Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 25 of 438
Found at i:6405433 original size:47 final size:47
Alignment explanation
Indices: 6405364--6405530 Score: 221
Period size: 47 Copynumber: 3.5 Consensus size: 47
6405354 GAGGAAGTGA
*
6405364 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
6405410 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGTCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
6405458 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
6405506 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
6405531 TGATAAAGCA
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
47 64 0.60
48 30 0.28
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:6405480 original size:71 final size:71
Alignment explanation
Indices: 6405364--6405529 Score: 253
Period size: 71 Copynumber: 2.3 Consensus size: 71
6405354 GAGGAAGTGA
* *
6405364 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
6405429 GTTATC
66 GTTATC
* *
6405435 AAAAGGTCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
6405500 GTTATT
66 GTTATC
*
6405506 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
6405530 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
71 76 0.88
72 10 0.12
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:6405758 original size:31 final size:31
Alignment explanation
Indices: 6405723--6405786 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
6405713 TGTTTACCGT
*
6405723 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
6405754 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
6405785 AA
1 AA
6405787 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:6415022 original size:141 final size:141
Alignment explanation
Indices: 6414768--6415048 Score: 562
Period size: 141 Copynumber: 2.0 Consensus size: 141
6414758 TCTCGGAATT
6414768 GCTTTCACATAAAAATGAACCAGGTGTGTAACGAAACATGAGAAAACATCGATCGGCGAAAGTAA
1 GCTTTCACATAAAAATGAACCAGGTGTGTAACGAAACATGAGAAAACATCGATCGGCGAAAGTAA
6414833 AAAATTTAACTTGTCGATGCCACATAAGCGTGTGCCTAGCTATGTGGTAGGCCGTGTGTTGCACA
66 AAAATTTAACTTGTCGATGCCACATAAGCGTGTGCCTAGCTATGTGGTAGGCCGTGTGTTGCACA
6414898 CGGCCATGTGC
131 CGGCCATGTGC
6414909 GCTTTCACATAAAAATGAACCAGGTGTGTAACGAAACATGAGAAAACATCGATCGGCGAAAGTAA
1 GCTTTCACATAAAAATGAACCAGGTGTGTAACGAAACATGAGAAAACATCGATCGGCGAAAGTAA
6414974 AAAATTTAACTTGTCGATGCCACATAAGCGTGTGCCTAGCTATGTGGTAGGCCGTGTGTTGCACA
66 AAAATTTAACTTGTCGATGCCACATAAGCGTGTGCCTAGCTATGTGGTAGGCCGTGTGTTGCACA
6415039 CGGCCATGTG
131 CGGCCATGTG
6415049 ATGCACATGG
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 140 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (141 bp):
GCTTTCACATAAAAATGAACCAGGTGTGTAACGAAACATGAGAAAACATCGATCGGCGAAAGTAA
AAAATTTAACTTGTCGATGCCACATAAGCGTGTGCCTAGCTATGTGGTAGGCCGTGTGTTGCACA
CGGCCATGTGC
Found at i:6415048 original size:17 final size:17
Alignment explanation
Indices: 6415023--6415068 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
6415013 CTATGTGGTA
* *
6415023 GGCCGTGTGTTGCACAC
1 GGCCATGTGATGCACAC
*
6415040 GGCCATGTGATGCACAT
1 GGCCATGTGATGCACAC
6415057 GGCCATGTGATG
1 GGCCATGTGATG
6415069 GGTGCGTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.17, C:0.24, G:0.35, T:0.24
Consensus pattern (17 bp):
GGCCATGTGATGCACAC
Found at i:6415227 original size:18 final size:18
Alignment explanation
Indices: 6415185--6415223 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6415175 ACACACGGGC
* *
6415185 TAGGCCAATTACATGTGT
1 TAGGCCAATTACATATGA
6415203 TAGGCCAATTACATAT-A
1 TAGGCCAATTACATATGA
6415220 TAGG
1 TAGG
6415224 GCCATGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (18 bp):
TAGGCCAATTACATATGA
Found at i:6417016 original size:18 final size:18
Alignment explanation
Indices: 6416993--6417029 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6416983 CGAAGGATTC
6416993 TTCTTGTAGAGAAATATT
1 TTCTTGTAGAGAAATATT
*
6417011 TTCTTGTAGAGTAATATT
1 TTCTTGTAGAGAAATATT
6417029 T
1 T
6417030 GCTCATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (18 bp):
TTCTTGTAGAGAAATATT
Found at i:6419913 original size:289 final size:289
Alignment explanation
Indices: 6419398--6420073 Score: 1165
Period size: 289 Copynumber: 2.3 Consensus size: 289
6419388 ATGGTTTGGC
* * * * ** *
6419398 ATCCTTGTGCTTATAAGGAACAAACCGAAGA-CATAATTGATTTGGCTTTCACATGCTTACGATG
1 ATCCTTGTGTTTACAAGGAACAAATCGAA-ACCACAGCTGATTTGGCTTTCACGTGCTTACGATG
* *
6419462 AAACAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCC
65 AAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCC
*
6419527 ATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAAATCCA
130 ATATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAAATCCA
* *
6419592 AGATGATTTGGCATTCTTGTGTTTATAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGA
195 AGATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGA
6419657 TGTTCTCAAACAAATCCAAGGTGATTTAGT
260 TGTTCTCAAACAAATCCAAGGTGATTTAGT
6419687 ATCCTTGTGTTTACAAGGAACAAATCGAAACCACAGCTGATTTGGCTTTCACGTGCTTACGATGA
1 ATCCTTGTGTTTACAAGGAACAAATCGAAACCACAGCTGATTTGGCTTTCACGTGCTTACGATGA
*
6419752 AGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCAAAGTTTGGCGTCTCCA
66 AGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCA
*
6419817 TATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAGATCCAA
131 TATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAAATCCAA
*
6419882 GATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAGGACATATCAGATTTGACTCTCAGAT
196 GATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGAT
6419947 GTTCTCAAACAAATCCAAGGTGATTTAGT
261 GTTCTCAAACAAATCCAAGGTGATTTAGT
* * * *
6419976 ATCCTTGTGTTTACAAGGAACAAATAGAAACCACTGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 ATCCTTGTGTTTACAAGGAACAAATCGAAACCACAGCTGATTTGGCTTTCACGTGCTTACGATGA
6420041 AGCAAGTCTAAGATGATTTGGCATCTCTGTATT
66 AGCAAGTCTAAGATGATTTGGCATCTCTGTATT
6420074 TAACGGGGAG
Statistics
Matches: 367, Mismatches: 19, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
288 1 0.00
289 366 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (289 bp):
ATCCTTGTGTTTACAAGGAACAAATCGAAACCACAGCTGATTTGGCTTTCACGTGCTTACGATGA
AGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCA
TATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAAATCCAA
GATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGAT
GTTCTCAAACAAATCCAAGGTGATTTAGT
Found at i:6420183 original size:44 final size:44
Alignment explanation
Indices: 6420132--6420238 Score: 162
Period size: 44 Copynumber: 2.4 Consensus size: 44
6420122 AGATCCAAGT
* *
6420132 AGATTTGGCGT-TACTGTATTATCAGGGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCT-CTGTATTATCAGAGAGCAGATCAAAGATAGC
*
6420176 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCAAAGATAGC
*
6420220 AGACTTGGCGTCTCTGTAT
1 AGATTTGGCGTCTCTGTAT
6420239 GGACAGAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 57 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCAAAGATAGC
Found at i:6421983 original size:23 final size:24
Alignment explanation
Indices: 6421948--6422010 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 24
6421938 TATAAATATA
6421948 ATATA-ATTATTTTATTAT-GTAT
1 ATATATATTATTTTATTATGGTAT
6421970 -TATTATATTATTTTA-TATGGTAT
1 ATA-TATATTATTTTATTATGGTAT
6421993 ATATATATTATTTATATT
1 ATATATATTATTT-TATT
6422011 TTATTAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
21 2 0.06
22 5 0.14
23 23 0.66
24 4 0.11
25 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (24 bp):
ATATATATTATTTTATTATGGTAT
Found at i:6422426 original size:21 final size:21
Alignment explanation
Indices: 6422387--6422445 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
6422377 CTATATACAT
6422387 TTTATTATATATTTTTATATTA
1 TTTATTATATA-TTTTATATTA
6422409 TTTATTATATGA-TTTATATTA
1 TTTATTATAT-ATTTTATATTA
6422430 TTTAATT-TATATTTTA
1 TTT-ATTATATATTTTA
6422446 CCATATCTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.03
21 19 0.56
22 13 0.38
23 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTATTATATATTTTATATTA
Found at i:6429478 original size:289 final size:289
Alignment explanation
Indices: 6428963--6429638 Score: 1165
Period size: 289 Copynumber: 2.3 Consensus size: 289
6428953 ATGGTTTGGC
* * * * ** *
6428963 ATCCTTGTGCTTATAAGGAACAAACCGAAGA-CATAATTGATTTGGCTTTCACATGCTTACGATG
1 ATCCTTGTGTTTACAAGGAACAAATCGAA-ACCACAGCTGATTTGGCTTTCACGTGCTTACGATG
* *
6429027 AAACAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCC
65 AAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCC
*
6429092 ATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAAATCCA
130 ATATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAAATCCA
* *
6429157 AGATGATTTGGCATTCTTGTGTTTATAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGA
195 AGATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGA
6429222 TGTTCTCAAACAAATCCAAGGTGATTTAGT
260 TGTTCTCAAACAAATCCAAGGTGATTTAGT
6429252 ATCCTTGTGTTTACAAGGAACAAATCGAAACCACAGCTGATTTGGCTTTCACGTGCTTACGATGA
1 ATCCTTGTGTTTACAAGGAACAAATCGAAACCACAGCTGATTTGGCTTTCACGTGCTTACGATGA
*
6429317 AGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCAAAGTTTGGCGTCTCCA
66 AGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCA
*
6429382 TATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAGATCCAA
131 TATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAAATCCAA
*
6429447 GATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAGGACATATCAGATTTGACTCTCAGAT
196 GATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGAT
6429512 GTTCTCAAACAAATCCAAGGTGATTTAGT
261 GTTCTCAAACAAATCCAAGGTGATTTAGT
* * * *
6429541 ATCCTTGTGTTTACAAGGAACAAATAGAAACCACTGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 ATCCTTGTGTTTACAAGGAACAAATCGAAACCACAGCTGATTTGGCTTTCACGTGCTTACGATGA
6429606 AGCAAGTCTAAGATGATTTGGCATCTCTGTATT
66 AGCAAGTCTAAGATGATTTGGCATCTCTGTATT
6429639 TAACGGGGAG
Statistics
Matches: 367, Mismatches: 19, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
288 1 0.00
289 366 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (289 bp):
ATCCTTGTGTTTACAAGGAACAAATCGAAACCACAGCTGATTTGGCTTTCACGTGCTTACGATGA
AGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCA
TATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAAATCCAA
GATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGAT
GTTCTCAAACAAATCCAAGGTGATTTAGT
Found at i:6429748 original size:44 final size:44
Alignment explanation
Indices: 6429697--6429803 Score: 162
Period size: 44 Copynumber: 2.4 Consensus size: 44
6429687 AGATCCAAGT
* *
6429697 AGATTTGGCGT-TACTGTATTATCAGGGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCT-CTGTATTATCAGAGAGCAGATCAAAGATAGC
*
6429741 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCAAAGATAGC
*
6429785 AGACTTGGCGTCTCTGTAT
1 AGATTTGGCGTCTCTGTAT
6429804 GGACAGAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 57 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCAAAGATAGC
Found at i:6431548 original size:23 final size:24
Alignment explanation
Indices: 6431513--6431575 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 24
6431503 TATAAATATA
6431513 ATATA-ATTATTTTATTAT-GTAT
1 ATATATATTATTTTATTATGGTAT
6431535 -TATTATATTATTTTA-TATGGTAT
1 ATA-TATATTATTTTATTATGGTAT
6431558 ATATATATTATTTATATT
1 ATATATATTATTT-TATT
6431576 TTATTAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
21 2 0.06
22 5 0.14
23 23 0.66
24 4 0.11
25 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (24 bp):
ATATATATTATTTTATTATGGTAT
Found at i:6431991 original size:21 final size:21
Alignment explanation
Indices: 6431952--6432010 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
6431942 CTATATACAT
6431952 TTTATTATATATTTTTATATTA
1 TTTATTATATA-TTTTATATTA
6431974 TTTATTATATGA-TTTATATTA
1 TTTATTATAT-ATTTTATATTA
6431995 TTTAATT-TATATTTTA
1 TTT-ATTATATATTTTA
6432011 CCATATCTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.03
21 19 0.56
22 13 0.38
23 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTATTATATATTTTATATTA
Found at i:6439042 original size:289 final size:289
Alignment explanation
Indices: 6438527--6439202 Score: 1165
Period size: 289 Copynumber: 2.3 Consensus size: 289
6438517 ATGGTTTGGC
* * * * ** *
6438527 ATCCTTGTGCTTATAAGGAACAAACCGAAGA-CATAATTGATTTGGCTTTCACATGCTTACGATG
1 ATCCTTGTGTTTACAAGGAACAAATCGAA-ACCACAGCTGATTTGGCTTTCACGTGCTTACGATG
* *
6438591 AAACAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCC
65 AAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCC
*
6438656 ATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAAATCCA
130 ATATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAAATCCA
* *
6438721 AGATGATTTGGCATTCTTGTGTTTATAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGA
195 AGATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGA
6438786 TGTTCTCAAACAAATCCAAGGTGATTTAGT
260 TGTTCTCAAACAAATCCAAGGTGATTTAGT
6438816 ATCCTTGTGTTTACAAGGAACAAATCGAAACCACAGCTGATTTGGCTTTCACGTGCTTACGATGA
1 ATCCTTGTGTTTACAAGGAACAAATCGAAACCACAGCTGATTTGGCTTTCACGTGCTTACGATGA
*
6438881 AGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCAAAGTTTGGCGTCTCCA
66 AGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCA
*
6438946 TATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAGATCCAA
131 TATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAAATCCAA
*
6439011 GATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAGGACATATCAGATTTGACTCTCAGAT
196 GATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGAT
6439076 GTTCTCAAACAAATCCAAGGTGATTTAGT
261 GTTCTCAAACAAATCCAAGGTGATTTAGT
* * * *
6439105 ATCCTTGTGTTTACAAGGAACAAATAGAAACCACTGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 ATCCTTGTGTTTACAAGGAACAAATCGAAACCACAGCTGATTTGGCTTTCACGTGCTTACGATGA
6439170 AGCAAGTCTAAGATGATTTGGCATCTCTGTATT
66 AGCAAGTCTAAGATGATTTGGCATCTCTGTATT
6439203 TAACGGGGAG
Statistics
Matches: 367, Mismatches: 19, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
288 1 0.00
289 366 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (289 bp):
ATCCTTGTGTTTACAAGGAACAAATCGAAACCACAGCTGATTTGGCTTTCACGTGCTTACGATGA
AGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCA
TATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAAATCCAA
GATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGAT
GTTCTCAAACAAATCCAAGGTGATTTAGT
Found at i:6439312 original size:44 final size:44
Alignment explanation
Indices: 6439261--6439367 Score: 162
Period size: 44 Copynumber: 2.4 Consensus size: 44
6439251 AGATCCAAGT
* *
6439261 AGATTTGGCGT-TACTGTATTATCAGGGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCT-CTGTATTATCAGAGAGCAGATCAAAGATAGC
*
6439305 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCAAAGATAGC
*
6439349 AGACTTGGCGTCTCTGTAT
1 AGATTTGGCGTCTCTGTAT
6439368 GGACAGAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 57 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCAAAGATAGC
Found at i:6441113 original size:23 final size:22
Alignment explanation
Indices: 6441078--6441140 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
6441068 TATAAATATA
*
6441078 ATATA-ATTATTTTATTCTGTAT
1 ATATATATTATTTTATT-GGTAT
6441100 -TATTATATTATTTTATATGGTAT
1 ATA-TATATTATTTTAT-TGGTAT
6441123 ATATATATTATTTATATT
1 ATATATATTATTT-TATT
6441141 TTATTAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
21 2 0.06
22 2 0.06
23 25 0.71
24 6 0.17
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (22 bp):
ATATATATTATTTTATTGGTAT
Found at i:6441556 original size:21 final size:21
Alignment explanation
Indices: 6441517--6441575 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
6441507 CTATATACAT
6441517 TTTATTATATATTTTTATATTA
1 TTTATTATATA-TTTTATATTA
6441539 TTTATTATATGA-TTTATATTA
1 TTTATTATAT-ATTTTATATTA
6441560 TTTAATT-TATATTTTA
1 TTT-ATTATATATTTTA
6441576 CCATATCTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.03
21 19 0.56
22 13 0.38
23 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTATTATATATTTTATATTA
Found at i:6441912 original size:22 final size:22
Alignment explanation
Indices: 6441887--6441945 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 22
6441877 GTTCTTGTAT
6441887 TTATATATTTGCATAAAATTAA
1 TTATATATTTGCATAAAATTAA
* * *
6441909 TTAT-T-TATG-AT-AATTTAG
1 TTATATATTTGCATAAAATTAA
*
6441927 GTATATATTTGCATAAAAT
1 TTATATATTTGCATAAAAT
6441946 GTTGCTATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 8
0.66 0.15 0.20
Matches are distributed among these distances:
18 8 0.30
19 3 0.11
20 6 0.22
21 3 0.11
22 7 0.26
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (22 bp):
TTATATATTTGCATAAAATTAA
Found at i:6444974 original size:26 final size:26
Alignment explanation
Indices: 6444936--6445019 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6444926 CATGAAATTC
* *
6444936 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
6444962 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
6444988 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
6445014 TTATCA
1 TTATCA
6445020 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:6446723 original size:13 final size:13
Alignment explanation
Indices: 6446684--6446730 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
6446674 TAAGTCCTTT
6446684 TACAGATACAGATA
1 TACAGA-ACAGATA
* *
6446698 -ATAGAATCGGATA
1 TACAGAA-CAGATA
6446711 TACAGAACAGATA
1 TACAGAACAGATA
6446724 TACAGAA
1 TACAGAA
6446731 TCCTACCCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
12 1 0.04
13 21 0.78
14 5 0.19
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (13 bp):
TACAGAACAGATA
Found at i:6453617 original size:28 final size:28
Alignment explanation
Indices: 6453586--6453655 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
6453576 TATGGCACTC
6453586 AGTGTGCGAAATATTGAGAATTG-CAGTT
1 AGTGTGCGAAATATTGAGAA-TGACAGTT
* *
6453614 AGTGTGCGAGATATTGAGAATGACATTT
1 AGTGTGCGAAATATTGAGAATGACAGTT
6453642 AGTGTGCGAAATAT
1 AGTGTGCGAAATAT
6453656 CGAATGATTC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.05
28 36 0.95
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACAGTT
Found at i:6466664 original size:26 final size:26
Alignment explanation
Indices: 6466627--6466814 Score: 295
Period size: 26 Copynumber: 7.2 Consensus size: 26
6466617 TGATACAAAT
* *
6466627 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6466653 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * *
6466679 TAATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6466705 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * *
6466731 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6466757 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
6466783 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6466809 TGATAA
1 TGATAA
6466815 GAAATTCATG
Statistics
Matches: 147, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 147 1.00
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6472477 original size:26 final size:26
Alignment explanation
Indices: 6472440--6472619 Score: 241
Period size: 26 Copynumber: 7.2 Consensus size: 26
6472430 TGATACAAAT
*
6472440 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6472466 TGATAATGGGTTAGGT-AA------A
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6472485 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6472511 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
6472537 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6472563 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6472589 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6472614 TGATAA
1 TGATAA
6472620 GAATTCATGT
Statistics
Matches: 137, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.12
20 2 0.01
25 26 0.19
26 93 0.68
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6472489 original size:19 final size:19
Alignment explanation
Indices: 6472465--6472505 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
6472455 TAAATGTTCC
*
6472465 ATGATAATGGGTTAGGTAA
1 ATGATAATAGGTTAGGTAA
6472484 ATGATAATAGGTTAGGTAA
1 ATGATAATAGGTTAGGTAA
6472503 ATG
1 ATG
6472506 TTCCATGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (19 bp):
ATGATAATAGGTTAGGTAA
Found at i:6474126 original size:26 final size:26
Alignment explanation
Indices: 6474097--6474149 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6474087 TTTACAGTTT
6474097 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
6474123 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
6474149 T
1 T
6474150 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:6479837 original size:20 final size:20
Alignment explanation
Indices: 6479812--6479851 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6479802 TTCATACGTT
6479812 GGCCCATTT-TCTCTGTTTTA
1 GGCCCATTTCTCTCT-TTTTA
6479832 GGCCCATTTCTCTCTTTTTA
1 GGCCCATTTCTCTCTTTTTA
6479852 TCCTCCTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.10, C:0.28, G:0.12, T:0.50
Consensus pattern (20 bp):
GGCCCATTTCTCTCTTTTTA
Found at i:6479843 original size:19 final size:20
Alignment explanation
Indices: 6479812--6479849 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6479802 TTCATACGTT
*
6479812 GGCCCATTTTCTCTGTTTTA
1 GGCCCATTTTCTCTCTTTTA
6479832 GGCCCA-TTTCTCTCTTTT
1 GGCCCATTTTCTCTCTTTT
6479850 TATCCTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.08, C:0.29, G:0.13, T:0.50
Consensus pattern (20 bp):
GGCCCATTTTCTCTCTTTTA
Found at i:6498440 original size:18 final size:18
Alignment explanation
Indices: 6498398--6498436 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6498388 ACACATGGGC
*
6498398 TAGGCCAATTACATGTGA
1 TAGGCCAATTACATATGA
6498416 TAGGCCAATTACATAT-A
1 TAGGCCAATTACATATGA
6498433 TAGG
1 TAGG
6498437 GCCATGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (18 bp):
TAGGCCAATTACATATGA
Found at i:6499530 original size:18 final size:18
Alignment explanation
Indices: 6499507--6499543 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6499497 CGAAGGATTC
6499507 TTCTTGTAGAGAAATATT
1 TTCTTGTAGAGAAATATT
*
6499525 TTCTTGTAGAGTAATATT
1 TTCTTGTAGAGAAATATT
6499543 T
1 T
6499544 GCTCATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (18 bp):
TTCTTGTAGAGAAATATT
Found at i:6506803 original size:41 final size:41
Alignment explanation
Indices: 6506723--6507109 Score: 587
Period size: 41 Copynumber: 9.5 Consensus size: 41
6506713 TGTTTTTTAC
* * * *
6506723 TAAAACGCCACTAAAAA-TAGAGTATTAGCGGCACTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
6506763 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
* *
6506804 TAGAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
* * *
6506845 TAAAACGCCGCTAATAAGCAGAGCAGTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
*
6506886 TAAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
* * * *
6506927 TAAAACGCCGCTAATAAGCAGAGCATTAGCGGTGCTTTTGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
* *
6506968 TAAAACGCCGCTAATAAGCAGAGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
*
6507009 TAAAACGCCGCTAAAAACCAGAGCATTAACGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
* * *
6507050 TAAAACGCCGCTAATAAGCAAAGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
6507091 TAAAACGCCGCTAAAAACC
1 TAAAACGCCGCTAAAAACC
6507110 CCATAACCCC
Statistics
Matches: 315, Mismatches: 31, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
40 16 0.05
41 299 0.95
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
Found at i:6507288 original size:14 final size:15
Alignment explanation
Indices: 6507271--6507304 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
6507261 ATCATTATAT
6507271 TTTAAGGAT-TATGG
1 TTTAAGGATATATGG
6507285 TTTAA-GATATATGG
1 TTTAAGGATATATGG
6507299 TTTAAG
1 TTTAAG
6507305 CAGGTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (15 bp):
TTTAAGGATATATGG
Found at i:6511223 original size:134 final size:133
Alignment explanation
Indices: 6511000--6511252 Score: 479
Period size: 134 Copynumber: 1.9 Consensus size: 133
6510990 TGGTGATTCC
6511000 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
6511065 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCGTGTTGCTCACGTTTTATATAATAAAGTTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCGTGTTGCTCACGTTTTATATAATAAAGTTGT
6511130 TAT
131 TAT
*
6511133 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGT
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTG-TTTTCATGTTTCTATCCAACTTATGTGTTTAGT
*
6511198 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
65 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCGTGTTGCTCACGTTTTATAT
6511253 TGTTGAATTC
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
133 30 0.26
134 87 0.74
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.51
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCGTGTTGCTCACGTTTTATATAATAAAGTTGT
TAT
Found at i:6513271 original size:21 final size:21
Alignment explanation
Indices: 6513242--6513281 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6513232 GTTTTTATAT
*
6513242 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
6513263 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
6513282 GAATTAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:6514998 original size:372 final size:372
Alignment explanation
Indices: 6514309--6515070 Score: 1488
Period size: 372 Copynumber: 2.0 Consensus size: 372
6514299 CTTGTCCATT
*
6514309 AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
6514374 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
6514439 GTAACAACGCCACGTATGATGAATCTTAAAAAATTGAAAAAGACTTGAAAAAAGTTGTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTGAAAAAGACTTGAAAAAAGTTGTATCGAGC
6514504 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
6514569 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
6514634 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
326 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
6514681 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
6514746 ATAGGTTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
6514811 GTAACAACGCCACGTATGATGAATCTTAAAAAATTGAAAAAGACTTGAAAAAAGTTGTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTGAAAAAGACTTGAAAAAAGTTGTATCGAGC
6514876 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
* *
6514941 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATGATGTTTTGTTTTAA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
6515006 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
326 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
6515053 AAAATTACAACAATAGCT
1 AAAATTACAACAATAGCT
6515071 TTTGATACTA
Statistics
Matches: 386, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
372 386 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (372 bp):
AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
GTAACAACGCCACGTATGATGAATCTTAAAAAATTGAAAAAGACTTGAAAAAAGTTGTATCGAGC
TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
Found at i:6518176 original size:21 final size:21
Alignment explanation
Indices: 6518143--6518193 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
6518133 ACAACTTAGA
*
6518143 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
6518164 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
6518185 GCAGAGGCA
1 GCAGAGGCA
6518194 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:6518494 original size:31 final size:31
Alignment explanation
Indices: 6518448--6518514 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
6518438 TGGTTGTATT
* *
6518448 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
6518479 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
6518510 TTTTA
1 TTTTA
6518515 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:6518613 original size:43 final size:42
Alignment explanation
Indices: 6518566--6518751 Score: 223
Period size: 43 Copynumber: 4.3 Consensus size: 42
6518556 ATCTGCCAAA
*
6518566 TTTAGCGGCGTTTGTAA-AAAAAGCGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCGTTT-TAACAAAGA-CGCCGCTAAAAGCCTTGACC
** *
6518609 TTTAGCGGCGTTTTTCCCACAA-ACGCCGCTAAAAGCCTTAACC
1 TTTAGCGGCG-TTTTAACA-AAGACGCCGCTAAAAGCCTTGACC
* *
6518652 TTTAGCGGCGCTTTTACCACAGACGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCG-TTTTAACAAAGACGCCGCTAAAAGCCTTGACC
** *
6518695 TTTAGCGGCGCTTTTCCCACAGACGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCG-TTTTAACAAAGACGCCGCTAAAAGCCTTGACC
6518738 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
6518752 TTTTCTAATA
Statistics
Matches: 131, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
42 5 0.04
43 119 0.91
44 5 0.04
45 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (42 bp):
TTTAGCGGCGTTTTAACAAAGACGCCGCTAAAAGCCTTGACC
Found at i:6518711 original size:86 final size:86
Alignment explanation
Indices: 6518589--6518752 Score: 292
Period size: 86 Copynumber: 1.9 Consensus size: 86
6518579 GTAAAAAAAG
*
6518589 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTCCCACAAACGCCGCTAAAAGCCTTAACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTAACCTT
6518654 TAGCGGCGCTTTTACCACAGA
66 TAGCGGCGCTTTTACCACAGA
* *
6518675 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAGACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTAACCTT
*
6518740 TAGCGGCGTTTTT
66 TAGCGGCGCTTTT
6518753 TTTCTAATAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 74 1.00
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (86 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTAACCTT
TAGCGGCGCTTTTACCACAGA
Found at i:6519202 original size:93 final size:93
Alignment explanation
Indices: 6519092--6519262 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
6519082 GCCCCTAAGT
* *
6519092 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
6519157 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
6519185 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
6519250 CGAGTTCGGATGC
66 CGAGTTCGGATGC
6519263 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:6519259 original size:46 final size:46
Alignment explanation
Indices: 6519087--6519259 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
6519077 AACCCGCCCC
* * *
6519087 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * * *
6519133 TAAGTGAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
6519181 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
6519226 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
6519260 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.57
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:6524726 original size:13 final size:14
Alignment explanation
Indices: 6524703--6524737 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
6524693 GATACAAATA
6524703 ACAGAATCAGATAT
1 ACAGAATCAGATAT
*
6524717 GCAGAA-CAGATAT
1 ACAGAATCAGATAT
6524730 ACAGAATC
1 ACAGAATC
6524738 CTACCCCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (14 bp):
ACAGAATCAGATAT
Found at i:6532310 original size:40 final size:40
Alignment explanation
Indices: 6532266--6532349 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
6532256 TAACATATTG
* *
6532266 GCTAAATATGGCACTTAGTGTGCGGTTCGATATAGCTTCA
1 GCTAAATATGGCACTTAGTGTGCGATTCGAGATAGCTTCA
* *
6532306 GCTAAATTTGGCACTTAGTGTGCGATTTGAGATAGCTTCA
1 GCTAAATATGGCACTTAGTGTGCGATTCGAGATAGCTTCA
6532346 GCTA
1 GCTA
6532350 TGTACAGCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
GCTAAATATGGCACTTAGTGTGCGATTCGAGATAGCTTCA
Found at i:6532431 original size:28 final size:28
Alignment explanation
Indices: 6532397--6532459 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
6532387 CTCAGTATGA
*
6532397 GAAATATTGAAAATGGCAGTTAGTGTGC
1 GAAATATTGAAAATGACAGTTAGTGTGC
* * *
6532425 GAGATATTGAGAATGACATTTAGTGTGC
1 GAAATATTGAAAATGACAGTTAGTGTGC
6532453 GAAATAT
1 GAAATAT
6532460 CGAATGATTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (28 bp):
GAAATATTGAAAATGACAGTTAGTGTGC
Found at i:6534380 original size:27 final size:28
Alignment explanation
Indices: 6534337--6534391 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
6534327 GAATGTTGCC
* *
6534337 ATTGATGAATATGTATG-ATTTTTGATG
1 ATTGATGAAGATGTATGAATATTTGATG
6534364 ATTGATGATAGAT-TATGAATATTTGATG
1 ATTGATGA-AGATGTATGAATATTTGATG
6534392 TTAGTTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (28 bp):
ATTGATGAAGATGTATGAATATTTGATG
Found at i:6538590 original size:46 final size:46
Alignment explanation
Indices: 6538540--6538715 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
6538530 TGGTTGAGCA
**
6538540 TCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
6538586 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
6538631 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
6538679 -CCTGAGCTCGTTGATTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6538716 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 59 0.56
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:6538649 original size:93 final size:93
Alignment explanation
Indices: 6538537--6538707 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
6538527 GGATGGTTGA
** * *
6538537 GCATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG-CCTGAACTCGTTGAG
*
6538601 TTGAGTTCGAGTTCGTGAAATGTAACTAG
65 TTGAGTCCGAGTTCGTGAAATGTAACTAG
* *
6538630 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCTGAGCTCGTTGATT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCTGAACTCGTTGAGT
6538695 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
6538708 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:6545171 original size:30 final size:30
Alignment explanation
Indices: 6545137--6545195 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
6545127 AGTGCAAATC
*
6545137 CCCATGTAGTGCAAACTCATGAGCGAACCT
1 CCCATGTAGTGCAAACCCATGAGCGAACCT
6545167 CCCATGTAGTGCAAACCCATGAGCGAACC
1 CCCATGTAGTGCAAACCCATGAGCGAACC
6545196 CTTGTGCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.32, G:0.20, T:0.17
Consensus pattern (30 bp):
CCCATGTAGTGCAAACCCATGAGCGAACCT
Found at i:6545228 original size:12 final size:12
Alignment explanation
Indices: 6545175--6545231 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
6545165 CTCCCATGTA
6545175 GTGCAAACCCAT
1 GTGCAAACCCAT
* * *
6545187 GAGCGAACCCTT
1 GTGCAAACCCAT
6545199 GTGCAAACCCTAGGT
1 GTGCAAACCC-A--T
*
6545214 GTGCGAACCCAT
1 GTGCAAACCCAT
6545226 GTGCAA
1 GTGCAA
6545232 GCCTATTGGT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
12 23 0.68
14 1 0.03
15 10 0.29
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.18
Consensus pattern (12 bp):
GTGCAAACCCAT
Found at i:6545439 original size:33 final size:33
Alignment explanation
Indices: 6545392--6545482 Score: 128
Period size: 33 Copynumber: 2.8 Consensus size: 33
6545382 CATTTATACG
*
6545392 AGCCTATATATATGTGAACCCTAGGATTATGCA
1 AGCCTATATGTATGTGAACCCTAGGATTATGCA
*
6545425 AGCCTATATGTATGTGGACCCTAGGATTATGCA
1 AGCCTATATGTATGTGAACCCTAGGATTATGCA
** **
6545458 AGTTTATATGTATGCAAACCCTAGG
1 AGCCTATATGTATGTGAACCCTAGG
6545483 TACATACGAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (33 bp):
AGCCTATATGTATGTGAACCCTAGGATTATGCA
Found at i:6545587 original size:22 final size:22
Alignment explanation
Indices: 6545560--6545617 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
6545550 TATAAAACTA
*
6545560 GCTATATGCGAACCTTATACAT
1 GCTATATGCGAACCTTATAAAT
*
6545582 GCTATATGCGAACTTTATAAAT
1 GCTATATGCGAACCTTATAAAT
* *
6545604 GCTACATGTGAACC
1 GCTATATGCGAACC
6545618 CCTGTATATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (22 bp):
GCTATATGCGAACCTTATAAAT
Found at i:6546270 original size:41 final size:41
Alignment explanation
Indices: 6546225--6546307 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
6546215 TTTACTGTTT
6546225 GAATAATTATATATAATGGTTTAAGGTTAGTCTCACATTGA
1 GAATAATTATATATAATGGTTTAAGGTTAGTCTCACATTGA
6546266 GAATAATTATATATAATGGTTTAAGGTTAGTCTCACATTGA
1 GAATAATTATATATAATGGTTTAAGGTTAGTCTCACATTGA
6546307 G
1 G
6546308 CCGTTCTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (41 bp):
GAATAATTATATATAATGGTTTAAGGTTAGTCTCACATTGA
Found at i:6550945 original size:30 final size:31
Alignment explanation
Indices: 6550904--6550961 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
6550894 CTTTGGTCAC
*
6550904 TGAATTATTTAAAA-ATTTCATTTAAGTTAT
1 TGAACTATTTAAAAGATTTCATTTAAGTTAT
* *
6550934 TGAACTATTTAAAAGTTTTTATTTAAGT
1 TGAACTATTTAAAAGATTTCATTTAAGT
6550962 CACTAGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (31 bp):
TGAACTATTTAAAAGATTTCATTTAAGTTAT
Found at i:6553048 original size:26 final size:25
Alignment explanation
Indices: 6553012--6553065 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
6553002 ATATTTTCCA
**
6553012 TTTTTTATTTTTTTAATTAATATAAT
1 TTTTTTATTTTCATAATTAATAT-AT
*
6553038 TTTTTTATTTTCATAATTTATATAT
1 TTTTTTATTTTCATAATTAATATAT
6553063 TTT
1 TTT
6553066 AAGTCTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTTTATTTTCATAATTAATATAT
Found at i:6553123 original size:9 final size:9
Alignment explanation
Indices: 6553109--6553205 Score: 56
Period size: 9 Copynumber: 10.6 Consensus size: 9
6553099 TAATTACAAT
6553109 ATTTTTATA
1 ATTTTTATA
*
6553118 ATTTTT-TC
1 ATTTTTATA
*
6553126 ACTTTTATA
1 ATTTTTATA
*
6553135 TTTTTTATA
1 ATTTTTATA
*
6553144 A-ATTTATA
1 ATTTTTATA
*
6553152 TATTTTTATG
1 -ATTTTTATA
6553162 ATTTTCTATCA
1 ATTTT-TAT-A
*
6553173 A-TTTTATC
1 ATTTTTATA
*
6553181 ATCTTTAATA
1 AT-TTTTATA
*
6553191 TTTTTTAATA
1 ATTTTT-ATA
6553201 ATTTT
1 ATTTT
6553206 AAGCATAAAA
Statistics
Matches: 64, Mismatches: 16, Indels: 15
0.67 0.17 0.16
Matches are distributed among these distances:
8 13 0.20
9 26 0.41
10 24 0.38
11 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:6553193 original size:28 final size:26
Alignment explanation
Indices: 6553106--6553206 Score: 82
Period size: 28 Copynumber: 3.7 Consensus size: 26
6553096 GAGTAATTAC
*
6553106 AATATTTTTATAATTTTTTCA-CTTT
1 AATATTTTTATAATTTTATCATCTTT
*
6553131 TATATTTTTTATAAATTTATAT-AT-TTT
1 AATA-TTTTTAT-AATTT-TATCATCTTT
*
6553158 TATGATTTTCTATCAATTTTATCATCTTT
1 AAT-ATTTT-TAT-AATTTTATCATCTTT
6553187 AATATTTTTTAATAATTTTA
1 AATA-TTTTT-ATAATTTTA
6553207 AGCATAAAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
25 3 0.05
26 7 0.11
27 19 0.31
28 22 0.35
29 11 0.18
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (26 bp):
AATATTTTTATAATTTTATCATCTTT
Found at i:6555495 original size:27 final size:27
Alignment explanation
Indices: 6555476--6555830 Score: 521
Period size: 27 Copynumber: 13.1 Consensus size: 27
6555466 ATTACCAAAG
*
6555476 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
6555503 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
6555530 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
6555557 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
6555584 TACCCTAGATTTATAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
6555611 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
**
6555638 TACCCTCGATTTACGGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
6555665 TACCGTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
6555692 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
6555719 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
6555746 TACCCTCGATTTATGGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
6555773 TACCCTGGATTTACAGAATTACCGTGT
1 TACCCTCGATTTATAGAATTACCGTTT
*
6555800 TACCCTCGATTTATAGAATTACCGTAT
1 TACCCTCGATTTATAGAATTACCGTTT
6555827 TACC
1 TACC
6555831 GTTTTACCTT
Statistics
Matches: 295, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 295 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:6555847 original size:35 final size:35
Alignment explanation
Indices: 6555790--6555856 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 35
6555780 GATTTACAGA
* * *
6555790 ATTACCGTGTTACCCTCGATTTATAGAATTACCGT
1 ATTACCGTGTTACCCTCAATTTACAAAATTACCGT
* * *
6555825 ATTACCGTTTTACCTTTAATTTACAAAATTAC
1 ATTACCGTGTTACCCTCAATTTACAAAATTAC
6555857 TGAAATACCC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 26 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (35 bp):
ATTACCGTGTTACCCTCAATTTACAAAATTACCGT
Found at i:6556055 original size:27 final size:27
Alignment explanation
Indices: 6555849--6556134 Score: 212
Period size: 27 Copynumber: 10.7 Consensus size: 27
6555839 TTTAATTTAC
** * * **
6555849 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTAGTTTGT
* ** *
6555876 AAAATTACCAAAATA-CCCTCAATCAGG
1 AAAATTACCAAAATACCCCT-AGTTTGT
6555903 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
6555930 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
6555957 AAAATTACCAAAATACCCCTAGCTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
6555984 AAAATTACCAAAATA-CCCT-GATTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * *
6556010 CAAATTATCGAAATACCCTCTA-TTTGT
1 AAAATTACCAAAATACCC-CTAGTTTGT
**
6556037 AAAA-TA-CAGAAATACCCCT-GTAGGGT
1 AAAATTACCA-AAATACCCCTAGT-TTGT
* * **
6556063 AGAATTACTAAAATACCCCT-GTAGGGT
1 AAAATTACCAAAATACCCCTAGT-TTGT
* * * **
6556090 AGAATTACCGAAATTCCCCT-GTAGGGT
1 AAAATTACCAAAATACCCCTAGT-TTGT
*
6556117 AGAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
6556135 TTGTAGGGTA
Statistics
Matches: 219, Mismatches: 29, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
25 5 0.02
26 38 0.17
27 169 0.77
28 7 0.03
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:6556139 original size:27 final size:27
Alignment explanation
Indices: 6556045--6556314 Score: 378
Period size: 27 Copynumber: 10.0 Consensus size: 27
6556035 GTAAAATACA
*
6556045 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
6556072 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
6556099 GAAATTCCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
6556126 AAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
6556153 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
6556180 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
6556207 GAAATACCCCTGTACGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
6556234 GAGATACCCTTGTAGGGTAAAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
6556261 GAAATACCCCTGTACGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
6556288 GAGATACCCTTGTAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
6556315 ATTTTGCCCC
Statistics
Matches: 215, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 215 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:6556648 original size:2 final size:2
Alignment explanation
Indices: 6556641--6556676 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6556631 TGGCTTCGCC
6556641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6556677 CTGTTCTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6556860 original size:6 final size:6
Alignment explanation
Indices: 6556851--6556917 Score: 66
Period size: 6 Copynumber: 10.8 Consensus size: 6
6556841 TTGCATTCAC
*
6556851 ATTCTG ATTCTG ATTCT- CTTACCTG ATTCTG ATTCTG ATTCTG -TTACTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT-C-TG
*
6556901 ATTCTA ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
6556918 CATTTTGATC
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
5 4 0.08
6 38 0.75
7 5 0.10
8 4 0.08
ACGTcount: A:0.18, C:0.19, G:0.12, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:6556879 original size:25 final size:25
Alignment explanation
Indices: 6556851--6556918 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
6556841 TTGCATTCAC
6556851 ATTCTGATTCTGATTCTCTTACCTG
1 ATTCTGATTCTGATTCTCTTACCTG
* *
6556876 ATTCTGATTCTGATTCTGTTACTTG
1 ATTCTGATTCTGATTCTCTTACCTG
*
6556901 ATTCTAATTCTGATTCTC
1 ATTCTGATTCTGATTCTC
6556919 ATTTTGATCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.50
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTCTTACCTG
Found at i:6556984 original size:31 final size:32
Alignment explanation
Indices: 6556949--6557012 Score: 78
Period size: 34 Copynumber: 2.0 Consensus size: 32
6556939 ATGTTCTTAT
*
6556949 TCTG-TAATGGGCTAAGGCCC-ATCTGGTACTA
1 TCTGTTAATGGGCTAAGACCCAAT-TGGTACTA
6556980 TCTGTTATAATGGGCTAAGACCCAATTGGTACT
1 TCTG-T-TAATGGGCTAAGACCCAATTGGTACT
6557013 GAAACTGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 4 0.14
34 22 0.79
35 2 0.07
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (32 bp):
TCTGTTAATGGGCTAAGACCCAATTGGTACTA
Found at i:6559084 original size:27 final size:27
Alignment explanation
Indices: 6559040--6559241 Score: 80
Period size: 27 Copynumber: 7.5 Consensus size: 27
6559030 GTACTTTAGG
* ** *
6559040 TTACCAAATTACTGAAATGCCCTCGAC
1 TTACAAAATTACCAAAATACCCTCGAC
* *
6559067 TTATAAAATTACCAAAATACCCTCGAT
1 TTACAAAATTACCAAAATACCCTCGAC
* *** *
6559094 TTACAGAATTACCATTTTACCCTCGAT
1 TTACAAAATTACCAAAATACCCTCGAC
* * **** *
6559121 TTATAGAATTACCGTTTTACCCTCGAT
1 TTACAAAATTACCAAAATACCCTCGAC
* * **** *
6559148 TTATAGAATTACCGTTTTACCCTCGAT
1 TTACAAAATTACCAAAATACCCTCGAC
* * *** *
6559175 TTATAGAATTACCATTTTACCCTCGAT
1 TTACAAAATTACCAAAATACCCTCGAC
*** *
6559202 TTACAAAATTACCATTTTACCCTCGAT
1 TTACAAAATTACCAAAATACCCTCGAC
*
6559229 TTCCAAAATTACC
1 TTACAAAATTACC
6559242 GTTTTATCCT
Statistics
Matches: 158, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 158 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (27 bp):
TTACAAAATTACCAAAATACCCTCGAC
Found at i:6559131 original size:54 final size:54
Alignment explanation
Indices: 6559084--6559481 Score: 541
Period size: 54 Copynumber: 7.4 Consensus size: 54
6559074 ATTACCAAAA
6559084 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
* * *
6559138 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
* ** *
6559192 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTCCAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
* * * * * **
6559246 TATCCTCGATTTAC-GAAATTACTATTTTACCCTCGATTTAAAAAAATATTGTTT
1 TACCCTCGATTTACAG-AATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
* *
6559300 TACCCTCGATTTACAAAATTATCATTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
* * * *
6559354 TACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTATAGAATT-CCCTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
* *
6559407 TACCCTCGATTTACAGAATTATC-TTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
* * *
6559460 TACCTTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
6559482 TGAAATACCC
Statistics
Matches: 299, Mismatches: 42, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
52 22 0.07
53 48 0.16
54 229 0.77
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
Found at i:6559483 original size:27 final size:27
Alignment explanation
Indices: 6559084--6559481 Score: 487
Period size: 27 Copynumber: 14.8 Consensus size: 27
6559074 ATTACCAAAA
*
6559084 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
6559111 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
6559138 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
6559165 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
6559192 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
6559219 TACCCTCGATTTCCAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
6559246 TATCCTCGATTTAC-GAAATTACTATTT
1 TACCCTCGATTTACAG-AATTACCGTTT
* * * **
6559273 TACCCTCGATTTAAAAAAATATTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
6559300 TACCCTCGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
6559327 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
6559354 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
6559381 TACCCTCAATTTATAGAATT-CCCTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
6559407 TACCCTCGATTTACAGAATTATC-TTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
6559433 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
6559460 TACCTTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
6559482 TGAAATACCC
Statistics
Matches: 329, Mismatches: 38, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
26 46 0.14
27 283 0.86
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:6559490 original size:27 final size:27
Alignment explanation
Indices: 6559460--6559682 Score: 159
Period size: 27 Copynumber: 8.3 Consensus size: 27
6559450 ATTACTGTTT
* **
6559460 TACCTTTGATTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
*
6559487 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* * *
6559514 TACCCTCGA-TCAGGAAAATTACCAAAA
1 TACCCTTGATTTA-CAAAATTACCAAAA
**
6559541 TACCCTT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
* * **
6559568 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
*
6559595 TACCCTTAGCTTGT--AAAATTACCAAAA
1 TACCCTT-GATT-TACAAAATTACCAAAA
* *** *
6559622 TACCCCTGATTTGTGAAATTATCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* ** * *
6559649 TACCCTCGATTTGTAAAA-TATCGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
6559675 TACCCTTG
1 TACCCTTG
6559683 CATGTTAGAA
Statistics
Matches: 163, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.01
26 20 0.12
27 137 0.84
28 4 0.02
29 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:6559532 original size:54 final size:54
Alignment explanation
Indices: 6559474--6559667 Score: 214
Period size: 54 Copynumber: 3.6 Consensus size: 54
6559464 TTTGATTTAC
** * **
6559474 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGG
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCT-GATCAGG
* ** *
6559528 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATCAGG
* **
6559582 AAAATTACCAAAATACCCTTAGCTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATCAG-G
* *
6559637 -AAATTATCAAAATACCC-TCGATTTGTAAAAT
1 AAAATTACCAAAATACCCTTAG-TTTGTAAAAT
6559668 ATCGAAATAC
Statistics
Matches: 122, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
53 2 0.02
54 116 0.95
55 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATCAGG
Found at i:6559662 original size:81 final size:81
Alignment explanation
Indices: 6559474--6559709 Score: 237
Period size: 81 Copynumber: 2.9 Consensus size: 81
6559464 TTTGATTTAC
** * * ** * * * *
6559474 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGGAAAATTACCAA
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGCT-TGTAAAATTACCAA
*
6559539 AATA-CCCTTAGTTTGT
65 AATACCCCTGAGTTTGT
*
6559555 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAGCTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTT-GCTTGTAAAATTACCAA
6559620 AATACCCCTGA-TTTGT
65 AATACCCCTGAGTTTGT
* * * * * * *
6559636 GAAATTATCAAAATA-CCCTCGATTTGTAAAA-TATCGAAATACCCTTGCATGTTAGAATTACTA
1 AAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTTGCTTG-TAAAATTACCA
6559699 AAATACCCCTG
64 AAATACCCCTG
6559710 TAGGGTAGAA
Statistics
Matches: 133, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 4 0.03
80 37 0.28
81 85 0.64
82 7 0.05
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGCTTGTAAAATTACCAAA
ATACCCCTGAGTTTGT
Found at i:6559718 original size:27 final size:27
Alignment explanation
Indices: 6559688--6559938 Score: 337
Period size: 27 Copynumber: 9.3 Consensus size: 27
6559678 CCTTGCATGT
*
6559688 TAGAATTACTAAAATACCCCTGTAGGG
1 TAGAATTACTGAAATACCCCTGTAGGG
6559715 TAGAATTAC-GAAATACCCCTGTAGGG
1 TAGAATTACTGAAATACCCCTGTAGGG
* *
6559741 TAGAATT-GTCGAAATACCCTTGTAGGG
1 TAGAATTACT-GAAATACCCCTGTAGGG
* *
6559768 TAGAAATACTGAAATACCCCTGTAGGT
1 TAGAATTACTGAAATACCCCTGTAGGG
*
6559795 TAGAATTACTAAAATACCCCTGTAGGG
1 TAGAATTACTGAAATACCCCTGTAGGG
* * *
6559822 TAGAAATATTGAAATAACCCTGTAGGG
1 TAGAATTACTGAAATACCCCTGTAGGG
* * *
6559849 TAGAATTACCGAGATACCCTTGTAGGG
1 TAGAATTACTGAAATACCCCTGTAGGG
* *
6559876 TAGAAATA-TCGAAATACCCCTGTAAGG
1 TAGAATTACT-GAAATACCCCTGTAGGG
6559903 TAGAATTACTGAAATACCCCTGTAGGG
1 TAGAATTACTGAAATACCCCTGTAGGG
6559930 TAGAATTAC
1 TAGAATTAC
6559939 CATTTTGCCC
Statistics
Matches: 192, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.12
27 167 0.87
28 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
TAGAATTACTGAAATACCCCTGTAGGG
Found at i:6559722 original size:80 final size:77
Alignment explanation
Indices: 6559557--6559898 Score: 233
Period size: 80 Copynumber: 4.2 Consensus size: 77
6559547 TAGTTTGTAA
* * * * *
6559557 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAGCTTGTAAAATTACCAAAA
1 AATTA-CAAAATACCCCT-GTTTGTAAAA-TATCGAAATACCCTT-GCATGTAGAATTACTAAAA
**
6559622 TACCCCTG-ATTTGT-G
62 TACCCCTGTA-GGGTAG
6559637 AAATTATCAAAATA-CCCTCGATTTGTAAAATATCGAAATACCCTTGCATGTTAGAATTACTAAA
1 -AATTA-CAAAATACCCCT-G-TTTGTAAAATATCGAAATACCCTTGCATG-TAGAATTACTAAA
6559701 ATACCCCTGTAGGGTAG
61 ATACCCCTGTAGGGTAG
* ** * * * * * *
6559718 AATTACGAAATACCCCTGTAGGGTAGAATTGTCGAAATACCCTTGTAGGGTAGAAATACTGAAAT
1 AATTACAAAATACCCCTGT-TTGTA-AAATATCGAAATACCCTTGCA-TGTAGAATTACTAAAAT
*
6559783 ACCCCTGTAGGTTAG
63 ACCCCTGTAGGGTAG
** * * * ** *
6559798 AATTACTAAAATACCCCTGTAGGGTAGAAATATTGAAATAACCC-TGTAGGGTAGAATTACCGAG
1 AATTAC-AAAATACCCCTGT-TTGTA-AAATATCGAAAT-ACCCTTGCA-TGTAGAATTACTAAA
*
6559862 ATACCCTTGTAGGGTAG
61 ATACCCCTGTAGGGTAG
* *
6559879 AAATATCGAAATACCCCTGT
1 AATTA-CAAAATACCCCTGT
6559899 AAGGTAGAAT
Statistics
Matches: 220, Mismatches: 30, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.00
79 14 0.06
80 100 0.45
81 100 0.45
82 5 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (77 bp):
AATTACAAAATACCCCTGTTTGTAAAATATCGAAATACCCTTGCATGTAGAATTACTAAAATACC
CCTGTAGGGTAG
Found at i:6560228 original size:27 final size:26
Alignment explanation
Indices: 6560184--6560235 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
6560174 CTCACTGCAA
*
6560184 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
6560211 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
6560236 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:6561129 original size:31 final size:31
Alignment explanation
Indices: 6561094--6561157 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
6561084 CCTTTTCATG
6561094 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
6561125 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
6561156 TT
1 TT
6561158 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:6561399 original size:24 final size:24
Alignment explanation
Indices: 6561348--6561490 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
6561338 GCTTTATCAT
*
6561348 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
6561373 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
*
6561397 ATAACTAGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
6561420 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
6561444 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
6561468 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
6561491 TCATTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 22 0.20
24 75 0.69
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:6561425 original size:47 final size:48
Alignment explanation
Indices: 6561362--6561489 Score: 195
Period size: 47 Copynumber: 2.7 Consensus size: 48
6561352 CTGGAGGCCT
*
6561362 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTAGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTAGGGCATA
** *
6561411 AGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTAGGGCATA
*
6561458 AGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTT
6561490 TTCATTTCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
47 43 0.58
48 27 0.36
49 4 0.05
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTAGGGCATA
Found at i:6561451 original size:71 final size:72
Alignment explanation
Indices: 6561347--6561490 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
6561337 TGCTTTATCA
*
6561347 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTAGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTAGGGCATAA
6561412 GCCCTTT
66 GCCCTTT
* * ** *
6561419 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTAGGGCATA
6561482 AGCCCTTT
65 AGCCCTTT
6561490 T
1 T
6561491 TCATTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 52 0.80
72 13 0.20
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTAGGGCATAA
GCCCTTT
Found at i:6561565 original size:20 final size:20
Alignment explanation
Indices: 6561540--6561600 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
6561530 TTATGATTAC
6561540 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
6561560 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
6561580 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
6561600 A
1 A
6561601 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:6561675 original size:25 final size:25
Alignment explanation
Indices: 6561643--6561690 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6561633 ATACATAAAC
* * *
6561643 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
6561668 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
6561691 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:6562912 original size:27 final size:27
Alignment explanation
Indices: 6562835--6562914 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
6562825 TCATACGGAA
6562835 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCATTTTAC
* *
6562860 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCATTTTAC
* *
6562887 CCTACAAGGGCT-TTACGGTCTTTTTAC
1 CATAC-AGGGCTATTACGGTCATTTTAC
6562914 C
1 C
6562915 TAATAGGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
25 8 0.18
26 5 0.11
27 27 0.60
28 5 0.11
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCATTTTAC
Found at i:6562998 original size:27 final size:27
Alignment explanation
Indices: 6562968--6563196 Score: 147
Period size: 27 Copynumber: 8.4 Consensus size: 27
6562958 GTAAATCTAC
*
6562968 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
6562995 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
6563023 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
6563051 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
6563078 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
6563105 AAACCAAGGGTATTT-TGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
6563131 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
6563158 AAACTAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
6563185 AAATCGAGGGTA
1 AAACCAAGGGTA
6563197 AAATAGTAAT
Statistics
Matches: 162, Mismatches: 35, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
26 22 0.14
27 112 0.69
28 14 0.09
29 14 0.09
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:6563144 original size:53 final size:54
Alignment explanation
Indices: 6562945--6563182 Score: 219
Period size: 54 Copynumber: 4.4 Consensus size: 54
6562935 TTTCATCCTA
* * * * * **
6562945 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAC
* * * * * * ** *
6562999 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTTACAAAC
* * * *
6563055 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAC
* *
6563109 CAAGGGTATTTT-GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAC
* *
6563162 TAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
6563183 GTAAATCGAG
Statistics
Matches: 149, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
53 47 0.32
54 50 0.34
55 17 0.11
56 35 0.23
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAC
Found at i:6563196 original size:80 final size:81
Alignment explanation
Indices: 6563028--6563181 Score: 224
Period size: 80 Copynumber: 1.9 Consensus size: 81
6563018 TTTAGAAAGT
* * *
6563028 CAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 CAAGGGTATTTCTGTAACTTTGTAAAACAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
*
6563093 CGGTAATTTCACAAAC
66 CAGTAATTTCACAAAC
6563109 CAAGGGTATTT-TGTAA-TTT-TACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTAT
1 CAAGGGTATTTCTGTAACTTTGTA-AAAC-AGGGGTATTTTGGTAATTTTACAAACTAAGGGTAT
*
6563171 TTTAGTAATTT
64 TTCAGTAATTT
6563182 TGTAAATCGA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
78 2 0.03
79 6 0.09
80 47 0.71
81 11 0.17
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
CAAGGGTATTTCTGTAACTTTGTAAAACAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
CAGTAATTTCACAAAC
Found at i:6563206 original size:54 final size:52
Alignment explanation
Indices: 6563058--6563261 Score: 137
Period size: 54 Copynumber: 3.8 Consensus size: 52
6563048 TGTAAATCAG
* * * ** *
6563058 GGGTATTTTGGTAATTTTACAAATTGAGGGT-ATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAAT--GTAATTTTACAAA-CAA
* * ***
6563112 GGGTATTTT-GTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTAGTAATTTTATAAATCGA-GGGTAAAAT-GTAATTTTACAAAC-AA
* *
6563165 GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTA-AATCAA
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAAT-GTAATT-T-TACAAACAA
*** *
6563219 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACTGTAATT
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAA-TGTAATT
6563262 CTGTAAATCG
Statistics
Matches: 125, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
52 2 0.02
53 41 0.33
54 73 0.58
55 7 0.06
56 2 0.02
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (52 bp):
GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATGTAATTTTACAAACAA
Found at i:6563340 original size:26 final size:27
Alignment explanation
Indices: 6563175--6563383 Score: 269
Period size: 27 Copynumber: 7.8 Consensus size: 27
6563165 GGGTATTTTA
* **
6563175 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
6563202 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
6563229 GTAATTCTATAAATCGAGGGTAAAACT
1 GTAATTCTGTAAATCGAGGGTAAAACG
6563256 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
6563283 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
6563310 ATAATTATGTAAATAG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
6563336 GTAATTATGTAAATCG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
6563362 ATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
6563384 CTTTGGTAAT
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
26 48 0.29
27 116 0.71
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:6563410 original size:27 final size:26
Alignment explanation
Indices: 6563380--6563478 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 26
6563370 GTAAATCGGG
* *
6563380 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTA-TTTAGTAATTTTACAAATCGAA
*
6563407 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTT-AGTAATTTTACAAATCGAA
* *
6563434 GGTATTTTAGTATTTTTACAAA-CTAA
1 GGTA-TTTAGTAATTTTACAAATCGAA
*
6563460 GGGTATTTCGGTAATTTTA
1 -GGTATTT-AGTAATTTTA
6563479 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
26 8 0.13
27 49 0.82
28 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (26 bp):
GGTATTTAGTAATTTTACAAATCGAA
Found at i:6563437 original size:54 final size:54
Alignment explanation
Indices: 6563372--6563478 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
6563362 ATAATTCTGT
* * *
6563372 AAATCGGGGGTACTTTGGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTACTTTAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * * *
6563426 AAATCGAGGGTATTTTAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTACTTTAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
6563479 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 3 0.07
54 42 0.93
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
AAATCGAGGGTACTTTAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:6566289 original size:31 final size:31
Alignment explanation
Indices: 6566254--6566317 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
6566244 CCTTTTCATA
6566254 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
6566285 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
6566316 TT
1 TT
6566318 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:6566559 original size:24 final size:24
Alignment explanation
Indices: 6566508--6566626 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
6566498 GCTTTATCAT
*
6566508 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
6566533 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
6566557 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
6566580 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
6566604 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
6566627 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:6566587 original size:47 final size:48
Alignment explanation
Indices: 6566508--6566626 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
6566498 GCTTTATCAT
*
6566508 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
6566557 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
6566604 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
6566627 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:6566701 original size:20 final size:20
Alignment explanation
Indices: 6566676--6566736 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
6566666 TTATGATTAC
6566676 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
6566696 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
6566716 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
6566736 A
1 A
6566737 CCATATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:6566707 original size:11 final size:11
Alignment explanation
Indices: 6566676--6566731 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
6566666 TTATGATTAC
6566676 ATCATGTGCAT
1 ATCATGTGCAT
*
6566687 ATCA--TACAT
1 ATCATGTGCAT
6566696 ATCATGTGCAT
1 ATCATGTGCAT
*
6566707 ATCA--TACAT
1 ATCATGTGCAT
*
6566716 GTCATGTGCAT
1 ATCATGTGCAT
6566727 ATCAT
1 ATCAT
6566732 ACATACCATA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:6566811 original size:25 final size:25
Alignment explanation
Indices: 6566779--6566826 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6566769 ATACATAAAC
* * *
6566779 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
6566804 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
6566827 CATTATAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:6568035 original size:27 final size:27
Alignment explanation
Indices: 6567973--6568050 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
6567963 GGGCATATTC
6567973 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
6568000 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
6568027 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
6568051 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:6568121 original size:27 final size:27
Alignment explanation
Indices: 6568091--6568346 Score: 147
Period size: 27 Copynumber: 9.4 Consensus size: 27
6568081 GTAAATCTAC
*
6568091 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
6568118 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
6568146 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
6568174 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
6568201 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
6568228 AAACCAAGGGTATTT-TGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
6568254 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
6568281 AAACTAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *** * *
6568308 AAATCGAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
*
6568335 AAATCAAGGGTA
1 AAACCAAGGGTA
6568347 AAATAGTAAT
Statistics
Matches: 183, Mismatches: 41, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
26 22 0.12
27 133 0.73
28 14 0.08
29 14 0.08
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:6568267 original size:53 final size:54
Alignment explanation
Indices: 6568068--6568305 Score: 219
Period size: 54 Copynumber: 4.4 Consensus size: 54
6568058 TTTCATCCTA
* * * * * **
6568068 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAC
* * * * * * ** *
6568122 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTTACAAAC
* * * *
6568178 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAC
* *
6568232 CAAGGGTATTTT-GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAC
* *
6568285 TAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
6568306 GTAAATCGAG
Statistics
Matches: 149, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
53 47 0.32
54 50 0.34
55 17 0.11
56 35 0.23
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAAC
Found at i:6568319 original size:80 final size:81
Alignment explanation
Indices: 6568151--6568304 Score: 224
Period size: 80 Copynumber: 1.9 Consensus size: 81
6568141 TTTAGAAAGT
* * *
6568151 CAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 CAAGGGTATTTCTGTAACTTTGTAAAACAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
*
6568216 CGGTAATTTCACAAAC
66 CAGTAATTTCACAAAC
6568232 CAAGGGTATTT-TGTAA-TTT-TACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTAT
1 CAAGGGTATTTCTGTAACTTTGTA-AAAC-AGGGGTATTTTGGTAATTTTACAAACTAAGGGTAT
*
6568294 TTTAGTAATTT
64 TTCAGTAATTT
6568305 TGTAAATCGA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
78 2 0.03
79 6 0.09
80 47 0.71
81 11 0.17
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
CAAGGGTATTTCTGTAACTTTGTAAAACAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
CAGTAATTTCACAAAC
Found at i:6568347 original size:27 final size:26
Alignment explanation
Indices: 6568298--6568505 Score: 269
Period size: 27 Copynumber: 7.8 Consensus size: 26
6568288 GGGTATTTTA
*
6568298 GTAATTTTGTAAATCGAGGGTAAAAC
1 GTAATTCTGTAAATCGAGGGTAAAAC
* *
6568324 AGTAATTCTGTAAATCAAGGGTAAAATA
1 -GTAATTCTGTAAATCGAGGGTAAAA-C
*
6568352 GTAATTCTATAAATCGAGGGTAAAAC
1 GTAATTCTGTAAATCGAGGGTAAAAC
6568378 GTAATTCTGTAAATCGAGGGTAAAAC
1 GTAATTCTGTAAATCGAGGGTAAAAC
*
6568404 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 -GTAATTCTGTAAATCGAGGGTAAAAC
*
6568431 GATAATTATGTAAATC-AGGGGTAAAAC
1 G-TAATTCTGTAAATCGA-GGGTAAAAC
*
6568458 GGTAATTATGTAAATCG-GGGTAAAAC
1 -GTAATTCTGTAAATCGAGGGTAAAAC
6568484 GATAATTCTGTAAATCG-GGGTA
1 G-TAATTCTGTAAATCGAGGGTA
6568506 CTTTGGTAAT
Statistics
Matches: 163, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
25 1 0.01
26 55 0.34
27 106 0.65
28 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (26 bp):
GTAATTCTGTAAATCGAGGGTAAAAC
Found at i:6568395 original size:80 final size:80
Alignment explanation
Indices: 6568298--6568499 Score: 268
Period size: 80 Copynumber: 2.5 Consensus size: 80
6568288 GGGTATTTTA
* *
6568298 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAG-TAATTCTAT
1 GTAATTATGTAAATCGAGGGTAAAAC-GTAATTCTGTAAATCAAGGGTAAAA-AGATAATTATAT
6568362 AAATC-GAGGGTAAAAC-
64 AAATCAG-GGGTAAAACG
* * * * *
6568378 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
1 GTAATTATGTAAATCGAGGGTAAAAC-GTAATTCTGTAAATCAAGGGTAAAAAGATAATTATATA
6568443 AATCAGGGGTAAAACG
65 AATCAGGGGTAAAACG
6568459 GTAATTATGTAAATCG-GGGTAAAACGATAATTCTGTAAATC
1 GTAATTATGTAAATCGAGGGTAAAACG-TAATTCTGTAAATC
6568500 GGGGTACTTT
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 2 0.02
80 91 0.83
81 16 0.15
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (80 bp):
GTAATTATGTAAATCGAGGGTAAAACGTAATTCTGTAAATCAAGGGTAAAAAGATAATTATATAA
ATCAGGGGTAAAACG
Found at i:6568409 original size:53 final size:54
Alignment explanation
Indices: 6568298--6568505 Score: 291
Period size: 53 Copynumber: 3.9 Consensus size: 54
6568288 GGGTATTTTA
* * **
6568298 GTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAACG
*
6568352 GTAATTCTATAAATCGAGGGTAAAACG-TAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACG
* *
6568405 GTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGA-GGGTAAAACG
*
6568459 GTAATTATGTAAATCG-GGGTAAAACGATAATTCTGTAAATCG-GGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
6568506 CTTTGGTAAT
Statistics
Matches: 139, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
52 5 0.04
53 73 0.53
54 61 0.44
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACG
Found at i:6568541 original size:27 final size:26
Alignment explanation
Indices: 6568511--6568600 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
6568501 GGGTACTTTG
6568511 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAA-TCGAAGGTATTTCA
*
6568538 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAAGGTATTTCA
* * * *
6568565 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTTCA
6568592 GTAATTTTA
1 GTAATTTTA
6568601 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.07
27 48 0.89
28 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCA
Found at i:6568614 original size:27 final size:27
Alignment explanation
Indices: 6568511--6568615 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
6568501 GGGTACTTTG
* *
6568511 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
6568538 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
6568565 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
6568592 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
6568616 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:6569577 original size:15 final size:15
Alignment explanation
Indices: 6569557--6569594 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
6569547 CTCCCACTCA
6569557 AGGCCCAATACTTCT
1 AGGCCCAATACTTCT
6569572 AGGCCCAATACTTCT
1 AGGCCCAATACTTCT
*
6569587 AGGACCAA
1 AGGCCCAA
6569595 ATTCGGGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (15 bp):
AGGCCCAATACTTCT
Found at i:6571429 original size:30 final size:31
Alignment explanation
Indices: 6571395--6571457 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
6571385 CCTTTTCATA
6571395 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
6571425 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
6571456 TT
1 TT
6571458 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:6571685 original size:24 final size:24
Alignment explanation
Indices: 6571634--6571752 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
6571624 GCTTTATCAT
*
6571634 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
6571659 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
6571683 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
6571706 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
6571730 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
6571753 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:6571713 original size:47 final size:48
Alignment explanation
Indices: 6571634--6571752 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
6571624 GCTTTATCAT
*
6571634 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
6571683 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
6571730 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
6571753 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:6571826 original size:20 final size:20
Alignment explanation
Indices: 6571801--6571861 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
6571791 TTATGATTAC
6571801 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
6571821 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
6571841 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
6571861 A
1 A
6571862 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:6571936 original size:25 final size:25
Alignment explanation
Indices: 6571904--6571951 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6571894 ATACATAAAC
* * *
6571904 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
6571929 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
6571952 CATTATAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:6573167 original size:27 final size:27
Alignment explanation
Indices: 6573090--6573169 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
6573080 TCATACGGAA
6573090 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCATTTTAC
* *
6573115 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCATTTTAC
* *
6573142 CCTACAAGGGCT-TTACGGTCTTTTTAC
1 CATAC-AGGGCTATTACGGTCATTTTAC
6573169 C
1 C
6573170 TAATAGGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
25 8 0.18
26 5 0.11
27 27 0.60
28 5 0.11
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCATTTTAC
Found at i:6573253 original size:27 final size:27
Alignment explanation
Indices: 6573223--6573479 Score: 140
Period size: 27 Copynumber: 9.4 Consensus size: 27
6573213 GTAAATCTAC
*
6573223 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
6573250 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
6573278 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
6573306 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
6573333 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
6573360 AAACCAAGGGTATTT-TGATAATTTTAC
1 AAACCAAGGGTATTTCAG-TAATTTTAT
* * ** *
6573387 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
6573414 AAACTAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *** * *
6573441 AAATCGAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
*
6573468 AAATCAAGGGTA
1 AAACCAAGGGTA
6573480 AAATAGTAAT
Statistics
Matches: 183, Mismatches: 41, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
26 1 0.01
27 153 0.84
28 15 0.08
29 14 0.08
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.37
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:6573371 original size:54 final size:54
Alignment explanation
Indices: 6573313--6573452 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
6573303 TGTAAATCAG
6573313 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * * * *
6573367 GGGTATTTTGATAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* ** *
6573421 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
6573453 AAACAGTAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:6573480 original size:27 final size:27
Alignment explanation
Indices: 6573430--6573637 Score: 232
Period size: 27 Copynumber: 7.9 Consensus size: 27
6573420 AGGGTATTTT
*
6573430 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
6573457 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
6573484 AGTAATTCTATAAATCGAGGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
6573510 TGTAATT-TGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
6573536 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
6573563 -GATAATTATGTAAAT-TAGGGGTAAAAT
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* *
6573590 GGTAATTATGTAAATCG-GGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
6573616 -GATAATTCTGTAAATCG-GGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
6573638 CTTTGGTAAT
Statistics
Matches: 158, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.11
26 41 0.26
27 98 0.62
28 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:6573541 original size:79 final size:80
Alignment explanation
Indices: 6573431--6573631 Score: 266
Period size: 79 Copynumber: 2.5 Consensus size: 80
6573421 GGGTATTTTA
* *
6573431 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAG-TAATTCTAT
1 GTAA-TTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA-AGATAATTATAT
6573495 AAATCGA-GGGTAAAAT-
64 AAAT-GAGGGGTAAAATG
* * * *
6573511 GTAATTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAA
1 GTAATTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAAGATAATTATATAA
*
6573576 ATTAGGGGTAAAATG
66 ATGAGGGGTAAAATG
*
6573591 GTAATTATGTAAATCG-GGGTAAAACGATAATTCTGTAAATC
1 GTAATT-TGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC
6573632 GGGGTACTTT
Statistics
Matches: 108, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
78 2 0.02
79 64 0.59
80 33 0.31
81 9 0.08
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.30
Consensus pattern (80 bp):
GTAATTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAAGATAATTATATAA
ATGAGGGGTAAAATG
Found at i:6573560 original size:106 final size:106
Alignment explanation
Indices: 6573431--6573637 Score: 285
Period size: 106 Copynumber: 2.0 Consensus size: 106
6573421 GGGTATTTTA
* * *
6573431 GTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTAT
1 GTAATTCTGTAAATCGAGGGTAAAACGA-TAATTATGTAAATCAAGGGTAAAATAGTAATTATAT
*
6573495 AAATCGAGGGTAAAATG-TAATT-TGTAAATCGAGGGTAAAACG
65 AAATCG-GGGTAAAACGATAATTCTGTAAATCG-GGGTAAAACG
* * * * *
6573537 GTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATTAGGGGTAAAATGGTAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCAAGGGTAAAATAGTAATTATATA
6573602 AATCGGGGTAAAACGATAATTCTGTAAATCGGGGTA
66 AATCGGGGTAAAACGATAATTCTGTAAATCGGGGTA
6573638 CTTTGGTAAT
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
105 9 0.10
106 70 0.79
107 10 0.11
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (106 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCAAGGGTAAAATAGTAATTATATA
AATCGGGGTAAAACGATAATTCTGTAAATCGGGGTAAAACG
Found at i:6573657 original size:106 final size:106
Alignment explanation
Indices: 6573420--6573664 Score: 280
Period size: 106 Copynumber: 2.3 Consensus size: 106
6573410 TTACAAACTA
* * * *
6573420 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATA
1 AGGGTAATTTGGTAATTTTGTAAGTCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAATA
* *
6573485 GTAATTCTATAAATCGAGGGTAAAATGTAATTTGTAAATCG
66 GTAATTATATAAATCGAGGGTAAAACGTAATTTGTAAATCG
*** * * *
6573526 AGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAAC-GATAATTATGTAAATTAGGGGTAAAAT
1 AGGGTAATTTGGTAATTTTGTAAGTCGAGGGTAAAACAG-TAATTATGTAAATCAAGGGTAAAAT
* *
6573590 GGTAATTATGTAAATCG-GGGTAAAACGATAATTCTGTAAATCG
65 AGTAATTATATAAATCGAGGGTAAAACG-TAATT-TGTAAATCG
* ** *
6573633 -GGGTACTTTGGTAATTTTACAAGTCGAAGGTA
1 AGGGTAATTTGGTAATTTTGTAAGTCGAGGGTA
6573665 TTTCAGTAAT
Statistics
Matches: 114, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
105 10 0.09
106 95 0.83
107 9 0.08
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (106 bp):
AGGGTAATTTGGTAATTTTGTAAGTCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAATA
GTAATTATATAAATCGAGGGTAAAACGTAATTTGTAAATCG
Found at i:6573673 original size:27 final size:26
Alignment explanation
Indices: 6573643--6573732 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 26
6573633 GGGTACTTTG
6573643 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAA-TCGAAGGTATTTCA
* *
6573670 GTAATTTTACAAATCGAGGGTATTTTA
1 GTAATTTTAC-AATCGAAGGTATTTCA
* * * *
6573697 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTTCA
6573724 GTAATTTTA
1 GTAATTTTA
6573733 GTAAACTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.08
27 46 0.88
28 2 0.04
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCA
Found at i:6573719 original size:54 final size:53
Alignment explanation
Indices: 6573627--6573732 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 53
6573617 ATAATTCTGT
* *
6573627 AAATCGGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTAC
1 AAATCGGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCAGTAATTTTAC
* * * *
6573680 AAATCGAGGGTATTTTAGTATTTTTACAA-ACTAAGGGTATTTCGGTAATTTTA
1 AAATCG-GGGTACTTTAGTAATTTTACAAGACGAA-GGTATTTCAGTAATTTTA
6573733 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
53 9 0.20
54 36 0.80
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
AAATCGGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCAGTAATTTTAC
Found at i:6574821 original size:6 final size:6
Alignment explanation
Indices: 6574812--6574890 Score: 72
Period size: 6 Copynumber: 12.8 Consensus size: 6
6574802 TTGCATTCAC
* *
6574812 ATTCTG ATTCTG ATTCT- CTTACCTG ATTCTA ATTCTG ATTCTG -TTACTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT-C-TG
* *
6574862 ATTCTG ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
6574891 AGTTCTAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
5 4 0.07
6 46 0.78
7 5 0.08
8 4 0.07
ACGTcount: A:0.18, C:0.19, G:0.11, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:6574840 original size:25 final size:25
Alignment explanation
Indices: 6574812--6574879 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
6574802 TTGCATTCAC
6574812 ATTCTGATTCTGATTCTCTTACCTG
1 ATTCTGATTCTGATTCTCTTACCTG
* * *
6574837 ATTCTAATTCTGATTCTGTTACTTG
1 ATTCTGATTCTGATTCTCTTACCTG
6574862 ATTCTGATTCTGATTCTC
1 ATTCTGATTCTGATTCTC
6574880 ATTTTGATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.50
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTCTTACCTG
Done.