Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 83 of 143
Found at i:26457767 original size:26 final size:25
Alignment explanation
Indices: 26457738--26457793 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
26457728 CTTACTCTAA
* * * *
26457738 ATTTTGTTAGTTTTTATTATTTATTT
1 ATTTTATTAATTTTAATTATGT-TTT
26457764 ATTTTATTAATTTTAATTATGTTTT
1 ATTTTATTAATTTTAATTATGTTTT
26457789 ATTTT
1 ATTTT
26457794 TCTTTCAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.71
Consensus pattern (25 bp):
ATTTTATTAATTTTAATTATGTTTT
Found at i:26459828 original size:40 final size:40
Alignment explanation
Indices: 26459777--26459853 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
26459767 TATTTAAAGG
* *
26459777 GATGCACATTAAGGACAATATGTTATCTGAAGTATAGGGA
1 GATGCAAATTAAGGACAATATGTTATCTAAAGTATAGGGA
26459817 GATGCAAATTAAGGACAATATGTTATCTAAAGTATAG
1 GATGCAAATTAAGGACAATATGTTATCTAAAGTATAG
26459854 AGGGGTAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (40 bp):
GATGCAAATTAAGGACAATATGTTATCTAAAGTATAGGGA
Found at i:26465312 original size:52 final size:52
Alignment explanation
Indices: 26465250--26465588 Score: 468
Period size: 52 Copynumber: 6.6 Consensus size: 52
26465240 ATTTCATTTA
* * * * *
26465250 ATACTCACGATGACACATAATCATCGAACCTCTTAATCTGTAAAGGAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
26465302 ATACTCACGATGAAACATAGTCATCGGACCTCATAATACGTAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
26465354 ATACTTACGATGACACATAGTCATCGGACCTCATAATCCTTAAAGGGTTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
26465406 ATACTCACAATGACAC--AGTCATCGGACCTCATAA-CCAGTAAAGGGTTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCC-GTAAAGGATTCAT
* * **
26465456 ATACTCAAGATGACATATAGTCATCAAACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
26465508 ATACTCACGATGACATATAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
26465560 ATATTCACGATGACACATAGTCATCGGAC
1 ATACTCACGATGACACATAGTCATCGGAC
26465589 ATTTTTCATT
Statistics
Matches: 253, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
49 2 0.01
50 43 0.17
52 206 0.81
53 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:26465552 original size:154 final size:155
Alignment explanation
Indices: 26465250--26465588 Score: 464
Period size: 154 Copynumber: 2.2 Consensus size: 155
26465240 ATTTCATTTA
* * * * * *
26465250 ATACTCACGATGACACATAATCATCGAACCTCTTAATCTGTAAAGGAATCATATACTCACGATGA
1 ATACTCACGATGACACA-AGTCATCGGACCTCATAACCAGTAAAGGAATCATATACTCAAGATGA
** *
26465315 AACATAGTCATCGGACCTCATAATACGTAAAAGATTCATATACTTACGATGACACATAGTCATCG
65 AACATAGTCATCAAACCTCATAATACGTAAAAGATTCATATACTCACGATGACACATAGTCATCG
* *
26465380 GACCTCATAATCCTTAAAGGGTTCAT
130 GACCTCATAATCCGTAAAGGATTCAT
* ** *
26465406 ATACTCACAATGACAC-AGTCATCGGACCTCATAACCAGTAAAGGGTTCATATACTCAAGATGAC
1 ATACTCACGATGACACAAGTCATCGGACCTCATAACCAGTAAAGGAATCATATACTCAAGATGAA
* * * * *
26465470 ATATAGTCATCAAACCTCATAATCCGTAAAGGATTCATATACTCACGATGACATATAGTCATTGG
66 ACATAGTCATCAAACCTCATAATACGTAAAAGATTCATATACTCACGATGACACATAGTCATCGG
26465535 ACCTCATAATCCGTAAAGGATTCAT
131 ACCTCATAATCCGTAAAGGATTCAT
*
26465560 ATATTCACGATGACACATAGTCATCGGAC
1 ATACTCACGATGACACA-AGTCATCGGAC
26465589 ATTTTTCATT
Statistics
Matches: 159, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
154 133 0.84
156 26 0.16
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (155 bp):
ATACTCACGATGACACAAGTCATCGGACCTCATAACCAGTAAAGGAATCATATACTCAAGATGAA
ACATAGTCATCAAACCTCATAATACGTAAAAGATTCATATACTCACGATGACACATAGTCATCGG
ACCTCATAATCCGTAAAGGATTCAT
Found at i:26467851 original size:40 final size:40
Alignment explanation
Indices: 26467764--26467983 Score: 122
Period size: 41 Copynumber: 5.4 Consensus size: 40
26467754 GTTTGGAAAC
** *
26467764 AAAGCGCCGCAAAAGGTAAAGCATTAGCGACGCTTTTCCT
1 AAAGCGCCGCAAAAGGTAAAGCATTAGCGACGCTTGACCG
* * **
26467804 AATGCGCCGCAAAAGGTAAAGCATTAGCGGCGCTTGAGGG
1 AAAGCGCCGCAAAAGGTAAAGCATTAGCGACGCTTGACCG
* *** ** * * *
26467844 AAAGCGCCGCTAAAGGTCGGGTCATTAGCGGTGCCTCATC-
1 AAAGCGCCGCAAAAGGTAAAG-CATTAGCGACGCTTGACCG
* *** * *
26467884 ACAAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTT-ACCCT
1 A-AAGCGCCGCAAAAGGTAAAG-CATTAGCGACGCTTGA-CCG
* * * *
26467926 AAAGCGCCGCAAAAGGTTAGGTCATTAGCGGCGCTT-ACCAT
1 AAAGCGCCGCAAAAGGTAAAG-CATTAGCGACGCTTGACC-G
*
26467967 AAAGCGCCGCTAAAGGT
1 AAAGCGCCGCAAAAGGT
26467984 CGGGTCATTA
Statistics
Matches: 151, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
40 53 0.35
41 97 0.64
42 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.29, T:0.18
Consensus pattern (40 bp):
AAAGCGCCGCAAAAGGTAAAGCATTAGCGACGCTTGACCG
Found at i:26467890 original size:41 final size:41
Alignment explanation
Indices: 26467845--26468162 Score: 365
Period size: 41 Copynumber: 7.8 Consensus size: 41
26467835 GCTTGAGGGA
* *
26467845 AAGCGCCGCTAAAGGTCGGGTCATTAGCGGTGC-CTCATCAC
1 AAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCAT-AC
* *
26467886 AAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTACCCTA-
1 AAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTT-TCATAC
* ** *
26467927 AAGCGCCGCAAAAGGTTAGGTCATTAGCGGCGCTTACCATA-
1 AAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTT-TCATAC
* * *
26467968 AAGCGCCGCTAAAGGTCGGGTCATTAGCAGCGCTTTCCTTC
1 AAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCATAC
* * *
26468009 CAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCCTTC
1 AAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCATAC
* * * * *
26468050 AAGCGCGGCTAAAGGTCAGGTCATTAGCGGTGCTTTCCTTC
1 AAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCATAC
* *
26468091 AAGCGCCACTAAAGGTCGGGTCATTAGCGGCGCTTTC-TAAT
1 AAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCAT-AC
* *
26468132 AAGCGTCGCTAAAGGTCAGGTCATTAGCGGC
1 AAGCGCCGCTAAAGGTCGGGTCATTAGCGGC
26468163 ACTTATTAGA
Statistics
Matches: 243, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
40 3 0.01
41 237 0.98
42 1 0.00
43 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Consensus pattern (41 bp):
AAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCATAC
Found at i:26467991 original size:123 final size:123
Alignment explanation
Indices: 26467785--26468167 Score: 443
Period size: 123 Copynumber: 3.1 Consensus size: 123
26467775 AAAGGTAAAG
* ** * * ***
26467785 CATTAGCGACGCTTTTCCTAATGCGCCGCAAAAGGTAAAG-CATTAGCGGCGCTTGA-GGGAAAG
1 CATTAGCGGCGCTTACCCTAAAGCGCCGCAAAAGGTAAGGTCATTAGCGGCGCTT-ACCATAAAG
* *
26467848 CGCCGCTAAAGGTCGGGTCATTAGCGGTGC-CTCATCACAAGCGCCGCTAAAGGTCGGGT
65 CGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTC-TCACAAGCGCCGCTAAAGGTCGGGT
*
26467907 CATTAGCGGCGCTTACCCTAAAGCGCCGCAAAAGGTTAGGTCATTAGCGGCGCTTACCATAAAGC
1 CATTAGCGGCGCTTACCCTAAAGCGCCGCAAAAGGTAAGGTCATTAGCGGCGCTTACCATAAAGC
*
26467972 GCCGCTAAAGGTCGGGTCATTAGCAGCGCTTTCCTTC-C-AGCGCCGCTAAAGGTCGGGT
66 GCCGCTAAAGGTCGGGTCATTAGCGGCGCTTT-C-TCACAAGCGCCGCTAAAGGTCGGGT
* * * * * * * * * *
26468030 CATTAGCGGCGCTTTCCTTCAAGCGCGGCTAAAGGTCAGGTCATTAGCGGTGCTTTCCTTCAAGC
1 CATTAGCGGCGCTTACCCTAAAGCGCCGCAAAAGGTAAGGTCATTAGCGGCGCTTACCATAAAGC
* * * * *
26468095 GCCACTAAAGGTCGGGTCATTAGCGGCGCTTTCTAATAAGCGTCGCTAAAGGTCAGGT
66 GCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCTCACAAGCGCCGCTAAAGGTCGGGT
*
26468153 CATTAGCGGCACTTA
1 CATTAGCGGCGCTTA
26468168 TTAGAAAAGC
Statistics
Matches: 224, Mismatches: 31, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
121 1 0.00
122 36 0.16
123 182 0.81
124 2 0.01
125 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.22
Consensus pattern (123 bp):
CATTAGCGGCGCTTACCCTAAAGCGCCGCAAAAGGTAAGGTCATTAGCGGCGCTTACCATAAAGC
GCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCTCACAAGCGCCGCTAAAGGTCGGGT
Found at i:26468304 original size:13 final size:13
Alignment explanation
Indices: 26468286--26468318 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
26468276 TTCTCTCTAT
26468286 TTCCCTCACTCCA
1 TTCCCTCACTCCA
*
26468299 TTCCCTCACTCCG
1 TTCCCTCACTCCA
26468312 TTCCCTC
1 TTCCCTC
26468319 TTCACTCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.55, G:0.03, T:0.33
Consensus pattern (13 bp):
TTCCCTCACTCCA
Found at i:26470759 original size:12 final size:13
Alignment explanation
Indices: 26470742--26470774 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
26470732 ACAGTATCAA
26470742 TTAATTAAAA-AT
1 TTAATTAAAATAT
26470754 TTAATTTAAAATAT
1 TTAA-TTAAAATAT
26470768 TTAATTA
1 TTAATTA
26470775 TATTAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 9 0.47
14 6 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATTAAAATAT
Found at i:26470775 original size:66 final size:67
Alignment explanation
Indices: 26470637--26470780 Score: 231
Period size: 66 Copynumber: 2.2 Consensus size: 67
26470627 AACCAGTAAA
* *
26470637 TAATTA-AATAATTATATATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTTGAATGA
1 TAATTATATTAATTATATATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTTAAATGA
26470701 TT
66 TT
*
26470703 TAATTAT-TTAATTATGTATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTTAAAAT-
1 TAATTATATTAATTATATATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTT-AAATG
26470766 ATT
65 ATT
26470769 TAATTATATTAA
1 TAATTATATTAA
26470781 ACTAAATAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
66 65 0.90
67 7 0.10
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (67 bp):
TAATTATATTAATTATATATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTTAAATGA
TT
Found at i:26471256 original size:335 final size:335
Alignment explanation
Indices: 26470700--26472095 Score: 2341
Period size: 335 Copynumber: 4.2 Consensus size: 335
26470690 AATTTGAATG
*
26470700 ATTTAATTA--TTTAATTATGTATTTAATTATAAACAGTATCAATTAATTAAAAATTTAA-TT--
1 ATTTAATTATGTTTAATTATGTATTTAATTATAAACAGTATCAATTAATTAAATATTTAATTTAA
26470760 TA-A---AA-TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATT
66 TAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATT
26470820 ATGTATTTAATTATAAACAGTACCAATTACTTAAATATTTAATTTAATAGATTTAATTATTTAAT
131 ATGTATTTAATTATAAACAGTACCAATTACTTAAATATTTAATTTAATAGATTTAATTATTTAAT
26470885 TATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTTAATTGTAAAC
196 TATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTTAATTGTAAAC
26470950 AGTACCAATTAATTAAATATTTAA-TTAATAGATTTAATTATTTAATTATATTAAAGTAAATAAT
261 AGTACCAATTAATTAAATATTTAATTTAATAGATTTAATTATTTAATTATATTAAA-TAAATAAT
26471014 TATATTAAATT
325 TATATTAAATT
* *
26471025 ATTTAATTATGTTTAATTATGTATTTAATTGTAAACAGTATCAATTACTTAAATATTTAATTTAA
1 ATTTAATTATGTTTAATTATGTATTTAATTATAAACAGTATCAATTAATTAAATATTTAATTTAA
* *
26471090 TAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATT
66 TAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATT
* *
26471155 ATGTATTTAATTGTAAACAGTATCAATTACTTAAATATTTAATTTAATAGATTTAATTATTTAAT
131 ATGTATTTAATTATAAACAGTACCAATTACTTAAATATTTAATTTAATAGATTTAATTATTTAAT
26471220 TATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTTAATTGTAAAC
196 TATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTTAATTGTAAAC
26471285 AGTACCAATTAATTAAATATTTAA-TTAATAGATTTAATTATTTAATTATATTAAAATAAATAAT
261 AGTACCAATTAATTAAATATTTAATTTAATAGATTTAATTATTTAATTATATT-AAATAAATAAT
26471349 TATATTAAATT
325 TATATTAAATT
* *
26471360 ATTTAATTATGTTTAATTATGTATTTAATTATAAACAGTACCAATTACTTAAATATTTAATTTAA
1 ATTTAATTATGTTTAATTATGTATTTAATTATAAACAGTATCAATTAATTAAATATTTAATTTAA
26471425 TAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATT
66 TAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATT
26471490 ATGTATTTAATTATAAACAGTACCAATTACTTAAATATTTAATTTAATAGATTTAATTATTTAAT
131 ATGTATTTAATTATAAACAGTACCAATTACTTAAATATTTAATTTAATAGATTTAATTATTTAAT
* * *
26471555 TATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTATAAAC
196 TATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTTAATTGTAAAC
*
26471620 AGTACCAATTACTTAAATATTTAATTTAATAGATTTAATTATTTAATTATATTAAACTAAATAAT
261 AGTACCAATTAATTAAATATTTAATTTAATAGATTTAATTATTTAATTATATTAAA-TAAATAAT
*
26471685 TATATTAAATC
325 TATATTAAATT
* *
26471696 AATTAATTATGTTTAATTATGTATTTAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAA
1 ATTTAATTATGTTTAATTATGTATTTAATTATAAACAGTATCAATTAATTAAATATTTAATTTAA
* * * *
26471761 AATATTTAATTATTTAATTATATTAAAGTAAATAACTATATTAAATTATTTAATTATGTTTAATT
66 TAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATT
* * * * *
26471826 ATGTATTTAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAATATTTAATTATTTAAT
131 ATGTATTTAATTATAAACAGTACCAATTACTTAAATATTTAATTTAATAGATTTAATTATTTAAT
* ** * *
26471891 TATATTAAAGTAAATAATTATGGTAAATTATTTAATTATGTTTAATTATGTATTTAATTGTAAAC
196 TATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTTAATTGTAAAC
* * * * *
26471956 AGTATCAATTAATTAAATAATTAATTTAAAATATTTAATTATTTAATTATATTAAATAAAATAAC
261 AGTACCAATTAATTAAATATTTAATTTAATAGATTTAATTATTTAATTATATTAAAT-AAATAAT
26472021 TATATTAAATT
325 TATATTAAATT
*
26472032 ATTTAATTATGTTTAATTATGTATTTAATTATAAACA-TATCAATTAATTAACTATTTAATTTAA
1 ATTTAATTATGTTTAATTATGTATTTAATTATAAACAGTATCAATTAATTAAATATTTAATTTAA
26472096 AATGTTGTCA
Statistics
Matches: 1012, Mismatches: 45, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
325 9 0.01
327 46 0.05
328 2 0.00
330 2 0.00
331 1 0.00
334 2 0.00
335 556 0.55
336 394 0.39
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (335 bp):
ATTTAATTATGTTTAATTATGTATTTAATTATAAACAGTATCAATTAATTAAATATTTAATTTAA
TAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATT
ATGTATTTAATTATAAACAGTACCAATTACTTAAATATTTAATTTAATAGATTTAATTATTTAAT
TATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTTAATTGTAAAC
AGTACCAATTAATTAAATATTTAATTTAATAGATTTAATTATTTAATTATATTAAATAAATAATT
ATATTAAATT
Found at i:26472123 original size:112 final size:112
Alignment explanation
Indices: 26470765--26472095 Score: 2256
Period size: 112 Copynumber: 11.9 Consensus size: 112
26470755 TAATTTAAAA
26470765 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
1 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
* *
26470830 TTATAAACAGTACCAATTACTTAAATATTTAATTTAATAGATTTAAT
66 TTGTAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAAT
* *
26470877 TATTTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTTAA
1 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
26470942 TTGTAAACAGTACCAATTAATTAAATATTTAA-TTAATAGATTTAAT
66 TTGTAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAAT
*
26470988 TATTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
1 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
* *
26471053 TTGTAAACAGTATCAATTACTTAAATATTTAATTTAATAGATTTAAT
66 TTGTAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAAT
* *
26471100 TATTTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTTAA
1 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
* *
26471165 TTGTAAACAGTATCAATTACTTAAATATTTAATTTAATAGATTTAAT
66 TTGTAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAAT
* *
26471212 TATTTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTTAA
1 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
26471277 TTGTAAACAGTACCAATTAATTAAATATTTAA-TTAATAGATTTAAT
66 TTGTAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAAT
*
26471323 TATTTAATTATATTAAAATAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
1 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
* *
26471388 TTATAAACAGTACCAATTACTTAAATATTTAATTTAATAGATTTAAT
66 TTGTAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAAT
26471435 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
1 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
* *
26471500 TTATAAACAGTACCAATTACTTAAATATTTAATTTAATAGATTTAAT
66 TTGTAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAAT
26471547 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
1 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
* *
26471612 TTATAAACAGTACCAATTACTTAAATATTTAATTTAATAGATTTAAT
66 TTGTAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAAT
* *
26471659 TATTTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTTAA
1 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
* * *
26471724 TTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAATATTTAAT
66 TTGTAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAAT
* *
26471771 TATTTAATTATATTAAAGTAAATAACTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
1 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
* * *
26471836 TTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAATATTTAAT
66 TTGTAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAAT
* **
26471883 TATTTAATTATATTAAAGTAAATAATTATGGTAAATTATTTAATTATGTTTAATTATGTATTTAA
1 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
* * * *
26471948 TTGTAAACAGTATCAATTAATTAAATAATTAATTTAAAATATTTAAT
66 TTGTAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAAT
*
26471995 TATTTAATTATATTAAA-TAAAATAACTATATTAAATTATTTAATTATGTTTAATTATGTATTTA
1 TATTTAATTATATTAAACT-AAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTA
* * *
26472059 ATTATAAACA-TATCAATTAATTAACTATTTAATTTAA
65 ATTGTAAACAGTACCAATTAATTAAATATTTAATTTAA
26472096 AATGTTGTCA
Statistics
Matches: 1175, Mismatches: 41, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
111 238 0.20
112 937 0.80
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (112 bp):
TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAA
TTGTAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAAT
Found at i:26477701 original size:11 final size:11
Alignment explanation
Indices: 26477685--26477722 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
26477675 ACTTAAAGTG
26477685 GAGGCAGCAGC
1 GAGGCAGCAGC
26477696 GAGGCA--AGC
1 GAGGCAGCAGC
26477705 AGAGGCAGCAGC
1 -GAGGCAGCAGC
26477717 GAGGCA
1 GAGGCA
26477723 AGCGAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 3 0.12
10 6 0.25
11 12 0.50
12 3 0.12
ACGTcount: A:0.32, C:0.24, G:0.45, T:0.00
Consensus pattern (11 bp):
GAGGCAGCAGC
Found at i:26477705 original size:66 final size:66
Alignment explanation
Indices: 26477541--26477698 Score: 244
Period size: 66 Copynumber: 2.4 Consensus size: 66
26477531 GCAAATTGCT
* * *
26477541 CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATCT
1 CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAAAGGCTCAAAAAAAATATGAAGAACTCCACCT
26477606 A
66 A
* * *
26477607 AAACTTAAAGAGGAGGCTGCAGTGAGAGAAGCAAAGTCTCAAAAAAAATATGAAGAACTCCACCT
1 CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAAAGGCTCAAAAAAAATATGAAGAACTCCACCT
26477672 A
66 A
* *
26477673 CAACTTAAAGTGGAGGCAGCAGCGAG
1 CAACTTAAAGAGGAGGCTGCAGCGAG
26477699 GCAAGCAGAG
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 82 1.00
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.15
Consensus pattern (66 bp):
CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAAAGGCTCAAAAAAAATATGAAGAACTCCACCT
A
Found at i:26477711 original size:21 final size:21
Alignment explanation
Indices: 26477685--26477725 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
26477675 ACTTAAAGTG
26477685 GAGGCAGCAGCGAGGCAAGCA
1 GAGGCAGCAGCGAGGCAAGCA
26477706 GAGGCAGCAGCGAGGCAAGC
1 GAGGCAGCAGCGAGGCAAGC
26477726 GAAGGAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.24, G:0.44, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGCAAGCA
Found at i:26477735 original size:21 final size:21
Alignment explanation
Indices: 26477685--26477736 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
26477675 ACTTAAAGTG
*
26477685 GAGGCAGCAGCGAGGCAAGCA
1 GAGGAAGCAGCGAGGCAAGCA
*
26477706 GAGGCAGCAGCGAGGCAAGC-
1 GAGGAAGCAGCGAGGCAAGCA
26477726 GAAGGAAGCAG
1 G-AGGAAGCAG
26477737 AGGCTACAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.35, C:0.21, G:0.44, T:0.00
Consensus pattern (21 bp):
GAGGAAGCAGCGAGGCAAGCA
Found at i:26478081 original size:43 final size:42
Alignment explanation
Indices: 26478017--26478260 Score: 326
Period size: 43 Copynumber: 5.7 Consensus size: 42
26478007 ATCTGTTATA
26478017 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGTCT
1 TTAGCGGCGCTTGTGGA-AAAGCGCCGCTAAAGAACATGGTCT
* *
26478060 TTCGCGGCGCTTGTGGAGAAAGCGCCGCTAACGAACATGGTCT
1 TTAGCGGCGCTTGTGGA-AAAGCGCCGCTAAAGAACATGGTCT
* * **
26478103 TTCGCGGCACTTGTGGAAAATGCGCCGCTAAAGAACATGACCT
1 TTAGCGGCGCTTGTGGAAAA-GCGCCGCTAAAGAACATGGTCT
* *
26478146 TTAGCGGCGCTTGTGGAAAAGCGCCGCTATAGAACATGATCT
1 TTAGCGGCGCTTGTGGAAAAGCGCCGCTAAAGAACATGGTCT
* * * *
26478188 TTAGCTGTGCTTGTGGAAAAAGCACCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGG-AAAAGCGCCGCTAAAGAACATGGTCT
*
26478231 TTAGCGGCACTTGTGGTAAAAGCGCCGCTA
1 TTAGCGGCGCTTGTGG-AAAAGCGCCGCTA
26478261 TTTTTTGCGG
Statistics
Matches: 178, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 37 0.21
43 141 0.79
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (42 bp):
TTAGCGGCGCTTGTGGAAAAGCGCCGCTAAAGAACATGGTCT
Found at i:26478205 original size:85 final size:85
Alignment explanation
Indices: 26478017--26478261 Score: 341
Period size: 85 Copynumber: 2.8 Consensus size: 85
26478007 ATCTGTTATA
* *
26478017 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGTCTTTCGCGGCGCTTGTGGAGAAAG
1 TTAGCGGCGCTTGTGGA-AAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTGGA-AAAG
*
26478082 CGCCGCTA-ACGAACATGGTCT
64 CGCCGCTATACGAACATGATCT
* * *
26478103 TTCGCGGCACTTGTGGAAAATGCGCCGCTAAAGAACATGACCTTTAGCGGCGCTTGTGGAAAAGC
1 TTAGCGGCGCTTGTGGAAAA-GCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTGGAAAAGC
26478168 GCCGCTATA-GAACATGATCT
65 GCCGCTATACGAACATGATCT
* * * *
26478188 TTAGCTGTGCTTGTGGAAAAAGCACCGCTAAAGAACATGGCCTTTAGCGGCACTTGTGGTAAAAG
1 TTAGCGGCGCTTGTGG-AAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTGG-AAAAG
26478253 CGCCGCTAT
64 CGCCGCTAT
26478262 TTTTTGCGGC
Statistics
Matches: 142, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
85 72 0.51
86 70 0.49
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (85 bp):
TTAGCGGCGCTTGTGGAAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTGGAAAAGCG
CCGCTATACGAACATGATCT
Found at i:26485214 original size:12 final size:11
Alignment explanation
Indices: 26485197--26485252 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 11
26485187 TATTTTAAGA
26485197 TTAAATTTATT
1 TTAAATTTATT
*
26485208 TTAAAATTTAAAT
1 TT-AAATTT-ATT
*
26485221 TT-AATTTAAGT
1 TTAAATTT-ATT
26485232 TTAAATTTATT
1 TTAAATTTATT
26485243 TTCAAATTTA
1 TT-AAATTTA
26485253 AAATATATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
11 16 0.42
12 18 0.47
13 4 0.11
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TTAAATTTATT
Found at i:26485219 original size:35 final size:35
Alignment explanation
Indices: 26485179--26485254 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
26485169 ATTTTGATAT
*
26485179 TTTAAATTTATTTTAAGATTAAATTTATTTTAAAA
1 TTTAAATTTAATTTAAGATTAAATTTATTTTAAAA
* *
26485214 TTTAAATTTAATTTAAGTTTAAATTTATTTTCAAA
1 TTTAAATTTAATTTAAGATTAAATTTATTTTAAAA
26485249 TTTAAA
1 TTTAAA
26485255 ATATATAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (35 bp):
TTTAAATTTAATTTAAGATTAAATTTATTTTAAAA
Found at i:26485220 original size:18 final size:18
Alignment explanation
Indices: 26485179--26485254 Score: 102
Period size: 17 Copynumber: 4.3 Consensus size: 18
26485169 ATTTTGATAT
*
26485179 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAAA
26485197 -TTAAATTTATTTTAAAA
1 TTTAAATTTATTTTAAAA
* *
26485214 TTTAAATTTAATTT-AAG
1 TTTAAATTTATTTTAAAA
*
26485231 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTTAAAA
26485249 TTTAAA
1 TTTAAA
26485255 ATATATAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
17 31 0.61
18 20 0.39
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTAAATTTATTTTAAAA
Found at i:26486085 original size:13 final size:13
Alignment explanation
Indices: 26486048--26486088 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
26486038 TTAAAGGCAT
*
26486048 TAATTAATAATAG
1 TAATTAATAATAA
26486061 TAATT-ATAATAA
1 TAATTAATAATAA
26486073 TTAA-TAATAATAA
1 -TAATTAATAATAA
26486086 TAA
1 TAA
26486089 CTTTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
TAATTAATAATAA
Found at i:26487208 original size:30 final size:31
Alignment explanation
Indices: 26487154--26487299 Score: 103
Period size: 30 Copynumber: 4.9 Consensus size: 31
26487144 TCCTGAAAGT
* *
26487154 CCCTAAAC-TTCTCCAAAA-TATATTTTTAA
1 CCCTAAACTTTCTCGAAAATTACATTTTTAA
* *
26487183 CCCTAAACTTTCT-GAAAATTATA-TTTTGA
1 CCCTAAACTTTCTCGAAAATTACATTTTTAA
* *
26487212 CCCATGAACTTT-TCG-AAATTCCATTTTTAA
1 CCC-TAAACTTTCTCGAAAATTACATTTTTAA
* ** * *
26487242 CCCCAATTTTTC-CAAAAATTACATTTTTAC
1 CCCTAAACTTTCTCGAAAATTACATTTTTAA
*
26487272 CCCTAAAAC-TTC-CAAAAATTACATTTTT
1 CCCT-AAACTTTCTCGAAAATTACATTTTT
26487300 GACACCAAAA
Statistics
Matches: 93, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
29 32 0.34
30 59 0.63
31 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (31 bp):
CCCTAAACTTTCTCGAAAATTACATTTTTAA
Found at i:26487214 original size:29 final size:30
Alignment explanation
Indices: 26487154--26487209 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
26487144 TCCTGAAAGT
26487154 CCCTAAAC-TTCTCCAAAATATATTTTTAA
1 CCCTAAACTTTCTCCAAAATATATTTTTAA
*
26487183 CCCTAAACTTTCT-GAAAATTATATTTT
1 CCCTAAACTTTCTCCAAAA-TATATTTT
26487210 GACCCATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.41
Consensus pattern (30 bp):
CCCTAAACTTTCTCCAAAATATATTTTTAA
Found at i:26487310 original size:30 final size:29
Alignment explanation
Indices: 26487227--26487371 Score: 130
Period size: 30 Copynumber: 4.9 Consensus size: 29
26487217 GAACTTTTCG
* ***
26487227 AAATTCCATTTTTAACCCCAATTTTTCCAA
1 AAATTACATTTTT-ACCCCAAAACTTCCAA
26487257 AAATTACATTTTTACCCCTAAAACTTCCAA
1 AAATTACATTTTTACCCC-AAAACTTCCAA
* ***
26487287 AAATTACATTTTTGACACCAAAACTTGTTA
1 AAATTACATTTTT-ACCCCAAAACTTCCAA
* * *
26487317 CAATTACCA-TTTTACCCCTAAACATCCAA
1 AAATTA-CATTTTTACCCCAAAACTTCCAA
*
26487346 AAATTCCATTTTTAACCCCAAAACTT
1 AAATTACATTTTT-ACCCCAAAACTT
26487372 TTAAAGATTA
Statistics
Matches: 91, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
28 2 0.02
29 23 0.25
30 60 0.66
31 6 0.07
ACGTcount: A:0.38, C:0.26, G:0.01, T:0.34
Consensus pattern (29 bp):
AAATTACATTTTTACCCCAAAACTTCCAA
Found at i:26487367 original size:59 final size:59
Alignment explanation
Indices: 26487256--26487418 Score: 188
Period size: 59 Copynumber: 2.7 Consensus size: 59
26487246 AATTTTTCCA
* * *
26487256 AAAATTA-CATTTTTACCCCTAAAACTTCCAAAAATTACATTTTTGACACCAAAACTTGTT
1 AAAATTACCA-TTTTACCCCTAAAACATCCAAAAATTCCATTTTTAACACCAAAACTT-TT
* *
26487316 ACAATTACCATTTTACCCCT-AAACATCCAAAAATTCCATTTTTAACCCCAAAACTTTT
1 AAAATTACCATTTTACCCCTAAAACATCCAAAAATTCCATTTTTAACACCAAAACTTTT
** * *
26487374 AAAGATTACCATTTTA-CCCTCGAATATCTAAAAATTCCAATTTTT
1 AAA-ATTACCATTTTACCCCTAAAACATCCAAAAATTCC-ATTTTT
26487419 GATCCTGATT
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
58 8 0.09
59 58 0.64
60 22 0.24
61 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTAAAACATCCAAAAATTCCATTTTTAACACCAAAACTTTT
Found at i:26487389 original size:30 final size:30
Alignment explanation
Indices: 26487227--26487389 Score: 120
Period size: 30 Copynumber: 5.5 Consensus size: 30
26487217 GAACTTTTCG
***
26487227 AAATT-CCATTTTTAACCCCAATTTTTCCAA
1 AAATTACCA-TTTTAACCCCAAAACTTCCAA
*
26487257 AAATTA-CATTTTTACCCCTAAAACTTCCAA
1 AAATTACCATTTTAACCCC-AAAACTTCCAA
* * ***
26487287 AAATTA-CATTTTTGACACCAAAACTTGTTA
1 AAATTACCA-TTTTAACCCCAAAACTTCCAA
* * *
26487317 CAATTACCATTTT-ACCCCTAAACATCCAA
1 AAATTACCATTTTAACCCCAAAACTTCCAA
**
26487346 AAATT-CCATTTTTAACCCCAAAACTTTTAA
1 AAATTACCA-TTTTAACCCCAAAACTTCCAA
*
26487376 AGATTACCATTTTA
1 AAATTACCATTTTA
26487390 CCCTCGAATA
Statistics
Matches: 104, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
28 3 0.03
29 27 0.26
30 61 0.59
31 13 0.12
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.36
Consensus pattern (30 bp):
AAATTACCATTTTAACCCCAAAACTTCCAA
Found at i:26487405 original size:29 final size:28
Alignment explanation
Indices: 26487373--26487475 Score: 75
Period size: 29 Copynumber: 3.5 Consensus size: 28
26487363 CCAAAACTTT
*
26487373 TAAAGATTACCATTTTACCCTCGAATATC
1 TAAAAATT-CCATTTTACCCTCGAATATC
* * *
26487402 TAAAAATTCCAATTTTTGATCCT-GATTTTTC
1 TAAAAATTCC-A-TTTT-ACCCTCGA-ATATC
* * *
26487433 TAAAAATTACCGTTTTACCCTCGGATGTC
1 TAAAAATT-CCATTTTACCCTCGAATATC
26487462 T-AAAATTCCATTTT
1 TAAAAATTCCATTTT
26487476 TAACCTTAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
27 6 0.10
28 8 0.14
29 16 0.28
30 11 0.19
31 15 0.26
32 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (28 bp):
TAAAAATTCCATTTTACCCTCGAATATC
Found at i:26493212 original size:5 final size:5
Alignment explanation
Indices: 26493202--26493298 Score: 60
Period size: 5 Copynumber: 19.0 Consensus size: 5
26493192 TTCAATGAAT
26493202 AAAAG AAAAG -AAA- AAAAG AAGAAG AAAAAG AAAAAG AAAAG AAAA-
1 AAAAG AAAAG AAAAG AAAAG AA-AAG -AAAAG -AAAAG AAAAG AAAAG
* * * *
26493247 AACAAG AAAA- ATGAAT AAAAT AAAATA AAAAG AAAA- AAAAG AAAAAG
1 AA-AAG AAAAG A-AAAG AAAAG AAAA-G AAAAG AAAAG AAAAG -AAAAG
26493294 AAAAG
1 AAAAG
26493299 GAGAGGTCGA
Statistics
Matches: 77, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
4 13 0.17
5 38 0.49
6 24 0.31
7 2 0.03
ACGTcount: A:0.80, C:0.01, G:0.14, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:26493223 original size:11 final size:10
Alignment explanation
Indices: 26493202--26493297 Score: 70
Period size: 10 Copynumber: 9.4 Consensus size: 10
26493192 TTCAATGAAT
*
26493202 AAAAGAAAAG
1 AAAAAAAAAG
26493212 AAAAAAAGAAG
1 AAAAAAA-AAG
*
26493223 -AAGAAAAAG
1 AAAAAAAAAG
26493232 AAAAAGAAAAG
1 AAAAA-AAAAG
*
26493243 AAAAAACAAG
1 AAAAAAAAAG
** *
26493253 AAAAATGAAT
1 AAAAAAAAAG
* *
26493263 AAAATAAAAT
1 AAAAAAAAAG
26493273 AAAAAGAAAA-
1 AAAAA-AAAAG
26493283 AAAAGAAAAAG
1 AAAA-AAAAAG
26493294 AAAA
1 AAAA
26493298 GGAGAGGTCG
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
9 3 0.04
10 44 0.64
11 22 0.32
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:26493226 original size:6 final size:6
Alignment explanation
Indices: 26493202--26493297 Score: 71
Period size: 6 Copynumber: 16.5 Consensus size: 6
26493192 TTCAATGAAT
* *
26493202 AAAAGA AAAGAAA AAAAGA AGAAGA AAAAGA AAAAG- AAAAG- AAAA-A
1 AAAAGA AAA-AGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* *
26493248 ACAAGA AAAATGA ATAAA-A TAAAATA AAAAG- -AAA-A AAAAGA AAAAGA
1 AAAAGA AAAA-GA A-AAAGA -AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
26493295 AAA
1 AAA
26493298 GGAGAGGTCG
Statistics
Matches: 73, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
4 3 0.04
5 15 0.21
6 42 0.58
7 10 0.14
8 3 0.04
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:26493254 original size:41 final size:42
Alignment explanation
Indices: 26493202--26493297 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 42
26493192 TTCAATGAAT
*
26493202 AAAAG-AAAAGAAAAAAAGAAGAAGA-AAAAGAAAAAGAAAA
1 AAAAGAAAAAGAAAAAAAGAAGAAAATAAAAGAAAAAGAAAA
* * * *
26493242 GAAAA-AACAAG-AAAAATGAATAAAATAAAATAAAAAGAAAA
1 -AAAAGAAAAAGAAAAAAAGAAGAAAATAAAAGAAAAAGAAAA
26493283 AAAAGAAAAAGAAAA
1 AAAAGAAAAAGAAAA
26493298 GGAGAGGTCG
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
40 15 0.33
41 27 0.60
42 3 0.07
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (42 bp):
AAAAGAAAAAGAAAAAAAGAAGAAAATAAAAGAAAAAGAAAA
Found at i:26494648 original size:48 final size:48
Alignment explanation
Indices: 26494507--26494843 Score: 377
Period size: 48 Copynumber: 6.9 Consensus size: 48
26494497 ACAAAAACAC
* ** * *
26494507 AAGGGAAAGATCTAAGCCGTAACGGTAGATCCAGTACCAAGAAGACACG
1 AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACA-T
* * * * *
26494556 ACGGGAAATATCTAAGACAGCAACGGCGGATCCAGTATCGCGAAGACAT
1 AAGGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCACGAAGACAT
* ** *
26494605 AAGGGAAAGATGTAAGCCATAACGGCGTATCCAGTACCACGAAGACAT
1 AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACAT
* * * * * *
26494653 GAAGAGAAAGATCTAAGCCGCGATGGCGGATCCAATACCGCGAAAACAT
1 -AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACAT
** *
26494702 AAGGGAAAGATCTAAGCCATAACGGCGGATCCAGTACCACAAAGACAT
1 AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACAT
* * * * *
26494750 GAAAGGAAAGATCTAAGCCGCGACGGTGAATCCAGTACCACGAAGACAC
1 -AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACAT
*
26494799 AAGGGAAAGATCTAAGCCGCAACGGCGAATCCAGTACCACGAAGA
1 AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGA
26494844 TTTGAAGGGA
Statistics
Matches: 236, Mismatches: 49, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
48 107 0.45
49 105 0.44
50 24 0.10
ACGTcount: A:0.39, C:0.23, G:0.26, T:0.12
Consensus pattern (48 bp):
AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACAT
Found at i:26494855 original size:97 final size:97
Alignment explanation
Indices: 26494494--26494856 Score: 431
Period size: 97 Copynumber: 3.7 Consensus size: 97
26494484 AGGTCTCAGC
* * * * * *
26494494 ACCACAAAAACACAAGGGAAAGATCTAAGCCGTAACGG-TAGATCCAGTACCAAGAAGACACGAC
1 ACCACGAAAACACAAGGGAAAGATCTAAGCCATAACGGCGA-ATCCAGTACCACGAAGACATGAA
* * *
26494558 GGGAAATATCTAAGACAGCAACGGCGGATCCAGT
65 GGGAAAGATCTAAG-CCGCGACGGCGGATCCAGT
* * * * * *
26494592 ATCGCGAAGACATAAGGGAAAGATGTAAGCCATAACGGCGTATCCAGTACCACGAAGACATGAAG
1 ACCACGAAAACACAAGGGAAAGATCTAAGCCATAACGGCGAATCCAGTACCACGAAGACATGAAG
* * *
26494657 AGAAAGATCTAAGCCGCGATGGCGGATCCAAT
66 GGAAAGATCTAAGCCGCGACGGCGGATCCAGT
* * * * *
26494689 ACCGCGAAAACATAAGGGAAAGATCTAAGCCATAACGGCGGATCCAGTACCACAAAGACATGAAA
1 ACCACGAAAACACAAGGGAAAGATCTAAGCCATAACGGCGAATCCAGTACCACGAAGACATGAAG
* *
26494754 GGAAAGATCTAAGCCGCGACGGTGAATCCAGT
66 GGAAAGATCTAAGCCGCGACGGCGGATCCAGT
* ** **
26494786 ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGGCGAATCCAGTACCACGAAGATTTGAAG
1 ACCACGAAAACACAAGGGAAAGATCTAAGCCATAACGGCGAATCCAGTACCACGAAGACATGAAG
26494851 GGAAAG
66 GGAAAG
26494857 GTTTAAGTCG
Statistics
Matches: 225, Mismatches: 39, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
97 162 0.72
98 63 0.28
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.12
Consensus pattern (97 bp):
ACCACGAAAACACAAGGGAAAGATCTAAGCCATAACGGCGAATCCAGTACCACGAAGACATGAAG
GGAAAGATCTAAGCCGCGACGGCGGATCCAGT
Found at i:26495273 original size:79 final size:79
Alignment explanation
Indices: 26495119--26495363 Score: 233
Period size: 78 Copynumber: 3.1 Consensus size: 79
26495109 GAAGATTTTG
* * * * * *
26495119 ATCTCTAACCTCGAGCAAGGGGCAAATTGAAGCCA-TGTGATCTTTTACCCCCAGCCTGGGGTAG
1 ATCTCTTACCCCGAGCCAGGGGCAAATTGCAGCCATTGTGATCTTTTACCCCCAGCCTGGGGCAA
26495183 ATCATCATCAACCA
66 ATCATCATCAACCA
* * * **
26495197 ATCTCTTATCCCGAGCCAGAGGCAAATTGCAGCCATTTTGATCTTTTACCCTGAGCCTGGGGCAA
1 ATCTCTTACCCCGAGCCAGGGGCAAATTGCAGCCATTGTGATCTTTTACCCCCAGCCTGGGGCAA
** **
26495262 ATTGTTGTCAACCA
66 ATCATCATCAACCA
* * * ** * * * * * *
26495276 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCA-TCCGACCTTTTACTCCAAGCTTGGAGCAG
1 ATCTCTTACCCCGAGCCAGGGGCAAATTGCAGCCATTGTGATCTTTTACCCCCAGCCTGGGGCAA
26495340 ATCATCATCAACCA
66 ATCATCATCAACCA
*
26495354 ATCTCCTACC
1 ATCTCTTACC
26495364 TCGATCACGG
Statistics
Matches: 132, Mismatches: 34, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
78 68 0.52
79 64 0.48
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (79 bp):
ATCTCTTACCCCGAGCCAGGGGCAAATTGCAGCCATTGTGATCTTTTACCCCCAGCCTGGGGCAA
ATCATCATCAACCA
Found at i:26495498 original size:66 final size:69
Alignment explanation
Indices: 26495415--26495571 Score: 185
Period size: 72 Copynumber: 2.3 Consensus size: 69
26495405 GGTCATCTTT
* * * * *
26495415 CTGATGAGATACAGAGAAGTATA-C-C-AACTCACGCCCGATATTAGCAAATCTTTAAACCCCAA
1 CTGATGAGATACTGAGAAGAAGACCACAAACTCACGCCCGATATGAGCAAATCTTCAAACCCCAA
26495477 CTTC
66 CTTC
* * *
26495481 CTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATGAGTAAATCTTCGAACCC
1 CTGATGAGATACTGAGAAGAAGACC--A-CAAACTCACGCCCGATATGAGCAAATCTTCAAACCC
*
26495546 CGACTTC
63 CAACTTC
26495553 CTGATGAGATACTGAGAAG
1 CTGATGAGATACTGAGAAG
26495572 CAGGTCAAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
66 20 0.26
67 1 0.01
71 1 0.01
72 54 0.71
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (69 bp):
CTGATGAGATACTGAGAAGAAGACCACAAACTCACGCCCGATATGAGCAAATCTTCAAACCCCAA
CTTC
Found at i:26495832 original size:206 final size:206
Alignment explanation
Indices: 26495477--26496335 Score: 1225
Period size: 206 Copynumber: 4.2 Consensus size: 206
26495467 TAAACCCCAA
*
26495477 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATGAGTAAATCTTCGA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATGAGCAAATCTTCGA
* *
26495542 ACCCCGACTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCTTGATG
66 ACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGATG
* * * *
26495607 AGATACTAAGAAGTGGACCAAATTCGTTTTCTTGATGAGATACAGAGAAGCGGATTGAAACAAGC
131 AGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAAC
*
26495672 GATGCGGTCAT
196 GATACGGTCAT
* *
26495683 CTTCCTGATGAGGTACTGAGAAGAAGACCAAATCAAACTCATGCTCGATATGAGCAAATCTTCGA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATGAGCAAATCTTCGA
** * ** *
26495748 ACCCCGGCTTCCTGATGAGATATTGAGAAGCAAATCGAAGCAATAAAATGGTTAGCTTCCTGATG
66 ACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGATG
* * *
26495813 AGATACTGAGAAATGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCGGATTGAAACAAAT
131 AGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAAC
*
26495878 GATACAGTCAT
196 GATACGGTCAT
* * * *
26495889 CTTCTTGATGAGGTATTGAGAAGAAGACCAAATCAAACTCACGCTCGATATAAGCAAATCTTCGA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATGAGCAAATCTTCGA
* * * *
26495954 ACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAATGGTT-GCTTCCTAATG
66 ACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGATG
* *
26496018 AGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGCAGATTGAAACAAAC
131 AGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAAC
*
26496083 GATAAGGTCAT
196 GATACGGTCAT
* * * *
26496094 TTTCCTGATGAGATACTAAGAAGAAGACCAAATTAAACTTACGCTCGATATGAGCAAATCTTCGA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATGAGCAAATCTTCGA
** * * *
26496159 ACCGTAACTTCCTGATGAGATACTAAGAAGCAGGTCAAAGCAATAAAGTGGTTTGCTTCCTGATG
66 ACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGATG
* * * * * * ** **
26496224 AGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAAACACAGAGAAGTGGATCAAAACAAGT
131 AGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAAC
**
26496289 GATGTGGTCAT
196 GATACGGTCAT
* *
26496300 CTTCCTGATGAGATACTGAGAAGAAGGCCAAGTCAA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
26496336 TAAAACCAGA
Statistics
Matches: 582, Mismatches: 70, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
205 182 0.31
206 400 0.69
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (206 bp):
CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATGAGCAAATCTTCGA
ACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTGATG
AGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAAC
GATACGGTCAT
Found at i:26496246 original size:411 final size:412
Alignment explanation
Indices: 26495477--26496335 Score: 1245
Period size: 411 Copynumber: 2.1 Consensus size: 412
26495467 TAAACCCCAA
* *
26495477 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATGAGTAAATCTTCGA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATAAGCAAATCTTCGA
* *
26495542 ACCCCGACTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCTTGATG
66 ACCCCGACTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTAATG
* * * *
26495607 AGATACTAAGAAGTGGACCAAATTCGTTTTCTTGATGAGATACAGAGAAGCGGATTGAAACAAGC
131 AGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAAC
** * * *
26495672 GATGCGGTCATCTTCCTGATGAGGTACTGAGAAGAAGACCAAATCAAACTCATGCTCGATATGAG
196 GATAAGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAACTCACGCTCGATATGAG
** * * *
26495737 CAAATCTTCGAACCCCGGCTTCCTGATGAGATATTGAGAAGCAAATCGAAGCAATAAAATGGTTA
261 CAAATCTTCGAACCCCAACTTCCTGATGAGATACTAAGAAGCAAATCAAAGCAATAAAATGGTTA
* * * * *
26495802 GCTTCCTGATGAGATACTGAGAAATGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCGGA
326 GCTTCCTGATGAGATACGGAGAAATGAACCAAATCCGTCTTCCTGATGAAACACAAAGAAGCGGA
**
26495867 TTGAAACAAATGATACAGTCAT
391 TCAAAACAAATGATACAGTCAT
* * *
26495889 CTTCTTGATGAGGTATTGAGAAGAAGACCAAATCAAACTCACGCTCGATATAAGCAAATCTTCGA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATAAGCAAATCTTCGA
* *
26495954 ACCCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAATGGTT-GCTTCCTAAT
66 ACCCCGA-CTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTAAT
* *
26496017 GAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGCAGATTGAAACAAA
130 GAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAA
* * *
26496082 CGATAAGGTCATTTTCCTGATGAGATACTAAGAAGAAGACCAAATTAAACTTACGCTCGATATGA
195 CGATAAGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAACTCACGCTCGATATGA
** ** *
26496147 GCAAATCTTCGAACCGTAACTTCCTGATGAGATACTAAGAAGCAGGTCAAAGCAATAAAGTGGTT
260 GCAAATCTTCGAACCCCAACTTCCTGATGAGATACTAAGAAGCAAATCAAAGCAATAAAATGGTT
* * * *
26496212 TGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAAACACAGAGAAGTGG
325 AGCTTCCTGATGAGATACGGAGAAATGAACCAAATCCGTCTTCCTGATGAAACACAAAGAAGCGG
* ***
26496277 ATCAAAACAAGTGATGTGGTCAT
390 ATCAAAACAAATGATACAGTCAT
* *
26496300 CTTCCTGATGAGATACTGAGAAGAAGGCCAAGTCAA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
26496336 TAAAACCAGA
Statistics
Matches: 393, Mismatches: 53, Indels: 3
0.88 0.12 0.01
Matches are distributed among these distances:
411 284 0.72
412 109 0.28
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (412 bp):
CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATAAGCAAATCTTCGA
ACCCCGACTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCCTAATG
AGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAAC
GATAAGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAACTCACGCTCGATATGAG
CAAATCTTCGAACCCCAACTTCCTGATGAGATACTAAGAAGCAAATCAAAGCAATAAAATGGTTA
GCTTCCTGATGAGATACGGAGAAATGAACCAAATCCGTCTTCCTGATGAAACACAAAGAAGCGGA
TCAAAACAAATGATACAGTCAT
Found at i:26496700 original size:35 final size:34
Alignment explanation
Indices: 26496661--26496770 Score: 134
Period size: 35 Copynumber: 3.2 Consensus size: 34
26496651 CCAAACTCAT
**
26496661 TTTAAATTTATTTTAAGA-TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAA-ATTTAAATTTAATTT-AAA
*
26496696 TTTAAATTTATTTTAAATTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAATTTAAATTTAATTTAAA
*
26496730 TTTAAATTTATTTTCAAATTTAAAATT-ATTATAAA
1 TTTAAATTTATTTT-AAATTTAAATTTAATT-TAAA
26496765 TTTAAA
1 TTTAAA
26496771 ATATATAAAG
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
34 20 0.30
35 47 0.70
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.54
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATTTAATTTAAA
Found at i:26496704 original size:6 final size:6
Alignment explanation
Indices: 26496693--26496770 Score: 67
Period size: 6 Copynumber: 13.5 Consensus size: 6
26496683 ATTTGTTTTA
* *
26496693 AAATTT AAATTT -ATTTT AAATTT AAATTT -AATTT AAGTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* *
26496739 -ATTTT CAAATTT AAAATT --ATTAT AAATTT AAA
1 AAATTT -AAATTT AAATTT AAATT-T AAATTT AAA
26496771 ATATATAAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
4 2 0.04
5 14 0.25
6 34 0.60
7 7 0.12
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (6 bp):
AAATTT
Found at i:26496710 original size:11 final size:11
Alignment explanation
Indices: 26496696--26496751 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
26496686 TGTTTTAAAA
26496696 TTTAAATTTAT
1 TTTAAATTTAT
*
26496707 TTTAAATTTAAA
1 TTTAAATTT-AT
*
26496719 TTT-AATTTAAG
1 TTTAAATTT-AT
26496730 TTTAAATTTAT
1 TTTAAATTTAT
26496741 TTTCAAATTTA
1 TTT-AAATTTA
26496752 AAATTATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
11 23 0.59
12 16 0.41
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:26496728 original size:52 final size:52
Alignment explanation
Indices: 26496661--26496770 Score: 166
Period size: 52 Copynumber: 2.1 Consensus size: 52
26496651 CCAAACTCAT
* * * *
26496661 TTTAAATTTATTTTAAGATTAAATTTGTTTTAAAATTTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAGATTAAATTTATTTTAAAATTTAAAATTATTATAAA
* *
26496713 TTTAAATTTAATTTAAGTTTAAATTTATTTTCAAATTTAAAATTATTATAAA
1 TTTAAATTTAATTTAAGATTAAATTTATTTTAAAATTTAAAATTATTATAAA
26496765 TTTAAA
1 TTTAAA
26496771 ATATATAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.54
Consensus pattern (52 bp):
TTTAAATTTAATTTAAGATTAAATTTATTTTAAAATTTAAAATTATTATAAA
Found at i:26496772 original size:17 final size:17
Alignment explanation
Indices: 26496661--26496770 Score: 141
Period size: 17 Copynumber: 6.4 Consensus size: 17
26496651 CCAAACTCAT
26496661 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
26496679 -TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAA
26496696 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
26496713 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
26496730 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
* *
26496748 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
26496765 TTTAAA
1 TTTAAA
26496771 ATATATAAAG
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
17 53 0.65
18 28 0.35
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:26498790 original size:58 final size:58
Alignment explanation
Indices: 26498708--26498886 Score: 191
Period size: 58 Copynumber: 3.1 Consensus size: 58
26498698 CCAAAAATAT
*
26498708 ATTTTTGACCCAAACTTTCCAAAAATTACATTTTAACCCATGAACTTTTC-AAAATTCC
1 ATTTTTGACCCAAACTTTCCAAAAATTACATTTTAACCCATGAAC-TTCCAAAAATTCC
** * * * * *
26498766 ATTTTTGACCCTGATTTTCTAAAAATTACATTTTTACCCCTGGACTTCCAAAAATTCC
1 ATTTTTGACCCAAACTTTCCAAAAATTACATTTTAACCCATGAACTTCCAAAAATTCC
* * * * ***
26498824 ATTTTTGACCTCAAA-ATTCCAAAATTTACCTTTTTACCCCCAAACTTCCAAAAATTCC
1 ATTTTTGACC-CAAACTTTCCAAAAATTACATTTTAACCCATGAACTTCCAAAAATTCC
26498882 ATTTT
1 ATTTT
26498887 GCCCTCGAAT
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
57 3 0.03
58 97 0.95
59 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (58 bp):
ATTTTTGACCCAAACTTTCCAAAAATTACATTTTAACCCATGAACTTCCAAAAATTCC
Found at i:26498829 original size:29 final size:29
Alignment explanation
Indices: 26498686--26498886 Score: 121
Period size: 29 Copynumber: 6.9 Consensus size: 29
26498676 CCCTGGAGGT
26498686 CCCTAAACTTCTCCAAAAATAT--ATTTTTGA-
1 CCCTAAAC-T-TCCAAAAAT-TCCATTTTT-AC
* *
26498716 CCC-AAACTTTCCAAAAATTACATTTTAAC
1 CCCTAAAC-TTCCAAAAATTCCATTTTTAC
* * *
26498745 CCATGAACTTTTC-AAAATTCCATTTTTGA-
1 CCCTAAAC-TTCCAAAAATTCCATTTTT-AC
* ** * *
26498774 CCCTGATTTTCTAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATTCCATTTTTAC
**
26498803 CCCTGGACTTCCAAAAATTCCATTTTTGAC
1 CCCTAAACTTCCAAAAATTCCATTTTT-AC
* * *
26498833 CTC-AAAATTCCAAAATTTACC-TTTTTAC
1 CCCTAAACTTCCAAAAATT-CCATTTTTAC
*
26498861 CCCCAAACTTCCAAAAATTCCATTTT
1 CCCTAAACTTCCAAAAATTCCATTTT
26498887 GCCCTCGAAT
Statistics
Matches: 135, Mismatches: 25, Indels: 23
0.74 0.14 0.13
Matches are distributed among these distances:
27 1 0.01
28 19 0.14
29 98 0.73
30 17 0.13
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTCCATTTTTAC
Found at i:26498916 original size:29 final size:28
Alignment explanation
Indices: 26498758--26498974 Score: 127
Period size: 29 Copynumber: 7.5 Consensus size: 28
26498748 TGAACTTTTC
* *
26498758 AAAATTCCATTTTTGACCCT-GATTTTCTA
1 AAAATTCCATTTTTG-CCCTCGA-ATTCCA
* * * *
26498787 AAAATTACATTTTTACCCCTGGACTTCCA
1 AAAATTCCATTTTT-GCCCTCGAATTCCA
* *
26498816 AAAATTCCATTTTTGACCTCAAAATTCCA
1 AAAATTCCATTTTTGCCCTC-GAATTCCA
* * * *
26498845 AAATTTACC-TTTTTACCCCCAAACTTCCA
1 AAAATT-CCATTTTTGCCCTCGAA-TTCCA
*
26498874 AAAATTCCA-TTTTGCCCTCGAATATCTA
1 AAAATTCCATTTTTGCCCTCGAAT-TCCA
** **
26498902 AAAATTCCATTTTTGACCCTAAAACTTTTA
1 AAAATTCCATTTTTG-CCCTCGAA-TTCCA
* * *
26498932 AAGATTATCA-TTTTACCCTCGAATGTCCA
1 AAAATT-CCATTTTTGCCCTCGAAT-TCCA
26498961 AAAATTCCATTTTT
1 AAAATTCCATTTTT
26498975 TGATCCAGAT
Statistics
Matches: 144, Mismatches: 31, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
27 1 0.01
28 33 0.23
29 85 0.59
30 22 0.15
31 3 0.02
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (28 bp):
AAAATTCCATTTTTGCCCTCGAATTCCA
Found at i:26498927 original size:58 final size:57
Alignment explanation
Indices: 26498725--26498974 Score: 179
Period size: 58 Copynumber: 4.3 Consensus size: 57
26498715 ACCCAAACTT
* * * * * *
26498725 TCCAAAAATTACATTTTAACCCATGAACTTTTC-AAAATTCCATTTTTGACCCT-GATTT
1 TCCAAAAATTCCATTTTTACCC-TAAAC-TTCCAAAAATTCCATTTTTG-CCCTCGAATA
* * ** * *
26498783 TCTAAAAATTACATTTTTACCCCTGGACTTCCAAAAATTCCATTTTTGACCTC-AAAA
1 TCCAAAAATTCCATTTTTA-CCCTAAACTTCCAAAAATTCCATTTTTGCCCTCGAATA
* *
26498840 TTCCAAAATTTACC-TTTTTACCCCCAAACTTCCAAAAATTCCA-TTTTGCCCTCGAATA
1 -TCCAAAAATT-CCATTTTTA-CCCTAAACTTCCAAAAATTCCATTTTTGCCCTCGAATA
* ** * * * *
26498898 TCTAAAAATTCCATTTTTGACCCTAAAACTTTTAAAGATTATCA-TTTTACCCTCGAATG
1 TCCAAAAATTCCATTTTT-ACCCT-AAACTTCCAAAAATT-CCATTTTTGCCCTCGAATA
26498957 TCCAAAAATTCCATTTTT
1 TCCAAAAATTCCATTTTT
26498975 TGATCCAGAT
Statistics
Matches: 156, Mismatches: 26, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
56 2 0.01
57 32 0.21
58 86 0.55
59 36 0.23
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (57 bp):
TCCAAAAATTCCATTTTTACCCTAAACTTCCAAAAATTCCATTTTTGCCCTCGAATA
Found at i:26505462 original size:14 final size:14
Alignment explanation
Indices: 26505443--26505484 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
26505433 AAAATAAAAT
*
26505443 TTAATAATAAATAG
1 TTAATAATAAATAA
26505457 TTAATAATAAATTAA
1 TTAATAATAAA-TAA
26505472 TTAATAA-AAATAA
1 TTAATAATAAATAA
26505485 ATATTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 3 0.12
14 14 0.54
15 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
TTAATAATAAATAA
Found at i:26507523 original size:23 final size:22
Alignment explanation
Indices: 26507471--26507525 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
26507461 ATGTGTTTTC
*
26507471 AATTGATTTAATTTTTCTAATA
1 AATTGGTTTAATTTTTCTAATA
* *
26507493 AATAGGTTTAATTTTTCTAAATT
1 AATTGGTTTAATTTTTCT-AATA
26507516 AATTGGTTTA
1 AATTGGTTTA
26507526 TTGTTATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.53
Consensus pattern (22 bp):
AATTGGTTTAATTTTTCTAATA
Found at i:26508291 original size:27 final size:27
Alignment explanation
Indices: 26508208--26508293 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
26508198 AAAAAAACCA
* * * *
26508208 TTAAAAATTATAAAGAATTATAAACTAA
1 TTAAAAATTATAAAAAAATATAAAAT-T
* *
26508236 TT-AAAGTTATAAAAAAAATATTGACAATT
1 TTAAAAATTAT-AAAAAAATA-T-AAAATT
*
26508265 TTAAAAATTATAAAAAACTATAAAATT
1 TTAAAAATTATAAAAAAATATAAAATT
26508292 TT
1 TT
26508294 TATGACATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
27 14 0.31
28 10 0.22
29 11 0.24
30 10 0.22
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (27 bp):
TTAAAAATTATAAAAAAATATAAAATT
Found at i:26514091 original size:12 final size:12
Alignment explanation
Indices: 26514074--26514122 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
26514064 AACCCAATTC
*
26514074 TATTTTTCTTAT
1 TATTTTTATTAT
26514086 TATTTTTATTTATT
1 TATTTTTA-TTA-T
26514100 TATTTATTTATTAT
1 TA-TT-TTTATTAT
26514114 TATTTTTAT
1 TATTTTTAT
26514123 GAACATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
12 12 0.38
13 5 0.16
14 6 0.19
15 5 0.16
16 4 0.12
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTTATTAT
Found at i:26514184 original size:63 final size:64
Alignment explanation
Indices: 26514083--26514267 Score: 234
Period size: 67 Copynumber: 2.9 Consensus size: 64
26514073 CTATTTTTCT
* *
26514083 TATTATTTTTA-TTTATTTATTTATTTATTATTATTTTTATG-A-ACATAAATAAATATAAAATA
1 TATTAATTTTATTTTA-TTATTTATTTATTATTA-TTTTATGAATAAATAAATAAATATAAAATA
26514145 A
64 A
*
26514146 TATTAATTTTATTTTATTATTTATTTATTTATTATTTTATGAATGTAAATAAATAAATGTAAAAT
1 TATTAATTTTATTTTATTATTTATTTA-TTATTATTTTATGAA--TAAATAAATAAATATAAAAT
26514211 AA
63 AA
* ** *
26514213 TATTAATTTTGTTTTATTATTTATTTATTATTA-TAAATAAATAAATAAATAAATA
1 TATTAATTTTATTTTATTATTTATTTATTATTATTTTATGAATAAATAAATAAATA
26514268 AATAACAAAC
Statistics
Matches: 108, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
63 41 0.38
64 11 0.10
65 5 0.05
66 6 0.06
67 45 0.42
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.54
Consensus pattern (64 bp):
TATTAATTTTATTTTATTATTTATTTATTATTATTTTATGAATAAATAAATAAATATAAAATAA
Found at i:26514252 original size:4 final size:4
Alignment explanation
Indices: 26514245--26514272 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
26514235 ATTTATTATT
26514245 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
26514273 CAAACCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:26519388 original size:6 final size:6
Alignment explanation
Indices: 26519379--26519437 Score: 55
Period size: 6 Copynumber: 9.0 Consensus size: 6
26519369 AAAAAATTAA
* *
26519379 AAAAAG AAAAAAG AAAAAAAG ACAAAG AAAAGG AAAAAG AAGAAAAG AAAAAG
1 AAAAAG -AAAAAG --AAAAAG AAAAAG AAAAAG AAAAAG -A-AAAAG AAAAAG
26519432 AAAAAG
1 AAAAAG
26519438 GGGAGGTCGA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
6 25 0.56
7 8 0.18
8 12 0.27
ACGTcount: A:0.80, C:0.02, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:26519388 original size:8 final size:8
Alignment explanation
Indices: 26519359--26519430 Score: 58
Period size: 8 Copynumber: 8.6 Consensus size: 8
26519349 AAATTTCAAA
26519359 AAAAAAAG
1 AAAAAAAG
*
26519367 ATAAAAAATT
1 A-AAAAAA-G
26519377 AAAAAAAG
1 AAAAAAAG
26519385 -AAAAAAG
1 AAAAAAAG
26519392 AAAAAAAG
1 AAAAAAAG
26519400 ACAAAGAAA-
1 A-AAA-AAAG
*
26519409 AGGAAAAAG
1 A-AAAAAAG
*
26519418 AAGAAAAG
1 AAAAAAAG
26519426 AAAAA
1 AAAAA
26519431 GAAAAAGGGG
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
7 7 0.14
8 21 0.41
9 19 0.37
10 4 0.08
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:26519388 original size:15 final size:15
Alignment explanation
Indices: 26519377--26519436 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 15
26519367 ATAAAAAATT
26519377 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
*
26519392 AAAAAAAG-ACAAAG
1 AAAAAAAGAAAAAAG
*
26519406 ---AAAAGGAAAAAG
1 AAAAAAAGAAAAAAG
*
26519418 AAGAAAAG-AAAAAG
1 AAAAAAAGAAAAAAG
26519432 AAAAA
1 AAAAA
26519437 GGGGAGGTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 5 0.13
12 5 0.13
14 15 0.39
15 13 0.34
ACGTcount: A:0.82, C:0.02, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:26519398 original size:26 final size:26
Alignment explanation
Indices: 26519356--26519435 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 26
26519346 AAGAAATTTC
* **
26519356 AAAA-AAAAAAGATAAAAAATTAAA-
1 AAAAGAAAAAAGAAAAAAAAAAAAAG
* *
26519380 AAAAGAAAAAAGAAAAAAAGACAAAG
1 AAAAGAAAAAAGAAAAAAAAAAAAAG
* * *
26519406 AAAAGGAAAAAGAAGAAAAGAAAAAG
1 AAAAGAAAAAAGAAAAAAAAAAAAAG
26519432 AAAA
1 AAAA
26519436 AGGGGAGGTC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.09
25 16 0.34
26 27 0.57
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (26 bp):
AAAAGAAAAAAGAAAAAAAAAAAAAG
Found at i:26519437 original size:20 final size:20
Alignment explanation
Indices: 26519380--26519437 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
26519370 AAAAATTAAA
26519380 AAAAGAAAAAAGAAAAA-AAG
1 AAAAG-AAAAAGAAAAAGAAG
*
26519400 ACAAAGAAAAGGAAAAAGAAG
1 A-AAAGAAAAAGAAAAAGAAG
26519421 AAAAGAAAAAGAAAAAG
1 AAAAGAAAAAGAAAAAG
26519438 GGGAGGTCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 26 0.76
21 8 0.24
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAGAAAAAGAAG
Found at i:26520775 original size:159 final size:159
Alignment explanation
Indices: 26520348--26521633 Score: 2213
Period size: 159 Copynumber: 8.1 Consensus size: 159
26520338 TAGAACAACA
*
26520348 AATCTTTTACCCTAACCAGAGGGCAAGATCGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
* *
26520413 AGATTGAAGAAATCCAATCTTTTACCTTAACTAGAGGGCAAGATTGAAGACCATCCGATCTTTTA
66 AGATTGAAGAAATCCAATCTTTTACCCTAACCAGA-GGCAAGATTGAAGACCATCCGATCTTTTA
26520478 CCCCGATCATGGGGCAGATTGAAGAAATCC
130 CCCCGATCATGGGGCAGATTGAAGAAATCC
26520508 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
*
26520573 AGATTAAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTA
66 AGATTGAAGAAATCCAATCTTTTACCCTAACCAGA-GGCAAGATTGAAGACCATCCGATCTTTTA
*
26520638 CCCCGATCATGGGGCAGATTGAAGAAATCT
130 CCCCGATCATGGGGCAGATTGAAGAAATCC
*
26520668 AATCTTTTACCCTAACCAGA-GGCAAGATTGAAGATCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
* *
26520732 AGATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGACAAGATTGAACACCATCCGATCTTTTA
66 AGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGG-CAAGATTGAAGACCATCCGATCTTTTA
26520797 CCCCGATCATGGGGCAGATTGAAGAAATCC
130 CCCCGATCATGGGGCAGATTGAAGAAATCC
*
26520827 AATCTTTTACCCTAACCAGAGGG-AAGATTGAAGACCATCCGATCTTTTACCCCGATCATGAGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
* * *
26520891 AGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGAAGATTGAAGACCATCCGATCTTCTAC
66 AGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGCAAGATTGAAGACCATCCGATCTTTTAC
*
26520956 CCCGATCATGGGGCAAATTGAAGAAATCC
131 CCCGATCATGGGGCAGATTGAAGAAATCC
26520985 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
* *
26521050 AGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGAAGATTGAAGACCATCCGATCTTCTAC
66 AGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGCAAGATTGAAGACCATCCGATCTTTTAC
26521115 CCCGATCATGGGGCAGATTGAAGAAATCC
131 CCCGATCATGGGGCAGATTGAAGAAATCC
26521144 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
*
26521209 AGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGAAGATTGAAGACCATCCGATCTTTTAC
66 AGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGCAAGATTGAAGACCATCCGATCTTTTAC
26521274 CCCGATCATGGGGCAGATTGAAGAAATCC
131 CCCGATCATGGGGCAGATTGAAGAAATCC
* *
26521303 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTCTACCCCGATCATGGGGT
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
* *
26521368 AGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAAATCATCCGATCTTTTA
66 AGATTGAAGAAATCCAATCTTTTACCCTAACCAGA-GGCAAGATTGAAGACCATCCGATCTTTTA
*
26521433 CCCCGATCATGAGGCAGATTGAAGAAATCC
130 CCCCGATCATGGGGCAGATTGAAGAAATCC
* *
26521463 AATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCATCTGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
* * *
26521528 AGATTGAAGAAATCCAATCTTTTACCCTAACCAAAGG-ACAGATTGAAGACCATCAGATCTCTTA
66 AGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGCA-AGATTGAAGACCATCCGATCTTTTA
* * *
26521592 CCTCGACCATGGGGCA-AGTTGAA-ACAATCT
130 CCCCGATCATGGGGCAGA-TTGAAGA-AATCC
26521622 AATCTTTTACCC
1 AATCTTTTACCC
26521634 CTAAAGTTAT
Statistics
Matches: 1078, Mismatches: 41, Indels: 15
0.95 0.04 0.01
Matches are distributed among these distances:
158 81 0.08
159 670 0.62
160 327 0.30
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (159 bp):
AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
AGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGCAAGATTGAAGACCATCCGATCTTTTAC
CCCGATCATGGGGCAGATTGAAGAAATCC
Found at i:26521637 original size:80 final size:80
Alignment explanation
Indices: 26520348--26521633 Score: 2246
Period size: 80 Copynumber: 16.1 Consensus size: 80
26520338 TAGAACAACA
*
26520348 AATCTTTTACCCTAACCAGAGGGCAAGATCGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
26520413 AGATTGAAGAAATCC
66 AGATTGAAGAAATCC
* *
26520428 AATCTTTTACCTTAACTAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
26520493 AGATTGAAGAAATCC
66 AGATTGAAGAAATCC
26520508 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
*
26520573 AGATTAAAGAAATCC
66 AGATTGAAGAAATCC
26520588 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
*
26520653 AGATTGAAGAAATCT
66 AGATTGAAGAAATCC
*
26520668 AATCTTTTACCCTAACCAGA-GGCAAGATTGAAGATCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
26520732 AGATTGAAGAAATCC
66 AGATTGAAGAAATCC
* * *
26520747 AATCTTTTACCCTAACTAGAGGACAAGATTGAACACCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
26520812 AGATTGAAGAAATCC
66 AGATTGAAGAAATCC
*
26520827 AATCTTTTACCCTAACCAGAGGG-AAGATTGAAGACCATCCGATCTTTTACCCCGATCATGAGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
*
26520891 AGATTGAAGAAATCT
66 AGATTGAAGAAATCC
*
26520906 AATCTTTTACCCTAACCAGAGGG-AAGATTGAAGACCATCCGATCTTCTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
*
26520970 AAATTGAAGAAATCC
66 AGATTGAAGAAATCC
26520985 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
26521050 AGATTGAAGAAATCC
66 AGATTGAAGAAATCC
*
26521065 AATCTTTTACCCTAACCAGAGGG-AAGATTGAAGACCATCCGATCTTCTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
26521129 AGATTGAAGAAATCC
66 AGATTGAAGAAATCC
26521144 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
26521209 AGATTGAAGAAATCC
66 AGATTGAAGAAATCC
26521224 AATCTTTTACCCTAACCAGAGGG-AAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
26521288 AGATTGAAGAAATCC
66 AGATTGAAGAAATCC
* *
26521303 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTCTACCCCGATCATGGGGT
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
26521368 AGATTGAAGAAATCC
66 AGATTGAAGAAATCC
* * *
26521383 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAAATCATCCGATCTTTTACCCCGATCATGAGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
26521448 AGATTGAAGAAATCC
66 AGATTGAAGAAATCC
* *
26521463 AATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCATCTGATCTTTTACCCCGATCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
26521528 AGATTGAAGAAATCC
66 AGATTGAAGAAATCC
* * * * * *
26521543 AATCTTTTACCCTAACCAAAGGAC-AGATTGAAGACCATCAGATCTCTTACCTCGACCATGGGGC
1 AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
*
26521607 A-AGTTGAA-ACAATCT
66 AGA-TTGAAGA-AATCC
26521622 AATCTTTTACCC
1 AATCTTTTACCC
26521634 CTAAAGTTAT
Statistics
Matches: 1153, Mismatches: 47, Indels: 13
0.95 0.04 0.01
Matches are distributed among these distances:
78 2 0.00
79 442 0.38
80 709 0.61
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (80 bp):
AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGC
AGATTGAAGAAATCC
Found at i:26522169 original size:12 final size:12
Alignment explanation
Indices: 26522152--26522199 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
26522142 ACCCAATTCC
*
26522152 ATTTTTCTTATT
1 ATTTTTATTATT
26522164 ATTTTTATTTATTT
1 ATTTTTA-TTA-TT
26522178 ATTTATTTATTATT
1 A-TT-TTTATTATT
26522192 ATTTTTAT
1 ATTTTTAT
26522200 GAACATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 11 0.35
13 5 0.16
14 6 0.19
15 5 0.16
16 4 0.13
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (12 bp):
ATTTTTATTATT
Found at i:26522261 original size:63 final size:64
Alignment explanation
Indices: 26522160--26522323 Score: 235
Period size: 63 Copynumber: 2.5 Consensus size: 64
26522150 CCATTTTTCT
*
26522160 TATTATTTTTA-TTTATTTATTTATTTATTATTATTTTTATGAACATAAATAAAT-A-TAAAATA
1 TATTAATTTTATTTTA-TTATTTATTTATTATTA-TTTTATGAACATAAATAAATAAGTAAAATA
26522222 A
64 A
*
26522223 TATTAATTTTATTTTATTATTTATTTATTTATTATTTTATGAATATAAATAAATAAATGTAAAAT
1 TATTAATTTTATTTTATTATTTATTTA-TTATTATTTTATGAACATAAATAAAT-AA-GTAAAAT
26522288 AA
63 AA
*
26522290 TATTAATTTTGTTTTATTATTTATTTATTATTAT
1 TATTAATTTTATTTTATTATTTATTTATTATTAT
26522324 AAATAAATAA
Statistics
Matches: 92, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
63 40 0.43
64 10 0.11
65 1 0.01
66 7 0.08
67 34 0.37
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (64 bp):
TATTAATTTTATTTTATTATTTATTTATTATTATTTTATGAACATAAATAAATAAGTAAAATAA
Found at i:26522280 original size:67 final size:65
Alignment explanation
Indices: 26522160--26522344 Score: 238
Period size: 67 Copynumber: 2.9 Consensus size: 65
26522150 CCATTTTTCT
* *
26522160 TATTATTTTTA-TTTATTTATTTATTTATTATTATTTT-T-ATGA-ACATAAATAAATATAAAAT
1 TATTAATTTTATTTTA-TTATTTATTTATTATTATTTTATAAT-ATAAATAAATAAATATAAAAT
26522221 AA
64 AA
*
26522223 TATTAATTTTATTTTATTATTTATTTATTTATTATTTTATGAATATAAATAAATAAATGTAAAAT
1 TATTAATTTTATTTTATTATTTATTTA-TTATTATTTTAT-AATATAAATAAATAAATATAAAAT
26522288 AA
64 AA
* **
26522290 TATTAATTTTGTTTTATTATTTATTTATTATTA-TAAATAA-ATAAATAAATAAATA
1 TATTAATTTTATTTTATTATTTATTTATTATTATTTTATAATATAAATAAATAAATA
26522345 ACAAACCAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
63 35 0.32
64 16 0.15
65 4 0.04
66 7 0.06
67 47 0.43
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (65 bp):
TATTAATTTTATTTTATTATTTATTTATTATTATTTTATAATATAAATAAATAAATATAAAATAA
Found at i:26524363 original size:16 final size:16
Alignment explanation
Indices: 26524342--26524378 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
26524332 CTCATGTGAT
26524342 AATTACATACTAAATG
1 AATTACATACTAAATG
26524358 AATTACATACTAAATG
1 AATTACATACTAAATG
26524374 AATTA
1 AATTA
26524379 TCGCGCTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (16 bp):
AATTACATACTAAATG
Found at i:26530224 original size:23 final size:23
Alignment explanation
Indices: 26530194--26530258 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
26530184 GCGTTATATG
* *
26530194 CTTAAATATTAATGTGATTTGTA
1 CTTAAATATTAATATGATTTATA
* *
26530217 CTTAAATACTAATATGATTTATG
1 CTTAAATATTAATATGATTTATA
*
26530240 CTTAAATGTTAATATGATT
1 CTTAAATATTAATATGATT
26530259 ATATGTGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (23 bp):
CTTAAATATTAATATGATTTATA
Found at i:26537584 original size:29 final size:31
Alignment explanation
Indices: 26537530--26537592 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
26537520 TTTGGTATTC
*
26537530 AAACTTGACACTTTTTTCTAATTTGGTACCT
1 AAACTTGACACTTTTTTCTAAGTTGGTACCT
* *
26537561 AAACTTGATA-TTTTTT-TAAGTTGGTACTT
1 AAACTTGACACTTTTTTCTAAGTTGGTACCT
26537590 AAA
1 AAA
26537593 TTTTTTGGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 14 0.48
30 6 0.21
31 9 0.31
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (31 bp):
AAACTTGACACTTTTTTCTAAGTTGGTACCT
Found at i:26537897 original size:60 final size:61
Alignment explanation
Indices: 26537815--26537929 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 61
26537805 AATTGAATTT
* *
26537815 AAAAAAAACTTAGATACCAAATTAGG-AAACAATGCCAAGTTTAGGTGCCAAATTGGGTTC
1 AAAAAAAACTTAGATACCAAATTAGGAAAAAAATGCCAAGTTCAGGTGCCAAATTGGGTTC
** *
26537875 AAAAAAAGTTTAGATACCAAATTAGGAAAAAAAATGTCAAGTTCAGGTGCCAAAT
1 AAAAAAAACTTAGATACCAAATTAGG-AAAAAAATGCCAAGTTCAGGTGCCAAAT
26537930 ATTATATTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 24 0.50
62 24 0.50
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (61 bp):
AAAAAAAACTTAGATACCAAATTAGGAAAAAAATGCCAAGTTCAGGTGCCAAATTGGGTTC
Found at i:26537907 original size:29 final size:29
Alignment explanation
Indices: 26537815--26537908 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
26537805 AATTGAATTT
*
26537815 AAAAAAAA-CTTAGATACCAAATTAGGAA
1 AAAAAAAAGTTTAGATACCAAATTAGGAA
*** * * * **
26537843 ACAATGCCAAGTTTAGGTGCCAAATTGGGTT
1 A-AA-AAAAAGTTTAGATACCAAATTAGGAA
*
26537874 CAAAAAAAGTTTAGATACCAAATTAGGAA
1 AAAAAAAAGTTTAGATACCAAATTAGGAA
26537903 AAAAAA
1 AAAAAA
26537909 TGTCAAGTTC
Statistics
Matches: 44, Mismatches: 19, Indels: 5
0.65 0.28 0.07
Matches are distributed among these distances:
28 1 0.02
29 25 0.57
30 4 0.09
31 14 0.32
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (29 bp):
AAAAAAAAGTTTAGATACCAAATTAGGAA
Found at i:26540992 original size:28 final size:27
Alignment explanation
Indices: 26540960--26541018 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
26540950 AAAACGGGAC
26540960 TTTTGGA-TACCCGGTGGCAAAATGGTAA
1 TTTTGGACTA-CCGG-GGCAAAATGGTAA
*
26540988 TTTTGGACTAGCGGGGCAAAATGGTAA
1 TTTTGGACTACCGGGGCAAAATGGTAA
26541015 TTTT
1 TTTT
26541019 AGGTGAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 17 0.59
28 10 0.34
29 2 0.07
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.32
Consensus pattern (27 bp):
TTTTGGACTACCGGGGCAAAATGGTAA
Found at i:26541075 original size:29 final size:29
Alignment explanation
Indices: 26541043--26541195 Score: 91
Period size: 29 Copynumber: 5.2 Consensus size: 29
26541033 TTAAAAAGGG
26541043 AATTTTGGAAAATTTGGGGGTAAAATAGT
1 AATTTTGGAAAATTTGGGGGTAAAATAGT
* * * *
26541072 AATTATTGGTGAAA--TCGAGGTCGAAAAT-GG
1 AATT-TTGG-AAAATTTGGGGGT--AAAATAGT
* *
26541102 AATTTTGGAAAGTTTGGGGGTAAAATGGT
1 AATTTTGGAAAATTTGGGGGTAAAATAGT
* * *
26541131 AATTTTTGGTAAAA-TTAGGGTTAAAA-ATGG
1 AA-TTTTGG-AAAATTTGGGGGTAAAATA-GT
* * * *
26541161 AATTTTAGAAAGTTCGGGGGTAAAATTGT
1 AATTTTGGAAAATTTGGGGGTAAAATAGT
26541190 AATTTT
1 AATTTT
26541196 TGGACAGTGC
Statistics
Matches: 91, Mismatches: 21, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
28 10 0.11
29 37 0.41
30 33 0.36
31 11 0.12
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (29 bp):
AATTTTGGAAAATTTGGGGGTAAAATAGT
Found at i:26541083 original size:59 final size:59
Alignment explanation
Indices: 26541000--26541198 Score: 263
Period size: 59 Copynumber: 3.4 Consensus size: 59
26540990 TTGGACTAGC
* * * *
26541000 GGGGCAAAATGGTAATTTTAGGTGAAATCGGGGTTAAAAAGGGAATTTTGGAAAATTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTG
* * * **
26541059 GGGGTAAAATAGTAATTATTGGTGAAATCGAGGTCGAAAATGGAATTTTGGAAAGTTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTG
* ** * *
26541118 GGGGTAAAATGGTAATTTTTGGTAAAATTAGGGTTAAAAATGGAATTTTAGAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTG
*
26541177 GGGGTAAAATTGTAATTTTTGG
1 GGGGTAAAATGGTAATTTTTGG
26541199 ACAGTGCAAG
Statistics
Matches: 120, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 120 1.00
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.32
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTG
Found at i:26542363 original size:14 final size:16
Alignment explanation
Indices: 26542339--26542377 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
26542329 TCGGTTTCCT
*
26542339 TTTACTATTTTATT-A
1 TTTAATATTTTATTAA
26542354 -TTAATATTTTATTAA
1 TTTAATATTTTATTAA
26542369 TTTAATATT
1 TTTAATATT
26542378 AATATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 12 0.57
15 1 0.05
16 8 0.38
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAATATTTTATTAA
Found at i:26542372 original size:22 final size:22
Alignment explanation
Indices: 26542338--26542423 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 22
26542328 TTCGGTTTCC
* *
26542338 TTTTACTATTTTATTATTAATA
1 TTTTATTAATTTATTATTAATA
*
26542360 TTTTATTAATTTAATATTAATA
1 TTTTATTAATTTATTATTAATA
** * *
26542382 -TTTATTATAACTGTTATCAATA
1 TTTTATTA-ATTTATTATTAATA
*
26542404 TTATTATT-ATTAATTATTAA
1 TT-TTATTAATTTATTATTAA
26542424 GTAAATCAAG
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
21 7 0.15
22 35 0.73
23 1 0.02
24 5 0.10
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (22 bp):
TTTTATTAATTTATTATTAATA
Found at i:26543218 original size:6 final size:6
Alignment explanation
Indices: 26543171--26543291 Score: 83
Period size: 6 Copynumber: 20.8 Consensus size: 6
26543161 TTTTGGGCTT
* * * *
26543171 TTTAAT TTTAAT TTTAAA ATT--A TTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* ** *
26543217 TTTAAA -ATAAA TTTAAA TTTAAA AATGAA TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
26543264 -GTAAA TTTAAT TTTAGAA -ATAAA TTTAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAA
26543292 TAATCATTTT
Statistics
Matches: 88, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
4 3 0.03
5 14 0.16
6 66 0.75
7 5 0.06
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:26543252 original size:41 final size:41
Alignment explanation
Indices: 26543207--26543291 Score: 134
Period size: 41 Copynumber: 2.1 Consensus size: 41
26543197 AAATTTAAAC
*
26543207 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATGAATT
1 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
* * *
26543248 TAAATTTAAATTTAAAGTAAATTTAATTTTAGAAATAAATT
1 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
26543289 TAA
1 TAA
26543292 TAATCATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (41 bp):
TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
Found at i:26543273 original size:17 final size:17
Alignment explanation
Indices: 26543177--26543257 Score: 101
Period size: 17 Copynumber: 4.7 Consensus size: 17
26543167 GCTTTTTAAT
* *
26543177 TTTAATTTTAAAAT-TA
1 TTTAAATTTAAAATAAA
*
26543193 TTTCAAATTTAAACTAAA
1 TTT-AAATTTAAAATAAA
26543211 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
26543228 TTTAAATTTAAAAATGAA
1 TTTAAATTT-AAAATAAA
26543246 TTTAAATTTAAA
1 TTTAAATTTAAA
26543258 TTTAAAGTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.05
17 34 0.60
18 20 0.35
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:26543278 original size:17 final size:18
Alignment explanation
Indices: 26543248--26543292 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
26543238 AAAATGAATT
* *
26543248 TAAATTTAAATTTA-AAG
1 TAAATTTAATTTTAGAAA
26543265 TAAATTTAATTTTAGAAA
1 TAAATTTAATTTTAGAAA
26543283 TAAATTTAAT
1 TAAATTTAAT
26543293 AATCATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
TAAATTTAATTTTAGAAA
Found at i:26543712 original size:76 final size:76
Alignment explanation
Indices: 26543582--26544422 Score: 1385
Period size: 76 Copynumber: 11.0 Consensus size: 76
26543572 TCGAGGCTTC
*
26543582 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAG
26543647 AGGATAGGAAATG
64 AGGATAGGAAATG
26543660 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
*
26543725 GATAGGCAATG
66 GATAGGAAATG
* * * *
26543736 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
26543801 GATAGGAAATG
66 GATAGGAAATG
*
26543812 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTATTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
26543877 GATAGGAAATG
66 GATAGGAAATG
* * * * *
26543888 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
26543953 GATAGGAAATG
66 GATAGGAAATG
*
26543964 ATCTTGCTCTTACTTCAATTTCATAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
* *
26544029 GATAAGAAATA
66 GATAGGAAATG
*
26544040 ATCTTGCTCTTACTTCAATTTCGGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
*
26544105 GATAGGAAAAG
66 GATAGGAAATG
* * * *
26544116 ATTTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
26544181 GATAGGAAATG
66 GATAGGAAATG
26544192 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
*
26544257 GATAGGAAATA
66 GATAGGAAATG
* * * *
26544268 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCTAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
*
26544333 GATAGGAAAAG
66 GATAGGAAATG
* * *
26544344 ATTTTGCTCTTACTTCAATTTTAGAGATAAAAACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
26544409 GATAGGAAAATG
66 GATAGG-AAATG
26544421 AT
1 AT
26544423 GTTGGTCCTT
Statistics
Matches: 706, Mismatches: 56, Indels: 3
0.92 0.07 0.00
Matches are distributed among these distances:
76 678 0.96
77 6 0.01
78 22 0.03
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
GATAGGAAATG
Found at i:26544510 original size:92 final size:92
Alignment explanation
Indices: 26544377--26544703 Score: 575
Period size: 92 Copynumber: 3.6 Consensus size: 92
26544367 GAGATAAAAA
* *
26544377 CTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTCCTTCTTCTTACT
1 CTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTCCTTCTTCTTACT
26544442 CTTACTTCAATTTCAGAGGGACGAAGG
66 CTTACTTCAATTTCAGAGGGACGAAGG
*
26544469 CTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATACGAAAATGATGTTGGTCCTTCTTCTTACT
1 CTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTCCTTCTTCTTACT
*
26544534 CTTACTTCAATTTCAGA-AGACGAAGG
66 CTTACTTCAATTTCAGAGGGACGAAGG
* *
26544560 CTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAATGAAGTTGGTCCTCCTTCTTAC
1 CTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGG-AAAATGATGTTGGTCCTTCTTCTTAC
*
26544625 TCTTACTTCAATTTCAGAGGGATGAAGG
65 TCTTACTTCAATTTCAGAGGGACGAAGG
26544653 CTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGG
1 CTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGG
26544704 ATTGATGTGA
Statistics
Matches: 223, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
91 45 0.20
92 133 0.60
93 45 0.20
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (92 bp):
CTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTCCTTCTTCTTACT
CTTACTTCAATTTCAGAGGGACGAAGG
Found at i:26544533 original size:46 final size:46
Alignment explanation
Indices: 26544392--26544533 Score: 109
Period size: 40 Copynumber: 3.1 Consensus size: 46
26544382 TATCCAACTC
*
26544392 TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTCCTTCTTCTTACTCT
1 TACTTCAATTTCAAGAGGATACGAAAATGATGTTGGT-C--CTTC-T--TCT
* * * * **
26544444 TACTTCAATTTC-AGAGG-GACG--AAGGCTTGTT-ATCCAGC-T-T
1 TACTTCAATTTCAAGAGGATACGAAAATG-ATGTTGGTCCTTCTTCT
26544484 TACTTCAATTTCAAGAGGATACGAAAATGATGTTGGTCCTTCTTCT
1 TACTTCAATTTCAAGAGGATACGAAAATGATGTTGGTCCTTCTTCT
26544530 TACT
1 TACT
26544534 CTTACTTCAA
Statistics
Matches: 69, Mismatches: 13, Indels: 22
0.66 0.12 0.21
Matches are distributed among these distances:
40 13 0.19
41 6 0.09
42 3 0.04
43 4 0.06
44 7 0.10
45 3 0.04
46 5 0.07
47 1 0.01
48 4 0.06
49 4 0.06
50 2 0.03
51 5 0.07
52 12 0.17
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (46 bp):
TACTTCAATTTCAAGAGGATACGAAAATGATGTTGGTCCTTCTTCT
Found at i:26556941 original size:29 final size:29
Alignment explanation
Indices: 26556905--26557045 Score: 96
Period size: 29 Copynumber: 4.9 Consensus size: 29
26556895 ATTTTCGATG
26556905 AAATCGGGGTTAAAAAGGGAATTTTGG-A
1 AAATCGGGGTTAAAAAGGGAATTTTGGTA
*
26556933 AAATTCGGGG-TAAAATA-GTAATTATTGGTA
1 AAA-TCGGGGTTAAAA-AGGGAATT-TTGGTA
* ** *
26556963 AAATCGAGGTCGAAAATGGAATTTTGG-A
1 AAATCGGGGTTAAAAAGGGAATTTTGGTA
* * *
26556991 AAGCTCAGGGG-TAAAATGGTAATTTTTGGTA
1 AA-ATC-GGGGTTAAAAAGGGAA-TTTTGGTA
* *
26557022 AAATCGAGGTT-AAAATGGAATTTT
1 AAATCGGGGTTAAAAAGGGAATTTT
26557046 AGAGAGTTTG
Statistics
Matches: 85, Mismatches: 17, Indels: 22
0.69 0.14 0.18
Matches are distributed among these distances:
28 20 0.24
29 38 0.45
30 24 0.28
31 3 0.04
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (29 bp):
AAATCGGGGTTAAAAAGGGAATTTTGGTA
Found at i:26556967 original size:58 final size:57
Alignment explanation
Indices: 26556881--26557077 Score: 232
Period size: 58 Copynumber: 3.4 Consensus size: 57
26556871 TAGACTCGCG
* * * * * * *
26556881 GGGGCAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAAGGGAATTTTGGAAAATTC
1 GGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTT-AAAATGGAATTTTGGAAAGTTC
* * * *
26556939 GGGGTAAAATAGTAATTATTGGTAAAATCGAGGTCGAAAATGGAATTTTGGAAAGCTC
1 GGGGTAAAATGGTAATTTTTGGTAAAATCGAGGT-TAAAATGGAATTTTGGAAAGTTC
* * *
26556997 AGGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAATGGAATTTTAGAGAGTTT
1 -GGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAATGGAATTTTGGAAAGTTC
26557055 GGGGATAAAATGGTAATTTTTGG
1 GGGG-TAAAATGGTAATTTTTGG
26557078 ATAGTCCAAG
Statistics
Matches: 118, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
57 4 0.03
58 82 0.69
59 32 0.27
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.30
Consensus pattern (57 bp):
GGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAATGGAATTTTGGAAAGTTC
Found at i:26558252 original size:14 final size:16
Alignment explanation
Indices: 26558228--26558266 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
26558218 TCGGTTTCCT
*
26558228 TTTACTATTTTATT-A
1 TTTAATATTTTATTAA
26558243 -TTAATATTTTATTAA
1 TTTAATATTTTATTAA
26558258 TTTAATATT
1 TTTAATATT
26558267 AATATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 12 0.57
15 1 0.05
16 8 0.38
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAATATTTTATTAA
Found at i:26558261 original size:22 final size:22
Alignment explanation
Indices: 26558227--26558312 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 22
26558217 TTCGGTTTCC
* *
26558227 TTTTACTATTTTATTATTAATA
1 TTTTATTAATTTATTATTAATA
*
26558249 TTTTATTAATTTAATATTAATA
1 TTTTATTAATTTATTATTAATA
** * *
26558271 -TTTATTATAACTGTTATCAATA
1 TTTTATTA-ATTTATTATTAATA
*
26558293 TTATTATT-ATTAATTATTAA
1 TT-TTATTAATTTATTATTAA
26558313 GTAAATCAAG
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
21 7 0.15
22 35 0.73
23 1 0.02
24 5 0.10
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (22 bp):
TTTTATTAATTTATTATTAATA
Found at i:26559100 original size:11 final size:11
Alignment explanation
Indices: 26559086--26559127 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
26559076 AAATTATTTC
26559086 AAATTTAAACT
1 AAATTTAAACT
*
26559097 AAATTTAAATTT
1 AAATTTAAA-CT
*
26559109 AAATTTAAAGT
1 AAATTTAAACT
26559120 AAATTTAA
1 AAATTTAA
26559128 TTTTAGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
AAATTTAAACT
Found at i:26559106 original size:17 final size:18
Alignment explanation
Indices: 26559102--26559146 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
26559092 AAACTAAATT
26559102 TAAATTTAAATTTA-AAG
1 TAAATTTAAATTTAGAAG
* *
26559119 TAAATTTAATTTTAGAAT
1 TAAATTTAAATTTAGAAG
26559137 TAAATTTAAA
1 TAAATTTAAA
26559147 AATCATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
TAAATTTAAATTTAGAAG
Found at i:26559107 original size:6 final size:6
Alignment explanation
Indices: 26559060--26559146 Score: 67
Period size: 6 Copynumber: 15.0 Consensus size: 6
26559050 TTTTGGGCTT
* * * *
26559060 TTTAAT TTTAAT TTTAAA ATT--A TTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* *
26559106 TTTAAA TTTAAA -GTAAA TTTAAT TTTAGAA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA
26559147 AATCATTTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
4 3 0.05
5 10 0.15
6 47 0.72
7 5 0.08
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:26559140 original size:23 final size:23
Alignment explanation
Indices: 26559081--26559137 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
26559071 TTTTAAAATT
26559081 ATTTCAAATTTAAACTAAATTTAA
1 ATTT-AAATTTAAACTAAATTTAA
*
26559105 ATTTAAATTTAAAGTAAATTTAA
1 ATTTAAATTTAAACTAAATTTAA
*
26559128 TTTTAGAATT
1 ATTTA-AATT
26559138 AAATTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 22 0.73
24 8 0.27
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (23 bp):
ATTTAAATTTAAACTAAATTTAA
Found at i:26562805 original size:16 final size:17
Alignment explanation
Indices: 26562770--26562808 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
26562760 GGGTTTAGAG
*
26562770 ATAAAACATCAAACTAAA
1 ATAAAACA-CAAAATAAA
26562788 ATAAAACA-AAAATAAA
1 ATAAAACACAAAATAAA
26562804 ATAAA
1 ATAAA
26562809 CTAAGTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.15
Consensus pattern (17 bp):
ATAAAACACAAAATAAA
Found at i:26569622 original size:27 final size:27
Alignment explanation
Indices: 26569560--26569623 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
26569550 TTCTTACTTT
*
26569560 TATTTA-ATTTTATTTATTGTTTTTATG
1 TATTTATA-TTTATTTATTATTTTTATG
26569587 TATTT-TATTTATTT-TTATTTTTATG
1 TATTTATATTTATTTATTATTTTTATG
26569612 CTATTTATATTT
1 -TATTTATATTT
26569624 TTACCTTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 10 0.30
26 12 0.36
27 11 0.33
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.72
Consensus pattern (27 bp):
TATTTATATTTATTTATTATTTTTATG
Found at i:26569623 original size:32 final size:31
Alignment explanation
Indices: 26569557--26569624 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 31
26569547 ACATTCTTAC
*
26569557 TTTTATTTAATTTTATTTATTGTTTTTATGTA
1 TTTTATTTAATTTTATTTATTGTATTTA-GTA
* *
26569589 TTTTATTTATTTTTATTTTTATGCTATTTA-TA
1 TTTTATTTAATTTTATTTAT-TG-TATTTAGTA
26569621 TTTT
1 TTTT
26569625 TACCTTCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 24 0.77
33 2 0.06
34 5 0.16
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.74
Consensus pattern (31 bp):
TTTTATTTAATTTTATTTATTGTATTTAGTA
Found at i:26569636 original size:71 final size:75
Alignment explanation
Indices: 26569495--26569644 Score: 182
Period size: 71 Copynumber: 2.1 Consensus size: 75
26569485 ACATTTCATA
* * * * *
26569495 TATTTATCGTTTTTTATTTATTATTATTTGTTATTCATTTTCTTTGTTATTTACATTCTTACTTT
1 TATTTATCGTTTTTTATGTATTATTATTTATTATTCATTTTCTATGCTATTTACATTCTTACCTT
*
26569560 TATTTAATTT
66 CATTTAATTT
* * * *
26569570 TATTTATTG-TTTTTATGTATT-TTATTTATT-TTTATTTT-TATGCTATTTATATTTTTACCTT
1 TATTTATCGTTTTTTATGTATTATTATTTATTATTCATTTTCTATGCTATTTACATTCTTACCTT
26569631 CATTTAATTT
66 CATTTAATTT
26569641 TATT
1 TATT
26569645 AATTCATTGA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
71 31 0.48
72 7 0.11
73 8 0.12
74 11 0.17
75 8 0.12
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.69
Consensus pattern (75 bp):
TATTTATCGTTTTTTATGTATTATTATTTATTATTCATTTTCTATGCTATTTACATTCTTACCTT
CATTTAATTT
Found at i:26570872 original size:47 final size:47
Alignment explanation
Indices: 26570803--26570898 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
26570793 AAAGACCGAC
26570803 GAACGGTCGGACATGGAGGGTGCTTGAGAGAATGGGGAGAAAAAAAG
1 GAACGGTCGGACATGGAGGGTGCTTGAGAGAATGGGGAGAAAAAAAG
26570850 GAACGGTCGGACATGGAGGGTGCTTGAGAGAATGGGGAGAAAAAAAG
1 GAACGGTCGGACATGGAGGGTGCTTGAGAGAATGGGGAGAAAAAAAG
26570897 GA
1 GA
26570899 GAGAAGGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.36, C:0.08, G:0.43, T:0.12
Consensus pattern (47 bp):
GAACGGTCGGACATGGAGGGTGCTTGAGAGAATGGGGAGAAAAAAAG
Found at i:26575760 original size:20 final size:20
Alignment explanation
Indices: 26575735--26575774 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
26575725 ACATGTTATC
*
26575735 AAAAGAAAATAAAAAAAAAG
1 AAAAGAAAAGAAAAAAAAAG
*
26575755 AAAAGAAAAGAAGAAAAAAG
1 AAAAGAAAAGAAAAAAAAAG
26575775 GGGTCAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAAGAAAAGAAAAAAAAAG
Found at i:26577742 original size:99 final size:99
Alignment explanation
Indices: 26577639--26578452 Score: 685
Period size: 99 Copynumber: 8.2 Consensus size: 99
26577629 TTTGAAGACA
* * ** * *
26577639 TGATGGGAAAGATCGAGGCCGCAACAACAAATCTAGCACCATGGAGATATAAAGGGAAAGGTTGA
1 TGATGGGAAGGATTGAGGCCGCAACGGCGAATCTAGTACCATGGAGATATAAAGGGAAAGGTTGA
26577704 GGCCGCAACGGCTAACCTGGTACCTTAAAAGATG
66 GGCCGCAACGGCTAACCTGGTACCTTAAAAGATG
* * *
26577738 TGATGGGAAGGATTGAGGCCGCAACGG-TAGATTTAGTACCATAGAGATATAAAGGGAAAGGTTG
1 TGATGGGAAGGATTGAGGCCGCAACGGCGA-ATCTAGTACCATGGAGATATAAAGGGAAAGGTTG
* * *
26577802 AGGCCGCAAAGGCAAACCTGGTACCTTAGAAGATG
65 AGGCCGCAACGGCTAACCTGGTACCTTAAAAGATG
* * * *
26577837 TGATGGGAAGGATTGAGGCCTCAACGGCGAATCCAGTACCATAGAGATATAAAGGGAAAGGTTAA
1 TGATGGGAAGGATTGAGGCCGCAACGGCGAATCTAGTACCATGGAGATATAAAGGGAAAGGTTGA
* * *
26577902 GACCACAACGG-TGAACCTGGTACCTTAGAAGATG
66 GGCCGCAACGGCT-AACCTGGTACCTTAAAAGATG
* * * * * * * * *
26577936 TGATGGGAAGGATTGAGGCTGCAATGGTGGATCCAATACCATAGAGAAATAAAAGGAAAGGTTGA
1 TGATGGGAAGGATTGAGGCCGCAACGGCGAATCTAGTACCATGGAGATATAAAGGGAAAGGTTGA
* * * *
26578001 GGCCGCAACGGCGAACCTGGGACCTT-AGAGATA
66 GGCCGCAACGGCTAACCTGGTACCTTAAAAGATG
* * * ** * * * *
26578034 TGAAGGGAAAGATTGAGGCCACAACGGCGAATCCGGTACTATGAAGATATGAAA-GGAAAAGTTA
1 TGATGGGAAGGATTGAGGCCGCAACGGCGAATCTAGTACCATGGAGATAT-AAAGGGAAAGGTTG
* * *
26578098 AGGCCGCAACGACGAATCC-GATACCTTAGAAA-ATG
65 AGGCCGCAACGGCTAA-CCTGGTACCTTA-AAAGATG
* ** * * * * *
26578133 TGATAGGAAGGATTGAGGTTGGAACGGCGAAT-TCGGCACCATGAAGATATGAAGGGAAAGGTTG
1 TGATGGGAAGGATTGAGGCCGCAACGGCGAATCT-AGTACCATGGAGATATAAAGGGAAAGGTTG
*** * * *
26578197 AGGCTATAATGG-TAAACCCGATACCTTAAAAGATG
65 AGGCCGCAACGGCT-AACCTGGTACCTTAAAAGATG
* * * * * * * *
26578232 TTATAGGAAGGATTAAGGCCGCAATGGCGAATCTGGTACTATGAAGATATGAAGGGAAAGGTTGA
1 TGATGGGAAGGATTGAGGCCGCAACGGCGAATCTAGTACCATGGAGATATAAAGGGAAAGGTTGA
* * * * * * *
26578297 AGCCACAATGGCGAACCCGGTACCTTAGAAGATA
66 GGCCGCAACGGCTAACCTGGTACCTTAAAAGATG
* * * * **
26578331 TGATGGGAAAGATTGAGGTCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
1 TGATGGGAAGGATTGAGGCCGCAACGGCGAATCTAGTACCATGGAGATATAAAGGGAAAGGTTGA
* * ** ** * *
26578396 AGTCGCAATTG-TGAACCTTATACCTT-AGAGATA
66 GGCCGCAACGGCT-AACCTGGTACCTTAAAAGATG
* *
26578429 TGAAGGGAAAGATTGAGGCCGCAA
1 TGATGGGAAGGATTGAGGCCGCAA
26578453 TGACAAATCT
Statistics
Matches: 587, Mismatches: 112, Indels: 33
0.80 0.15 0.05
Matches are distributed among these distances:
98 105 0.18
99 478 0.81
100 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19
Consensus pattern (99 bp):
TGATGGGAAGGATTGAGGCCGCAACGGCGAATCTAGTACCATGGAGATATAAAGGGAAAGGTTGA
GGCCGCAACGGCTAACCTGGTACCTTAAAAGATG
Found at i:26577755 original size:50 final size:49
Alignment explanation
Indices: 26577696--26577959 Score: 205
Period size: 50 Copynumber: 5.3 Consensus size: 49
26577686 TATAAAGGGA
26577696 AAGGTTGAGGCCGCAACGGCTAACCTGGTACCTTAAAAGATGTGATGGG
1 AAGGTTGAGGCCGCAACGGCTAACCTGGTACCTTAAAAGATGTGATGGG
** * * * * * *
26577745 AAGGATTGAGGCCGCAACGG-TAGATTTAGTACCAT-AGAGATATAAAGGG
1 AAGG-TTGAGGCCGCAACGGCTA-ACCTGGTACCTTAAAAGATGTGATGGG
* * *
26577794 AAAGGTTGAGGCCGCAAAGGCAAACCTGGTACCTTAGAAGATGTGATGGG
1 -AAGGTTGAGGCCGCAACGGCTAACCTGGTACCTTAAAAGATGTGATGGG
* * * * * * * *
26577844 AAGGATTGAGGCCTCAACGGCGAATCC-AGTACCAT-AGAGATATAAAGGG
1 AAGG-TTGAGGCCGCAACGGCTAA-CCTGGTACCTTAAAAGATGTGATGGG
* * * *
26577893 AAAGGTTAAGACCACAACGG-TGAACCTGGTACCTTAGAAGATGTGATGGG
1 -AAGGTTGAGGCCGCAACGGCT-AACCTGGTACCTTAAAAGATGTGATGGG
*
26577943 AAGGATTGAGGCTGCAA
1 AAGG-TTGAGGCCGCAA
26577960 TGGTGGATCC
Statistics
Matches: 159, Mismatches: 44, Indels: 23
0.70 0.19 0.10
Matches are distributed among these distances:
48 2 0.01
49 75 0.47
50 80 0.50
51 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (49 bp):
AAGGTTGAGGCCGCAACGGCTAACCTGGTACCTTAAAAGATGTGATGGG
Found at i:26577826 original size:49 final size:49
Alignment explanation
Indices: 26577643--26578452 Score: 284
Period size: 49 Copynumber: 16.4 Consensus size: 49
26577633 AAGACATGAT
* * ** * * * *
26577643 GGGAAAGATCGAGGCCGCAACAACAAATCTAGCACCATGGAGATATAAA
1 GGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCATAGAGATATAAA
* * * * * *
26577692 GGGAAAGGTTGAGGCCGCAACGGCTAACCTGGTACCTTAAAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCAT-AGAGATATAAA
* * ** *
26577742 GGG-AAGGATTGAGGCCGCAACGGTAGATTTAGTACCATAGAGATATAAA
1 GGGAAAGG-TTGAGGCCGCAACGGCAAACCTGGTACCATAGAGATATAAA
* * * * *
26577791 GGGAAAGGTTGAGGCCGCAAAGGCAAACCTGGTACCTTAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCATAG-AGATATAAA
* * *
26577841 GGG-AAGGATTGAGGCCTCAACGGCGAATCC-AGTACCATAGAGATATAAA
1 GGGAAAGG-TTGAGGCCGCAACGGC-AAACCTGGTACCATAGAGATATAAA
* * * ** * * * *
26577890 GGGAAAGGTTAAGACCACAACGGTGAACCTGGTACCTTAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCATAG-AGATATAAA
* * ** * ** *
26577940 GGG-AAGGATTGAGGCTGCAATGGTGGATCC-AATACCATAGAGAAATAAA
1 GGGAAAGG-TTGAGGCCGCAACGG-CAAACCTGGTACCATAGAGATATAAA
* * * * *
26577989 AGGAAAGGTTGAGGCCGCAACGGCGAACCTGGGACCTTAGAGATATGAA
1 GGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCATAGAGATATAAA
* * * *
26578038 GGGAAAGATTGAGGCCACAACGGCGAATCC-GGTACTAT-GAAGATATGAAA
1 GGGAAAGGTTGAGGCCGCAACGGC-AAACCTGGTACCATAG-AGATAT-AAA
* * * * * * * * *
26578088 -GGAAAAGTTAAGGCCGCAACGACGAATCC-GATACCTTAGAAAATGTGATA
1 GGGAAAGGTTGAGGCCGCAACGGC-AAACCTGGTACCATAG-AGATAT-AAA
** * * * * *
26578138 -GG-AAGGATTGAGGTTGGAACGGCGAA-TTCGGCACCAT-GAAGATATGAA
1 GGGAAAGG-TTGAGGCCGCAACGGCAAACCT-GGTACCATAG-AGATATAAA
*** * * * * * * * *
26578186 GGGAAAGGTTGAGGCTATAATGGTAAACCCGATACCTTAAAAGATGTTATA
1 GGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCAT-AGAGAT-ATAAA
* * * * * *
26578237 -GG-AAGGATTAAGGCCGCAATGGCGAATCTGGTACTAT-GAAGATATGAA
1 GGGAAAGG-TTGAGGCCGCAACGGCAAACCTGGTACCATAG-AGATATAAA
* * * * * * * *
26578285 GGGAAAGGTTGAAGCCACAATGGCGAACCCGGTACCTTAGAAGATATGAT
1 GGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCATAG-AGATATAAA
* * * * * * * **
26578335 GGGAAAGATTGAGGTCGCAACGACGAATCTTGTACCATGGAGATATGGA
1 GGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCATAGAGATATAAA
* * ** ** ** * *
26578384 GGGAAAGGTTGAAGTCGCAATTGTGAACCTTATACCTTAGAGATATGAA
1 GGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCATAGAGATATAAA
*
26578433 GGGAAAGATTGAGGCCGCAA
1 GGGAAAGGTTGAGGCCGCAA
26578453 TGACAAATCT
Statistics
Matches: 550, Mismatches: 180, Indels: 62
0.69 0.23 0.08
Matches are distributed among these distances:
48 11 0.02
49 324 0.59
50 205 0.37
51 10 0.02
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19
Consensus pattern (49 bp):
GGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCATAGAGATATAAA
Found at i:26577936 original size:198 final size:198
Alignment explanation
Indices: 26577591--26578452 Score: 781
Period size: 198 Copynumber: 4.4 Consensus size: 198
26577581 TAGAAATACG
** ** * * * * *
26577591 AAGGGAAAGGTTGAAACCATAACGGCAAGCCTTGTACCTTTGAAGACATGATGGGAAAGATCGAG
1 AAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATATGATGGGAAAGATTGAG
** * * * * * * *
26577656 GCCGCAACAACAAATCTAGCACCATGGAGATATAAAGGGAAAGGTTGAGGCCGCAACGGCTAACC
66 GCCGCAACGGCGAATCCAGTACCATGAAGATATAAAGGGAAAGGTTAAGGCCACAACGGCGAACC
* *
26577721 TGGTACCTTAAAAGATGTGATGGGAAGGATTGAGGCCGCAACGGTAG-ATTTAGTACCATAGAGA
131 TGGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGG-AGAATTCAGTACCATAGAGA
26577785 TATA
195 TATA
* * *
26577789 AAGGGAAAGGTTGAGGCCGCAAAGGCAAACCTGGTACCTTAGAAGATGTGATGGGAAGGATTGAG
1 AAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATATGATGGGAAAGATTGAG
* * *
26577854 GCCTCAACGGCGAATCCAGTACCAT-AGAGATATAAAGGGAAAGGTTAAGACCACAACGGTGAAC
66 GCCGCAACGGCGAATCCAGTACCATGA-AGATATAAAGGGAAAGGTTAAGGCCACAACGGCGAAC
* * * * * *
26577918 CTGGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCTGCAATGGTGGATCCAATACCATAGAGA
130 CTGGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGGAGAATTCAGTACCATAGAGA
*
26577983 AATA
195 TATA
* * * *
26577987 AAAGGAAAGGTTGAGGCCGCAACGGCGAACCTGGGACCTTAG-AGATATGAAGGGAAAGATTGAG
1 AAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATATGATGGGAAAGATTGAG
* * * * * *
26578051 GCCACAACGGCGAATCCGGTACTATGAAGATATGAAA-GGAAAAGTTAAGGCCGCAACGACGAAT
66 GCCGCAACGGCGAATCCAGTACCATGAAGATAT-AAAGGGAAAGGTTAAGGCCACAACGGCGAA-
* * * ** * * * *
26578115 CC-GATACCTTAGAAAATGTGATAGGAAGGATTGAGGTTGGAACGGCGAATTCGGCACCAT-GAA
129 CCTGGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGGAGAATTCAGTACCATAG-A
*
26578178 GATATG
193 GATATA
*** * * * * * * * * * *
26578184 AAGGGAAAGGTTGAGGCTATAATGGTAAACCCGATACCTTAAAAGATGTTATAGGAAGGATTAAG
1 AAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATATGATGGGAAAGATTGAG
* ** * * *
26578249 GCCGCAATGGCGAATCTGGTACTATGAAGATATGAAGGGAAAGGTTGAA-GCCACAATGGCGAAC
66 GCCGCAACGGCGAATCCAGTACCATGAAGATATAAAGGGAAAGGTT-AAGGCCACAACGGCGAAC
* * * * * *
26578313 CCGGTACCTTAGAAGATATGATGGGAAAGATTGAGGTCGCAAC-GACGAA-TCTTGTACCATGGA
130 CTGGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGGA-GAATTC-AGTACCATAGA
*
26578376 GATATG
193 GATATA
* * * ** ** ** *
26578382 GAGGGAAAGGTTGAAGTCGCAATTGTGAACCTTATACCTTAG-AGATATGAAGGGAAAGATTGAG
1 AAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATATGATGGGAAAGATTGAG
26578446 GCCGCAA
66 GCCGCAA
26578453 TGACAAATCT
Statistics
Matches: 538, Mismatches: 113, Indels: 27
0.79 0.17 0.04
Matches are distributed among these distances:
196 1 0.00
197 181 0.34
198 353 0.66
199 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.19
Consensus pattern (198 bp):
AAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATATGATGGGAAAGATTGAG
GCCGCAACGGCGAATCCAGTACCATGAAGATATAAAGGGAAAGGTTAAGGCCACAACGGCGAACC
TGGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGGAGAATTCAGTACCATAGAGAT
ATA
Found at i:26578141 original size:148 final size:148
Alignment explanation
Indices: 26577693--26578200 Score: 371
Period size: 148 Copynumber: 3.4 Consensus size: 148
26577683 AGATATAAAG
* * * * * *
26577693 GGAAAGG-TTGAGGCCGCAACGGCTAACCTGGTACCTTAAAAGATGTGATGGGAAGGATTGAGGC
1 GGAAAGGATTGAGGCCGCAACGGCGAACCTGGTACCAT-AGAGATATGAAGGGAAAGATTGAGGC
* * *** * *
26577757 CGCAACGGTAGATTTAGTACCAT-AGAGATAT-AAAGGGAAAGGTTGAGGCCGCAAAGGC-AAAC
65 CACAACGGGA-ATCCGGTACTATGA-AGATATGAAA-GGAAAGGTTGAGGCCGCAAAGGCGAATC
* *
26577819 CTGGTACCTTAGAAGATGTGAT-
127 C-GATACCTTAGAAAATGTGATA
* * * * * * *
26577841 GGGAAGGATTGAGGCCTCAACGGCGAATCC-AGTACCATAGAGATATAAAGGGAAAGGTTAAGAC
1 GGAAAGGATTGAGGCCGCAACGGCGAA-CCTGGTACCATAGAGATATGAAGGGAAAGATTGAGGC
* * * * * * *
26577905 CACAACGGTGAA-CCTGGTACCT-TAGAAGATGTG-ATGGGAAGGATTGAGGCTGCAATGGTGGA
65 CACAACGG-GAATCC-GGTA-CTAT-GAAGATATGAAAGGAAAGG-TTGAGGCCGCAAAGGCGAA
* * * *
26577967 TCCAATACCATAGAGAAA--TAAAA
125 TCCGATACCTTAGA-AAATGTGATA
* *
26577990 GGAAAGG-TTGAGGCCGCAACGGCGAACCTGGGACCTTAGAGATATGAAGGGAAAGATTGAGGCC
1 GGAAAGGATTGAGGCCGCAACGGCGAACCTGGTACCATAGAGATATGAAGGGAAAGATTGAGGCC
* * * *
26578054 ACAACGGCGAATCCGGTACTATGAAGATATGAAAGGAAAAGTTAAGGCCGCAACGACGAATCCGA
66 ACAACGG-GAATCCGGTACTATGAAGATATGAAAGGAAAGGTTGAGGCCGCAAAGGCGAATCCGA
26578119 TACCTTAGAAAATGTGATA
130 TACCTTAGAAAATGTGATA
** * * * *
26578138 GG-AAGGATTGAGGTTGGAACGGCGAA-TTCGGCACCAT-GAAGATATGAAGGGAAAGGTTGAGG
1 GGAAAGGATTGAGGCCGCAACGGCGAACCT-GGTACCATAG-AGATATGAAGGGAAAGATTGAGG
26578200 C
64 C
26578201 TATAATGGTA
Statistics
Matches: 275, Mismatches: 64, Indels: 42
0.72 0.17 0.11
Matches are distributed among these distances:
146 3 0.01
147 43 0.16
148 161 0.59
149 60 0.22
150 8 0.03
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (148 bp):
GGAAAGGATTGAGGCCGCAACGGCGAACCTGGTACCATAGAGATATGAAGGGAAAGATTGAGGCC
ACAACGGGAATCCGGTACTATGAAGATATGAAAGGAAAGGTTGAGGCCGCAAAGGCGAATCCGAT
ACCTTAGAAAATGTGATA
Found at i:26578476 original size:395 final size:395
Alignment explanation
Indices: 26577552--26578481 Score: 909
Period size: 395 Copynumber: 2.3 Consensus size: 395
26577542 ACAGAGAAGG
* * * * * **
26577552 TTGAGGTTGTAACGACGAATCTAATACTC-T--AGAAATACGAAGGGAAAGGTTGAAACCATAAC
1 TTGAGGCTGCAACGACGAATCCAATAC-CATAGAGAAATA--AAAGGAAAGGTTGAAGCCGCAAC
* * * * * *
26577614 GGC-AAGCCTTGTACCTTTGAAGACATGATGGGAAAGATCGAGGCCGCAACAACAAATCT-AGCA
63 GGCGAA-CCTTGTACCTTAG-AGATATGAAGGGAAAGATTGAGGCCGCAACGACAAATCTCA-TA
* * * * * *
26577677 CCATGGAGATAT-AAAGGGAAAGGTTGAGGCCGCAACGGCTAACCTGGTACCTTAAAAGATGTGA
125 CC-TGAAGATATGAAAGGGAAAAGTTAAGGCCGCAACGACGAACCTGATACCTTAAAAGATGTGA
* * * *
26577741 TGGGAAGGATTGAGGCCGCAACGGTAGATTTAGTACCATAGAGATATAAAGGGAAAGGTTGAGGC
189 TAGGAAGGATTGAGGCCGCAACGGGAGATTCAGCACCATAGAGATATAAAGGGAAAGGTTGAGGC
* * * * * * *
26577806 CGCAAAGGCAAACCTGGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCTCAACGGCGAATCC
254 CACAAAGGCAAACCCGATACCTTAAAAGATGTGATAGGAAGGATTAAGGCCGCAACGGCGAATCC
* * *
26577871 AGTACCATAGAGATATAAAGGGAAAGGTTAAGACCACAACGGTGAACCTGGTACCTTAGAAGATG
319 AGTACCATAGAGATATAAAGGGAAAGGTTAAGACCACAACGGCGAACCCGGTACCTTAGAAGATA
*
26577936 TGATGGGAAGGA
384 TGATGGGAAAGA
* ** * *
26577948 TTGAGGCTGCAATGGTGGATCCAATACCATAGAGAAATAAAAGGAAAGGTTGAGGCCGCAACGGC
1 TTGAGGCTGCAACGACGAATCCAATACCATAGAGAAATAAAAGGAAAGGTTGAAGCCGCAACGGC
* * * * * * *
26578013 GAACCTGGGACCTTAGAGATATGAAGGGAAAGATTGAGGCCACAACGGCGAATC-CGGTACTATG
66 GAACCTTGTACCTTAGAGATATGAAGGGAAAGATTGAGGCCGCAACGACAAATCTC-ATAC-CTG
26578077 AAGATATGAAA-GGAAAAGTTAAGGCCGCAACGACGAATCC-GATACCTTAGAAA-ATGTGATAG
129 AAGATATGAAAGGGAAAAGTTAAGGCCGCAACGACGAA-CCTGATACCTTA-AAAGATGTGATAG
** * * * *
26578139 GAAGGATTGAGGTTGGAACGGCGA-ATTCGGCACCAT-GAAGATATGAAGGGAAAGGTTGAGGCT
192 GAAGGATTGAGGCCGCAACGG-GAGATTCAGCACCATAG-AGATATAAAGGGAAAGGTTGAGGCC
* * * * * **
26578202 ATAATGGTAAACCCGATACCTTAAAAGATGTTATAGGAAGGATTAAGGCCGCAATGGCGAATCTG
255 ACAAAGGCAAACCCGATACCTTAAAAGATGTGATAGGAAGGATTAAGGCCGCAACGGCGAATCCA
* * *
26578267 GTACTAT-GAAGATATGAAGGGAAAGGTTGAAG-CCACAATGGCGAACCCGGTACCTTAGAAGAT
320 GTACCATAG-AGATATAAAGGGAAAGGTT-AAGACCACAACGGCGAACCCGGTACCTTAGAAGAT
26578330 ATGATGGGAAAGA
383 ATGATGGGAAAGA
*** * * ** * * **
26578343 TTGAGG-TCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGAAGTCGCAATTG
1 TTGAGGCT-GCAACGACGAATCCAATACCATAGAGAAATAAAAGGAAAGGTTGAAGCCGCAACGG
* * *
26578407 TGAACCTTATACCTTAGAGATATGAAGGGAAAGATTGAGGCCGCAATGACAAATCTCATATCCTG
65 CGAACCTTGTACCTTAGAGATATGAAGGGAAAGATTGAGGCCGCAACGACAAATCTCATA-CCTG
26578472 AAGATGATGA
129 AAGAT-ATGA
26578482 GCAGATTGAA
Statistics
Matches: 428, Mismatches: 88, Indels: 36
0.78 0.16 0.07
Matches are distributed among these distances:
394 3 0.01
395 346 0.81
396 70 0.16
397 2 0.00
398 7 0.02
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.20
Consensus pattern (395 bp):
TTGAGGCTGCAACGACGAATCCAATACCATAGAGAAATAAAAGGAAAGGTTGAAGCCGCAACGGC
GAACCTTGTACCTTAGAGATATGAAGGGAAAGATTGAGGCCGCAACGACAAATCTCATACCTGAA
GATATGAAAGGGAAAAGTTAAGGCCGCAACGACGAACCTGATACCTTAAAAGATGTGATAGGAAG
GATTGAGGCCGCAACGGGAGATTCAGCACCATAGAGATATAAAGGGAAAGGTTGAGGCCACAAAG
GCAAACCCGATACCTTAAAAGATGTGATAGGAAGGATTAAGGCCGCAACGGCGAATCCAGTACCA
TAGAGATATAAAGGGAAAGGTTAAGACCACAACGGCGAACCCGGTACCTTAGAAGATATGATGGG
AAAGA
Found at i:26578598 original size:41 final size:40
Alignment explanation
Indices: 26578550--26578996 Score: 295
Period size: 40 Copynumber: 11.3 Consensus size: 40
26578540 AAGCTGCACT
* *
26578550 AATCTCTTACCTCGATCATGTGGTAGATTGAAGACACATTC
1 AATCTCTTACC-CGATCATGAGGTAGATTGAAGACACATCC
*
26578591 AATCTCTTACCCCGATCATGAGGTAAATTGAAGACACATCC
1 AATCTCTTA-CCCGATCATGAGGTAGATTGAAGACACATCC
* * **
26578632 AATCTCTTACCCTGATCATGGGGTAGATT-AA-A-GCATTT
1 AATCTCTTACCC-GATCATGAGGTAGATTGAAGACACATCC
* * * * *
26578670 AATCTTTTACCCTAATCA-GAGAGAAGATTGAAGATACA-CA
1 AATCTCTTACCC-GATCATGAG-GTAGATTGAAGACACATCC
* *
26578710 AATCTCTTACCCCGATCATGAGGCAGATTGAAG---TATCC
1 AATCTCTTA-CCCGATCATGAGGTAGATTGAAGACACATCC
** * ** * *
26578748 AATCTCTTACCTTAATTACAAGGAATATTGAAGACACA-CC
1 AATCTCTTACC-CGATCATGAGGTAGATTGAAGACACATCC
* *
26578788 AATCTCTTACCCCGATCATGGGGCAGATTGAAG---CATCC
1 AATCTCTTA-CCCGATCATGAGGTAGATTGAAGACACATCC
* * *
26578826 AGTCTTTTACCCTAATCA-GAGGGTAGATTGAAGACACA-CC
1 AATCTCTTACCC-GATCATGA-GGTAGATTGAAGACACATCC
*
26578866 AATCTCTTACCCTGATCATGAGGCAGATTGAAG---CATCC
1 AATCTCTTACCC-GATCATGAGGTAGATTGAAGACACATCC
* * * *
26578904 GATCTTTTACCCTAATCA-GAGGGCA-AGTTGAAGACACA-CC
1 AATCTCTTACCC-GATCATGA-GGTAGA-TTGAAGACACATCC
** *
26578944 AATAGCTTACCCCGATCATGAGGTAGATTGAAGATACCATCC
1 AATCTCTTA-CCCGATCATGAGGTAGATTGAAGACA-CATCC
*
26578986 AATCTTTTACC
1 AATCTCTTACC
26578997 ATAATCATAG
Statistics
Matches: 316, Mismatches: 58, Indels: 64
0.72 0.13 0.15
Matches are distributed among these distances:
37 16 0.05
38 100 0.32
39 3 0.01
40 102 0.32
41 85 0.27
42 10 0.03
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (40 bp):
AATCTCTTACCCGATCATGAGGTAGATTGAAGACACATCC
Found at i:26578729 original size:78 final size:77
Alignment explanation
Indices: 26578550--26579018 Score: 494
Period size: 78 Copynumber: 5.9 Consensus size: 77
26578540 AAGCTGCACT
* * * * * **
26578550 AATCTCTTACCTCGATCATGTGGTAGATTGAAGACACATTCAATCTCTTACCCCGATCATGAGGT
1 AATCTCTTACCCCGATCATGAGGCAGATTGAAG---CATCCAATCTTTTACCCTAATCA-GAGG-
26578615 AA-ATTGAAGACACATCC
61 AAGATTGAAGACACA-CC
* * * * **
26578632 AATCTCTTACCCTGATCATGGGGTAGATTAAAGCATTTAATCTTTTACCCTAATCAGAGAGAAGA
1 AATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAG-GAAGA
* *
26578697 TTGAAGATACACA
65 TTGAAGACACACC
* * * *
26578710 AATCTCTTACCCCGATCATGAGGCAGATTGAAGTATCCAATCTCTTACCTTAATTACA-AGGAAT
1 AATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTTTTACCCTAA-T-CAGAGGAAG
26578774 ATTGAAGACACACC
64 ATTGAAGACACACC
* * *
26578788 AATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAGTCTTTTACCCTAATCAGAGGGTAGA
1 AATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA-GGAAGA
26578853 TTGAAGACACACC
65 TTGAAGACACACC
* *
26578866 AATCTCTTACCCTGATCATGAGGCAGATTGAAGCATCCGATCTTTTACCCTAATCAGAGGGCAAG
1 AATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGA-GG-AAG
26578931 -TTGAAGACACACC
64 ATTGAAGACACACC
** * * *
26578944 AATAGCTTACCCCGATCATGAGGTAGATTGAAGATACCATCCAATCTTTTACCATAATCATAGGG
1 AATCTCTTACCCCGATCATGAGGCAGATTGAAG----CATCCAATCTTTTACCCTAATCAGA-GG
*
26579009 CAGATTGAAG
61 AAGATTGAAG
26579019 CTATCATCCT
Statistics
Matches: 333, Mismatches: 42, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
76 2 0.01
77 2 0.01
78 229 0.69
79 36 0.11
80 2 0.01
81 2 0.01
82 60 0.18
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (77 bp):
AATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGAAGAT
TGAAGACACACC
Found at i:26578838 original size:156 final size:156
Alignment explanation
Indices: 26578550--26579018 Score: 544
Period size: 156 Copynumber: 3.0 Consensus size: 156
26578540 AAGCTGCACT
* * * * ** ** *
26578550 AATCTCTTACCTCGATCATGTGGTAGATTGAAGACACATTCAATCTCTTACCCCGATCATGAGGT
1 AATCTCTTACCCCGATCATGAGGCAGATTGAAG---CATCCAATCTCTTACCCTAATCACAAGGC
* * **
26578615 AAATTGAAGACACATCCAATCTCTTACCCTGATCATGGGGTAGATTAAAGCATTTAATCTTTTAC
63 AAATTGAAGACACA-CCAATCTCTTACCCCGATCATGGGGTAGATTGAAGCATCCAATCTTTTAC
* *
26578680 CCTAATCAGAGAGAAGATTGAAGATACACA
127 CCTAATCAGAGGGAAGATTGAAGACACACA
* * *
26578710 AATCTCTTACCCCGATCATGAGGCAGATTGAAGTATCCAATCTCTTACCTTAATTACAAGG-AAT
1 AATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCTAATCACAAGGCAA-
* *
26578774 ATTGAAGACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAGTCTTTTACCCT
65 ATTGAAGACACACCAATCTCTTACCCCGATCATGGGGTAGATTGAAGCATCCAATCTTTTACCCT
* *
26578839 AATCAGAGGGTAGATTGAAGACACACC
130 AATCAGAGGGAAGATTGAAGACACACA
* * * * * *
26578866 AATCTCTTACCCTGATCATGAGGCAGATTGAAGCATCCGATCTTTTACCCTAATCAGAGGGCAAG
1 AATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCTAATCACAAGGCAAA
** *
26578931 TTGAAGACACACCAATAGCTTACCCCGATCATGAGGTAGATTGAAGATACCATCCAATCTTTTAC
66 TTGAAGACACACCAATCTCTTACCCCGATCATGGGGTAGATTGAAG----CATCCAATCTTTTAC
* * *
26578996 CATAATCATAGGGCAGATTGAAG
127 CCTAATCAGAGGGAAGATTGAAG
26579019 CTATCATCCT
Statistics
Matches: 265, Mismatches: 38, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
156 167 0.63
157 34 0.13
160 64 0.24
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (156 bp):
AATCTCTTACCCCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCTAATCACAAGGCAAA
TTGAAGACACACCAATCTCTTACCCCGATCATGGGGTAGATTGAAGCATCCAATCTTTTACCCTA
ATCAGAGGGAAGATTGAAGACACACA
Found at i:26578854 original size:38 final size:39
Alignment explanation
Indices: 26578590--26579019 Score: 265
Period size: 38 Copynumber: 10.9 Consensus size: 39
26578580 AAGACACATT
** * *
26578590 CAATCTCTTACCCCGATCATGA-GGTAAATTGAAGACACATC
1 CAATCTCTTACCCTAATCATGAGGGCAGATTGAAG---CATC
* * * *
26578631 CAATCTCTTACCCTGATCATG-GGGTAGATTAAAGCATT
1 CAATCTCTTACCCTAATCATGAGGGCAGATTGAAGCATC
* * * *
26578669 TAATCTTTTACCCTAATCA-GAGAGAAGATTGAAG-ATAC
1 CAATCTCTTACCCTAATCATGAGGGCAGATTGAAGCAT-C
** *
26578707 ACAAATCTCTTACCCCGATCATGA-GGCAGATTGAAGTATC
1 -C-AATCTCTTACCCTAATCATGAGGGCAGATTGAAGCATC
* * * * * * *
26578747 CAATCTCTTACCTTAATTA-CAAGGAATATTGAAGACACAC
1 CAATCTCTTACCCTAATCATGAGGGCAGATTGAAG-CA-TC
**
26578787 CAATCTCTTACCCCGATCATG-GGGCAGATTGAAGCATC
1 CAATCTCTTACCCTAATCATGAGGGCAGATTGAAGCATC
* * * *
26578825 CAGTCTTTTACCCTAATCA-GAGGGTAGATTGAAGACACAC
1 CAATCTCTTACCCTAATCATGAGGGCAGATTGAAG-CA-TC
*
26578865 CAATCTCTTACCCTGATCATGA-GGCAGATTGAAGCATC
1 CAATCTCTTACCCTAATCATGAGGGCAGATTGAAGCATC
* * *
26578903 CGATCTTTTACCCTAATCA-GAGGGCA-AGTTGAAGACACAC
1 CAATCTCTTACCCTAATCATGAGGGCAGA-TTGAAG-CA-TC
** ** *
26578943 CAATAGCTTACCCCGATCATGA-GGTAGATTGAAGATACCATC
1 CAATCTCTTACCCTAATCATGAGGGCAGATTGAAG----CATC
* *
26578985 CAATCTTTTACCATAATCAT-AGGGCAGATTGAAGC
1 CAATCTCTTACCCTAATCATGAGGGCAGATTGAAGC
26579020 TATCATCCTA
Statistics
Matches: 298, Mismatches: 66, Indels: 53
0.71 0.16 0.13
Matches are distributed among these distances:
37 8 0.03
38 109 0.37
39 10 0.03
40 103 0.35
41 40 0.13
42 26 0.09
43 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (39 bp):
CAATCTCTTACCCTAATCATGAGGGCAGATTGAAGCATC
Found at i:26578963 original size:234 final size:236
Alignment explanation
Indices: 26578550--26578976 Score: 601
Period size: 234 Copynumber: 1.8 Consensus size: 236
26578540 AAGCTGCACT
* * * * *
26578550 AATCTCTTACCTCGATCATGTGGTAGATTGAAGACACATTCAATCTCTTACCCCGATCATGAGGT
1 AATCTCTTACCCCGATCATGGGGCAGATTGAAG--ACATCCAATCTCTTACCCCAATCATGAGGT
* * **
26578615 AAATTGAAGACACATCCAATCTCTTACCCTGATCATGGGGTAGATTAAAGCATTTAATCTTTTAC
64 AAATTGAAGACACATCCAATCTCTTACCCTGATCATGAGGCAGATTAAAGCATCCAATCTTTTAC
* **
26578680 CCTAATCAGAGAGAAGATTGAAGATACACAAATCTCTTACCCCGATCATGAGGCAGATTGAAGTA
129 CCTAATCAGAGAGAAGATTGAAGACACACAAATAGCTTACCCCGATCATGAGGCAGATTGAAGTA
26578745 TCCAATCTCTTACCTTAATTACAAGGAATATTGAAGACACACC
194 TCCAATCTCTTACCTTAATTACAAGGAATATTGAAGACACACC
* * *
26578788 AATCTCTTACCCCGATCATGGGGCAGATTGAAG-CATCCAGTCTTTTACCCTAATCA-GAGGGTA
1 AATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCCAATCTCTTACCCCAATCATGA-GGTA
* * *
26578851 GATTGAAGACACA-CCAATCTCTTACCCTGATCATGAGGCAGATTGAAGCATCCGATCTTTTACC
65 AATTGAAGACACATCCAATCTCTTACCCTGATCATGAGGCAGATTAAAGCATCCAATCTTTTACC
* * *
26578915 CTAATCAGAGGGCAAG-TTGAAGACACACCAATAGCTTACCCCGATCATGAGGTAGATTGAAG
130 CTAATCAGAGAG-AAGATTGAAGACACACAAATAGCTTACCCCGATCATGAGGCAGATTGAAG
26578977 ATACCATCCA
Statistics
Matches: 166, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
234 99 0.60
235 37 0.22
238 30 0.18
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (236 bp):
AATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCCAATCTCTTACCCCAATCATGAGGTAA
ATTGAAGACACATCCAATCTCTTACCCTGATCATGAGGCAGATTAAAGCATCCAATCTTTTACCC
TAATCAGAGAGAAGATTGAAGACACACAAATAGCTTACCCCGATCATGAGGCAGATTGAAGTATC
CAATCTCTTACCTTAATTACAAGGAATATTGAAGACACACC
Found at i:26582677 original size:19 final size:20
Alignment explanation
Indices: 26582654--26582699 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
26582644 TTTTGTTTTT
*
26582654 TATATGTTG-TTTTGCTA-A
1 TATATGTTGATATTGCTATA
26582672 TAATATGTTGATATTGCTATA
1 T-ATATGTTGATATTGCTATA
26582693 TATATGT
1 TATATGT
26582700 CTATGTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.04
19 8 0.33
20 13 0.54
21 2 0.08
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.52
Consensus pattern (20 bp):
TATATGTTGATATTGCTATA
Found at i:26583681 original size:15 final size:13
Alignment explanation
Indices: 26583657--26583695 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
26583647 TGCATATGCA
26583657 TACATGCATTCAT
1 TACATGCATTCAT
26583670 TAACATTGCATTTCAT
1 T-ACA-TGCA-TTCAT
26583686 TACATGCATT
1 TACATGCATT
26583696 AAATTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.13
14 7 0.30
15 7 0.30
16 6 0.26
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (13 bp):
TACATGCATTCAT
Found at i:26583711 original size:3 final size:3
Alignment explanation
Indices: 26583703--26583730 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
26583693 ATTAAATTTC
26583703 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
26583731 ATCAAAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:26588804 original size:49 final size:49
Alignment explanation
Indices: 26588741--26589269 Score: 480
Period size: 49 Copynumber: 10.8 Consensus size: 49
26588731 CCTAAAGTTG
* * *
26588741 AAGAGGGAAAGATTAAAGCCGCAATGACGAATCTTACACTCTAAAATCA
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAATCA
* ** *
26588790 AATAGGGAAAGATTAAAGCAACAACGATGAATCTTACACCCTAAAATCG
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAATCA
* * * * * * *
26588839 AAGAGGAAAAAATTAAAGTCGTAACAACGAATCTTACACCCTAAAATCG
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAATCA
** * *
26588888 AAGAGGGAAAGATTAAAGCCATAACGATGAATCTTACACCTTAAAATCG
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAATCA
** * *
26588937 AAGAGGGAAAGATTAAAATCGTAACGATGAATCTTACACCCTAAAATCG
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAATCA
* * * ** *
26588986 AAGTGGGAAAGATTAAAGTCGCAATGGA-GAATCTTACATTCTAAAATCG
1 AAGAGGGAAAGATTAAAGCCGCAA-CGATGAATCTTACACCCTAAAATCA
** *
26589035 AAG-GGAGAAAGATTAAAGCCGCAACGGCGAATCTTACACCCTAAAATTA
1 AAGAGG-GAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAATCA
* ** * *
26589084 AATAGGGATAA-ATTAAATTCGTAACGGT-AATCTTACACCCTAAAA-CA
1 AAGAGGGA-AAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAATCA
* * * * *
26589131 AAAAGGAAAATG-TTAAAGCCGCAACAATGAATCTTACACCTTAGAATCGA
1 AAGAGGGAAA-GATTAAAGCCGCAACGATGAATCTTACACCCTAAAATC-A
* * * * ** *
26589181 AA-AGGGACAGATTAAAGCCGTAACGGTAAATCTTACACACAAAAAACTGA
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACAC-CCTAAAA-TCA
* * *
26589231 AA-ATGGACAGATTAAAGCCGTAACGATGAATCTTACACC
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACC
26589270 TTTAAACCCG
Statistics
Matches: 399, Mismatches: 68, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
46 2 0.01
47 18 0.05
48 36 0.09
49 293 0.73
50 49 0.12
51 1 0.00
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.20
Consensus pattern (49 bp):
AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAATCA
Found at i:26589001 original size:147 final size:146
Alignment explanation
Indices: 26588731--26589269 Score: 556
Period size: 147 Copynumber: 3.7 Consensus size: 146
26588721 CAGACCAAAT
* * *
26588731 CCTAAAGTTGAAGAGGGAAAGATTAAAGCCGCAATGACGAATCTTACA-CTCTAAAATCAAATAG
1 CCTAAAATCGAAGAGGGAAAGATTAAAGCCGCAACGACGAATCTTACACCT-TAAAATCAAATAG
* *
26588795 GGAAAGATTAAAGCAAC--AACGATGAATCTTACACCCTAAAATCGAAGAGGAAAAAATTAAAGT
65 GGAAAGATTAAA--ATCGTAACGATGAATCTTACACCCTAAAATCGAAGAGGAAAAGATTAAAGT
*
26588858 CGTAACAACGAATCTTACAC
128 CGCAACAA-GAATCTTACAC
** * * *
26588878 CCTAAAATCGAAGAGGGAAAGATTAAAGCCATAACGATGAATCTTACACCTTAAAATCGAAGAGG
1 CCTAAAATCGAAGAGGGAAAGATTAAAGCCGCAACGACGAATCTTACACCTTAAAATCAAATAGG
* *
26588943 GAAAGATTAAAATCGTAACGATGAATCTTACACCCTAAAATCGAAGTGGGAAAGATTAAAGTCGC
66 GAAAGATTAAAATCGTAACGATGAATCTTACACCCTAAAATCGAAGAGGAAAAGATTAAAGTCGC
** *
26589008 AATGGAGAATCTTACAT
131 AA-CAAGAATCTTACAC
* * * *
26589025 TCTAAAATCGAAG-GGAGAAAGATTAAAGCCGCAACGGCGAATCTTACACCCTAAAATTAAATAG
1 CCTAAAATCGAAGAGG-GAAAGATTAAAGCCGCAACGACGAATCTTACACCTTAAAATCAAATAG
* * * * *
26589089 GGATAA-ATTAAATTCGTAACGGT-AATCTTACACCCTAAAA-CAAAAAGGAAAATG-TTAAAGC
65 GGA-AAGATTAAAATCGTAACGATGAATCTTACACCCTAAAATCGAAGAGGAAAA-GATTAAAGT
26589150 CGCAACAATGAATCTTACAC
128 CGCAACAA-GAATCTTACAC
* * * * * *** ** *
26589170 CTTAGAATCGAAAAGGGACAGATTAAAGCCGTAACGGTAAATCTTACACACAAAAAACTGAAA-A
1 CCTAAAATCGAAGAGGGAAAGATTAAAGCCGCAACGACGAATCTTACAC-CTTAAAA-TCAAATA
* * **
26589234 TGGACAGATTAAAGCCGTAACGATGAATCTTACACC
64 GGGAAAGATTAAAATCGTAACGATGAATCTTACACC
26589270 TTTAAACCCG
Statistics
Matches: 328, Mismatches: 51, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
144 1 0.00
145 70 0.21
146 45 0.14
147 207 0.63
148 5 0.02
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.20
Consensus pattern (146 bp):
CCTAAAATCGAAGAGGGAAAGATTAAAGCCGCAACGACGAATCTTACACCTTAAAATCAAATAGG
GAAAGATTAAAATCGTAACGATGAATCTTACACCCTAAAATCGAAGAGGAAAAGATTAAAGTCGC
AACAAGAATCTTACAC
Found at i:26590242 original size:12 final size:13
Alignment explanation
Indices: 26590220--26590277 Score: 50
Period size: 12 Copynumber: 4.6 Consensus size: 13
26590210 TTTATCGTTA
*
26590220 TTATATTATTTGT
1 TTATATTATTTAT
26590233 TTAT-TTATTTAT
1 TTATATTATTTAT
**
26590245 TTATCATTAAAT-T
1 TTAT-ATTATTTAT
*
26590258 TTATATTTTTTAT
1 TTATATTATTTAT
26590271 TTA-ATTA
1 TTATATTA
26590278 CATGTTGTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
12 18 0.51
13 13 0.37
14 4 0.11
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (13 bp):
TTATATTATTTAT
Found at i:26590418 original size:4 final size:4
Alignment explanation
Indices: 26590401--26590514 Score: 58
Period size: 4 Copynumber: 27.2 Consensus size: 4
26590391 CATTCTTGCT
*
26590401 TTTA TTTAA TTTTA TTTA TTGT- TTTA TGTA TTTTA TTTA TTT- TTTA
1 TTTA TTT-A -TTTA TTTA TT-TA TTTA TTTA -TTTA TTTA TTTA TTTA
* *
26590447 TTT- TTTA TGCTA TTTA TATT- TTTG TCTTCA TTTAA TTTTA TTTA TTTA
1 TTTA TTTA T-TTA TTTA T-TTA TTTA T-TT-A TTT-A -TTTA TTTA TTTA
* *
26590495 TTGA TTT- GTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA T
26590515 ATGTCATATT
Statistics
Matches: 86, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
3 11 0.13
4 51 0.59
5 17 0.20
6 7 0.08
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:26590452 original size:9 final size:9
Alignment explanation
Indices: 26590400--26590512 Score: 50
Period size: 10 Copynumber: 11.3 Consensus size: 9
26590390 ACATTCTTGC
26590400 TTTTATTTAA
1 TTTTATTT-A
26590410 TTTTATTTA
1 TTTTATTTA
*
26590419 TTGTTTTATGTA
1 ---TTTTATTTA
26590431 TTTTATTTA
1 TTTTATTTA
*
26590440 TTTT-TTATT
1 TTTTATT-TA
*
26590449 TTTTATGCTA
1 TTTTAT-TTA
*
26590459 TTTATATTTT
1 TTT-TATTTA
26590469 TGTCTTCATTTAA
1 T-T-TT-ATTT-A
26590482 TTTTATTTA
1 TTTTATTTA
*
26590491 -TTTATTGA
1 TTTTATTTA
26590499 TTTGTTATTTA
1 -TT-TTATTTA
26590510 TTT
1 TTT
26590513 ATATGTCATA
Statistics
Matches: 79, Mismatches: 10, Indels: 29
0.67 0.08 0.25
Matches are distributed among these distances:
8 9 0.11
9 20 0.25
10 22 0.28
11 13 0.16
12 14 0.18
13 1 0.01
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (9 bp):
TTTTATTTA
Found at i:26590462 original size:72 final size:73
Alignment explanation
Indices: 26590349--26590492 Score: 177
Period size: 72 Copynumber: 2.0 Consensus size: 73
26590339 ATTTATCGTT
* * * *
26590349 TTTTATTTATTATTATTTGTTATTCATTTTGTTTGTTATTTACATTCTTG-CTTTTATTTAATTT
1 TTTTATGTATTATTATTTATTATTCATTTTGTTTGCTATTTACATTCTTGTC-TTCATTTAATTT
26590413 TATTTATTG
65 TATTTATTG
* * * *
26590422 TTTTATGTATT-TTATTTATTTTTTATTTT-TTATGCTATTTATATTTTTGTCTTCATTTAATTT
1 TTTTATGTATTATTATTTATTATTCATTTTGTT-TGCTATTTACATTCTTGTCTTCATTTAATTT
26590485 TATTTATT
65 TATTTATT
26590493 TATTGATTTG
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
71 2 0.03
72 48 0.79
73 11 0.18
ACGTcount: A:0.19, C:0.05, G:0.06, T:0.70
Consensus pattern (73 bp):
TTTTATGTATTATTATTTATTATTCATTTTGTTTGCTATTTACATTCTTGTCTTCATTTAATTTT
ATTTATTG
Found at i:26590740 original size:24 final size:23
Alignment explanation
Indices: 26590688--26590764 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 23
26590678 CTCCTATTTA
*
26590688 TTATTTT-ATTGTGTTA-TTAAT
1 TTATTTTAATTGTATTATTTAAT
26590709 TGTA-TTTAATTGTATTCATTTAAT
1 T-TATTTTAATTGTATT-ATTTAAT
*
26590733 TTATTTTATTCATGTATTATTT-AT
1 TTATTTTAAT--TGTATTATTTAAT
26590757 TTATTTTA
1 TTATTTTA
26590765 TCATTATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
21 4 0.09
22 9 0.19
23 3 0.06
24 21 0.45
25 4 0.09
26 6 0.13
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (23 bp):
TTATTTTAATTGTATTATTTAAT
Found at i:26590751 original size:45 final size:42
Alignment explanation
Indices: 26590688--26590775 Score: 99
Period size: 45 Copynumber: 2.0 Consensus size: 42
26590678 CTCCTATTTA
*
26590688 TTATTTTATTGTGTTATTAATTGTATTTAATTGTATTCATT-TAAT
1 TTATTTTATTATGTTATT-ATT-TATTT-ATTGTA-TCATTATAAT
*
26590733 TTATTTTATTCATG-TATTATTTATTTATTTTATCATTATAAT
1 TTATTTTATT-ATGTTATTATTTATTTATTGTATCATTATAAT
26590775 T
1 T
26590776 GTAAATTATG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
41 5 0.13
42 10 0.26
43 5 0.13
44 3 0.08
45 14 0.36
46 2 0.05
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (42 bp):
TTATTTTATTATGTTATTATTTATTTATTGTATCATTATAAT
Found at i:26598113 original size:24 final size:25
Alignment explanation
Indices: 26598073--26598120 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
26598063 TAAATTTTTG
*
26598073 TTTTATTTAAAAATTTAGAATTTAA
1 TTTTATTTAAAAATTTAAAATTTAA
*
26598098 TTTT-TTTAAAATTTTAAAATTTA
1 TTTTATTTAAAAATTTAAAATTTA
26598121 TGTTTAACGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TTTTATTTAAAAATTTAAAATTTAA
Found at i:26602638 original size:34 final size:34
Alignment explanation
Indices: 26602559--26602726 Score: 148
Period size: 34 Copynumber: 5.1 Consensus size: 34
26602549 GCAATATGCC
* *
26602559 ATGCTTATAACAGATCAATA-TGATAGC-A-AG-G
1 ATGCTTATAACAGATCAATACAG-TAGCAATAGAT
* * *
26602590 AT-CTCATAATAGATCAATACAGTAGCATTAGAT
1 ATGCTTATAACAGATCAATACAGTAGCAATAGAT
* *
26602623 ATGCTTATAACAGATCAATACGGTATCAATAGAT
1 ATGCTTATAACAGATCAATACAGTAGCAATAGAT
* * * *
26602657 ATGCTTATAATAAATTAATACAATAGCAATAGAT
1 ATGCTTATAACAGATCAATACAGTAGCAATAGAT
* * * * *
26602691 AAGATTATAACAAATCAATATAGTAGTAATAGAT
1 ATGCTTATAACAGATCAATACAGTAGCAATAGAT
26602725 AT
1 AT
26602727 AACAAATCAA
Statistics
Matches: 108, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
30 19 0.18
31 3 0.03
32 2 0.02
33 2 0.02
34 82 0.76
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (34 bp):
ATGCTTATAACAGATCAATACAGTAGCAATAGAT
Found at i:26602722 original size:68 final size:68
Alignment explanation
Indices: 26602595--26602726 Score: 167
Period size: 68 Copynumber: 1.9 Consensus size: 68
26602585 CAAGGATCTC
* * * * * * *
26602595 ATAATAGATCAATACAGTAGCATTAGATATGCTTATAACAGATCAATACGGTATCAATAGATATG
1 ATAATAAATCAATACAATAGCAATAGATAAGATTATAACAAATCAATACAGTATCAATAGATATG
26602660 CTT
66 CTT
* *
26602663 ATAATAAATTAATACAATAGCAATAGATAAGATTATAACAAATCAATATAGTAGT-AATAGATAT
1 ATAATAAATCAATACAATAGCAATAGATAAGATTATAACAAATCAATACAGTA-TCAATAGATAT
26602727 AACAAATCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
68 53 0.98
69 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (68 bp):
ATAATAAATCAATACAATAGCAATAGATAAGATTATAACAAATCAATACAGTATCAATAGATATG
CTT
Found at i:26606234 original size:221 final size:226
Alignment explanation
Indices: 26605597--26606240 Score: 717
Period size: 232 Copynumber: 2.8 Consensus size: 226
26605587 AATATAGCAG
* * * *
26605597 GAGTTCCCCATAACTCATCTATCTTTACACCACGTTGTGGATAAACCACTCATCGTTGTGGATGA
1 GAGTTACCCATAACTCATCTATCTTTACACCATGTTGTGGATAAACCACTCATCATTGTAGATGA
* *
26605662 ACCACTAGTAATAAAAAGGAAGGATGAACCACCAGAGTTTTTT-ATAAAAAATTTGTAGAAAAGC
66 ACCACTAG------AAAGGATGGATGAACCACCAGAGTTTTTTGATAAAAAGTTTGTAGAAAAGC
* *
26605726 TACTAGTACGGTGTGGATAAACCACTCATTGGTGCAGATAAAAGA-TGCTAGTACATTGTGGTGT
125 TGCTAGTACGGTGTGGATAAACCACTCATTGGTGCAGATAAAA-ATTGCTAGTACGTTGTGGTGT
* ** * * *
26605790 GTAGCAAGTTCCTCATAACTTTGCTGCACACCACCATAG
189 GTA-CAAGTACCTCATAACTCCGCTACACACCACAATAA
* * * * *
26605829 GAGTTCCCCATAACTCTTCTATCTTTACAACATATTGTGGATAAACAACTCATCATTGTAGATGA
1 GAGTTACCCATAACTCATCTATCTTTACACCATGTTGTGGATAAACCACTCATCATTGTAGATGA
* * * *
26605894 ACTACTAGTAATAAAAAGGGTGGATGAACCACCAGAGTTTTTTGATAAAAAGTTTGTAGATAAGT
66 ACCACTAG------AAAGGATGGATGAACCACCAGAGTTTTTTGATAAAAAGTTTGTAGAAAAGC
* * * *
26605959 TGCTACTACGGTGTGGATAAACCACTCATTAGTGCAGATAAAAGTTACTAGTACGTTGTGGTGTG
125 TGCTAGTACGGTGTGGATAAACCACTCATTGGTGCAGATAAAAATTGCTAGTACGTTGTGGTGTG
* * *
26606024 TA-ATG-ACC-CATAACTCCGCTACACGCCATAATAA
190 TACAAGTACCTCATAACTCCGCTACACACCACAATAA
* * * *
26606058 GAG-TACCCATAACTCCTCTATCTTTACACCATGTTATGGATAAACCACTCATCATTATATATGA
1 GAGTTACCCATAACTCATCTATCTTTACACCATGTTGTGGATAAACCACTCATCATTGTAGATGA
* * * * * *
26606122 ACCACTAG-AAGGATGAATAAACCACCAAATTTTTTTGATAAAAAGTTTGCAGACAAGCTGCTAG
66 ACCACTAGAAAGGATGGATGAACCACCAGAGTTTTTTGATAAAAAGTTTGTAGAAAAGCTGCTAG
* * * *
26606186 TACGCTGTGGATAAACTACTCATTGGTGCAAATAAAAATTGTTAGTACGTTGTGG
131 TACGGTGTGGATAAACCACTCATTGGTGCAGATAAAAATTGCTAGTACGTTGTGG
26606241 ATAAACCACT
Statistics
Matches: 357, Mismatches: 53, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
221 95 0.27
228 60 0.17
229 22 0.06
230 2 0.01
231 2 0.01
232 98 0.27
233 78 0.22
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (226 bp):
GAGTTACCCATAACTCATCTATCTTTACACCATGTTGTGGATAAACCACTCATCATTGTAGATGA
ACCACTAGAAAGGATGGATGAACCACCAGAGTTTTTTGATAAAAAGTTTGTAGAAAAGCTGCTAG
TACGGTGTGGATAAACCACTCATTGGTGCAGATAAAAATTGCTAGTACGTTGTGGTGTGTACAAG
TACCTCATAACTCCGCTACACACCACAATAA
Done.