Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold41
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 81668
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:48 original size:36 final size:36
Alignment explanation
Indices: 1--79 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
*
1 CCACTGACTCTGAGACTGGTCCTTCTGGCACCGGCC
1 CCACTGACTCTGAGACTGGTCCTTCCGGCACCGGCC
*
37 CCACTGACTCTGAGACTGGTCCTTCCGGCACTGGCC
1 CCACTGACTCTGAGACTGGTCCTTCCGGCACCGGCC
73 CCACTGA
1 CCACTGA
80 GACCGGCCCC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.15, C:0.39, G:0.24, T:0.22
Consensus pattern (36 bp):
CCACTGACTCTGAGACTGGTCCTTCCGGCACCGGCC
Left flanking sequence: None
Right flanking sequence: Indices 80 -- 579
GACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTG
ACTCTGCGACTGGCCCCACTGAGACCGGCCCCACTGACTCTGAGACCGGTCCTTCTGGCACCGGC
CCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGC
GACTGGTCCTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCCG
GTACTGGCCCCACTGAGACCGGCCCCACTGACTCCGCGACTGGTCCTTCTGAGACTGGCCCTACC
GGTAGTGGTTCTGAGACTGGTCCTTCCGAAACTGGTCCTTCTGGTTCTGAGTCTGTCCCTACCGA
GACCGGTCCTTCTGAGACGGGTCCTTCGGCTACAGACTCTGGTTCCATCTCCGAACCTTCGTCAA
GTGCCTGGTCATCTGACATTTGCCCTCCCCCCATCACTATCACCA
Found at i:137 original size:15 final size:15
Alignment explanation
Indices: 117--232 Score: 72
Period size: 15 Copynumber: 6.9 Consensus size: 15
107 TCCTTCTGGC
117 ACCGGCCCCACTGAG
1 ACCGGCCCCACTGAG
132 ACCGGCCCCACTGACTCTGCG
1 ACCGGCCCCACTGA------G
*
153 ACTGGCCCCACTGAG
1 ACCGGCCCCACTGAG
168 ACCGGCCCCACTGACTCTGAG
1 ACCGG-CCC-C--A--CTGAG
* **
189 ACCGGTCCTTCTG-G
1 ACCGGCCCCACTGAG
203 CACCGGCCCCACTGAG
1 -ACCGGCCCCACTGAG
219 ACCGGCCCCACTGA
1 ACCGGCCCCACTGA
233 CTCTGCGACT
Statistics
Matches: 79, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
14 1 0.01
15 46 0.58
16 4 0.05
17 1 0.01
19 1 0.01
20 2 0.03
21 24 0.30
ACGTcount: A:0.17, C:0.45, G:0.25, T:0.13
Consensus pattern (15 bp):
ACCGGCCCCACTGAG
Left flanking sequence: Indices 1 -- 116
CCACTGACTCTGAGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGGC
ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGC
Right flanking sequence: Indices 233 -- 732
CTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCC
CCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCCGGTACTGGCCCCACTGAGACCGGC
CCCACTGACTCCGCGACTGGTCCTTCTGAGACTGGCCCTACCGGTAGTGGTTCTGAGACTGGTCC
TTCCGAAACTGGTCCTTCTGGTTCTGAGTCTGTCCCTACCGAGACCGGTCCTTCTGAGACGGGTC
CTTCGGCTACAGACTCTGGTTCCATCTCCGAACCTTCGTCAAGTGCCTGGTCATCTGACATTTGC
CCTCCCCCCATCACTATCACCATCCCTGAGACTGTCACCACCACGCAGACGATCTACGTTTCGAC
GATGTTCCTGATGGTCTTCTAAGAATATTTTAATATTCACGGGTGAATCAACCCACTTCATGATA
CCACTATTCACACCTCTTGGTTGAAGGTGCCAATTCTTTTCAACC
Found at i:157 original size:87 final size:87
Alignment explanation
Indices: 66--331 Score: 471
Period size: 87 Copynumber: 3.1 Consensus size: 87
56 TCCTTCCGGC
66 ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGA
1 ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGA
131 GACCGGCCCCACTGACTCTGCG
66 GACCGGCCCCACTGACTCTGCG
* *
153 ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGAGACCGGTCCTTCTGGCACCGGCCCCACTGA
1 ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGA
218 GACCGGCCCCACTGACTCTGCG
66 GACCGGCCCCACTGACTCTGCG
* **
240 ACTGGTCCTTCTG-GCACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTG
1 ACTGGCCCCACTGAG-ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTG
304 AGACCGGCCCCACTGACTCTGCG
65 AGACCGGCCCCACTGACTCTGCG
327 ACTGG
1 ACTGG
332 TCCTTCCGGT
Statistics
Matches: 171, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
86 1 0.01
87 170 0.99
ACGTcount: A:0.15, C:0.43, G:0.26, T:0.17
Consensus pattern (87 bp):
ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGA
GACCGGCCCCACTGACTCTGCG
Left flanking sequence: Indices 1 -- 65
CCACTGACTCTGAGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGGC
Right flanking sequence: Indices 332 -- 831
TCCTTCCGGTACTGGCCCCACTGAGACCGGCCCCACTGACTCCGCGACTGGTCCTTCTGAGACTG
GCCCTACCGGTAGTGGTTCTGAGACTGGTCCTTCCGAAACTGGTCCTTCTGGTTCTGAGTCTGTC
CCTACCGAGACCGGTCCTTCTGAGACGGGTCCTTCGGCTACAGACTCTGGTTCCATCTCCGAACC
TTCGTCAAGTGCCTGGTCATCTGACATTTGCCCTCCCCCCATCACTATCACCATCCCTGAGACTG
TCACCACCACGCAGACGATCTACGTTTCGACGATGTTCCTGATGGTCTTCTAAGAATATTTTAAT
ATTCACGGGTGAATCAACCCACTTCATGATACCACTATTCACACCTCTTGGTTGAAGGTGCCAAT
TCTTTTCAACCACTTGCATTGCGGAGTTCGTCTTTAATTCCCAACCACATTTCGGTTTGCTAAAT
TTGAACTCGAAGGTTTGTTTGTTTTATTTTTCGTTCAATTCTTGT
Found at i:160 original size:36 final size:36
Alignment explanation
Indices: 117--217 Score: 141
Period size: 36 Copynumber: 2.8 Consensus size: 36
107 TCCTTCTGGC
*
117 ACCGGCCCCACTGAGACCGGCCCCACTGACTCTGCG
1 ACCGGCCCCACTGAGACCGGCCCCACTGACTCTGAG
*
153 ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGAG
1 ACCGGCCCCACTGAGACCGGCCCCACTGACTCTGAG
* **
189 ACCGGTCCTTCTG-GCACCGGCCCCACTGA
1 ACCGGCCCCACTGAG-ACCGGCCCCACTGA
218 GACCGGCCCC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 1 0.02
36 57 0.98
ACGTcount: A:0.17, C:0.45, G:0.25, T:0.14
Consensus pattern (36 bp):
ACCGGCCCCACTGAGACCGGCCCCACTGACTCTGAG
Left flanking sequence: Indices 1 -- 116
CCACTGACTCTGAGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGGC
ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGC
Right flanking sequence: Indices 218 -- 717
GACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGCGACTGGTC
CTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCCGGTACTGGC
CCCACTGAGACCGGCCCCACTGACTCCGCGACTGGTCCTTCTGAGACTGGCCCTACCGGTAGTGG
TTCTGAGACTGGTCCTTCCGAAACTGGTCCTTCTGGTTCTGAGTCTGTCCCTACCGAGACCGGTC
CTTCTGAGACGGGTCCTTCGGCTACAGACTCTGGTTCCATCTCCGAACCTTCGTCAAGTGCCTGG
TCATCTGACATTTGCCCTCCCCCCATCACTATCACCATCCCTGAGACTGTCACCACCACGCAGAC
GATCTACGTTTCGACGATGTTCCTGATGGTCTTCTAAGAATATTTTAATATTCACGGGTGAATCA
ACCCACTTCATGATACCACTATTCACACCTCTTGGTTGAAGGTGC
Found at i:172 original size:51 final size:51
Alignment explanation
Indices: 30--181 Score: 234
Period size: 51 Copynumber: 3.0 Consensus size: 51
20 TCCTTCTGGC
* * *
30 ACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGGCACTGGCCCCACTGAG
1 ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGAG
81 ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGAG
1 ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGAG
* **
132 ACCGGCCCCACTGACTCTGCGACTGGCCCCACTGAG-ACCGGCCCCACTGA
1 ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTG-GCACCGGCCCCACTGA
182 CTCTGAGACC
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
51 93 0.99
52 1 0.01
ACGTcount: A:0.16, C:0.43, G:0.25, T:0.16
Consensus pattern (51 bp):
ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGAG
Left flanking sequence: Indices 1 -- 29
CCACTGACTCTGAGACTGGTCCTTCTGGC
Right flanking sequence: Indices 182 -- 681
CTCTGAGACCGGTCCTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTC
CTTCTGGCACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGAGACCGGC
CCCACTGACTCTGCGACTGGTCCTTCCGGTACTGGCCCCACTGAGACCGGCCCCACTGACTCCGC
GACTGGTCCTTCTGAGACTGGCCCTACCGGTAGTGGTTCTGAGACTGGTCCTTCCGAAACTGGTC
CTTCTGGTTCTGAGTCTGTCCCTACCGAGACCGGTCCTTCTGAGACGGGTCCTTCGGCTACAGAC
TCTGGTTCCATCTCCGAACCTTCGTCAAGTGCCTGGTCATCTGACATTTGCCCTCCCCCCATCAC
TATCACCATCCCTGAGACTGTCACCACCACGCAGACGATCTACGTTTCGACGATGTTCCTGATGG
TCTTCTAAGAATATTTTAATATTCACGGGTGAATCAACCCACTTC
Found at i:187 original size:21 final size:21
Alignment explanation
Indices: 127--193 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
117 ACCGGCCCCA
127 CTGAGACCGGCCCCACTGACT
1 CTGAGACCGGCCCCACTGACT
* *
148 CTGCGACTGG-CCC-C--A--
1 CTGAGACCGGCCCCACTGACT
163 CTGAGACCGGCCCCACTGACT
1 CTGAGACCGGCCCCACTGACT
184 CTGAGACCGG
1 CTGAGACCGG
194 TCCTTCTGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
15 8 0.22
16 3 0.08
17 2 0.06
19 2 0.06
20 3 0.08
21 18 0.50
ACGTcount: A:0.18, C:0.42, G:0.27, T:0.13
Consensus pattern (21 bp):
CTGAGACCGGCCCCACTGACT
Left flanking sequence: Indices 1 -- 126
CCACTGACTCTGAGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGGC
ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCA
Right flanking sequence: Indices 194 -- 693
TCCTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCG
GCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCT
GCGACTGGTCCTTCCGGTACTGGCCCCACTGAGACCGGCCCCACTGACTCCGCGACTGGTCCTTC
TGAGACTGGCCCTACCGGTAGTGGTTCTGAGACTGGTCCTTCCGAAACTGGTCCTTCTGGTTCTG
AGTCTGTCCCTACCGAGACCGGTCCTTCTGAGACGGGTCCTTCGGCTACAGACTCTGGTTCCATC
TCCGAACCTTCGTCAAGTGCCTGGTCATCTGACATTTGCCCTCCCCCCATCACTATCACCATCCC
TGAGACTGTCACCACCACGCAGACGATCTACGTTTCGACGATGTTCCTGATGGTCTTCTAAGAAT
ATTTTAATATTCACGGGTGAATCAACCCACTTCATGATACCACTA
Found at i:211 original size:51 final size:51
Alignment explanation
Indices: 156--268 Score: 208
Period size: 51 Copynumber: 2.2 Consensus size: 51
146 CTCTGCGACT
156 GGCCCCACTGAGACCGGCCCCACTGACTCTGAGACCGGTCCTTCTGGCACC
1 GGCCCCACTGAGACCGGCCCCACTGACTCTGAGACCGGTCCTTCTGGCACC
* *
207 GGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACC
1 GGCCCCACTGAGACCGGCCCCACTGACTCTGAGACCGGTCCTTCTGGCACC
258 GGCCCCACTGA
1 GGCCCCACTGA
269 CTCTGCGACT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.15, C:0.43, G:0.26, T:0.16
Consensus pattern (51 bp):
GGCCCCACTGAGACCGGCCCCACTGACTCTGAGACCGGTCCTTCTGGCACC
Left flanking sequence: Indices 1 -- 155
CCACTGACTCTGAGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGGC
ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGA
GACCGGCCCCACTGACTCTGCGACT
Right flanking sequence: Indices 269 -- 768
CTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTC
CTTCCGGTACTGGCCCCACTGAGACCGGCCCCACTGACTCCGCGACTGGTCCTTCTGAGACTGGC
CCTACCGGTAGTGGTTCTGAGACTGGTCCTTCCGAAACTGGTCCTTCTGGTTCTGAGTCTGTCCC
TACCGAGACCGGTCCTTCTGAGACGGGTCCTTCGGCTACAGACTCTGGTTCCATCTCCGAACCTT
CGTCAAGTGCCTGGTCATCTGACATTTGCCCTCCCCCCATCACTATCACCATCCCTGAGACTGTC
ACCACCACGCAGACGATCTACGTTTCGACGATGTTCCTGATGGTCTTCTAAGAATATTTTAATAT
TCACGGGTGAATCAACCCACTTCATGATACCACTATTCACACCTCTTGGTTGAAGGTGCCAATTC
TTTTCAACCACTTGCATTGCGGAGTTCGTCTTTAATTCCCAACCA
Found at i:249 original size:138 final size:134
Alignment explanation
Indices: 1--390 Score: 550
Period size: 138 Copynumber: 2.8 Consensus size: 134
* **
1 CCACTGACTCTGAGACTGGTCCTTCTG-GCACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGG
1 CCACTGACTCTG-GACTGGCCCCACTGAG-ACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGG
65 CACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTG
64 CACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACT-
130 AGAC-CGG
128 -GACTCGG
* *
137 CCCCACTGACTCTGCGACTGGCCCCACTGAGACCGGCCCCACTGACTCTGAGACCGGTCCTTCTG
1 --CCACTGACTCTG-GACTGGCCCCACTGAGACCGGCCCCACTGACTCTGAGACTGGTCCTTCCG
*
202 GCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACT
63 GCACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACT
*
267 GACTCTG
128 GACTCGG
* * * *
274 CGACTGGTCCTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCC
1 CCACT-G-AC-TCTGG-ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGAGACTGGTCCTTCC
* *
339 GGTACTGGCCCCACTGAGACCGGCCCCACTGACTCCGCGACTGGTCCTTCTG
62 GGCACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTG
391 AGACTGGCCC
Statistics
Matches: 229, Mismatches: 17, Indels: 12
0.89 0.07 0.05
Matches are distributed among these distances:
135 4 0.02
136 4 0.02
137 4 0.02
138 216 0.94
139 1 0.00
ACGTcount: A:0.14, C:0.42, G:0.25, T:0.19
Consensus pattern (134 bp):
CCACTGACTCTGGACTGGCCCCACTGAGACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGGCA
CTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGAC
TCGG
Left flanking sequence: None
Right flanking sequence: Indices 391 -- 890
AGACTGGCCCTACCGGTAGTGGTTCTGAGACTGGTCCTTCCGAAACTGGTCCTTCTGGTTCTGAG
TCTGTCCCTACCGAGACCGGTCCTTCTGAGACGGGTCCTTCGGCTACAGACTCTGGTTCCATCTC
CGAACCTTCGTCAAGTGCCTGGTCATCTGACATTTGCCCTCCCCCCATCACTATCACCATCCCTG
AGACTGTCACCACCACGCAGACGATCTACGTTTCGACGATGTTCCTGATGGTCTTCTAAGAATAT
TTTAATATTCACGGGTGAATCAACCCACTTCATGATACCACTATTCACACCTCTTGGTTGAAGGT
GCCAATTCTTTTCAACCACTTGCATTGCGGAGTTCGTCTTTAATTCCCAACCACATTTCGGTTTG
CTAAATTTGAACTCGAAGGTTTGTTTGTTTTATTTTTCGTTCAATTCTTGTGATATATGACACTT
TAATGGCTGCTACAATAGCATTTCGATACACAATAAAGGTAATAA
Found at i:266 original size:36 final size:36
Alignment explanation
Indices: 219--304 Score: 172
Period size: 36 Copynumber: 2.4 Consensus size: 36
209 CCCCACTGAG
219 ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGC
1 ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGC
255 ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGC
1 ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGC
291 ACCGGCCCCACTGA
1 ACCGGCCCCACTGA
305 GACCGGCCCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.13, C:0.43, G:0.24, T:0.20
Consensus pattern (36 bp):
ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGC
Left flanking sequence: Indices 1 -- 218
CCACTGACTCTGAGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGGC
ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGA
GACCGGCCCCACTGACTCTGCGACTGGCCCCACTGAGACCGGCCCCACTGACTCTGAGACCGGTC
CTTCTGGCACCGGCCCCACTGAG
Right flanking sequence: Indices 305 -- 804
GACCGGCCCCACTGACTCTGCGACTGGTCCTTCCGGTACTGGCCCCACTGAGACCGGCCCCACTG
ACTCCGCGACTGGTCCTTCTGAGACTGGCCCTACCGGTAGTGGTTCTGAGACTGGTCCTTCCGAA
ACTGGTCCTTCTGGTTCTGAGTCTGTCCCTACCGAGACCGGTCCTTCTGAGACGGGTCCTTCGGC
TACAGACTCTGGTTCCATCTCCGAACCTTCGTCAAGTGCCTGGTCATCTGACATTTGCCCTCCCC
CCATCACTATCACCATCCCTGAGACTGTCACCACCACGCAGACGATCTACGTTTCGACGATGTTC
CTGATGGTCTTCTAAGAATATTTTAATATTCACGGGTGAATCAACCCACTTCATGATACCACTAT
TCACACCTCTTGGTTGAAGGTGCCAATTCTTTTCAACCACTTGCATTGCGGAGTTCGTCTTTAAT
TCCCAACCACATTTCGGTTTGCTAAATTTGAACTCGAAGGTTTGT
Found at i:311 original size:15 final size:15
Alignment explanation
Indices: 291--319 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
281 TCCTTCTGGC
291 ACCGGCCCCACTGAG
1 ACCGGCCCCACTGAG
306 ACCGGCCCCACTGA
1 ACCGGCCCCACTGA
320 CTCTGCGACT
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:0.21, C:0.48, G:0.24, T:0.07
Consensus pattern (15 bp):
ACCGGCCCCACTGAG
Left flanking sequence: Indices 1 -- 290
CCACTGACTCTGAGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGGC
ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGA
GACCGGCCCCACTGACTCTGCGACTGGCCCCACTGAGACCGGCCCCACTGACTCTGAGACCGGTC
CTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGC
CCCACTGACTCTGCGACTGGTCCTTCTGGC
Right flanking sequence: Indices 320 -- 819
CTCTGCGACTGGTCCTTCCGGTACTGGCCCCACTGAGACCGGCCCCACTGACTCCGCGACTGGTC
CTTCTGAGACTGGCCCTACCGGTAGTGGTTCTGAGACTGGTCCTTCCGAAACTGGTCCTTCTGGT
TCTGAGTCTGTCCCTACCGAGACCGGTCCTTCTGAGACGGGTCCTTCGGCTACAGACTCTGGTTC
CATCTCCGAACCTTCGTCAAGTGCCTGGTCATCTGACATTTGCCCTCCCCCCATCACTATCACCA
TCCCTGAGACTGTCACCACCACGCAGACGATCTACGTTTCGACGATGTTCCTGATGGTCTTCTAA
GAATATTTTAATATTCACGGGTGAATCAACCCACTTCATGATACCACTATTCACACCTCTTGGTT
GAAGGTGCCAATTCTTTTCAACCACTTGCATTGCGGAGTTCGTCTTTAATTCCCAACCACATTTC
GGTTTGCTAAATTTGAACTCGAAGGTTTGTTTGTTTTATTTTTCG
Found at i:397 original size:15 final size:15
Alignment explanation
Indices: 377--447 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 15
367 CTGACTCCGC
377 GACTGGTCCTTCTGA
1 GACTGGTCCTTCTGA
* * *
392 GACTGGCCCTACCG-
1 GACTGGTCCTTCTGA
*
406 GTAGTGGT---TCTGA
1 G-ACTGGTCCTTCTGA
*
419 GACTGGTCCTTCCGA
1 GACTGGTCCTTCTGA
*
434 AACTGGTCCTTCTG
1 GACTGGTCCTTCTG
448 GTTCTGAGTC
Statistics
Matches: 40, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
12 7 0.17
13 1 0.03
14 1 0.03
15 31 0.77
ACGTcount: A:0.14, C:0.28, G:0.28, T:0.30
Consensus pattern (15 bp):
GACTGGTCCTTCTGA
Left flanking sequence: Indices 1 -- 376
CCACTGACTCTGAGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGGC
ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGA
GACCGGCCCCACTGACTCTGCGACTGGCCCCACTGAGACCGGCCCCACTGACTCTGAGACCGGTC
CTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGC
CCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGC
GACTGGTCCTTCCGGTACTGGCCCCACTGAGACCGGCCCCACTGACTCCGC
Right flanking sequence: Indices 448 -- 947
GTTCTGAGTCTGTCCCTACCGAGACCGGTCCTTCTGAGACGGGTCCTTCGGCTACAGACTCTGGT
TCCATCTCCGAACCTTCGTCAAGTGCCTGGTCATCTGACATTTGCCCTCCCCCCATCACTATCAC
CATCCCTGAGACTGTCACCACCACGCAGACGATCTACGTTTCGACGATGTTCCTGATGGTCTTCT
AAGAATATTTTAATATTCACGGGTGAATCAACCCACTTCATGATACCACTATTCACACCTCTTGG
TTGAAGGTGCCAATTCTTTTCAACCACTTGCATTGCGGAGTTCGTCTTTAATTCCCAACCACATT
TCGGTTTGCTAAATTTGAACTCGAAGGTTTGTTTGTTTTATTTTTCGTTCAATTCTTGTGATATA
TGACACTTTAATGGCTGCTACAATAGCATTTCGATACACAATAAAGGTAATAATAATTAATCTCA
CTAGTTACATGTTCTTCCTATTTTTTTCGGCAAGGATGGTGACAA
Found at i:397 original size:51 final size:51
Alignment explanation
Indices: 255--400 Score: 240
Period size: 51 Copynumber: 2.9 Consensus size: 51
245 TCCTTCTGGC
*
255 ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGAG
1 ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACTGGCCCCACTGAG
* *
306 ACCGGCCCCACTGACTCTGCGACTGGTCCTTCCGGTACTGGCCCCACTGAG
1 ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACTGGCCCCACTGAG
*
357 ACCGGCCCCACTGACTCCGCGACTGGTCCTTCTGAG-ACTGGCCC
1 ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTG-GCACTGGCCC
401 TACCGGTAGT
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 88 0.99
52 1 0.01
ACGTcount: A:0.14, C:0.42, G:0.25, T:0.18
Consensus pattern (51 bp):
ACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACTGGCCCCACTGAG
Left flanking sequence: Indices 1 -- 254
CCACTGACTCTGAGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGGC
ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGA
GACCGGCCCCACTGACTCTGCGACTGGCCCCACTGAGACCGGCCCCACTGACTCTGAGACCGGTC
CTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGC
Right flanking sequence: Indices 401 -- 900
TACCGGTAGTGGTTCTGAGACTGGTCCTTCCGAAACTGGTCCTTCTGGTTCTGAGTCTGTCCCTA
CCGAGACCGGTCCTTCTGAGACGGGTCCTTCGGCTACAGACTCTGGTTCCATCTCCGAACCTTCG
TCAAGTGCCTGGTCATCTGACATTTGCCCTCCCCCCATCACTATCACCATCCCTGAGACTGTCAC
CACCACGCAGACGATCTACGTTTCGACGATGTTCCTGATGGTCTTCTAAGAATATTTTAATATTC
ACGGGTGAATCAACCCACTTCATGATACCACTATTCACACCTCTTGGTTGAAGGTGCCAATTCTT
TTCAACCACTTGCATTGCGGAGTTCGTCTTTAATTCCCAACCACATTTCGGTTTGCTAAATTTGA
ACTCGAAGGTTTGTTTGTTTTATTTTTCGTTCAATTCTTGTGATATATGACACTTTAATGGCTGC
TACAATAGCATTTCGATACACAATAAAGGTAATAATAATTAATCT
Found at i:440 original size:27 final size:27
Alignment explanation
Indices: 386--440 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
376 CGACTGGTCC
** *
386 TTCTGAGACTGGCCCTACCGGTAGTGG
1 TTCTGAGACTGGCCCTACCGAAACTGG
* *
413 TTCTGAGACTGGTCCTTCCGAAACTGG
1 TTCTGAGACTGGCCCTACCGAAACTGG
440 T
1 T
441 CCTTCTGGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.16, C:0.25, G:0.29, T:0.29
Consensus pattern (27 bp):
TTCTGAGACTGGCCCTACCGAAACTGG
Left flanking sequence: Indices 1 -- 385
CCACTGACTCTGAGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGGC
ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGA
GACCGGCCCCACTGACTCTGCGACTGGCCCCACTGAGACCGGCCCCACTGACTCTGAGACCGGTC
CTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGC
CCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGC
GACTGGTCCTTCCGGTACTGGCCCCACTGAGACCGGCCCCACTGACTCCGCGACTGGTCC
Right flanking sequence: Indices 441 -- 940
CCTTCTGGTTCTGAGTCTGTCCCTACCGAGACCGGTCCTTCTGAGACGGGTCCTTCGGCTACAGA
CTCTGGTTCCATCTCCGAACCTTCGTCAAGTGCCTGGTCATCTGACATTTGCCCTCCCCCCATCA
CTATCACCATCCCTGAGACTGTCACCACCACGCAGACGATCTACGTTTCGACGATGTTCCTGATG
GTCTTCTAAGAATATTTTAATATTCACGGGTGAATCAACCCACTTCATGATACCACTATTCACAC
CTCTTGGTTGAAGGTGCCAATTCTTTTCAACCACTTGCATTGCGGAGTTCGTCTTTAATTCCCAA
CCACATTTCGGTTTGCTAAATTTGAACTCGAAGGTTTGTTTGTTTTATTTTTCGTTCAATTCTTG
TGATATATGACACTTTAATGGCTGCTACAATAGCATTTCGATACACAATAAAGGTAATAATAATT
AATCTCACTAGTTACATGTTCTTCCTATTTTTTTCGGCAAGGATG
Found at i:478 original size:36 final size:36
Alignment explanation
Indices: 410--483 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
400 CTACCGGTAG
* *
410 TGGTTCTGAGACTGGTCCTTCCGAAACTGGTCCTTC
1 TGGTTCTGAGACTGGTCCTACCGAAACCGGTCCTTC
* *
446 TGGTTCTGAGTCT-GTCCCTACCGAGACCGGTCCTTC
1 TGGTTCTGAGACTGGT-CCTACCGAAACCGGTCCTTC
482 TG
1 TG
484 AGACGGGTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 2 0.06
36 31 0.94
ACGTcount: A:0.12, C:0.30, G:0.26, T:0.32
Consensus pattern (36 bp):
TGGTTCTGAGACTGGTCCTACCGAAACCGGTCCTTC
Left flanking sequence: Indices 1 -- 409
CCACTGACTCTGAGACTGGTCCTTCTGGCACCGGCCCCACTGACTCTGAGACTGGTCCTTCCGGC
ACTGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGA
GACCGGCCCCACTGACTCTGCGACTGGCCCCACTGAGACCGGCCCCACTGACTCTGAGACCGGTC
CTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGC
CCCACTGACTCTGCGACTGGTCCTTCTGGCACCGGCCCCACTGAGACCGGCCCCACTGACTCTGC
GACTGGTCCTTCCGGTACTGGCCCCACTGAGACCGGCCCCACTGACTCCGCGACTGGTCCTTCTG
AGACTGGCCCTACCGGTAG
Right flanking sequence: Indices 484 -- 983
AGACGGGTCCTTCGGCTACAGACTCTGGTTCCATCTCCGAACCTTCGTCAAGTGCCTGGTCATCT
GACATTTGCCCTCCCCCCATCACTATCACCATCCCTGAGACTGTCACCACCACGCAGACGATCTA
CGTTTCGACGATGTTCCTGATGGTCTTCTAAGAATATTTTAATATTCACGGGTGAATCAACCCAC
TTCATGATACCACTATTCACACCTCTTGGTTGAAGGTGCCAATTCTTTTCAACCACTTGCATTGC
GGAGTTCGTCTTTAATTCCCAACCACATTTCGGTTTGCTAAATTTGAACTCGAAGGTTTGTTTGT
TTTATTTTTCGTTCAATTCTTGTGATATATGACACTTTAATGGCTGCTACAATAGCATTTCGATA
CACAATAAAGGTAATAATAATTAATCTCACTAGTTACATGTTCTTCCTATTTTTTTCGGCAAGGA
TGGTGACAACTAGTCCGTGAATGACCAGAGTTTTAGTCTACTGTG
Found at i:32393 original size:228 final size:228
Alignment explanation
Indices: 31975--32429 Score: 856
Period size: 228 Copynumber: 2.0 Consensus size: 228
31965 AACACTCAAG
* *
31975 ATGCAAATTTTCGTTAAGACTTTGACCGGTAAGACCATCACCCTCGAGGTTGAGTCCTCGGACAC
1 ATGCAAATTTTCGTCAAGACCTTGACCGGTAAGACCATCACCCTCGAGGTTGAGTCCTCGGACAC
32040 CATTGACAACGTCAAGTCCAAGATTCAGGACAAGGAAGGTATTCCTCCGGACCAGCAGCGTCTTA
66 CATTGACAACGTCAAGTCCAAGATTCAGGACAAGGAAGGTATTCCTCCGGACCAGCAGCGTCTTA
32105 TCTTTGCTGGTAAGCAGTTGGAAGACGGCAGAACCTTGTCCGACTACAACATCCAGAAGGAGTCT
131 TCTTTGCTGGTAAGCAGTTGGAAGACGGCAGAACCTTGTCCGACTACAACATCCAGAAGGAGTCT
32170 ACTCTTCACTTGGTGCTCAGATTGAGAGGTGGT
196 ACTCTTCACTTGGTGCTCAGATTGAGAGGTGGT
* * * *
32203 ATGCAGATTTTTGTCAAGACCTTGACCGGTAAGACCATTACCCTCGAGGTTGAGTCTTCGGACAC
1 ATGCAAATTTTCGTCAAGACCTTGACCGGTAAGACCATCACCCTCGAGGTTGAGTCCTCGGACAC
32268 CATTGACAACGTCAAGTCCAAGATTCAGGACAAGGAAGGTATTCCTCCGGACCAGCAGCGTCTTA
66 CATTGACAACGTCAAGTCCAAGATTCAGGACAAGGAAGGTATTCCTCCGGACCAGCAGCGTCTTA
32333 TCTTTGCTGGTAAGCAGTTGGAAGACGGCAGAACCTTGTCCGACTACAACATCCAGAAGGAGTCT
131 TCTTTGCTGGTAAGCAGTTGGAAGACGGCAGAACCTTGTCCGACTACAACATCCAGAAGGAGTCT
32398 ACTCTTCACTTGGTGCTCAGATTGAGAGGTGG
196 ACTCTTCACTTGGTGCTCAGATTGAGAGGTGG
32430 CCAGTAAGGC
Statistics
Matches: 221, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
228 221 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.25
Consensus pattern (228 bp):
ATGCAAATTTTCGTCAAGACCTTGACCGGTAAGACCATCACCCTCGAGGTTGAGTCCTCGGACAC
CATTGACAACGTCAAGTCCAAGATTCAGGACAAGGAAGGTATTCCTCCGGACCAGCAGCGTCTTA
TCTTTGCTGGTAAGCAGTTGGAAGACGGCAGAACCTTGTCCGACTACAACATCCAGAAGGAGTCT
ACTCTTCACTTGGTGCTCAGATTGAGAGGTGGT
Left flanking sequence: Indices 31475 -- 31974
AAAATAGCTCAATAAACCAATTCGAGCCCGCCTAGCCTAAACGATTTTTCTCCTCTTTAGTTACG
GGAATATCCATGATATACCTCACACAAACCCCTCTTTTCCCTTTGCTCCCGACTCCCGCACGTTC
CCCACTCTTCGACTTCGCTGGCTTGACCCCTATTTTGCAACGTTGTAAACTATGATTTTGAGCCC
GTGACCAAAAAGCAATGCCTGGATTTGTTGCTTTTCAAAAAGTTCGCCAATCTCCGACAGTGAGA
ACCTTCGATCTTGCTAACAAAGACTAAGGCTACGTTTTGCAAATTGCGGACACGGTCACACTAAG
GCAGTGCTTGCTTAGCGAAGCGTCTCACTTGACTTTCCGCGCCACTTTTATGCACGTGTAGCGTC
CGTCGGAAACAAGGATTGTGTGGAGTGCATATATAGGGCGCGCATTATATAAAGACCATAAGTTT
GCCACCCACGATATACAACGCGAACATATTGAATTAACACTCAAG
Right flanking sequence: Indices 32430 -- 32929
CCAGTAAGGCTTCACCTCAGTATTTAGCTGAACTATTATGAATGTATGAGCTCGAGGTAATCATG
CGTAGTGATGGGATTAGTTTGTCGCCTGACTAATCCGATCGTTGTTCGAATACAACAATCATGTG
CATTAAAAAAATAACCTGAAGCCTTTATATAAACCATTGCAAGAAGCATTAAACGTCTAAATCCA
TGAACTGAAACAAAACCGACCCAAATACCAAACCTAATACGCCTCTTCCACCAATGTATCCAAAT
TGGCAACCAAAAGTTTTCCCTGTCGGGGCAAGTCCAAAGACTTTACGCCGAACCGAAGGTCCTCT
ACAACCGTGGAAACATCATCCGCCTCAATGGAGGTACGCTTGAGGCCCGGGGTGCCCATATCAGA
GCGGTAACGATGAATGTCAAGACGGTAAGTCTTCAACTTTTCCGCATCGTCGCAGAGTTGCAAAA
TCTTCTCAGCTTTAGCCGGGATAGTTGAATCGGGTACGTTAGTTA
Found at i:38783 original size:18 final size:18
Alignment explanation
Indices: 38762--38797 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
38752 CTTGGACTTA
38762 TTTCTCTCCTTCTTCTCC
1 TTTCTCTCCTTCTTCTCC
38780 TTTCTCTCCTTCTTCTCC
1 TTTCTCTCCTTCTTCTCC
38798 CGTTTCTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTCTCTCCTTCTTCTCC
Left flanking sequence: Indices 38262 -- 38761
CGTTGAGCAAGGACTCAGAAATAGCCACCACCGAGGCCACGTGCTCGGCGGATGGCAAGTCAATG
TAGGCAAAACCCTTAATCTTTTTCTCCTTCTTAGGGATGTTGATTCTTGACATGTCCTCCTCGAC
TACACTAGGCTCCAACTCTGAGGTCTTGGCCACAATGAAACGAACGAGGTCGTCACGGGTGGTGT
CAAACGACATGTTTCCAATCCACACACCAAATGGGGACCGCTTGGGGGTATCGGGCTCGGGCTCT
TTGCCGTCCTCGGTAAGCGGCTTAACCTTGGCCTGCTTACGCTCCAACTTGGCAAGATCAAGCTT
ACCCTTCTTCAACAAACGCTGTTGCTTCTTGTTCAACGCGGGCTCAGCGTTCAAGTCGATCTCAA
TTTCATCCGACAAGGCCTTGGTGGTCTCATGCTCCTCGTCGGCGTCGGCGTGCAGGTCCAAGGTG
GCCACTTCGGACTCCAGAGGCAACTCATCGACGTCCTTGGACTTA
Right flanking sequence: Indices 38798 -- 39297
CGTTTCTCACTCTTATCTTTACCCATGGCTCTACCTCTTGTCGCAGCACCTCCGATGAGATGAGT
CGCAGCGAGGTGCGCGGGCACACAACCGTATACATGATATCGTTTCCGAATTTAAAGTGGGCAGT
CTACACGCATTAAGCTCGAAGAAATTATTCAGTACAAACTTCATTCATATTCAAAACAATAGTGT
CCCTTAGTGGGCGTGCCCGTCCAAAGGCTTGTGGTTGTGGCGTTCAAACTCCTCCGCCGTCACCT
GGATGTAGTCTGGGTCGTTCTTGTGACGCTCAAACTCCTCAGAAGTCACCTCTTCGTACACAGAA
AAGGTGTCGTACTCACCCAGCGACGCAGTGGAGATCGCCGACGACTGCTTACGAGCCAAAGCGCC
CGCGGGAACCGCGGGAACGACAGCGTCGTTGGGGGTAGCCGACTGCGACATCGACCGCTGCTTGG
CCGCGGACGACGCAGTGCGCACAGGCGCCTGCTTGCCGTCGTCCT
Found at i:41486 original size:21 final size:21
Alignment explanation
Indices: 41460--41500 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
41450 GGTCGCAAGC
*
41460 TCCTCGGCCTTCTCCTCGGCG
1 TCCTCGGCCTTCACCTCGGCG
*
41481 TCCTCGGCCTTGACCTCGGC
1 TCCTCGGCCTTCACCTCGGC
41501 AGCAGCAGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.02, C:0.46, G:0.24, T:0.27
Consensus pattern (21 bp):
TCCTCGGCCTTCACCTCGGCG
Left flanking sequence: Indices 40960 -- 41459
TTTTGCCCTCAAGCTTCTTGGTGAACTTGGCAAAGTCCAGACGCAACGACTGCTCGTGGCCCTTT
TGCTTGTTGGACAAGTCCAACTGGCGACGCGACTCGTCCTCCTCGCGGGTCTTGCCCACCGCGTC
GTTGATGTTGGCCAACACAGGCGCCACCCGCTTGGCGGCCATGTCCATCAAGTCCTGCTGCTTCA
TCTTAAGACCACCGCCCAAGTCGATCATGGCGTCGGGGTCGTCGGCAGTGCGAGTGGACAGCAGG
ATCCCCTGCTGCTGCAACTCCATGTACCGCTGGAGCAACGCCGGCTGGTCCTTGAACTGCTCGAG
GTTGGCGTCGGACTCGATCTTAGTGAACTTGTCGGCGGGATCGACGTGGAGGCCGTCCGTCGGCG
GCTCCTCCTTGATGCGCTGCTCGATGCCGTCAGTGGCGTCGCCCTCGACGTTGACAGCCTCGCCA
GCGGCGCCCAAGTCCGTCACAAGCTTTTCGCGCTCGGTCGCAAGC
Right flanking sequence: Indices 41501 -- 42000
AGCAGCAGCCTTGTTGATGTGCTTCTCGACCTTGGGGTCCTCAGCAAGCTCCTCGAGCTTGGCCT
CCTCGGAGTCAGGCACCACCGAGTCGTCGGCGGTGTCCGCAGGCTCAGCGGACTCCGTGAGCTCG
GCGATGGCGACGGGCTGGGTGGCGTCAACGTCCGCGGCATCGGTCTCGGCGGCATCCTTGGCCTC
GAGCTCGGCGTCGGTCAACGGACGCTCCAGCTGGACGTCGTCGGCGTCGACAGCCGCGTCGCCAG
CGTCAGCGGCAGCGGTCTTGGGAGCAGCCTCCTCGGTGGTGGTACCGTCCTTCTTGGCGGCCGTG
GGCTTTTTGGCGCCCTTGATGTTCTGGTAGCCGCGGTTGCGGAAGCGCTCGGGCACCTGGATCGC
GTCCAACTTGTTCAGCTCCTTGAATTGCTGGTGCAAGTTGACCTTGGCCTTTTCGTCCTCGGCGT
TGCCGCCACGGAAAGGCGACTCCCACGCCTCGCCCTGCACCACCT
Found at i:81020 original size:36 final size:36
Alignment explanation
Indices: 80980--81188 Score: 409
Period size: 36 Copynumber: 5.8 Consensus size: 36
80970 ACCCCCGAGT
*
80980 CGCTGTCGAGTTCGTCTGAGACTCTGACCTCCAAGA
1 CGCTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGA
81016 CGCTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGA
1 CGCTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGA
81052 CGCTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGA
1 CGCTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGA
81088 CGCTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGA
1 CGCTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGA
81124 CGCTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGA
1 CGCTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGA
81160 CGCTGTCGAGTTCGTCTGAGACCCTGACC
1 CGCTGTCGAGTTCGTCTGAGACCCTGACC
81189 NTCTGACCTC
Statistics
Matches: 172, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 172 1.00
ACGTcount: A:0.19, C:0.33, G:0.25, T:0.23
Consensus pattern (36 bp):
CGCTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGA
Left flanking sequence: Indices 80480 -- 80979
ATTGAGCTCCTCGTCGATGTCTTCAACAGCTTCCAGTTCGTCAGAATCCGAGACCTCGACCGAGT
CGTCTTCGTCCGAAAAGGAAAGCAGCACCTCAGAGCTCTCGTCCTGTCTTACAGTAACGATCACT
ACGGTAACCACTCCCGAGGTTTCGGTCCATGAGTCTACACTGTCAGAGTCCACACTCGAAACTTC
CTCGTCTGCGCTGACCACTGAGTCACTGACTTTGTCTAGTTCTCTGGTTTCTGAGTCGCAAGGAA
GTTCTTCATCGTCGCTGACTGAATCGAGCTCTCTGGCTACGGAGTCACTGTTCACTTCCACCACT
GCGACCTCTGAACTGAGTGCGTCCTCGTCTTCCACTTTAGAGTCGCTGACTGGCTCCCTGAGCCT
GGAGGTGTCAACTTCATCTACATCTGAAGAGCTGTGCATTACTACAACGACGACCACCGTCACTA
CACCTGAAGTTACCGTCTACGAATCGACAACTGTGACCCCCGAGT
Right flanking sequence: Indices 81189 -- 81668
NTCTGACCTCCGAGACGCTGTCGGGTTCTTCAGGTTCTGTGACTATTGAGTCACTGACAGGTTCC
GAGTCTTCCACCTCTGCCTCGGAAGAGACACTGTCGAGTTTCTCTGAGACCGAATCTACCACTCA
GACACGGTCTACGGAGATCCCTCCCCCTATTGTGACCTCCAACCCCCCGCCTACCAACCCTCCAG
TGAGCCCGCCTCCTACCAACCCTCCGGTGAGCCCGCCTCCTACCAACCCTCCGGTGAGCCCACCT
CCCACCAACCCTCCGGTGAGCCCGCCTCCCACCAACCCTCCGGTGAGCCCACCTCCCACCAACCC
TCCGGTGAGCCCGCCTCCCACCAACCCTCCGGTGAACCCTCCCACCAACCCCCCGGTGGCTCCCC
CGGAGAACCCCACCAACCCCCCGGTGGCTCCCCCGGAGAACCCTGCTAACCCCCCGGTGAGTCCC
CCTGAGAACCCCACCAACCCCCCGG
Found at i:81401 original size:27 final size:27
Alignment explanation
Indices: 81371--81571 Score: 318
Period size: 27 Copynumber: 7.6 Consensus size: 27
81361 CCCCCCGCCT
* *
81371 ACCAACCCTCCAGTGAGCCCGCCTCCT
1 ACCAACCCTCCGGTGAGCCCGCCTCCC
*
81398 ACCAACCCTCCGGTGAGCCCGCCTCCT
1 ACCAACCCTCCGGTGAGCCCGCCTCCC
*
81425 ACCAACCCTCCGGTGAGCCCACCTCCC
1 ACCAACCCTCCGGTGAGCCCGCCTCCC
81452 ACCAACCCTCCGGTGAGCCCGCCTCCC
1 ACCAACCCTCCGGTGAGCCCGCCTCCC
*
81479 ACCAACCCTCCGGTGAGCCCACCTCCC
1 ACCAACCCTCCGGTGAGCCCGCCTCCC
81506 ACCAACCCTCCGGTGAGCCCGCCTCCC
1 ACCAACCCTCCGGTGAGCCCGCCTCCC
*
81533 ACCAACCCTCCGGTGA--AC-CCTCCC
1 ACCAACCCTCCGGTGAGCCCGCCTCCC
*
81557 ACCAACCCCCCGGTG
1 ACCAACCCTCCGGTG
81572 GCTCCCCCGG
Statistics
Matches: 166, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
24 20 0.12
25 1 0.01
27 145 0.87
ACGTcount: A:0.17, C:0.54, G:0.16, T:0.12
Consensus pattern (27 bp):
ACCAACCCTCCGGTGAGCCCGCCTCCC
Left flanking sequence: Indices 80871 -- 81370
GAGGTGTCAACTTCATCTACATCTGAAGAGCTGTGCATTACTACAACGACGACCACCGTCACTAC
ACCTGAAGTTACCGTCTACGAATCGACAACTGTGACCCCCGAGTCGCTGTCGAGTTCGTCTGAGA
CTCTGACCTCCAAGACGCTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGACGCTGTCGAGTTCG
TCTGAGACCCTGACCTCCAAGACGCTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGACGCTGTC
GAGTTCGTCTGAGACCCTGACCTCCAAGACGCTGTCGAGTTCGTCTGAGACCCTGACCNTCTGAC
CTCCGAGACGCTGTCGGGTTCTTCAGGTTCTGTGACTATTGAGTCACTGACAGGTTCCGAGTCTT
CCACCTCTGCCTCGGAAGAGACACTGTCGAGTTTCTCTGAGACCGAATCTACCACTCAGACACGG
TCTACGGAGATCCCTCCCCCTATTGTGACCTCCAACCCCCCGCCT
Right flanking sequence: Indices 81572 -- 81668
GCTCCCCCGGAGAACCCCACCAACCCCCCGGTGGCTCCCCCGGAGAACCCTGCTAACCCCCCGGT
GAGTCCCCCTGAGAACCCCACCAACCCCCCGG
Found at i:81592 original size:33 final size:33
Alignment explanation
Indices: 81554--81668 Score: 178
Period size: 33 Copynumber: 3.5 Consensus size: 33
81544 GGTGAACCCT
81554 CCCACCAACCCCCCGGTGGCTCCCCCGGAGAAC
1 CCCACCAACCCCCCGGTGGCTCCCCCGGAGAAC
81587 CCCACCAACCCCCCGGTGGCTCCCCCGGAGAAC
1 CCCACCAACCCCCCGGTGGCTCCCCCGGAGAAC
** * *
81620 CCTGCTAACCCCCCGGTGAG-TCCCCCTGAGAAC
1 CCCACCAACCCCCCGGTG-GCTCCCCCGGAGAAC
81653 CCCACCAACCCCCCGG
1 CCCACCAACCCCCCGG
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
33 73 0.99
34 1 0.01
ACGTcount: A:0.18, C:0.54, G:0.20, T:0.08
Consensus pattern (33 bp):
CCCACCAACCCCCCGGTGGCTCCCCCGGAGAAC
Left flanking sequence: Indices 81054 -- 81553
CTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGACGCTGTCGAGTTCGTCTGAGACCCTGACCTC
CAAGACGCTGTCGAGTTCGTCTGAGACCCTGACCTCCAAGACGCTGTCGAGTTCGTCTGAGACCC
TGACCNTCTGACCTCCGAGACGCTGTCGGGTTCTTCAGGTTCTGTGACTATTGAGTCACTGACAG
GTTCCGAGTCTTCCACCTCTGCCTCGGAAGAGACACTGTCGAGTTTCTCTGAGACCGAATCTACC
ACTCAGACACGGTCTACGGAGATCCCTCCCCCTATTGTGACCTCCAACCCCCCGCCTACCAACCC
TCCAGTGAGCCCGCCTCCTACCAACCCTCCGGTGAGCCCGCCTCCTACCAACCCTCCGGTGAGCC
CACCTCCCACCAACCCTCCGGTGAGCCCGCCTCCCACCAACCCTCCGGTGAGCCCACCTCCCACC
AACCCTCCGGTGAGCCCGCCTCCCACCAACCCTCCGGTGAACCCT
Right flanking sequence: None
Done.