Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold18
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: 128642
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.23
Found at i:306 original size:31 final size:31
Alignment explanation
Indices: 271--380 Score: 115
Period size: 31 Copynumber: 3.7 Consensus size: 31
261 GGTAGAAGGG
271 TGGCTGACCACGGCCACCCTGGTGTAGGGGA
1 TGGCTGACCACGGCCACCCTGGTGTAGGGGA
302 TGGCTGACCACGGCCATCCC----G-AGGGG-
1 TGGCTGACCACGGCCA-CCCTGGTGTAGGGGA
* * * *
328 TGGGCTGACGATGGCCACCCCGGTGTAGAGGA
1 T-GGCTGACCACGGCCACCCTGGTGTAGGGGA
*
360 TGGCTGACCACGGCCATCCTG
1 TGGCTGACCACGGCCACCCTG
381 AGGGGTGGGC
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
26 4 0.06
27 18 0.28
28 1 0.02
30 1 0.02
31 36 0.56
32 4 0.06
ACGTcount: A:0.16, C:0.31, G:0.37, T:0.15
Consensus pattern (31 bp):
TGGCTGACCACGGCCACCCTGGTGTAGGGGA
Left flanking sequence: Indices 1 -- 270
CTCTATGCTACTGTGATGGTAGCATTGAGCCACCCGGGGTACCCCAGCCATGGCGCCTTGCTGGG
TATATAGAGTATATAGAGGGGTGGCCACCGTCGGGCCACCCCACCCCACCCCGGTCACTGGACCT
CTATGCTACTGTGATGGTAGCATTGAGCCACCCGGGGTACCCCAGCCATGGCGCCTGGCTGGGTA
TATAGAGTATATAGAGGGGTGGCCACTGTCGGCCATCCCGCCGGGTGGGCCGACGACCACTCCGG
GGTAGAAGGG
Right flanking sequence: Indices 381 -- 880
AGGGGTGGGCCGACAGGTGGCCCCTCCGGTGTAGGAGGGTGGCTACGGCCGGCCCTGAGTAGGCG
GGTGGGCCGACCACGGCCACCGCGGAGTAGGAGGCGGCTACGGCCAGCGCTCTGTAGGCGGGTGG
GCCGGTACGGTCACCCCGATGTAGGAAACGGGGCGGGCCCCCTACGGCCCCTCCGTTTTGTGACC
TAGGGAGAACCCCCTACGGTCACAGTGGTTTATGAATACCGGGGAGAGCCCCCTACGGTCAGTCC
GTTTATTCGAATTTTCGGCCATTTTTTCAACAGTCGCTTAATTTTTCGCTTAAAAAATATGCCAT
TTCGATCTTGAGGTGCATGAGCACAAGCCACTGGCCGTTATAGTGAACTTTTTAGGGGGATTTTG
AAATCTCATTCCGGTTATTTAACCTTGAAAAAACGGTTCCTTCTGTTTATAGAACTAAATTGTAG
CCTTCTTTCATTTCTATCCACTAACTAGACCTTGAAGATAACAAC
Found at i:326 original size:27 final size:27
Alignment explanation
Indices: 296--385 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 27
286 ACCCTGGTGT
296 AGGGGATGGCTGACCACGGCCATCCCG
1 AGGGGATGGCTGACCACGGCCATCCCG
* * *
323 AGGGG-TGGGCTGACGATGGCCACCCCGGTG
1 AGGGGAT-GGCTGACCACGGCCATCCC---G
* *
353 TAGAGGATGGCTGACCACGGCCATCCTG
1 -AGGGGATGGCTGACCACGGCCATCCCG
381 AGGGG
1 AGGGG
386 TGGGCCGACA
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
26 1 0.02
27 25 0.52
28 1 0.02
30 1 0.02
31 19 0.40
32 1 0.02
ACGTcount: A:0.18, C:0.28, G:0.41, T:0.13
Consensus pattern (27 bp):
AGGGGATGGCTGACCACGGCCATCCCG
Left flanking sequence: Indices 1 -- 295
CTCTATGCTACTGTGATGGTAGCATTGAGCCACCCGGGGTACCCCAGCCATGGCGCCTTGCTGGG
TATATAGAGTATATAGAGGGGTGGCCACCGTCGGGCCACCCCACCCCACCCCGGTCACTGGACCT
CTATGCTACTGTGATGGTAGCATTGAGCCACCCGGGGTACCCCAGCCATGGCGCCTGGCTGGGTA
TATAGAGTATATAGAGGGGTGGCCACTGTCGGCCATCCCGCCGGGTGGGCCGACGACCACTCCGG
GGTAGAAGGGTGGCTGACCACGGCCACCCTGGTGT
Right flanking sequence: Indices 386 -- 885
TGGGCCGACAGGTGGCCCCTCCGGTGTAGGAGGGTGGCTACGGCCGGCCCTGAGTAGGCGGGTGG
GCCGACCACGGCCACCGCGGAGTAGGAGGCGGCTACGGCCAGCGCTCTGTAGGCGGGTGGGCCGG
TACGGTCACCCCGATGTAGGAAACGGGGCGGGCCCCCTACGGCCCCTCCGTTTTGTGACCTAGGG
AGAACCCCCTACGGTCACAGTGGTTTATGAATACCGGGGAGAGCCCCCTACGGTCAGTCCGTTTA
TTCGAATTTTCGGCCATTTTTTCAACAGTCGCTTAATTTTTCGCTTAAAAAATATGCCATTTCGA
TCTTGAGGTGCATGAGCACAAGCCACTGGCCGTTATAGTGAACTTTTTAGGGGGATTTTGAAATC
TCATTCCGGTTATTTAACCTTGAAAAAACGGTTCCTTCTGTTTATAGAACTAAATTGTAGCCTTC
TTTCATTTCTATCCACTAACTAGACCTTGAAGATAACAACCTTGC
Found at i:344 original size:58 final size:58
Alignment explanation
Indices: 268--390 Score: 194
Period size: 58 Copynumber: 2.1 Consensus size: 58
258 CGGGGTAGAA
* *
268 GGGT-GGCTGACCACGGCCACCCTGGTGTAGGGGATGGCTGACCACGGCCATCCCGAG
1 GGGTGGGCTGACCACGGCCACCCCGGTGTAGAGGATGGCTGACCACGGCCATCCCGAG
* * *
325 GGGTGGGCTGACGATGGCCACCCCGGTGTAGAGGATGGCTGACCACGGCCATCCTGAG
1 GGGTGGGCTGACCACGGCCACCCCGGTGTAGAGGATGGCTGACCACGGCCATCCCGAG
383 GGGTGGGC
1 GGGTGGGC
391 CGACAGGTGG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
57 4 0.07
58 56 0.93
ACGTcount: A:0.15, C:0.28, G:0.41, T:0.15
Consensus pattern (58 bp):
GGGTGGGCTGACCACGGCCACCCCGGTGTAGAGGATGGCTGACCACGGCCATCCCGAG
Left flanking sequence: Indices 1 -- 267
CTCTATGCTACTGTGATGGTAGCATTGAGCCACCCGGGGTACCCCAGCCATGGCGCCTTGCTGGG
TATATAGAGTATATAGAGGGGTGGCCACCGTCGGGCCACCCCACCCCACCCCGGTCACTGGACCT
CTATGCTACTGTGATGGTAGCATTGAGCCACCCGGGGTACCCCAGCCATGGCGCCTGGCTGGGTA
TATAGAGTATATAGAGGGGTGGCCACTGTCGGCCATCCCGCCGGGTGGGCCGACGACCACTCCGG
GGTAGAA
Right flanking sequence: Indices 391 -- 890
CGACAGGTGGCCCCTCCGGTGTAGGAGGGTGGCTACGGCCGGCCCTGAGTAGGCGGGTGGGCCGA
CCACGGCCACCGCGGAGTAGGAGGCGGCTACGGCCAGCGCTCTGTAGGCGGGTGGGCCGGTACGG
TCACCCCGATGTAGGAAACGGGGCGGGCCCCCTACGGCCCCTCCGTTTTGTGACCTAGGGAGAAC
CCCCTACGGTCACAGTGGTTTATGAATACCGGGGAGAGCCCCCTACGGTCAGTCCGTTTATTCGA
ATTTTCGGCCATTTTTTCAACAGTCGCTTAATTTTTCGCTTAAAAAATATGCCATTTCGATCTTG
AGGTGCATGAGCACAAGCCACTGGCCGTTATAGTGAACTTTTTAGGGGGATTTTGAAATCTCATT
CCGGTTATTTAACCTTGAAAAAACGGTTCCTTCTGTTTATAGAACTAAATTGTAGCCTTCTTTCA
TTTCTATCCACTAACTAGACCTTGAAGATAACAACCTTGCCATCG
Found at i:4232 original size:15 final size:14
Alignment explanation
Indices: 4199--4251 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 14
4189 AGTCGAGGCT
*
4199 AAGGAGG-TG-GCG
1 AAGGAGGTTGAGCC
4211 AAGGAGGTTGAGCC
1 AAGGAGGTTGAGCC
*
4225 AGAGGAGG-AGA-CC
1 A-AGGAGGTTGAGCC
4238 AAGGAGGTTGAGCC
1 AAGGAGGTTGAGCC
4252 GCTTAAGGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
12 13 0.39
13 7 0.21
14 7 0.21
15 6 0.18
ACGTcount: A:0.30, C:0.13, G:0.47, T:0.09
Consensus pattern (14 bp):
AAGGAGGTTGAGCC
Left flanking sequence: Indices 3699 -- 4198
TCACTTACGACGACACTGACGTATCCCCTGATACGACCCACAACACCTCCCACAACGTGTCACGC
CTGGCACTTGATCCCGGCTCGCTGGCGACTCGAATGGAGCAGCCAAAGGCTCGCATGGCCGGCGA
GGCTGTTTCCAAGGCAACTGGTGGTGACGAGAAGCCTGCCAAGACTGAGAAAGCCACCCTTGCCC
CTAAACAGGAGCCCGAAGAGGTTACCCTGGAGTATAGCGACGACGAACCCGAACCCTCGCAACCA
GCACCCACTGAGGTGGCTGAGCGCCCTGCGTCTCTTCTGAGGCACTCTTCGTTCTATAGCGACGA
TGAGGAGAACCAGCCCGCGAACACTTCGGGTGGGTTGACCCGGCTGGAGCCTCGTGTCCATGCTC
TTGACCAGGTTCTTGCGGATGAGGCTGACGATACCAAGGAGTTGGAGGTCAAGGAGGAGGAGCCC
AAGGAAAACGAGGTCAATGAGGAGGCTGAGAAGGAAGTCGAGGCT
Right flanking sequence: Indices 4252 -- 4751
GCTTAAGGAATCCACGAAGGCTGAGCCTGAAAAGGAGACCACGGAAGTTGAGCCTCAACATGAGG
AAACCACAGAGGCTCAGCTTAAGGGGGAGACCAAGAGAGCTGAGCACAAGAAGGAGACCAATGAG
GCTGAGAGTGCAAACACCACCGTGGAAGCCGATACTACAAACCCGCCCGTGGAGCAGGTTGTGAT
GACCCAGGTTCGCGGGCGCCCCATCGCGCATAAGTTGCCCGCAGAGCCTAAGAAGGAGTCAGCGC
CGTCCAGCGCGAACACCTCGGTGGTTAACATGTTCAACAACGACTTGTTTGACGACGACGACGAG
CCCCATTCCAGTGTGCACTCTGTGAATAAGCAGGAAGAGTCCCCCGTTACGAAGGACATTCTTGC
GAGTGAAGAGATCAAGCCTGAGTCGGAGACTAAGGAAGAAATTGCCAAGGGTGAGCCCGAAGAGA
ACGCGTCAAAGGACGAACTCATTGACGAGGATGAGGTCAAGGAAG
Found at i:6048 original size:12 final size:12
Alignment explanation
Indices: 6031--6093 Score: 99
Period size: 12 Copynumber: 5.2 Consensus size: 12
6021 AGACGGAGCC
6031 CACTGAGGATGT
1 CACTGAGGATGT
6043 CACTGAGGATGT
1 CACTGAGGATGT
6055 CACTGAGGATGT
1 CACTGAGGATGT
* *
6067 TACTGAGGATGG
1 CACTGAGGATGT
*
6079 CACTGATGATGT
1 CACTGAGGATGT
6091 CAC
1 CAC
6094 CAAGGATATC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.25
Consensus pattern (12 bp):
CACTGAGGATGT
Left flanking sequence: Indices 5531 -- 6030
GTTGCCGAAGCTGCAGCCGCTGGTGCTGTTGCTGGTGTTTCTGCTGGTGCAGCTGCTGGTGCCGC
CGTCATCGAAGCCATCACTGGCCACAAGCCCGACGACAAGGAGGAGGAAGCGGAAAAATCCGTTG
CCGACGAGGATGAAACTGAAGCCGAGGCTGCTGAGGTTGAGGGGGAGACATCTAAGGTTCTTGAC
GACGTTGAAGGTGACGGAGACGCCGAGGCCAAGCTGGCTGCGGAGGAGATTTCTGACGAAGTTGA
GAAACCTAAGGAGGAGGACGAGGACGAAGAAGCCACCACTCAAACCGAGGAGGCCGATGCCAAGG
TGGACGAGGAAGTAGCTACCGATGCGGACAAGAGTCTCGTTGACGATTCCACCGATGTCAAGCCT
GAACACGCCACTGAGGAGGCTGATGCTACTAAAGAGGCAGAGGAGGAGGGAGAAACCAAGGCCGA
AGACGAGGTAGACACTGCTGACACCGAGGAAGCCAAGACGGAGCC
Right flanking sequence: Indices 6094 -- 6593
CAAGGATATCGAGGCCCCGTTGGAGGCTGCTGAAGCTAAAGCCGGCGAATCCGAGGCGGCAGACA
CCTCCGTCACTGGTGAGAGGGATGAGGAGGCTGACAAGGAGGATGAGCCCGAAAAGGACCTGGAC
GATGCCCCTGAACCCACCGATGCCGAGGTTGACGCCCAAGACGAAGAGATCCAAGGGTTGTCGCT
TTCGAAGAAGGCAGCCACTGGCGACTCCGACGACGCGGTCAGCAAGGCTGACACGTCGGCCAAGG
CGGCAGACGAGTCTGTCGACATCGACGACCTTATCAACCAGCTCCAAGGCGACGAGGTGAACGAG
CTTCTCGCCGAACTCAACGAGCCGCTGGCACAAGCGGCCAAACAGCCCGAGGAAGAGGTGCCTGA
GCCTGTAGTCAAGGAGGCGGTCAGCGGTGACGAGCCCAAGGCTGCGTCGTCGTCGCTCGCTGGTG
CCGCTCTCGGTGCGGTAGGCGGAGCCCTTGGCTCGCTTTGGGGTG
Found at i:6100 original size:36 final size:36
Alignment explanation
Indices: 6032--6100 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
6022 GACGGAGCCC
* **
6032 ACTGAGGATGTCACTGAGGATGTCACTGAGGATGTT
1 ACTGAGGATGGCACTGAGGATGTCACCAAGGATGTT
*
6068 ACTGAGGATGGCACTGATGATGTCACCAAGGAT
1 ACTGAGGATGGCACTGAGGATGTCACCAAGGAT
6101 ATCGAGGCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (36 bp):
ACTGAGGATGGCACTGAGGATGTCACCAAGGATGTT
Left flanking sequence: Indices 5532 -- 6031
TTGCCGAAGCTGCAGCCGCTGGTGCTGTTGCTGGTGTTTCTGCTGGTGCAGCTGCTGGTGCCGCC
GTCATCGAAGCCATCACTGGCCACAAGCCCGACGACAAGGAGGAGGAAGCGGAAAAATCCGTTGC
CGACGAGGATGAAACTGAAGCCGAGGCTGCTGAGGTTGAGGGGGAGACATCTAAGGTTCTTGACG
ACGTTGAAGGTGACGGAGACGCCGAGGCCAAGCTGGCTGCGGAGGAGATTTCTGACGAAGTTGAG
AAACCTAAGGAGGAGGACGAGGACGAAGAAGCCACCACTCAAACCGAGGAGGCCGATGCCAAGGT
GGACGAGGAAGTAGCTACCGATGCGGACAAGAGTCTCGTTGACGATTCCACCGATGTCAAGCCTG
AACACGCCACTGAGGAGGCTGATGCTACTAAAGAGGCAGAGGAGGAGGGAGAAACCAAGGCCGAA
GACGAGGTAGACACTGCTGACACCGAGGAAGCCAAGACGGAGCCC
Right flanking sequence: Indices 6101 -- 6600
ATCGAGGCCCCGTTGGAGGCTGCTGAAGCTAAAGCCGGCGAATCCGAGGCGGCAGACACCTCCGT
CACTGGTGAGAGGGATGAGGAGGCTGACAAGGAGGATGAGCCCGAAAAGGACCTGGACGATGCCC
CTGAACCCACCGATGCCGAGGTTGACGCCCAAGACGAAGAGATCCAAGGGTTGTCGCTTTCGAAG
AAGGCAGCCACTGGCGACTCCGACGACGCGGTCAGCAAGGCTGACACGTCGGCCAAGGCGGCAGA
CGAGTCTGTCGACATCGACGACCTTATCAACCAGCTCCAAGGCGACGAGGTGAACGAGCTTCTCG
CCGAACTCAACGAGCCGCTGGCACAAGCGGCCAAACAGCCCGAGGAAGAGGTGCCTGAGCCTGTA
GTCAAGGAGGCGGTCAGCGGTGACGAGCCCAAGGCTGCGTCGTCGTCGCTCGCTGGTGCCGCTCT
CGGTGCGGTAGGCGGAGCCCTTGGCTCGCTTTGGGGTGGGTCCAA
Found at i:36077 original size:30 final size:31
Alignment explanation
Indices: 36041--36118 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 31
36031 ACCCCCAAGG
36041 AGGAGGCGCCCAAGGACGAG-GCTCCCGCCA
1 AGGAGGCGCCCAAGGACGAGCGCTCCCGCCA
* * *
36071 AGGAGGCCCCCAAGCAGGAGTCCGCTCCCGCCA
1 AGGAGGCGCCCAAGGACGAG--CGCTCCCGCCA
*
36104 AGGAGGAGCCCAAGG
1 AGGAGGCGCCCAAGG
36119 CTGCTGCCCC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
30 17 0.44
33 22 0.56
ACGTcount: A:0.24, C:0.36, G:0.36, T:0.04
Consensus pattern (31 bp):
AGGAGGCGCCCAAGGACGAGCGCTCCCGCCA
Left flanking sequence: Indices 35541 -- 36040
GGCGAGCCAAAAATTGAAAATCTCTCATTAGACGCCAATCCTCCGCTAGATTCAATTAATTATGT
TGTCTAGAACCTTGAGAAGATCGTGCTTGCGGGCTGCGACCACGGTTAAGCATGCCAATGTTTCT
GCCAGAACCGTTCTGATGGTGGCCAATGCCCCCAGAACCACCGCTGCTGCTCCTTCGGTGTGGTC
GTCGATGGTTGTCCCCAGACGTTTTGCCTCCCAGACCGTCAAGGTGCCCGAGATGGCCGAGTCCA
TCACCGAGGGTACCTTGTCCGCCTGGAACAAGGAGGTGGGTGAGTACGTGGCTCGTGACGAGTTG
TTGGCCACCATTGAGACCGACAAGATCGATGTCGAGGTGAACGCCCCCGTTGGTGGTACCGTGAC
TGAGCTCTTGGTTTCGGCTGAGGACACCGTCGAGGTGGGCCAGGAGATCGCCAAGATCGAGGAGG
GTGACGCCCCTGAGGGCGGTGCTGCTCCCAAGGAGACCCCCAAGG
Right flanking sequence: Indices 36119 -- 36618
CTGCTGCCCCCGCCCCCAAGTCTGCTCCCAAGTCTGCTCCCAAGGAGGAGTCCAAGGCCCCCGCC
GCCTCGTTCTCGCGTGGTGAGGAGCGTGTCAAGATGAACCGCATGAGATTGAGAATCGCCGAGAG
ACTTAAGGAGTCGCAGAACACCCACGCGTCGTTGACCACCTTCAACGAGATCGACATGTCCAAGA
TCATGGCGTTCAGAAAGAAGTACAAGGACGAGTTCCTCGACAAGACCGGCATCAAGCTTGGTTTC
ATGGGTCCCTTCGCCAAGGCGGTGTGTCTTGCCGCCAAGGAGAACCCCGCCATCAACGCTGCCAT
CGAGAACGACGACACCTTGGTGTTCAGAGACTACGTCGACATCTCGGTTGCCGTGGCCACCCCCA
AGGGTTTGGTGACCCCCGTTATCCGCAACGCCGAGTCTCGCTCGATCCTCGGGATTGAGGCCGAG
ATCGCTGCTCTCGGTAAGAAGGCCAGAGACGGCAAGTTGGCCCTT
Found at i:36150 original size:12 final size:12
Alignment explanation
Indices: 36133--36162 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
36123 TGCCCCCGCC
36133 CCCAAGTCTGCT
1 CCCAAGTCTGCT
36145 CCCAAGTCTGCT
1 CCCAAGTCTGCT
36157 CCCAAG
1 CCCAAG
36163 GAGGAGTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.20, C:0.43, G:0.17, T:0.20
Consensus pattern (12 bp):
CCCAAGTCTGCT
Left flanking sequence: Indices 35633 -- 36132
TGCGGGCTGCGACCACGGTTAAGCATGCCAATGTTTCTGCCAGAACCGTTCTGATGGTGGCCAAT
GCCCCCAGAACCACCGCTGCTGCTCCTTCGGTGTGGTCGTCGATGGTTGTCCCCAGACGTTTTGC
CTCCCAGACCGTCAAGGTGCCCGAGATGGCCGAGTCCATCACCGAGGGTACCTTGTCCGCCTGGA
ACAAGGAGGTGGGTGAGTACGTGGCTCGTGACGAGTTGTTGGCCACCATTGAGACCGACAAGATC
GATGTCGAGGTGAACGCCCCCGTTGGTGGTACCGTGACTGAGCTCTTGGTTTCGGCTGAGGACAC
CGTCGAGGTGGGCCAGGAGATCGCCAAGATCGAGGAGGGTGACGCCCCTGAGGGCGGTGCTGCTC
CCAAGGAGACCCCCAAGGAGGAGGCGCCCAAGGACGAGGCTCCCGCCAAGGAGGCCCCCAAGCAG
GAGTCCGCTCCCGCCAAGGAGGAGCCCAAGGCTGCTGCCCCCGCC
Right flanking sequence: Indices 36163 -- 36662
GAGGAGTCCAAGGCCCCCGCCGCCTCGTTCTCGCGTGGTGAGGAGCGTGTCAAGATGAACCGCAT
GAGATTGAGAATCGCCGAGAGACTTAAGGAGTCGCAGAACACCCACGCGTCGTTGACCACCTTCA
ACGAGATCGACATGTCCAAGATCATGGCGTTCAGAAAGAAGTACAAGGACGAGTTCCTCGACAAG
ACCGGCATCAAGCTTGGTTTCATGGGTCCCTTCGCCAAGGCGGTGTGTCTTGCCGCCAAGGAGAA
CCCCGCCATCAACGCTGCCATCGAGAACGACGACACCTTGGTGTTCAGAGACTACGTCGACATCT
CGGTTGCCGTGGCCACCCCCAAGGGTTTGGTGACCCCCGTTATCCGCAACGCCGAGTCTCGCTCG
ATCCTCGGGATTGAGGCCGAGATCGCTGCTCTCGGTAAGAAGGCCAGAGACGGCAAGTTGGCCCT
TGAGGACATGGCTGGTGGCACCTTCACCATCTCCAACGGTGGTGT
Found at i:39055 original size:15 final size:15
Alignment explanation
Indices: 39026--39064 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
39016 TAATTAGTAA
39026 ACGGGTGGT-TGTGG
1 ACGGGTGGTGTGTGG
39040 ACGGGTGGTGTGTGG
1 ACGGGTGGTGTGTGG
39055 ATC-GGTGGTG
1 A-CGGGTGGTG
39065 AGTGTATACG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.39
15 13 0.57
16 1 0.04
ACGTcount: A:0.08, C:0.08, G:0.56, T:0.28
Consensus pattern (15 bp):
ACGGGTGGTGTGTGG
Left flanking sequence: Indices 38526 -- 39025
CGGAAATCGACGTGCCCGGGGGTGTCCACCAAGTGCAAGAGATAGTCCTGGCCCTCGTGGTTGTA
GATCATCGACACTGTCTGTGCCTTGACGGTAATCCCCCGCTCGCGCTCGACATCGAGCTTGTCCA
ACACCTGTTTCCCGCCGGGCTGGATCACTCCCGTGAGCTCCAACAACCGGTCCGAGAGCGTCAGT
TTGCCGTGGTCGACGTGGGCCACGATGGAAAAGTTGCGGTAGTTCTCAATCGGGATTTTGGCGAT
GCGGGACTCGACCTCCTTGCGGTACGCCTCCTGGTTGAGGAGCCGGCGCTTCTCCTCGACACTCA
ACACCTGTTTGGCAGCGGCCCACCGCGCTGCCAGCACCTGGAGAAGCCTCCGGGGCACGCGCCAC
GGCGCTGCTGCGCTGCCGAGCAACGGTCGTAGCGGTAGTAGCATGGTCTCTGATCTGAAAAATTC
GGCCTAATGCGGCTGAAGAGGGAGAGTAAGGGAAGTAATTAGTAA
Right flanking sequence: Indices 39065 -- 39564
AGTGTATACGATCGCGGTAGTCGTGTTAAGCTGATCGGGAATGCCACCAGCCCACATGTTCCACA
GCTTTCTTGAACCATCAGTGCTTCACCCACTCGTTCCTCGTATCTTTTGCAGCCATTGCCCCACA
ACGCGACTCGGGCCTCCCGTGCCCAAAAACACCCAGTAAACACCACCCGTAGCCACACAGCCACA
TTCAACCCCTTCCAGGCCCCGCATGAACCCCTTGCGCTACCGCCCCCCACCACCACCAACCTACT
CGTTTCGCCGCGTGCGAAAAACCACGTTGCTAAGGTTGTTGTCATGGGCAAGAAACAAGAGATGT
CCCAAGTGTACAACGGGAGCAACAACGAGTTCATCTTCGGTGAGCACGGGGGCAAGGGGAAAAAC
CTCAGCTCGTTCCTCAAAAACTTGCTGTTGACCGGGTCGTCGTCCCGCAAGCTGCTGGCCACCTT
CAAGGCAGACGAGGACTCGACGAACATCTACGGCAACTTGGGCAA
Found at i:51284 original size:15 final size:15
Alignment explanation
Indices: 51264--51297 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
51254 GAGACAAAGA
51264 GTGAACGCGGGAGCG
1 GTGAACGCGGGAGCG
51279 GTGAACGCGGGAGCG
1 GTGAACGCGGGAGCG
51294 GTGA
1 GTGA
51298 GTGTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.21, C:0.18, G:0.53, T:0.09
Consensus pattern (15 bp):
GTGAACGCGGGAGCG
Left flanking sequence: Indices 50764 -- 51263
CGCCGCGACGGTGGTGGTGACCACGTTGCCCGCGGGCGCGTCCAATTCGCGGCGGGGGAGGGGGC
TGGTGGGGTGTGGCGGGGTGTGCCCCGGCGGGGGTAGGGTCGGCAGTGCAGTGGCTGCGGCGCCG
TCCATGTTTGTTCGTAGAGGTGTGTTTATCCCTTTCACGGTCTCTTTTTCTGGTGAAAAACGACC
AACAGAAACGGCGTATATACAGGCATTCTTGCTTATGTAACCGCGCAGCACGCGTGAAAGCAGCA
GATCTGCCATCGCTGGGCGGGTAGTGGGGGAACCAGGCGGTGCGGTGTGGGTGGATGGTGCGGTG
GTGGTGTGGTGGGGTGGATGGGGGCACGGTGGGGATGGTGGCGGTGGCTGGGCAGTTGGTGTGTG
GGTTGGTGGTGGACAGTGGGTGTGTAATTGGTGGTGGAGTGGTGGAGTAGGCTTAGCGCTAAGCG
AAAGGAGCAGCGGGCTGGAGCGTCATCGATGAAACGAGACAAAGA
Right flanking sequence: Indices 51298 -- 51797
GTGTAGAAGTGGGAGTGTGGGAGTGGTGGGGTGAAGTAGGGGTGAAGTAGGGGGTGAAAATGGTG
CGTGAAGGTGGTGTGCGGAAGTGGTGGTTGGAAGTGATAGTTGTGTGGGAGTGGTGGTTGTGGCC
AATGCTTTCTTAGGATAGGGTTCTAGTAGGCAATTGGTAGGGATGGTCAAGGGTGACATGTTGAT
CAATGCATGAGGGCCAATAGGGTGGTTCTTCCTTTGGGCATGGGTATGTCTAGAGTGCACGGGTA
GATGTATATTGCCCAGTGGCTCTTGTAGTCTCCTGTGGACCGCACCCGGGGTACACTCCAAATAC
GCGCATCTGGGGTAGAGTGACTGGGGTAGTGAACCTGGGGAAGGTTCCCAATGGGGAATGCCCAA
ACGTGGGGTACAATGGAACCCGGTCAGAATGTGGAGTCATGGGTTGGAAGGTTGCAACGGTTGCA
ATGGGTCTAACGGTTTCAACGGTTTCAACGGTTCCAGCGGTTGAG
Found at i:51341 original size:11 final size:12
Alignment explanation
Indices: 51325--51355 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
51315 TGGGAGTGGT
51325 GGGGTGAAGTA-
1 GGGGTGAAGTAG
51336 GGGGTGAAGTAG
1 GGGGTGAAGTAG
51348 GGGGTGAA
1 GGGGTGAA
51356 AATGGTGCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.58, T:0.16
Consensus pattern (12 bp):
GGGGTGAAGTAG
Left flanking sequence: Indices 50825 -- 51324
GGGCTGGTGGGGTGTGGCGGGGTGTGCCCCGGCGGGGGTAGGGTCGGCAGTGCAGTGGCTGCGGC
GCCGTCCATGTTTGTTCGTAGAGGTGTGTTTATCCCTTTCACGGTCTCTTTTTCTGGTGAAAAAC
GACCAACAGAAACGGCGTATATACAGGCATTCTTGCTTATGTAACCGCGCAGCACGCGTGAAAGC
AGCAGATCTGCCATCGCTGGGCGGGTAGTGGGGGAACCAGGCGGTGCGGTGTGGGTGGATGGTGC
GGTGGTGGTGTGGTGGGGTGGATGGGGGCACGGTGGGGATGGTGGCGGTGGCTGGGCAGTTGGTG
TGTGGGTTGGTGGTGGACAGTGGGTGTGTAATTGGTGGTGGAGTGGTGGAGTAGGCTTAGCGCTA
AGCGAAAGGAGCAGCGGGCTGGAGCGTCATCGATGAAACGAGACAAAGAGTGAACGCGGGAGCGG
TGAACGCGGGAGCGGTGAGTGTAGAAGTGGGAGTGTGGGAGTGGT
Right flanking sequence: Indices 51356 -- 51855
AATGGTGCGTGAAGGTGGTGTGCGGAAGTGGTGGTTGGAAGTGATAGTTGTGTGGGAGTGGTGGT
TGTGGCCAATGCTTTCTTAGGATAGGGTTCTAGTAGGCAATTGGTAGGGATGGTCAAGGGTGACA
TGTTGATCAATGCATGAGGGCCAATAGGGTGGTTCTTCCTTTGGGCATGGGTATGTCTAGAGTGC
ACGGGTAGATGTATATTGCCCAGTGGCTCTTGTAGTCTCCTGTGGACCGCACCCGGGGTACACTC
CAAATACGCGCATCTGGGGTAGAGTGACTGGGGTAGTGAACCTGGGGAAGGTTCCCAATGGGGAA
TGCCCAAACGTGGGGTACAATGGAACCCGGTCAGAATGTGGAGTCATGGGTTGGAAGGTTGCAAC
GGTTGCAATGGGTCTAACGGTTTCAACGGTTTCAACGGTTCCAGCGGTTGAGGCACACTCAGTTG
CTAGCCTTAACATGGGGTAGTTTCTGGTAGGTCCACGAAAAGTCA
Found at i:51933 original size:39 final size:39
Alignment explanation
Indices: 51883--51976 Score: 116
Period size: 39 Copynumber: 2.3 Consensus size: 39
51873 GGCCACGAAG
* * *
51883 CCACCACTCACCAATTCCACAAAGTCATGCCGCCACTCA
1 CCACCACTCACCAACTCCACAAAGCCATGCCACCACTCA
* *
51922 CCACCATTCACCAACTGCACAAAGCCATGCCACCACTCCA
1 CCACCACTCACCAACTCCACAAAGCCATGCCACCACT-CA
51962 TGCCACCACTCACCA
1 --CCACCACTCACCA
51977 TGCCACACCA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.70
40 2 0.04
42 12 0.26
ACGTcount: A:0.31, C:0.48, G:0.07, T:0.14
Consensus pattern (39 bp):
CCACCACTCACCAACTCCACAAAGCCATGCCACCACTCA
Left flanking sequence: Indices 51383 -- 51882
GTGGTGGTTGGAAGTGATAGTTGTGTGGGAGTGGTGGTTGTGGCCAATGCTTTCTTAGGATAGGG
TTCTAGTAGGCAATTGGTAGGGATGGTCAAGGGTGACATGTTGATCAATGCATGAGGGCCAATAG
GGTGGTTCTTCCTTTGGGCATGGGTATGTCTAGAGTGCACGGGTAGATGTATATTGCCCAGTGGC
TCTTGTAGTCTCCTGTGGACCGCACCCGGGGTACACTCCAAATACGCGCATCTGGGGTAGAGTGA
CTGGGGTAGTGAACCTGGGGAAGGTTCCCAATGGGGAATGCCCAAACGTGGGGTACAATGGAACC
CGGTCAGAATGTGGAGTCATGGGTTGGAAGGTTGCAACGGTTGCAATGGGTCTAACGGTTTCAAC
GGTTTCAACGGTTCCAGCGGTTGAGGCACACTCAGTTGCTAGCCTTAACATGGGGTAGTTTCTGG
TAGGTCCACGAAAAGTCACAAATTGCAGTCGTCCAGGCCACGAAG
Right flanking sequence: Indices 51977 -- 52476
TGCCACACCACTCAAACCAAAACACCAGCCCACACACCCATATCACCACACCCACACCATCACAC
CCACATCACCACCACCCCCACACCACCCTGGTTCCCCTTTTCGTTAATCATAATCTAATAAATAC
GTAGTTATCGTCACCCCCGCAACTTGCCCGTCACCTCAAACGACCCGGCCTCCTCGTCGTACGTG
TACCGCCCGATCTTGAGCAAGTTGGCGATGCCCCGCCGGATCACCAGCACCCCGCCCGCCGAGTG
GAGCCCGCGGCCGGTGACTATGTTCACCAGCCCGGCAAACTGCGCCCGCGCACCAAACTTGTGCA
ACTCGCCCTGGGTCTCGCGGGCCTTGAGCTCGCTCAGCCACCACTCGGCGAGCGCCGTGCGGGCT
ATCAGCATCGCCGGCTGGAGAAGCAACCCGTGCAAGTCGAGGGTGCCGCCGCGGCGGAACTGCGC
GAGCGCCGCGGCCGCGTCCGCGGGAAGCCGCAGCGTCTGGTGGCG
Found at i:51964 original size:13 final size:14
Alignment explanation
Indices: 51946--51982 Score: 58
Period size: 13 Copynumber: 2.6 Consensus size: 14
51936 CTGCACAAAG
51946 CCATGCCACCACT-
1 CCATGCCACCACTA
51959 CCATGCCACCACTCA
1 CCATGCCACCACT-A
51974 CCATGCCAC
1 CCATGCCAC
51983 ACCACTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
15 9 0.41
ACGTcount: A:0.24, C:0.54, G:0.08, T:0.14
Consensus pattern (14 bp):
CCATGCCACCACTA
Left flanking sequence: Indices 51446 -- 51945
GGTTCTAGTAGGCAATTGGTAGGGATGGTCAAGGGTGACATGTTGATCAATGCATGAGGGCCAAT
AGGGTGGTTCTTCCTTTGGGCATGGGTATGTCTAGAGTGCACGGGTAGATGTATATTGCCCAGTG
GCTCTTGTAGTCTCCTGTGGACCGCACCCGGGGTACACTCCAAATACGCGCATCTGGGGTAGAGT
GACTGGGGTAGTGAACCTGGGGAAGGTTCCCAATGGGGAATGCCCAAACGTGGGGTACAATGGAA
CCCGGTCAGAATGTGGAGTCATGGGTTGGAAGGTTGCAACGGTTGCAATGGGTCTAACGGTTTCA
ACGGTTTCAACGGTTCCAGCGGTTGAGGCACACTCAGTTGCTAGCCTTAACATGGGGTAGTTTCT
GGTAGGTCCACGAAAAGTCACAAATTGCAGTCGTCCAGGCCACGAAGCCACCACTCACCAATTCC
ACAAAGTCATGCCGCCACTCACCACCATTCACCAACTGCACAAAG
Right flanking sequence: Indices 51983 -- 52482
ACCACTCAAACCAAAACACCAGCCCACACACCCATATCACCACACCCACACCATCACACCCACAT
CACCACCACCCCCACACCACCCTGGTTCCCCTTTTCGTTAATCATAATCTAATAAATACGTAGTT
ATCGTCACCCCCGCAACTTGCCCGTCACCTCAAACGACCCGGCCTCCTCGTCGTACGTGTACCGC
CCGATCTTGAGCAAGTTGGCGATGCCCCGCCGGATCACCAGCACCCCGCCCGCCGAGTGGAGCCC
GCGGCCGGTGACTATGTTCACCAGCCCGGCAAACTGCGCCCGCGCACCAAACTTGTGCAACTCGC
CCTGGGTCTCGCGGGCCTTGAGCTCGCTCAGCCACCACTCGGCGAGCGCCGTGCGGGCTATCAGC
ATCGCCGGCTGGAGAAGCAACCCGTGCAAGTCGAGGGTGCCGCCGCGGCGGAACTGCGCGAGCGC
CGCGGCCGCGTCCGCGGGAAGCCGCAGCGTCTGGTGGCGCTGGTA
Found at i:52028 original size:14 final size:14
Alignment explanation
Indices: 52009--52067 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
51999 CACCAGCCCA
*
52009 CACACCCATATCAC
1 CACACCCACATCAC
* *
52023 CACACCCACACCAT
1 CACACCCACATCAC
52037 CACACCCACATCAC
1 CACACCCACATCAC
*
52051 CACCACCCCCA-CAC
1 CA-CACCCACATCAC
52065 CAC
1 CAC
52068 CCTGGTTCCC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
13 1 0.03
14 30 0.79
15 7 0.18
ACGTcount: A:0.34, C:0.59, G:0.00, T:0.07
Consensus pattern (14 bp):
CACACCCACATCAC
Left flanking sequence: Indices 51509 -- 52008
ATAGGGTGGTTCTTCCTTTGGGCATGGGTATGTCTAGAGTGCACGGGTAGATGTATATTGCCCAG
TGGCTCTTGTAGTCTCCTGTGGACCGCACCCGGGGTACACTCCAAATACGCGCATCTGGGGTAGA
GTGACTGGGGTAGTGAACCTGGGGAAGGTTCCCAATGGGGAATGCCCAAACGTGGGGTACAATGG
AACCCGGTCAGAATGTGGAGTCATGGGTTGGAAGGTTGCAACGGTTGCAATGGGTCTAACGGTTT
CAACGGTTTCAACGGTTCCAGCGGTTGAGGCACACTCAGTTGCTAGCCTTAACATGGGGTAGTTT
CTGGTAGGTCCACGAAAAGTCACAAATTGCAGTCGTCCAGGCCACGAAGCCACCACTCACCAATT
CCACAAAGTCATGCCGCCACTCACCACCATTCACCAACTGCACAAAGCCATGCCACCACTCCATG
CCACCACTCACCATGCCACACCACTCAAACCAAAACACCAGCCCA
Right flanking sequence: Indices 52068 -- 52567
CCTGGTTCCCCTTTTCGTTAATCATAATCTAATAAATACGTAGTTATCGTCACCCCCGCAACTTG
CCCGTCACCTCAAACGACCCGGCCTCCTCGTCGTACGTGTACCGCCCGATCTTGAGCAAGTTGGC
GATGCCCCGCCGGATCACCAGCACCCCGCCCGCCGAGTGGAGCCCGCGGCCGGTGACTATGTTCA
CCAGCCCGGCAAACTGCGCCCGCGCACCAAACTTGTGCAACTCGCCCTGGGTCTCGCGGGCCTTG
AGCTCGCTCAGCCACCACTCGGCGAGCGCCGTGCGGGCTATCAGCATCGCCGGCTGGAGAAGCAA
CCCGTGCAAGTCGAGGGTGCCGCCGCGGCGGAACTGCGCGAGCGCCGCGGCCGCGTCCGCGGGAA
GCCGCAGCGTCTGGTGGCGCTGGTAGTTGTCGTAGTGGCGGGCCATCACCGTGTTGGCCTGGGGC
TTCGCCCGTGGTTGCAGCGGCACCCGGGTCTTGAGCGCGGCTGCC
Found at i:52051 original size:17 final size:17
Alignment explanation
Indices: 52020--52068 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
52010 ACACCCATAT
52020 CACCACA-CC-CA-CAC
1 CACCACACCCACACCAC
* *
52034 CATCACACCCACATCAC
1 CACCACACCCACACCAC
*
52051 CACCACCCCCACACCAC
1 CACCACACCCACACCAC
52068 C
1 C
52069 CTGGTTCCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 6 0.21
15 2 0.07
16 2 0.07
17 18 0.64
ACGTcount: A:0.33, C:0.63, G:0.00, T:0.04
Consensus pattern (17 bp):
CACCACACCCACACCAC
Left flanking sequence: Indices 51520 -- 52019
CTTCCTTTGGGCATGGGTATGTCTAGAGTGCACGGGTAGATGTATATTGCCCAGTGGCTCTTGTA
GTCTCCTGTGGACCGCACCCGGGGTACACTCCAAATACGCGCATCTGGGGTAGAGTGACTGGGGT
AGTGAACCTGGGGAAGGTTCCCAATGGGGAATGCCCAAACGTGGGGTACAATGGAACCCGGTCAG
AATGTGGAGTCATGGGTTGGAAGGTTGCAACGGTTGCAATGGGTCTAACGGTTTCAACGGTTTCA
ACGGTTCCAGCGGTTGAGGCACACTCAGTTGCTAGCCTTAACATGGGGTAGTTTCTGGTAGGTCC
ACGAAAAGTCACAAATTGCAGTCGTCCAGGCCACGAAGCCACCACTCACCAATTCCACAAAGTCA
TGCCGCCACTCACCACCATTCACCAACTGCACAAAGCCATGCCACCACTCCATGCCACCACTCAC
CATGCCACACCACTCAAACCAAAACACCAGCCCACACACCCATAT
Right flanking sequence: Indices 52069 -- 52568
CTGGTTCCCCTTTTCGTTAATCATAATCTAATAAATACGTAGTTATCGTCACCCCCGCAACTTGC
CCGTCACCTCAAACGACCCGGCCTCCTCGTCGTACGTGTACCGCCCGATCTTGAGCAAGTTGGCG
ATGCCCCGCCGGATCACCAGCACCCCGCCCGCCGAGTGGAGCCCGCGGCCGGTGACTATGTTCAC
CAGCCCGGCAAACTGCGCCCGCGCACCAAACTTGTGCAACTCGCCCTGGGTCTCGCGGGCCTTGA
GCTCGCTCAGCCACCACTCGGCGAGCGCCGTGCGGGCTATCAGCATCGCCGGCTGGAGAAGCAAC
CCGTGCAAGTCGAGGGTGCCGCCGCGGCGGAACTGCGCGAGCGCCGCGGCCGCGTCCGCGGGAAG
CCGCAGCGTCTGGTGGCGCTGGTAGTTGTCGTAGTGGCGGGCCATCACCGTGTTGGCCTGGGGCT
TCGCCCGTGGTTGCAGCGGCACCCGGGTCTTGAGCGCGGCTGCCA
Found at i:53732 original size:18 final size:18
Alignment explanation
Indices: 53709--53763 Score: 101
Period size: 18 Copynumber: 3.1 Consensus size: 18
53699 ACCTTCTCCA
*
53709 CACTCTTCGGCGTGTCCT
1 CACTCTTCGACGTGTCCT
53727 CACTCTTCGACGTGTCCT
1 CACTCTTCGACGTGTCCT
53745 CACTCTTCGACGTGTCCT
1 CACTCTTCGACGTGTCCT
53763 C
1 C
53764 GCTCCGTGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.09, C:0.40, G:0.18, T:0.33
Consensus pattern (18 bp):
CACTCTTCGACGTGTCCT
Left flanking sequence: Indices 53209 -- 53708
CGCCATCGCGAGGTCGTGGGTCTCCTGGTCCACGCAGAGGTACTCCACGAGCTCCTCCATGTTGG
TGGACGTCTGGATCAAGAGCGCGAGCTCGGAGCGGGCGACGTGGGGGAAGAGGTCCGCCAACAGG
TCGCACACGGCGTCGAAGTCGGGGTCGGAGTCGGTAGTGGTGGGGGCAGTGGTGGAGTTAGCAGT
GGTGGTGGCGAATTCAGCCGTGGTGTTGGTTGAATTGTCGGTGGTTGAGTCAGCGGTGGAAGATT
CAGCCGCGGAGTTGGTGGTGGAGGTGGTGGTCTTGGAGGAGGCTTCAGAGCTGGACGGCTCCATA
TCCGACGGTCCCGTCTCCGGCTCCGTTGTCAGCTCCCTCTCCATCCCCGTTTCCGCCTCCCTTTC
CCCCACTTTGGCCTCCCGCCTCGCCTGCTTCTTCGCCTGCCGCTTCTGCGCCGCCTTCGACGGCT
TCTTCTTCTTCGCCTTCGCGACCGGCTCGCTTTCCACCTTCTCCA
Right flanking sequence: Indices 53764 -- 54263
GCTCCGTGGCGTGTCCTCAATCGACTTGATGTCCCGCTGGAGGTTGGCCATCACCTCCGAGTACC
GCGACGGCTCGTCCTCTACCGCCGGCGCCCGCATCCGCTCGTTCAACACCATCGCCATCCCGGTG
AGAAACCGCCGCTCGTCGCCCGCCACCACGTCGTACAACGCCAGCGCCACCTCGGGCACCGGCAC
CCCGGGGAACCGCTCGAGAAACGCCTGTTTCCGTGCCGCCAGCGCCGCCAGCGGCACCAGCTGCC
GCAGCCCCCGCGCGGGGCTCAGCAACACCCGGAGCACCGCCGCCACCGGCGACAATTGCTCGAGC
TCCGCCGCCATTTCCGCCGGCAGAAGCCCCACGAGCGCCGCCACCCGCTCGCAGCACCGCGCGCG
GTCGTCGCCGTGGATCTCCGCCAAGTGCTCGCACACCTCGCGGTGCACCGTGGGCAGCAGCACTG
GTAGCGCCACGTAGAGAAACGGGCGGACCACCGGGCGATCCACGC
Found at i:53777 original size:36 final size:36
Alignment explanation
Indices: 53709--53782 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
53699 ACCTTCTCCA
* *
53709 CACTCTTCGGCGTGTCCTCACTCTTCGACGTGTCCT
1 CACTCTTCGACGTGTCCTCACTCGTCGACGTGTCCT
* *
53745 CACTCTTCGACGTGTCCTCGCTCCGT-GGCGTGTCCT
1 CACTCTTCGACGTGTCCTCACT-CGTCGACGTGTCCT
53781 CA
1 CA
53783 ATCGACTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 31 0.94
37 2 0.06
ACGTcount: A:0.08, C:0.39, G:0.22, T:0.31
Consensus pattern (36 bp):
CACTCTTCGACGTGTCCTCACTCGTCGACGTGTCCT
Left flanking sequence: Indices 53209 -- 53708
CGCCATCGCGAGGTCGTGGGTCTCCTGGTCCACGCAGAGGTACTCCACGAGCTCCTCCATGTTGG
TGGACGTCTGGATCAAGAGCGCGAGCTCGGAGCGGGCGACGTGGGGGAAGAGGTCCGCCAACAGG
TCGCACACGGCGTCGAAGTCGGGGTCGGAGTCGGTAGTGGTGGGGGCAGTGGTGGAGTTAGCAGT
GGTGGTGGCGAATTCAGCCGTGGTGTTGGTTGAATTGTCGGTGGTTGAGTCAGCGGTGGAAGATT
CAGCCGCGGAGTTGGTGGTGGAGGTGGTGGTCTTGGAGGAGGCTTCAGAGCTGGACGGCTCCATA
TCCGACGGTCCCGTCTCCGGCTCCGTTGTCAGCTCCCTCTCCATCCCCGTTTCCGCCTCCCTTTC
CCCCACTTTGGCCTCCCGCCTCGCCTGCTTCTTCGCCTGCCGCTTCTGCGCCGCCTTCGACGGCT
TCTTCTTCTTCGCCTTCGCGACCGGCTCGCTTTCCACCTTCTCCA
Right flanking sequence: Indices 53783 -- 54282
ATCGACTTGATGTCCCGCTGGAGGTTGGCCATCACCTCCGAGTACCGCGACGGCTCGTCCTCTAC
CGCCGGCGCCCGCATCCGCTCGTTCAACACCATCGCCATCCCGGTGAGAAACCGCCGCTCGTCGC
CCGCCACCACGTCGTACAACGCCAGCGCCACCTCGGGCACCGGCACCCCGGGGAACCGCTCGAGA
AACGCCTGTTTCCGTGCCGCCAGCGCCGCCAGCGGCACCAGCTGCCGCAGCCCCCGCGCGGGGCT
CAGCAACACCCGGAGCACCGCCGCCACCGGCGACAATTGCTCGAGCTCCGCCGCCATTTCCGCCG
GCAGAAGCCCCACGAGCGCCGCCACCCGCTCGCAGCACCGCGCGCGGTCGTCGCCGTGGATCTCC
GCCAAGTGCTCGCACACCTCGCGGTGCACCGTGGGCAGCAGCACTGGTAGCGCCACGTAGAGAAA
CGGGCGGACCACCGGGCGATCCACGCCGCTGCCGACACGATCACC
Found at i:54439 original size:12 final size:12
Alignment explanation
Indices: 54424--54465 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
54414 CCCGCGTAGT
*
54424 CGCCCGTTGGGC
1 CGCCAGTTGGGC
54436 CGCCAGTTGGGC
1 CGCCAGTTGGGC
54448 CGCCAG-TGTGGC
1 CGCCAGTTG-GGC
54460 CGCCAG
1 CGCCAG
54466 CGCAGCCGCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 2 0.07
12 26 0.93
ACGTcount: A:0.07, C:0.38, G:0.40, T:0.14
Consensus pattern (12 bp):
CGCCAGTTGGGC
Left flanking sequence: Indices 53924 -- 54423
TCGTACAACGCCAGCGCCACCTCGGGCACCGGCACCCCGGGGAACCGCTCGAGAAACGCCTGTTT
CCGTGCCGCCAGCGCCGCCAGCGGCACCAGCTGCCGCAGCCCCCGCGCGGGGCTCAGCAACACCC
GGAGCACCGCCGCCACCGGCGACAATTGCTCGAGCTCCGCCGCCATTTCCGCCGGCAGAAGCCCC
ACGAGCGCCGCCACCCGCTCGCAGCACCGCGCGCGGTCGTCGCCGTGGATCTCCGCCAAGTGCTC
GCACACCTCGCGGTGCACCGTGGGCAGCAGCACTGGTAGCGCCACGTAGAGAAACGGGCGGACCA
CCGGGCGATCCACGCCGCTGCCGACACGATCACCCGTGCAGCCGTCGTCCCAGTGCCAGCTCGCA
CCGGCAGGGGTCCGTCCTCGTAGCATCCTGTTTGTTATGGCGTGCGCGCGCCCATTGTTTAGGCA
CTATGGAGCGGACGAGGAGGCCAGTGGTGGGGAAGCCCGCGTAGT
Right flanking sequence: Indices 54466 -- 54965
CGCAGCCGCGGTGTCGGGAGCAGCCCATCAGATCGCCCATCGGCGGTTTTGTGGCTACTTATGGC
TGTAGGGCGGTGTCCGCCAGCAGGCATCGAGGCAGATCCAGCGGTGACACCAAGATTCTACGGGT
GTCACCCCACCGGGCTAGAACGCTGCACCCGAAGCCACATCAGGCGAGCGGTCGCGTGCCTCACC
TGATGTCGACAGGGGTCTACAGGGGCGCCATTGGCACACCCCCTGGATCAGGTGATGCCAGAGCC
ACCAGGTGACAGGTGCCGCGCCACCCGGGCGACACCGCTACGTGGTCTTGTGGCGGGGATACCGG
TGCCAAGACACGGAACCCCCCGCAACCGCTCGCCTGGTGTAGCGTTTTCTAAAATTACTTTTCAC
CGCCTGTAGCCAGGATTACCGCAGTTGCCGAGCCCGCCAACACAGCGACGAACACAGTGACACCA
CCGCAACAACACAACCGCACCAAGGCCAACACGGCCAACACACCC
Found at i:66886 original size:9 final size:9
Alignment explanation
Indices: 66872--66898 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
66862 ACATACCAGG
66872 CATGCCACC
1 CATGCCACC
66881 CATGCCACC
1 CATGCCACC
66890 CATGCCACC
1 CATGCCACC
66899 AGCAGGAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.56, G:0.11, T:0.11
Consensus pattern (9 bp):
CATGCCACC
Left flanking sequence: Indices 66372 -- 66871
GAGGAAAAGAGCGAGAGGTCCGAAAAGGCTGAAAAAGCCGCCAACACCCTCAAGAAGATCGGCAA
GTGGTATTTCAAGGACGAGAAGCCTCCGCCTACCCCGACGGATTACACGCCGCCCGAGATGATCT
CCAACCGCCGCGGACGCAAGTCGAGCACCACCGACTTGGACAAGCCACCCCCGATCTCGCTCTCC
AAGAAACCGCTGTACGACTTTGGCAACGTCAACGACAACTCGCTGGTGTACTCCAATGAGTCGGG
GGCCGAGGATTTGATGCACACCCCACCGTTTGTACCGGTTGCCGACGACACGATTGTGCCCGACT
CGCCGCTTGAACAGCAGTTCCACCCGTCGCGACCGCGCCGCAAGCCCCCACCCGACCAGCTGGAA
CCCTCGCCTCCCGCCTGATCCTTCAGTTCTTATATATAGTCTAGAATTAGCTGCTGTTTCTATTC
ATTACTATTTACACGGATTTTCAGCGTCGCTTAGAACATACCAGG
Right flanking sequence: Indices 66899 -- 67398
AGCAGGAGGAGCAGGGCCCTTGGGCTCAGGAACGTCGACGATGGCGCACTCGGTGGTGGCCAACA
ACGAGGCAACACCCGAGGCGTCAACCAAACCGTTCTTGACAACCTTGAAGGGGTCAATGATACCG
GCGGCGATCATGTCGGTGAACTCGCCCTTGGCAGAGTTGTAACCAAGGTTGAAGTCCTCGGCGTC
TCTGATCTTGCCAACAATGACGGCACCCTCCTCACCGGCGTTCTCGATGATGCGGGTGGCGGGCT
TGGCAATGGCCTTCTTGATGATCTCAACACCCAACTTCTGGTCAAAGTTGGCAGCGTTCTTGGCA
ACCTCGTCAAGAGTTCTCGAAGCCTTGATGAGAGCAGTACCACCACCAGGGAGGATGCCCTCCTG
CACGGCAGCACGGGTGGCGTTGAGGGCGTCGTCGTAACGGTCCTTCTTCTCGCCAACCTCAACCT
CAGAGGTACCACCAACCTTGATCACGGCAACACCACCGGACAACT
Found at i:89178 original size:12 final size:12
Alignment explanation
Indices: 89163--89190 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
89153 CCAGCTTCAG
89163 GCCCAGCAAGCA
1 GCCCAGCAAGCA
89175 GCCCAGCAAGCA
1 GCCCAGCAAGCA
89187 GCCC
1 GCCC
89191 CGTCGCGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.46, G:0.25, T:0.00
Consensus pattern (12 bp):
GCCCAGCAAGCA
Left flanking sequence: Indices 88663 -- 89162
AACCGAGCCCGGCGGGCCCGATGGCGGGCCAGGCGCCGCAGCCAGCGCCGCAGCACCCCTACCAG
CATCAGCATCAACCACAGCATCAGCATCAGCAGCGGCCGCGCCACCAGCAAAAGCTGCCGCCCGG
CAACCAGCAGCCGCCGCGGCTGCCGCAGCTCCAGGGCCACCAGATCCAGCCGCGCGGCCAGCGCC
AGCAGCCGTACATCCGCCAGCCGCAGCCGCAACAGCAGGTTCACCAACAGTACCCCCAGCACCAG
CAAGTGGCACACCACCCGTACCAAAAGCACTACCCGCAGGCGCAGCCGGTGCAAAAGATGCCCAG
CAAGCAGTCCCAGGGCCCCTACCCGAGCCAGGGGTGGCACAAGGGCCAGCCGCAGCAGGGCCACA
TGCAGACGCTGCCTCAACAGCCAGGGGCGCACAAGCTGCCGCAGCAGCACGCGAAGCCGTCGCAA
TCGCGGCAGATGGGCGGGTACCAGGGCTGGGACAACCAGCTTCAG
Right flanking sequence: Indices 89191 -- 89690
CGTCGCGCAACAAGCAGGCGATGTACCCGTACGCCACGGGCAACCAGCGCACCGCGCAGCTCTCG
CAGAACCTCGACTTGCTCCGGTCGGAGATCAACGAGTTCAAGGAGTCGCTCACCAAGAACGACCA
CCCAGCACCCGCAGCCACCGCGCCGCGCGAGCCCGAGCGGCCGGACGACGACGACGACGACGGCG
ACTTCAGCTTCAAGCTCACCTCAAACTACCCCGAGTACGAAGCAGCGCCCATGGAGACCCAGGTG
CGGCACGACCTCAAGCAACGCGGCCACGACAACGGGTACTACGTGGGCAGCGGGTTTGGCGACGA
CGACGAGCCGCCGGTGCTGCCGGACCTCGACGTGCGCATCCAGCAGCACGAGGCCCAGTTGCGCC
GGCAGCAGGAGGAGTTGTTGGCGTTGAAGCGGCGCCAGCACAGCCAGCTGCGCAAAAAGCACCCG
CTGACGGGCTCGGCGGCGCTGGCAACGTCGACGTCGCTGCTGGAA
Found at i:110841 original size:12 final size:12
Alignment explanation
Indices: 110823--110974 Score: 232
Period size: 12 Copynumber: 12.7 Consensus size: 12
110813 GGCATCGGCC
*
110823 TGGGCTTGTGCT
1 TGGGCTTGCGCT
*
110835 TGCGCTTGCGCT
1 TGGGCTTGCGCT
110847 TGGGCTTGCGCT
1 TGGGCTTGCGCT
110859 TGGGCTTGCGCT
1 TGGGCTTGCGCT
110871 TGGGCTTGCGCT
1 TGGGCTTGCGCT
110883 TGGGCTTGCGCT
1 TGGGCTTGCGCT
* *
110895 TGCGCTTGGGCT
1 TGGGCTTGCGCT
* *
110907 TGCGCTTGGGCT
1 TGGGCTTGCGCT
110919 TGGGCTTGCGCT
1 TGGGCTTGCGCT
*
110931 TGGGCTTGGGCT
1 TGGGCTTGCGCT
110943 TGGGCTTGCGCT
1 TGGGCTTGCGCT
*
110955 TGGGCGTGCGCT
1 TGGGCTTGCGCT
110967 TGGGCTTG
1 TGGGCTTG
110975 TTGCAGTTGC
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 129 1.00
ACGTcount: A:0.00, C:0.24, G:0.43, T:0.34
Consensus pattern (12 bp):
TGGGCTTGCGCT
Left flanking sequence: Indices 110323 -- 110822
CGTAAATTTTACCGGTGTCACGCTTCTGTACAAGTCTTACTTCTCCGAAGGCACCTTTCCCGATG
ACCTTAACGGTCGTGAAATCCTCAAGTGCCAACTTGGTGCGTCTCAATCGCAAAAATTGCAGCTC
TTTTCTACCCAAATTCTGCAATTGACGGTTTTTGCGTTCTTCCAGAGCATGCAGTTCTTCCAGAG
CAAGTTGCTGTTCTAATTGCACCCGGCGTTGGTTACGCTCAACAGCGTGCAGCACACAAAGGTTG
TAGTAATTCTCGATCTTGAGCTTAATACCGGCGGCCCGATCCTGGGTTTCTTTGGTGAGCAGTTG
AGGCTGACGACTGAAGTAAACATAGTTTGACGACATGCCGGTGGGCGCCGGTGCAGAAGCCATTG
TCACTTGTGGAATACCTGCATTCGGGGGAACCCTATGAGTCAGAGCCTGCAACAGCTGAGACAGT
GTTGTATGTTGAGCAAGCTGTTGAGCGCGTTGATGGGCATCGGCC
Right flanking sequence: Indices 110975 -- 111474
TTGCAGTTGCGTTGCCAATTCACGTTGGTGAGCTTCTTCGGTTCTCTTTTGCTCCGCTACACGCT
GTTGTTCGGCTAACCTTCTAGCTGCTGCCGCTTCTTGATGTTGCTGTTCGAGCTGTGCAACCCCG
AACATAGGCTGGTTCTCAAACGAACTTTGAGCCACTCCAAACAGTGGTTGGTTGTTGTTAAAAGA
AGACAGCGGAGTGCCAAAAGGCAGTTGCGCTGACCCCACAGAAGGAGGAGCTCCAAAGCCCGGAG
CAGGAGGAGCCTGCGACAAATTCACCCCCAAACCTTGTGCACGGAATGGAGAACGCGCAGGCAGC
AGCCCTACTGCGTGGAAATTTTCTTGAGAAGGGGCTTGTCCTCCGTTGTACAGTTTGGAGTGATC
ACCATATAAACTTGGTGAGAAACTTGGCGAATTCGCATCGTTACCGGCACCTACCGGCGACGCGG
TAATCGAATTGACCAGAGCGCCACCACCAGCTGAAATCTCCAGGA
Found at i:110853 original size:18 final size:18
Alignment explanation
Indices: 110826--110974 Score: 217
Period size: 18 Copynumber: 8.3 Consensus size: 18
110816 ATCGGCCTGG
*
110826 GCTTGTGCTTGCGCTTGC
1 GCTTGGGCTTGCGCTTGC
*
110844 GCTTGGGCTTGCGCTTGG
1 GCTTGGGCTTGCGCTTGC
* *
110862 GCTTGCGCTTGGGCTTGC
1 GCTTGGGCTTGCGCTTGC
110880 GCTTGGGCTTGCGCTTGC
1 GCTTGGGCTTGCGCTTGC
*
110898 GCTTGGGCTTGCGCTTGG
1 GCTTGGGCTTGCGCTTGC
*
110916 GCTTGGGCTTGCGCTTGG
1 GCTTGGGCTTGCGCTTGC
*
110934 GCTTGGGCTTGGGCTTGC
1 GCTTGGGCTTGCGCTTGC
* *
110952 GCTTGGGCGTGCGCTTGG
1 GCTTGGGCTTGCGCTTGC
110970 GCTTG
1 GCTTG
110975 TTGCAGTTGC
Statistics
Matches: 118, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 118 1.00
ACGTcount: A:0.00, C:0.24, G:0.42, T:0.34
Consensus pattern (18 bp):
GCTTGGGCTTGCGCTTGC
Left flanking sequence: Indices 110326 -- 110825
AAATTTTACCGGTGTCACGCTTCTGTACAAGTCTTACTTCTCCGAAGGCACCTTTCCCGATGACC
TTAACGGTCGTGAAATCCTCAAGTGCCAACTTGGTGCGTCTCAATCGCAAAAATTGCAGCTCTTT
TCTACCCAAATTCTGCAATTGACGGTTTTTGCGTTCTTCCAGAGCATGCAGTTCTTCCAGAGCAA
GTTGCTGTTCTAATTGCACCCGGCGTTGGTTACGCTCAACAGCGTGCAGCACACAAAGGTTGTAG
TAATTCTCGATCTTGAGCTTAATACCGGCGGCCCGATCCTGGGTTTCTTTGGTGAGCAGTTGAGG
CTGACGACTGAAGTAAACATAGTTTGACGACATGCCGGTGGGCGCCGGTGCAGAAGCCATTGTCA
CTTGTGGAATACCTGCATTCGGGGGAACCCTATGAGTCAGAGCCTGCAACAGCTGAGACAGTGTT
GTATGTTGAGCAAGCTGTTGAGCGCGTTGATGGGCATCGGCCTGG
Right flanking sequence: Indices 110975 -- 111474
TTGCAGTTGCGTTGCCAATTCACGTTGGTGAGCTTCTTCGGTTCTCTTTTGCTCCGCTACACGCT
GTTGTTCGGCTAACCTTCTAGCTGCTGCCGCTTCTTGATGTTGCTGTTCGAGCTGTGCAACCCCG
AACATAGGCTGGTTCTCAAACGAACTTTGAGCCACTCCAAACAGTGGTTGGTTGTTGTTAAAAGA
AGACAGCGGAGTGCCAAAAGGCAGTTGCGCTGACCCCACAGAAGGAGGAGCTCCAAAGCCCGGAG
CAGGAGGAGCCTGCGACAAATTCACCCCCAAACCTTGTGCACGGAATGGAGAACGCGCAGGCAGC
AGCCCTACTGCGTGGAAATTTTCTTGAGAAGGGGCTTGTCCTCCGTTGTACAGTTTGGAGTGATC
ACCATATAAACTTGGTGAGAAACTTGGCGAATTCGCATCGTTACCGGCACCTACCGGCGACGCGG
TAATCGAATTGACCAGAGCGCCACCACCAGCTGAAATCTCCAGGA
Done.