original size:29 final size:30
Alignment explanation
Indices: 238574--238630 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
238564 AATTTTTGTG
238574 ATAATAAAAATATAATTTTTAAAAATTTAA
1 ATAATAAAAATATAATTTTTAAAAATTTAA
* *
238604 ATAA-AAAATTATTATTTTTAAAAATTT
1 ATAATAAAAATATAATTTTTAAAAATTT
238631 TAAAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
ATAATAAAAATATAATTTTTAAAAATTTAA
Found at i:238647 original size:23 final size:27
Alignment explanation
Indices: 238579--238639 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 27
238569 TTGTGATAAT
*
238579 AAAAA-TATAATTTTTAAAAATTTAAATA
1 AAAAATTATTATTTTTAAAAATTT--ATA
238607 AAAAATTATTATTTTTAAAAATTT-TA
1 AAAAATTATTATTTTTAAAAATTTATA
238633 AAAAATT
1 AAAAATT
238640 TTTTTTAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 9 0.29
28 5 0.16
29 17 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AAAAATTATTATTTTTAAAAATTTATA
Found at i:246243 original size:6 final size:6
Alignment explanation
Indices: 246234--246308 Score: 52
Period size: 6 Copynumber: 13.3 Consensus size: 6
246224 AATAGTGCAT
* * * *
246234 AATAAA AATAAA AATAAA TATAAA TATAAA ACTAAA TA-AAA AAT-AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
* * *
246280 CATGAA AGT-AA AAT--A AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA
246309 CACTCGAGTT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
4 4 0.07
5 12 0.22
6 39 0.71
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:246253 original size:16 final size:16
Alignment explanation
Indices: 246234--246308 Score: 59
Period size: 16 Copynumber: 4.9 Consensus size: 16
246224 AATAGTGCAT
246234 AATAAAAATAAAAATA
1 AATAAAAATAAAAATA
* *
246250 AATATAAAT-ATAA-A
1 AATAAAAATAAAAATA
* *
246264 ACTAAATA-AAAAATA
1 AATAAAAATAAAAATA
* *
246279 ACATGAAAGT-AAAATA
1 A-ATAAAAATAAAAATA
246295 AATAAAAATAAAAA
1 AATAAAAATAAAAA
246309 CACTCGAGTT
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
14 9 0.21
15 11 0.26
16 22 0.52
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (16 bp):
AATAAAAATAAAAATA
Found at i:246262 original size:18 final size:18
Alignment explanation
Indices: 246235--246306 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
246225 ATAGTGCATA
246235 ATAAAAATAAAAATAAAT
1 ATAAAAATAAAAATAAAT
* *
246253 ATAAATATAAAACTAAAT
1 ATAAAAATAAAAATAAAT
*
246271 A-AAAAAT-AACATGAAAGT
1 ATAAAAATAAAAAT-AAA-T
*
246289 AAAATAAATAAAAATAAA
1 ATAA-AAATAAAAATAAA
246307 AACACTCGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
16 3 0.07
17 8 0.19
18 19 0.44
19 2 0.05
20 7 0.16
21 4 0.09
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
ATAAAAATAAAAATAAAT
Found at i:248943 original size:40 final size:37
Alignment explanation
Indices: 248863--248946 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 37
248853 TATAATGACA
*
248863 AAATAAATAAATAACACATGAATAAAATAAATTAAAT
1 AAATAAATAAATAACACATGAATAAAATAAAGTAAAT
* *
248900 AAATACAATTAATAACACAATAGAATAAAATAATAGT-AGT
1 AAATA-AATAAATAACAC-AT-GAATAAAATAA-AGTAAAT
248940 AAATAAA
1 AAATAAA
248947 ATAACAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
37 5 0.12
38 11 0.28
39 4 0.10
40 18 0.45
41 2 0.05
ACGTcount: A:0.65, C:0.06, G:0.05, T:0.24
Consensus pattern (37 bp):
AAATAAATAAATAACACATGAATAAAATAAAGTAAAT
Found at i:249208 original size:21 final size:23
Alignment explanation
Indices: 249178--249223 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
249168 CATAAAAGAT
*
249178 AACACATAAA-AAAAATACATAA
1 AACACATAAATAAAAATAAATAA
*
249200 AACA-ATAAATAAAATTAAATAA
1 AACACATAAATAAAAATAAATAA
249222 AA
1 AA
249224 GCAAGAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (23 bp):
AACACATAAATAAAAATAAATAA
Found at i:249783 original size:26 final size:23
Alignment explanation
Indices: 249739--249792 Score: 54
Period size: 23 Copynumber: 2.2 Consensus size: 23
249729 GTATATCTCA
**
249739 AAAAAATTCTCTAAATATTGTAT
1 AAAAAATTCTCTAAATATTCCAT
*
249762 AAAAAATTCTCTGAATCTTATTCCAT
1 AAAAAATTCTCT-AA--ATATTCCAT
249788 AAAAA
1 AAAAA
249793 CTCCTTTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 12 0.48
24 2 0.08
26 11 0.44
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (23 bp):
AAAAAATTCTCTAAATATTCCAT
Found at i:251769 original size:19 final size:19
Alignment explanation
Indices: 251715--251772 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
251705 TATTTAGTTG
*
251715 TTTATTTTGACATTTAATTTA
1 TTTATTTT-TCATTT-ATTTA
* **
251736 TTGATTTTTTGTTTATTTA
1 TTTATTTTTCATTTATTTA
251755 TTTATTTTTCATTTATTT
1 TTTATTTTTCATTTATTT
251773 TCATGCCTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 20 0.67
20 3 0.10
21 7 0.23
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTATTTTTCATTTATTTA
Found at i:251925 original size:18 final size:18
Alignment explanation
Indices: 251794--251925 Score: 56
Period size: 18 Copynumber: 7.2 Consensus size: 18
251784 CCCAATTATT
*
251794 TTTATTATTTATATTT-A
1 TTTATTATTTTTATTTAA
* *
251811 TTTGTTTATTTTAGCATTTAA
1 TTT-ATTATTTT--TATTTAA
*
251832 TTT-TTATTTTTATTTAT
1 TTTATTATTTTTATTTAA
* * *
251849 TTTTTTATTATTTATCTAGT
1 TTTATTATT-TTTATTTA-A
* * *
251869 TGTTATTTATTTTCATGTCA
1 T-TTA-TTATTTTTATTTAA
* * *
251889 TTT-TT-TTGTTATCTCA
1 TTTATTATTTTTATTTAA
251905 TTTATTATTTTTATTTAA
1 TTTATTATTTTTATTTAA
251923 TTT
1 TTT
251926 GTATTTATTG
Statistics
Matches: 87, Mismatches: 17, Indels: 21
0.70 0.14 0.17
Matches are distributed among these distances:
16 11 0.13
17 15 0.17
18 22 0.25
19 16 0.18
20 7 0.08
21 11 0.13
22 5 0.06
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTATTATTTTTATTTAA
Found at i:252111 original size:4 final size:4
Alignment explanation
Indices: 252102--252127 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
252092 CGCTTATACT
252102 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
252128 ATTTATAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Done.