Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2444
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: 67110
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Found at i:822 original size:3 final size:3
Alignment explanation
Indices: 804--846 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
794 CATCAAAGAC
* * *
804 GAT GAA GAT AAT GAT GAT GAT GAT GAT GAT AAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
847 GTGACTCGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:3876 original size:13 final size:13
Alignment explanation
Indices: 3858--3882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3848 CATAAAGTGT
3858 TGTATCGATACAA
1 TGTATCGATACAA
3871 TGTATCGATACA
1 TGTATCGATACA
3883 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3963 original size:13 final size:13
Alignment explanation
Indices: 3945--3969 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3935 ATTACTCAAA
3945 TGTATCGATACAT
1 TGTATCGATACAT
3958 TGTATCGATACA
1 TGTATCGATACA
3970 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:10943 original size:24 final size:25
Alignment explanation
Indices: 10894--10943 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
10884 ATGTCGGAAC
* * *
10894 AGTCAAAAGTAAACACACAAACAAA
1 AGTCAAAAGAAAACACAAAAAAAAA
10919 AGTCAAAA-AAAACACAAAAAAAAA
1 AGTCAAAAGAAAACACAAAAAAAAA
10943 A
1 A
10944 CAGAAGAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.72, C:0.16, G:0.06, T:0.06
Consensus pattern (25 bp):
AGTCAAAAGAAAACACAAAAAAAAA
Found at i:12052 original size:8 final size:8
Alignment explanation
Indices: 12039--12068 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
12029 TTGTGCTGTA
12039 ATCATAAC
1 ATCATAAC
12047 ATCATAAC
1 ATCATAAC
12055 ATCAATAAC
1 ATC-ATAAC
12064 ATCAT
1 ATCAT
12069 TATTTGCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (8 bp):
ATCATAAC
Found at i:12264 original size:30 final size:30
Alignment explanation
Indices: 12157--12318 Score: 182
Period size: 32 Copynumber: 5.2 Consensus size: 30
12147 AATTCTTCAA
* *
12157 ATCTCTTCTCAAAGCCCACGACTCAGTGGC
1 ATCTTTTCTCAAAGTCCACGACTCAGTGGC
* *
12187 AATCTCTTCTCAAAGTCCACGACTTAGTGGC
1 -ATCTTTTCTCAAAGTCCACGACTCAGTGGC
*
12218 ATCCTTTTCTTCAAAGTCCACGACTTAGTGGC
1 AT-CTTTTC-TCAAAGTCCACGACTCAGTGGC
12250 AT-TTTGTCTCAAAGTCCACGACTCAGTGGC
1 ATCTTT-TCTCAAAGTCCACGACTCAGTGGC
* * *
12280 ATCCTTTTCTTCAAAGCCCACAACTCTGTGGC
1 AT-CTTTTC-TCAAAGTCCACGACTCAGTGGC
*
12312 ACCTTTT
1 ATCTTTT
12319 TCTTTTTAAA
Statistics
Matches: 117, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
30 28 0.24
31 42 0.36
32 47 0.40
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (30 bp):
ATCTTTTCTCAAAGTCCACGACTCAGTGGC
Found at i:12278 original size:62 final size:63
Alignment explanation
Indices: 12165--12312 Score: 219
Period size: 62 Copynumber: 2.4 Consensus size: 63
12155 AAATCTCTTC
*
12165 TCAAAGCCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTTAGTGGCATCCTTTTCT
1 TCAAAGCCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
* * *
12228 TCAAAGTCCACGACTTAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
1 TCAAAGCCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
* *
12290 TCAAAGCCCACAACTCTGTGGCA
1 TCAAAGCCCACGACTCAGTGGCA
12313 CCTTTTTCTT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
61 2 0.03
62 53 0.71
63 20 0.27
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (63 bp):
TCAAAGCCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCT
Found at i:12370 original size:35 final size:33
Alignment explanation
Indices: 12293--12982 Score: 518
Period size: 27 Copynumber: 21.3 Consensus size: 33
12283 CTTTTCTTCA
* *
12293 AAGCCCACAACTCTGTGGCACCTTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
12326 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* *
12362 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* * * **
12395 AAGTCCACGACTCCGTGGCACCTTCTT--TTCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
12426 AAGCCCACAATTTCGTGGCAACCTTTTT-CTTCTCA
1 AAGCCCACAACTCCGTGGC-ACCTTTTTCCTT-T-T
* *
12461 AAGCCCACCACTCCGTGGCA-CTTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
12493 AAAACCCACAACTTCGTGGCACTCTTTTTCCCTTTT
1 -AAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* *
12529 CAAAGCCCACCACTCCGTGGCA-CTTTTTCTTTTT
1 --AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
12563 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
12599 CAATGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AA-GCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* * * **
12636 AAAGTCCACGACTCCGTGGCACCTTCTT--TTCA
1 -AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
12668 AAGCCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
12695 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCT-TTT
* *
12729 AAGTCCACAACTCTGTGGCA-C-----CCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
** * *
12756 AAGCCCACAACTCTATGGCACTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCT-TTT
*
12790 AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
12817 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCT-TTT
* * *
12851 AAGTCCACAACTCTGTGGCA-C-----CATTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
12878 AAGCCCACAACTCCGTGGCACTTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCAC-CTTTTTCCT-TTT
*
12913 AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
12940 AAGCCCACAACTCCGTGGCACCTTTCTCCTTCTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTT-TT
12974 AAGCCCACA
1 AAGCCCACA
12983 CAAGTCGGTG
Statistics
Matches: 533, Mismatches: 69, Indels: 108
0.75 0.10 0.15
Matches are distributed among these distances:
27 108 0.20
28 10 0.02
30 1 0.00
31 35 0.07
32 9 0.02
33 87 0.16
34 108 0.20
35 88 0.17
36 34 0.06
37 53 0.10
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.32
Consensus pattern (33 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:12557 original size:70 final size:67
Alignment explanation
Indices: 12258--12982 Score: 486
Period size: 61 Copynumber: 11.2 Consensus size: 67
12248 GCATTTTGTC
* * * * * *
12258 TCAAAGTCCACGACTCAGTGGCATCCTTTTC--TTCAAAGCCCACAACTCTGTGGCACCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCA-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
12321 TTT
65 TTT
* * *
12324 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCACCTTGT
1 TCAAAGCCCACAACTCCGTGGCA--CTTTTT-CTTTTTAAAGCCCACAACTCCGTGGCACCTT-T
*
12388 TCCTTT
62 TTCTTT
* * * * * *
12394 T--AAGTCCACGACTCCGTGGCAC--CTTCTTTTCAAAGCCCACAATTTCGTGGCAACCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGC-ACCTTTTTC
*
12455 TTC
65 TTT
* * *
12458 TCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTTAAAACCCACAACTTCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-
12523 CCTTT
64 -CTTT
*
12528 TCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-
12593 CCTTT
64 -CTTT
* * * *
12598 TCAATGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACGACTCCGTGGCACC---T
1 TCAAAGCCCACAACTCCGTGGCA--CTTTTT-CTTTTTAAAGCCCACAACTCCGTGGCACCTTTT
12660 TCTTT
63 TCTTT
* *
12665 TCAAAGCCCACAACTCCGTGGCAC-----CCTTTT-AAGCCCACAACTCCGTGGCACTTTTTTCA
1 TCAAAGCCCACAACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-
12724 TCTT
65 T-TT
* * * ** *
12728 T--AAGTCCACAACTCTGTGGCAC-----CCTTTT-AAGCCCACAACTCTATGGCACTTTTTTCA
1 TCAAAGCCCACAACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-
12785 TCTT
65 T-TT
* * *
12789 T--AAGTCCACAACTCCGTGGCAC-----CCTTTT-AAGCCCACAACTCCGTGGCACTTTTTTCA
1 TCAAAGCCCACAACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-
12846 TCTT
65 T-TT
* * * *
12850 T--AAGTCCACAACTCTGTGGCAC-----CATTTT-AAGCCCACAACTCCGTGGCACTTTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC
12907 ATCTT
65 -T-TT
* * *
12912 T--AAGTCCACAACTCCGTGGCAC-----CCTTTT-AAGCCCACAACTCCGTGGCACCTTTCTC-
1 TCAAAGCCCACAACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
*
12968 CT
66 TT
12970 TCTAAAGCCCACA
1 TC-AAAGCCCACA
12983 CAAGTCGGTG
Statistics
Matches: 581, Mismatches: 52, Indels: 57
0.84 0.08 0.08
Matches are distributed among these distances:
58 21 0.04
59 6 0.01
61 177 0.30
62 60 0.10
63 7 0.01
64 24 0.04
65 6 0.01
66 39 0.07
67 34 0.06
68 50 0.09
69 24 0.04
70 101 0.17
72 7 0.01
73 25 0.04
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (67 bp):
TCAAAGCCCACAACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
TT
Found at i:12747 original size:61 final size:61
Alignment explanation
Indices: 12672--12960 Score: 524
Period size: 61 Copynumber: 4.7 Consensus size: 61
12662 TTTTCAAAGC
12672 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
* **
12733 CCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCTATGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
12794 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
* *
12855 CCACAACTCTGTGGCACCATTTTAAGCCCACAACTCCGTGGCACTTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCAC-TTTTTTCATCTTTAAGT
12917 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCAC
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCAC
12961 CTTTCTCCTT
Statistics
Matches: 217, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
61 158 0.73
62 59 0.27
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.30
Consensus pattern (61 bp):
CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
Found at i:13067 original size:49 final size:49
Alignment explanation
Indices: 13003--13697 Score: 829
Period size: 49 Copynumber: 14.7 Consensus size: 49
12993 GCAACCCTTC
* * * *
13003 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
13052 TAAGTCCAATGTAGCTGGCCTTCAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
13095 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
13144 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
13193 TAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
13242 TAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
13285 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
13334 TAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
13383 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * *
13426 TAAGTCCAATATCGTTAGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
13475 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * **
13518 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
13567 TAAGTCCAATGTAGCTGTCCTTGAATCAACACATT-G-A----CACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
13610 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
13662 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
13698 ACATCCTTTT
Statistics
Matches: 554, Mismatches: 59, Indels: 63
0.82 0.09 0.09
Matches are distributed among these distances:
43 186 0.34
44 1 0.00
45 5 0.01
47 4 0.01
48 1 0.00
49 319 0.58
52 38 0.07
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:13165 original size:92 final size:92
Alignment explanation
Indices: 13003--13697 Score: 720
Period size: 92 Copynumber: 7.4 Consensus size: 92
12993 GCAACCCTTC
* * *
13003 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTC-TCTTTAAGTCCAATGTAGCT
*
13068 GGCCTTCAATCAGCACATTGGCA-C-CTT
64 GGCCTTGAATCAGCACATTGGCATCTCTT
* * *
13095 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTC-TCTTTAAGTCCAATGTAGCT
*
13160 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
64 GGCCTTGAATCAGCACATTGGCA---TC-TCTT
* *
13193 TAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTC-TCTTTAAGTCCAATGTAGCT
*
13258 GGCCTTGAATTAGCACATTGGCA-C-CTT
64 GGCCTTGAATCAGCACATTGGCATCTCTT
* * * *
13285 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTC-TCTTTAAGTCCAATGTAGCT
*
13350 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
64 GGCCTTGAATCAGCACATTGGCA---TC-TCTT
* * * *
13383 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-CTTTAAGTCCAATATCGTTAG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCTCTTTAAGTCCAATGTAGCTGG
*
13444 CCTTGAATCAGCATATTGGCATCTTCATCTT
66 CCTTGAATCAGCACATTGGCA---TC-TCTT
* *
13475 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-CTTTAAGTCCAATATCGCTGG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCTCTTTAAGTCCAATGTAGCTGG
* *
13536 CCTTGAATCAGCATATTGGCACCTTTTTCTT
66 CCTTGAATCAGCACATTGGCA----TCTCTT
* * * *
13567 TAAGTCCAATGTAGCTGTCCTTGAATCAACACATT-G-AC-AC-CTTTAAGTCCAATATAGCTGG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCTCTTTAAGTCCAATGTAGCTGG
*
13628 CCTTGAATCAGCATATTGGCACCTTTTCCATCTT
66 CCTTGAATCAGCACATTGGCA-----T-C-TCTT
*
13662 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
13698 ACATCCTTTT
Statistics
Matches: 541, Mismatches: 43, Indels: 34
0.88 0.07 0.06
Matches are distributed among these distances:
90 1 0.00
91 1 0.00
92 371 0.69
93 6 0.01
94 2 0.00
95 36 0.07
96 2 0.00
98 122 0.23
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCTCTTTAAGTCCAATGTAGCTGG
CCTTGAATCAGCACATTGGCATCTCTT
Found at i:13180 original size:141 final size:135
Alignment explanation
Indices: 12998--13653 Score: 775
Period size: 141 Copynumber: 4.7 Consensus size: 135
12988 CGGTGGCAAC
* *
12998 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
* * *
13063 TAGCTGGCCTTCAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
65 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
13128 TTGGCA
130 TTGGCA
* * *
13134 CCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTC
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
* * *
13199 CAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTT
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTT
*
13264 GAATTAGCACATTGGCA
119 GAATCAGCACATTGGCA
* *
13281 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* * *
13346 AGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
66 AGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCA
13411 GCACATTGGCA
125 GCACATTGGCA
* * * *
13422 CCTTTAAGTCCAATATCGTTAGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* *
13487 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACAT
13552 TGGCA
131 TGGCA
* * * * *
13557 CCTTTTTCTTTAAGTCCAATGTAGCTGTCCTTGAATCAACACATT-G-A----CACCTTTAAGTC
1 -C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
* *
13616 CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTT
13654 TCCATCTTTA
Statistics
Matches: 467, Mismatches: 35, Indels: 33
0.87 0.07 0.06
Matches are distributed among these distances:
135 86 0.18
136 1 0.00
137 1 0.00
139 1 0.00
140 2 0.00
141 333 0.71
142 3 0.01
143 1 0.00
145 1 0.00
147 38 0.08
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (135 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACAT
TGGCA
Found at i:13685 original size:52 final size:55
Alignment explanation
Indices: 13607--13819 Score: 173
Period size: 52 Copynumber: 3.7 Consensus size: 55
13597 ACATTGACAC
* *
13607 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* *
13659 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* * ** * *
13714 CTTTAAG-CCTAATATCGTTGGCCGCGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
1 CTTTAAGTCC-AATATAGCTGGCCTTGAATCAGCACATT-G-A-C---ATC-C-TTT-T--TC-T
13778 CAT
53 CAT
* *
13781 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
13820 GCACCTTCAT
Statistics
Matches: 127, Mismatches: 17, Indels: 20
0.77 0.10 0.12
Matches are distributed among these distances:
52 38 0.30
53 2 0.02
54 6 0.05
55 31 0.24
56 1 0.01
57 1 0.01
58 1 0.01
61 3 0.02
62 1 0.01
63 3 0.02
64 1 0.01
66 3 0.02
67 34 0.27
68 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:14664 original size:13 final size:13
Alignment explanation
Indices: 14646--14670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14636 CATAAAGTGT
14646 TGTATCGATACAA
1 TGTATCGATACAA
14659 TGTATCGATACA
1 TGTATCGATACA
14671 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:14730 original size:13 final size:13
Alignment explanation
Indices: 14712--14736 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14702 TGCCAAAAAA
14712 TGTATCGATACAT
1 TGTATCGATACAT
14725 TGTATCGATACA
1 TGTATCGATACA
14737 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:14803 original size:52 final size:52
Alignment explanation
Indices: 14745--14873 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
14735 CACTGATCTT
*
14745 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
14797 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
14849 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
14874 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:19849 original size:13 final size:13
Alignment explanation
Indices: 19831--19869 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
19821 ACAATATTCT
*
19831 TTGTATCGGTACA
1 TTGTATCGATACA
*
19844 TTGTATAGATACA
1 TTGTATCGATACA
19857 TTGTATCGATACA
1 TTGTATCGATACA
19870 AGAGGTACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:21770 original size:53 final size:53
Alignment explanation
Indices: 21706--21810 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
21696 AAAGGGGGAG
* *
21706 AAATGTTTGAAAATAAATCTTTTATCAAGGGGGAGAAAATTTTTATCGAGAGA
1 AAATGTTTGAAAATAAATCTTTTATCAAAGGGAAGAAAATTTTTATCGAGAGA
21759 AAATGTTTGAAAATAAATCTTTTATCAAAGGGAAGAAAATTTTTATCGAGAG
1 AAATGTTTGAAAATAAATCTTTTATCAAAGGGAAGAAAATTTTTATCGAGAG
21811 CCTTAATTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (53 bp):
AAATGTTTGAAAATAAATCTTTTATCAAAGGGAAGAAAATTTTTATCGAGAGA
Found at i:22468 original size:13 final size:13
Alignment explanation
Indices: 22450--22498 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
22440 CTACTACTGT
22450 TTGTATCGATACA
1 TTGTATCGATACA
22463 TTGTATCGATACA
1 TTGTATCGATACA
22476 -TG-AT-G--A-A
1 TTGTATCGATACA
22483 TTGTATCGATACA
1 TTGTATCGATACA
22496 TTG
1 TTG
22499 CTTCAAACGG
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 2 0.07
10 2 0.07
11 2 0.07
12 3 0.10
13 17 0.57
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:25789 original size:20 final size:20
Alignment explanation
Indices: 25719--25786 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
25709 CTGTCACTGA
25719 ATTC-GTCACAACTTGTGAC
1 ATTCTGTCACAACTTGTGAC
*
25738 ATTCTGTCACAACTTGTGAA
1 ATTCTGTCACAACTTGTGAC
* * *
25758 ATTTTATCATAACTTGTGAC
1 ATTCTGTCACAACTTGTGAC
25778 ATTCTGTCA
1 ATTCTGTCA
25787 TAATTTTCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 4 0.10
20 37 0.90
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (20 bp):
ATTCTGTCACAACTTGTGAC
Found at i:26989 original size:33 final size:33
Alignment explanation
Indices: 26952--27018 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
26942 TTCAATGATT
26952 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
26985 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
27018 T
1 T
27019 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:26990 original size:13 final size:13
Alignment explanation
Indices: 26972--26996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26962 CATAAAATGT
26972 TGTATCGATACAA
1 TGTATCGATACAA
26985 TGTATCGATACA
1 TGTATCGATACA
26997 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:27080 original size:13 final size:13
Alignment explanation
Indices: 27062--27086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27052 ATTACTCACA
27062 TGTATCGATACAT
1 TGTATCGATACAT
27075 TGTATCGATACA
1 TGTATCGATACA
27087 CTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:27151 original size:52 final size:52
Alignment explanation
Indices: 27095--27215 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
27085 CACTGATTTT
*
27095 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
27147 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
27199 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
27216 TAACTTTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:35533 original size:61 final size:61
Alignment explanation
Indices: 35453--36487 Score: 582
Period size: 61 Copynumber: 16.0 Consensus size: 61
35443 GCATTTTTTC
* *
35453 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCT
* * * * * * *
35514 TTTGAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACGACTCCGTGGCACTCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAGCCCACAACTCCGTGGCACCCT
*
35576 TTT-AAGCCCACAACTCCGTGGCACCTTTTT-CTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCA-------
35639 TCCCT
58 -CCCT
*
35644 TTTCAAAGCCCACAACTCCGTGGCACCTTTTT-CTGTTTAAAGCCCACAACTTCGTGGCACTCTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTT-AAGCCCACAACTCCGTGGCA--C--
35708 TTTCTCT
59 ---C-CT
* * **
35715 TTTCAAAGCCCACGACTTCGTGGCA-C----T-CTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACC-----
35774 CT
60 CT
* *
35776 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCACTC
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC-CTTTT--AAGCCCACAACTCCGTGGCACCC
35841 -
61 T
* *
35841 TTTAAAGCCCACAACTCCGTGGCACCTTCTT-CTTTTCAAAGCCCACAACTCTGTGGCACCTTCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT--AAGCCCACAACTCCGTGGCA-C--C-
35905 TCT
60 -CT
* * * *
35908 TTTCAAAGCCCACAACTCTGTGGCACCTTCTT-CTTTTCAAAGCCCACGACTCCGTGGCACTCTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT--AAGCCCACAACTCCGTGGCAC-CCT
* * *
35972 TTTAAAGCCCACAACTCCGTGGCA-C-TCTT--TTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC-C-CT
* * *
36031 TTCCTCCTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCC
1 TT--T--AAAGCCCACAACTCCGTGGCAC-CTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCC
36096 T
61 T
* * * * *
36097 TTT-AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACTTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAGCCCACAACTCCGTGGCAC-----C
36161 CT
60 CT
* *
36163 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTACGTCCACAACTCCGTGGCATCTTTC
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTTAAGCCCACAACTCCGTGGCA------
36228 TCCCT
58 -CCCT
* * * **
36233 TCCTAAAGCCCACACAAGTCGGTGGCAACC---TT-CTTCAAAGCCCACAACTCCGTGGCACCTT
1 T-TTAAAG-CC-CACAACTCCGTGGC-ACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACC--
36294 TTTCT
60 ---CT
* **** ** * ** *
36299 TTTAAAGCCCACAACTCTGTGGCACC-TACGACTTTGT--G-GTAC-TCT-C-TTTC-CCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT-TAAGCCCACAACTCCGTGGCACCCT
*
36353 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCC-TTTTAAGCCCACAACTCCGTGGCA-------
36418 TCCCT
58 -CCCT
* * *
36423 TTTCAAAGCCCACAACTCTGTGGCA-CTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCACCCT
36485 TTT
1 TTT
36488 TCCCTTTTAA
Statistics
Matches: 782, Mismatches: 93, Indels: 197
0.73 0.09 0.18
Matches are distributed among these distances:
54 26 0.03
55 2 0.00
56 3 0.00
57 2 0.00
58 24 0.03
59 11 0.01
60 31 0.04
61 152 0.19
62 45 0.06
63 59 0.08
64 52 0.07
65 12 0.02
66 21 0.03
67 26 0.03
68 129 0.16
69 8 0.01
70 69 0.09
71 92 0.12
72 2 0.00
73 13 0.02
74 2 0.00
75 1 0.00
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (61 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCT
Found at i:35572 original size:34 final size:32
Alignment explanation
Indices: 35430--36523 Score: 696
Period size: 34 Copynumber: 33.7 Consensus size: 32
35420 TTTTCAAAGT
* * *
35430 CCACGACTCAGTGGCA-TTTTTTCTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
* * *
35461 CCACAACTCCGTGGCACCTTGTTCCTTTTAAGT
1 CCACAACTCCGTGGCA-CTTTTTTCTTTTAAGC
*
35494 CCACAACTCCGTGGCAC-----CCTTTTGAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
* *
35522 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-T-TTTAAGC
*
35556 CCACGACTCCGTGGCAC-----TCTTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
*
35583 CCACAACTCCGTGGCACCTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
*
35616 CCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTT--CTTTT--AAGC
*
35653 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCT-TTT-AAGC
*
35687 CCACAACTTCGTGGCACTCTTTTTCTCTTTTCAAAGC
1 CCACAACTCCGTGGCA--CTTTTT-TCTTTT--AAGC
* * **
35724 CCACGACTTCGTGGCAC-----TCTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
*
35751 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCT-TTT-AAGC
35785 CCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGC
1 CCACAACTCCGTGGCA--CTTTTT-TCTTTT--AAGC
* *
35822 CCACGACTCCGTGGCAC-----TCTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
* *
35849 CCACAACTCCGTGGCACCTTCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT--AAGC
* * *
35883 CCACAACTCTGTGGCACCTTCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT--AAGC
* * *
35917 CCACAACTCTGTGGCACCTTCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT--AAGC
* * *
35951 CCACGACTCCGTGGCAC--TCTT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
* *
35980 CCACAACTCCGTGGCAC--TCTT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
**
36009 CCACAACTCCGTGGCACTCTTTTTCCTCCTAAGC
1 CCACAACTCCGTGGCACT-TTTTT-CTTTTAAGC
* *
36043 CCACAACTCTGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCACT-TTTTT-CTTTTAAGC
*
36077 CCACAACTCCGTGGCAC-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
* *
36104 CCATAACTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-T-TTTAAGC
36138 CCACAACTCCGTGGCACTTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
* *
36171 CCACAACTCCGTGGCACTCTTTTTCCCTTTTACGT
1 CCACAACTCCGTGGCACT-TTTTT--CTTTTAAGC
** *
36206 CCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCC
1 CCACAACTCCGTGGCA-CTTT-TTTCTT--TTAAG-C
* * * **
36243 CACACAAGTCGGTGGCAAC---CTTCTTCAAAGC
1 C-CACAACTCCGTGGC-ACTTTTTTCTTTTAAGC
*
36274 CCACAACTCCGTGGCACCTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
* * ****
36307 CCACAACTCTGTGGCACCTACGACTTTGT--G-
1 CCACAACTCCGTGGCACTTTTTTCTTT-TAAGC
** * ** * *
36337 GTAC-TCT-C-TTTC-C---CTT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
* *
36361 CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGC
1 CCACAACTCCGTGGCA-CTTTTTTC-TTTTAAGC
36395 CCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTT--CTTTT--AAGC
*
36432 CCACAACTCTGTGGCACTTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
*
36465 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCACT-TTTTT--CTTTTAAGC
36500 CCACAACTCCGTGGCATCTTTTTT
1 CCACAACTCCGTGGCA-CTTTTTT
36524 TCCTTCCCAA
Statistics
Matches: 875, Mismatches: 95, Indels: 182
0.76 0.08 0.16
Matches are distributed among these distances:
22 3 0.00
23 2 0.00
24 2 0.00
25 2 0.00
26 2 0.00
27 95 0.11
28 20 0.02
29 65 0.07
30 14 0.02
31 20 0.02
32 36 0.04
33 122 0.14
34 284 0.32
35 55 0.06
36 50 0.06
37 89 0.10
38 13 0.01
39 1 0.00
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (32 bp):
CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
Found at i:35586 original size:27 final size:27
Alignment explanation
Indices: 35549--35638 Score: 99
Period size: 27 Copynumber: 3.1 Consensus size: 27
35539 TTTTTTCATC
* *
35549 TTTAAGTCCACGACTCCGTGGCACTCT
1 TTTAAGCCCACAACTCCGTGGCACTCT
35576 TTTAAGCCCACAACTCCGTGGCACCTTTTTCT
1 TTTAAGCCCACAACTCCGTGGCA-C----TCT
*
35608 TTTAAAGCCCACAACTCTGTGGCACTCT
1 TTT-AAGCCCACAACTCCGTGGCACTCT
35636 TTT
1 TTT
35639 TCCCTTTTCA
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
27 21 0.39
28 7 0.13
32 7 0.13
33 19 0.35
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.33
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACTCT
Found at i:35751 original size:27 final size:27
Alignment explanation
Indices: 35716--35805 Score: 90
Period size: 27 Copynumber: 3.1 Consensus size: 27
35706 TTTTTCTCTT
* *
35716 TTCAAAGCCCACGACTTCGTGGCACTC
1 TTCAAAGCCCACAACTCCGTGGCACTC
35743 TTCAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TTCAAAGCCCACAACTCCGTGGCA-C----TC
*
35775 TGTTTAAAGCCCACAACTCCGTGGCACTC
1 --TTCAAAGCCCACAACTCCGTGGCACTC
35804 TT
1 TT
35806 TTTCTCTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
27 24 0.45
28 1 0.02
29 2 0.04
32 2 0.04
33 1 0.02
34 23 0.43
ACGTcount: A:0.22, C:0.36, G:0.16, T:0.27
Consensus pattern (27 bp):
TTCAAAGCCCACAACTCCGTGGCACTC
Found at i:35762 original size:98 final size:98
Alignment explanation
Indices: 35645--36003 Score: 486
Period size: 98 Copynumber: 3.7 Consensus size: 98
35635 TTTTTCCCTT
*
35645 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTTCGTGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
35710 TCTCTTTTCAAAGCCCACGACTTCGTGGCACTC
66 TCTCTTTTCAAAGCCCACGACTTCGTGGCACTC
35743 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
*
35808 TCTCTTTTCAAAGCCCACGACTCCGTGGCACTC
66 TCTCTTTTCAAAGCCCACGACTTCGTGGCACTC
* * *
35841 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT-TTTCAAAGCCCACAACTCTGTGGCAC-C-TT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT-AAAGCCCACAACTCCGTGGCACTCTTT
* *
35903 CT-TCTTTTCAAAGCCCACAAC-TCTGTGGCACCTTCTTC
65 TTCTCTTTTCAAAGCCCACGACTTC-GTGGCA----C-TC
* *
35941 TTTTCAAAGCCCACGACTCCGTGGCA-C----TCTTTTTAAAGCCCACAACTCCGTGGCACTCTT
1 --TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
36001 TTT
64 TTT
36004 AAAGCCCACA
Statistics
Matches: 237, Mismatches: 12, Indels: 23
0.87 0.04 0.08
Matches are distributed among these distances:
94 1 0.00
95 24 0.10
96 3 0.01
97 28 0.12
98 152 0.64
99 4 0.02
100 2 0.01
101 1 0.00
102 22 0.09
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.31
Consensus pattern (98 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
TCTCTTTTCAAAGCCCACGACTTCGTGGCACTC
Found at i:36126 original size:27 final size:27
Alignment explanation
Indices: 36067--36120 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
36057 CACTCTTTTT
*
36067 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
36094 CCTTTTAAGCCCATAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
36121 TTTTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:36142 original size:95 final size:95
Alignment explanation
Indices: 35811--36193 Score: 364
Period size: 95 Copynumber: 4.1 Consensus size: 95
35801 CTCTTTTTCT
* *
35811 CTTTTCAAAGCCCACGACTCCGTGGCACTC--TTT-A----AAGCCCACAACTCCGTGGCACCTT
1 CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCATCCTAAGCCCACAACTCCGTGGCACTTT
* * *
35869 CTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTC
65 TTTCTTCT-AAAGCCCACAACTCCGTGGCA-C--C
* * * * * *
35904 TTCTTTTCAAAGCCCACAACTCTGTGGCAC-CTTCTTCTTTTCAAAGCCCACGACTCCGTGGCAC
1 --CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTC-ATCCTAAGCCCACAACTCCGTGGCAC
*
35968 --TCTT-TT-TAAAGCCCACAACTCCGTGGCACTC
62 TTTTTTCTTCTAAAGCCCACAACTCCGTGGCAC-C
* * *
35999 TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTCCTAAGCCCACAACTCTGTGGCACTCTT
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCATCCTAAGCCCACAACTCCGTGGCACT-TT
36064 TTTCCTTCT-AAGCCCACAACTCCGTGGCACC
65 TTT-CTTCTAAAGCCCACAACTCCGTGGCACC
* * *
36095 CTTTT-AAGCCCATAACTCCGTGGCACT-TTTTTCATCTTTAAGTCCACAACTCCGTGGCACTTT
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCATC-CTAAGCCCACAACTCCGTGGCACTTT
* *
36158 TTTCTTTTAAAGCCCACAACTCCGTGGCACT
65 TTTCTTCTAAAGCCCACAACTCCGTGGCACC
36189 CTTTT
1 CTTTT
36194 TCCCTTTTAC
Statistics
Matches: 248, Mismatches: 23, Indels: 35
0.81 0.08 0.11
Matches are distributed among these distances:
92 42 0.17
93 14 0.06
94 40 0.16
95 73 0.29
96 8 0.03
97 43 0.17
98 2 0.01
99 2 0.01
100 4 0.02
102 20 0.08
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (95 bp):
CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCATCCTAAGCCCACAACTCCGTGGCACTTTT
TTCTTCTAAAGCCCACAACTCCGTGGCACC
Found at i:36487 original size:70 final size:70
Alignment explanation
Indices: 36334--36523 Score: 285
Period size: 70 Copynumber: 2.7 Consensus size: 70
36324 CTACGACTTT
* * *
36334 GTGGTACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCAC
1 GTGGCACTCTTTTTCCC-TTTTAAAGCCCACAACTCCGTGGCACCTTTTTTCGTTTAAAGCCCAC
36399 AACTCC
65 AACTCC
* *
36405 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCA-CTTTTTTCTTTTAAAGCCCAC
1 GTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTTCGTTTAAAGCCCAC
36469 AACTCC
65 AACTCC
* *
36475 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTTTT
1 GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTT
36524 TCCTTCCCAA
Statistics
Matches: 110, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
68 18 0.16
69 7 0.06
70 50 0.45
71 35 0.32
ACGTcount: A:0.18, C:0.33, G:0.13, T:0.36
Consensus pattern (70 bp):
GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTTCGTTTAAAGCCCACA
ACTCC
Found at i:36567 original size:104 final size:102
Alignment explanation
Indices: 36355--36573 Score: 264
Period size: 105 Copynumber: 2.1 Consensus size: 102
36345 TTTCCCTTTT
*
36355 TAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
** * * *
36420 CCTTTTCAAAGCCCACAACTCTGTGGCACTTTTTTCTTT
66 CCTTCCCAAAGCCCACAACTCGGTGGCAC-TTCTTC-TC
* *
36459 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTT
1 TAAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTC-TTTT
* *
36523 TTCCTTCCCAAAGCCCGCACAAGTCGGTGGCAAC-TCTTC-C
64 TCCCTTCCCAAAG-CC-CACAACTCGGTGGC-ACTTCTTCTC
36563 TAAAGCCCACA
1 TAAAGCCCACA
36574 CAAGTCGGTG
Statistics
Matches: 100, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
104 36 0.36
105 44 0.44
106 6 0.06
107 12 0.12
108 2 0.02
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (102 bp):
TAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
CCTTCCCAAAGCCCACAACTCGGTGGCACTTCTTCTC
Found at i:36606 original size:33 final size:32
Alignment explanation
Indices: 36530--36622 Score: 152
Period size: 33 Copynumber: 2.9 Consensus size: 32
36520 TTTTTCCTTC
*
36530 CCAAAGCCCGCACAAGTCGGTGGCAA-CTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
36561 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACC-TCTT
36595 CCAAAGCCCACACAAGTCGGTGGCAACC
1 CCAAAGCCCACACAAGTCGGTGGCAACC
36623 CCTCTAAGCC
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
31 2 0.03
32 23 0.40
33 27 0.47
34 6 0.10
ACGTcount: A:0.28, C:0.37, G:0.20, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
Found at i:36705 original size:49 final size:49
Alignment explanation
Indices: 36648--37371 Score: 1010
Period size: 49 Copynumber: 14.8 Consensus size: 49
36638 TAGCTAGCAT
*
36648 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
36697 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
36746 CTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
36795 CTTCATCTTTAAGTCCAATATCGCTGGACTTGAATCAGCATATTGGCAT
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
36844 CTTCATCCTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
36893 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
36942 CTTCATCCTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * * * *
36991 CTTCACCTGTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
37040 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
37089 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
37138 CTTCATCTTTAAGTCCAATGTAGCTAGCCTTGACTCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
37187 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
37236 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
37284 ---C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
37328 ATTTTTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 ---CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
37372 GTTGACATCC
Statistics
Matches: 590, Mismatches: 76, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
43 40 0.07
45 1 0.00
49 516 0.87
50 1 0.00
52 32 0.05
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:36813 original size:98 final size:98
Alignment explanation
Indices: 36644--37437 Score: 1294
Period size: 98 Copynumber: 8.1 Consensus size: 98
36634 AATATAGCTA
*
36644 GCATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAA
1 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAA
36709 GTCCAATATCGCTGGCCTTGAATCAGCATATTG
66 GTCCAATATCGCTGGCCTTGAATCAGCATATTG
*
36742 GCATCTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAA
1 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAA
*
36807 GTCCAATATCGCTGGACTTGAATCAGCATATTG
66 GTCCAATATCGCTGGCCTTGAATCAGCATATTG
*
36840 GCATCTTCATCCTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAA
1 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAA
36905 GTCCAATATCGCTGGCCTTGAATCAGCATATTG
66 GTCCAATATCGCTGGCCTTGAATCAGCATATTG
* * *
36938 GCATCTTCATCCTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTGTAA
1 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAA
37003 GTCCAATATCGCTGGCCTTGAATCAGCATATTG
66 GTCCAATATCGCTGGCCTTGAATCAGCATATTG
37036 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAA
1 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAA
37101 GTCCAATATCGCTGGCCTTGAATCAGCATATTG
66 GTCCAATATCGCTGGCCTTGAATCAGCATATTG
*
37134 GCATCTTCATCTTTAAGTCCAATGTAGCTAGCCTTGACTCAGCACATTGGCACCTTCATCTTTAA
1 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAA
37199 GTCCAATATCGCTGGCCTTGAATCAGCATATTG
66 GTCCAATATCGCTGGCCTTGAATCAGCATATTG
*
37232 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAA
1 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAA
*
37291 GTCCAATATAGCTGGCCTTGAATCAGCATATTG
66 GTCCAATATCGCTGGCCTTGAATCAGCATATTG
* * * * *
37324 GCACATTTTTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCT
1 G--CA-TCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CC----T-T
* * * *
37389 CATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTG
57 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
37431 GCATCTT
1 GCATCTT
37438 TATCACTCTT
Statistics
Matches: 656, Mismatches: 25, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
92 39 0.06
94 3 0.00
95 45 0.07
98 528 0.80
104 3 0.00
105 3 0.00
107 35 0.05
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (98 bp):
GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAA
GTCCAATATCGCTGGCCTTGAATCAGCATATTG
Found at i:37355 original size:52 final size:54
Alignment explanation
Indices: 37285--37433 Score: 176
Period size: 52 Copynumber: 2.8 Consensus size: 54
37275 ACATTGGCAC
37285 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTT-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
* * ** * *
37337 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCATTTTCTCAT
* * * * *
37392 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
37434 TCTTTATCAC
Statistics
Matches: 78, Mismatches: 16, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
52 37 0.47
54 5 0.06
55 36 0.46
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
Found at i:37575 original size:171 final size:171
Alignment explanation
Indices: 37285--37679 Score: 682
Period size: 171 Copynumber: 2.3 Consensus size: 171
37275 ACATTGGCAC
*
37285 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTTCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CA-TCTTCATCTTTAAGTTCAAT
37350 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
37415 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* * *
37459 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTACGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
*
37524 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
* *
37589 AATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* *
37630 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
37680 ATCTCTAAAA
Statistics
Matches: 211, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
171 171 0.81
172 2 0.01
174 38 0.18
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
Found at i:38525 original size:33 final size:33
Alignment explanation
Indices: 38488--38554 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
38478 TTCAATGATT
38488 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
38521 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
38554 T
1 T
38555 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:38526 original size:13 final size:13
Alignment explanation
Indices: 38508--38532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38498 CATAAAATGT
38508 TGTATCGATACAA
1 TGTATCGATACAA
38521 TGTATCGATACA
1 TGTATCGATACA
38533 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:38616 original size:13 final size:13
Alignment explanation
Indices: 38598--38622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38588 ATTACTCACA
38598 TGTATCGATACAT
1 TGTATCGATACAT
38611 TGTATCGATACA
1 TGTATCGATACA
38623 CTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:38687 original size:52 final size:52
Alignment explanation
Indices: 38631--38751 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
38621 CACTGATTTT
*
38631 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
38683 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
38735 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
38752 TAACTTTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:42714 original size:8 final size:8
Alignment explanation
Indices: 42703--42754 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 8
42693 TTATTTTGTT
42703 TTTTTTTC
1 TTTTTTTC
42711 TTTTTTTC
1 TTTTTTTC
*
42719 TATTTTTC
1 TTTTTTTC
42727 TATTTTTTC
1 T-TTTTTTC
42736 ATTACTTTTTC
1 -TT--TTTTTC
42747 TTTGTTTT
1 TTT-TTTT
42755 TGTCATTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 17 0.46
9 11 0.30
10 3 0.08
11 6 0.16
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTTTC
Found at i:43238 original size:16 final size:15
Alignment explanation
Indices: 43211--43240 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43201 ATGTTAACTT
43211 TATATTCTATTCTAC
1 TATATTCTATTCTAC
43226 TATATTACTATTCTA
1 TATATT-CTATTCTA
43241 AGTGTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATTCTATTCTAC
Found at i:49034 original size:20 final size:20
Alignment explanation
Indices: 49009--49063 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
48999 CTACCAATTT
***
49009 CATGTATCGATACAATTTTG
1 CATGTATCGATACAATTAAA
*
49029 CATGTATCGATA-AAATAAA
1 CATGTATCGATACAATTAAA
49048 CATGTATCGATACAAT
1 CATGTATCGATACAAT
49064 ATATCGATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTAAA
Found at i:55374 original size:2 final size:2
Alignment explanation
Indices: 55367--55409 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
55357 TCAACTAGAT
* *
55367 TA TA TA TA TA TA TT TA TA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55409 T
1 T
55410 TTGATTCTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:65105 original size:34 final size:34
Alignment explanation
Indices: 65067--65240 Score: 188
Period size: 34 Copynumber: 5.1 Consensus size: 34
65057 AACTTTGCTA
* *
65067 GTTTACCATTATTGATTAAATAGGTGATTTGGTG
1 GTTTACCATTGTTGATTAAATAGGAGATTTGGTG
* * * * * *
65101 GTTTACCATTATTGACTAAATGGGAGAATTGATA
1 GTTTACCATTGTTGATTAAATAGGAGATTTGGTG
* *
65135 GTTTATCATTGTTGATTAAATAGGTGATTTGGTG
1 GTTTACCATTGTTGATTAAATAGGAGATTTGGTG
* * *
65169 GTTTATCATTGTTGACTAAAT-GAGAGATTTGGTA
1 GTTTACCATTGTTGATTAAATAG-GAGATTTGGTG
* * *
65203 GTTTGCCATTGTTGATTAAATGGGCGATTTGGTG
1 GTTTACCATTGTTGATTAAATAGGAGATTTGGTG
65237 GTTT
1 GTTT
65241 TTACCAAACT
Statistics
Matches: 116, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
33 1 0.01
34 114 0.98
35 1 0.01
ACGTcount: A:0.26, C:0.06, G:0.25, T:0.43
Consensus pattern (34 bp):
GTTTACCATTGTTGATTAAATAGGAGATTTGGTG
Found at i:65150 original size:68 final size:68
Alignment explanation
Indices: 65065--65240 Score: 262
Period size: 68 Copynumber: 2.6 Consensus size: 68
65055 TTAACTTTGC
* *
65065 TAGTTTACCATTATTGATTAAATAGGTGATTTGGTGGTTTACCATTATTGACTAAATGGGAGAAT
1 TAGTTTACCATTGTTGATTAAATAGGTGATTTGGTGGTTTACCATTATTGACTAAATGAGAGAAT
65130 TGA
66 TGA
* * * *
65133 TAGTTTATCATTGTTGATTAAATAGGTGATTTGGTGGTTTATCATTGTTGACTAAATGAGAGATT
1 TAGTTTACCATTGTTGATTAAATAGGTGATTTGGTGGTTTACCATTATTGACTAAATGAGAGAAT
*
65198 TGG
66 TGA
* * *
65201 TAGTTTGCCATTGTTGATTAAATGGGCGATTTGGTGGTTT
1 TAGTTTACCATTGTTGATTAAATAGGTGATTTGGTGGTTT
65241 TTACCAAACT
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 97 1.00
ACGTcount: A:0.26, C:0.06, G:0.25, T:0.43
Consensus pattern (68 bp):
TAGTTTACCATTGTTGATTAAATAGGTGATTTGGTGGTTTACCATTATTGACTAAATGAGAGAAT
TGA
Done.