Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 164 of 221
Found at i:49244846 original size:13 final size:13
Alignment explanation
Indices: 49244817--49244860 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
49244807 TTAAACCTTT
*
49244817 AAACCCTAAACAT-
1 AAACCTTAAAC-TC
49244830 AAACCTTAAACTC
1 AAACCTTAAACTC
*
49244843 AAACCTAAAACTC
1 AAACCTTAAACTC
49244856 AAACC
1 AAACC
49244861 CCAAACCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 1 0.04
13 27 0.96
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (13 bp):
AAACCTTAAACTC
Found at i:49244853 original size:20 final size:21
Alignment explanation
Indices: 49244817--49244878 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 21
49244807 TTAAACCTTT
* * *
49244817 AAACCCTAAACAT-AAACCTT
1 AAACCCCAAACCTAAAACCTC
*
49244837 AAA-CTCAAACCTAAAA-CTC
1 AAACCCCAAACCTAAAACCTC
*
49244856 AAACCCCAAACCTTAAACCTC
1 AAACCCCAAACCTAAAACCTC
49244877 AA
1 AA
49244879 GATTTAGGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
19 11 0.33
20 17 0.52
21 5 0.15
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (21 bp):
AAACCCCAAACCTAAAACCTC
Found at i:49244875 original size:7 final size:7
Alignment explanation
Indices: 49244783--49244875 Score: 59
Period size: 7 Copynumber: 13.7 Consensus size: 7
49244773 CAAACATTTG
49244783 AACCTTA
1 AACCTTA
*
49244790 AACC-CA
1 AACCTTA
*
49244796 AACTTTA
1 AACCTTA
*
49244803 AATCTTA
1 AACCTTA
49244810 AACCTTTA
1 AACC-TTA
*
49244818 AACCCTA
1 AACCTTA
*
49244825 AA-CATA
1 AACCTTA
49244831 AACCTTA
1 AACCTTA
*
49244838 AA-CTCA
1 AACCTTA
49244844 AACC-TA
1 AACCTTA
* *
49244850 AAACTCA
1 AACCTTA
**
49244857 AACCCCA
1 AACCTTA
49244864 AACCTTA
1 AACCTTA
49244871 AACCT
1 AACCT
49244876 CAAGATTTAG
Statistics
Matches: 64, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
6 18 0.28
7 39 0.61
8 7 0.11
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (7 bp):
AACCTTA
Found at i:49261489 original size:35 final size:35
Alignment explanation
Indices: 49261443--49261516 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
49261433 TTATTGTTTG
* * *
49261443 TATTAAAGTGTATGACATATTTGGATTTCTTTGGT
1 TATTAAAGTGTATGACAGATTTAGATTTCTTTCGT
* *
49261478 TATTAAAGTGTATGGCAGGTTTAGATTTCTTTCGT
1 TATTAAAGTGTATGACAGATTTAGATTTCTTTCGT
49261513 TATT
1 TATT
49261517 GTCTGCCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (35 bp):
TATTAAAGTGTATGACAGATTTAGATTTCTTTCGT
Found at i:49265281 original size:31 final size:30
Alignment explanation
Indices: 49265225--49265282 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
49265215 TGGTGACTGG
* *
49265225 TTTGTTATTTTACTAAAGTTTAGTGACTAT
1 TTTGTTATTTTAATAAAGTTGAGTGACTAT
*
49265255 TTTGTTATTTTAATCGAAGTTGAGTGAC
1 TTTGTTATTTTAAT-AAAGTTGAGTGAC
49265283 CATTAGTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.26, C:0.07, G:0.17, T:0.50
Consensus pattern (30 bp):
TTTGTTATTTTAATAAAGTTGAGTGACTAT
Found at i:49266505 original size:21 final size:18
Alignment explanation
Indices: 49266481--49266519 Score: 51
Period size: 21 Copynumber: 2.0 Consensus size: 18
49266471 GGACTATTTT
49266481 AAATATGGTATTGTACAATAA
1 AAATAT-GTATT-TA-AATAA
49266502 AAATATGTATTTAAATAA
1 AAATATGTATTTAAATAA
49266520 TATTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 2 0.11
20 5 0.28
21 6 0.33
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (18 bp):
AAATATGTATTTAAATAA
Found at i:49266705 original size:27 final size:26
Alignment explanation
Indices: 49266642--49266706 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 26
49266632 TATAAAGTAT
49266642 TTATGAAATTTAATTTAAATATATAAA
1 TTAT-AAATTTAATTTAAATATATAAA
*
49266669 TTAT-ATTTTAATATTAAA-ATA-AACCA
1 TTATAAATTTAAT-TTAAATATATAA--A
49266695 TTATAAATTTAA
1 TTATAAATTTAA
49266707 ATATACAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
24 2 0.06
25 10 0.31
26 10 0.31
27 10 0.31
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (26 bp):
TTATAAATTTAATTTAAATATATAAA
Found at i:49266769 original size:35 final size:34
Alignment explanation
Indices: 49266696--49266769 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 34
49266686 AATAAACCAT
*
49266696 TATAAATTTAAATATACAATATTATATATTTGAA
1 TATAAATTTAAATATACAATATTATATATCTGAA
*
49266730 -ATAAATTTCAATA-ACAATTTAATTATATATCT-AA
1 TATAAATTTAAATATACAA--T-ATTATATATCTGAA
49266764 TATAAA
1 TATAAA
49266770 CATTACGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
32 4 0.12
33 12 0.35
34 3 0.09
35 15 0.44
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (34 bp):
TATAAATTTAAATATACAATATTATATATCTGAA
Found at i:49270378 original size:21 final size:21
Alignment explanation
Indices: 49270313--49270384 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
49270303 GACTCAACTA
49270313 TTAAAATTTTAATAAAAATAAT
1 TTAAAATTTTAATAAAAAT-AT
* * * *
49270335 GTATATTTTTCAT-AAAA-AT
1 TTAAAATTTTAATAAAAATAT
49270354 TTAAAATTTTAATAAAAATAT
1 TTAAAATTTTAATAAAAATAT
49270375 TTAAAATTTT
1 TTAAAATTTT
49270385 GACAAATTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
19 11 0.28
20 4 0.10
21 16 0.40
22 9 0.22
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (21 bp):
TTAAAATTTTAATAAAAATAT
Found at i:49270522 original size:32 final size:32
Alignment explanation
Indices: 49270486--49270546 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
49270476 CCATTCAAAA
*
49270486 TAAAATAATTAAATTAAATTTTAAAAGTTGGC
1 TAAAATAATTAAATTAAAATTTAAAAGTTGGC
* *
49270518 TAAAATAATTTAATTAAAATTTGAAAGTT
1 TAAAATAATTAAATTAAAATTTAAAAGTT
49270547 AAAGCTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (32 bp):
TAAAATAATTAAATTAAAATTTAAAAGTTGGC
Found at i:49279281 original size:20 final size:21
Alignment explanation
Indices: 49279256--49279296 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49279246 TTTGCATCAA
*
49279256 TTGTTA-AAAGTATTGATACT
1 TTGTTAGAAAGTATCGATACT
*
49279276 TTGTTAGCAAGTATCGATACT
1 TTGTTAGAAAGTATCGATACT
49279297 CGTGGTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (21 bp):
TTGTTAGAAAGTATCGATACT
Found at i:49281441 original size:3 final size:3
Alignment explanation
Indices: 49281433--49281497 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
49281423 GGGTTTTCAA
* * * * *
49281433 AAT AAT AAT ACT AAT AAT AAT GAG AAT AAT -AT GAAT GAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
49281478 AAT AAT GAAT AAT GAAT AAT
1 AAT AAT -AAT AAT -AAT AAT
49281498 CTAAGGCTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.04
3 38 0.79
4 8 0.17
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:49281719 original size:79 final size:78
Alignment explanation
Indices: 49281579--49281725 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 78
49281569 AAAATATTAG
* * *
49281579 GTAAATCAATATAAAAAGAAATATAATAGAAATAATTATGCAAAACTAACTAATTTAATAATATG
1 GTAAATCAATATAAAAAGAAATATAATAGAAATAATAATGCAAAACTAACTAATATAATAATAAG
49281644 ATAATAATAACAA
66 ATAATAATAACAA
* ** * *
49281657 GTAAAT-AA-ATAAAAAGGAAAATAATAATAGTAATAATAATGTTAAATTAATTAATATAATAAT
1 GTAAATCAATATAAAAA-G-AAAT-ATAATAGAAATAATAATGCAAAACTAACTAATATAATAAT
49281720 AAGATA
63 AAGATA
49281726 GCAAAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
76 7 0.12
77 3 0.05
78 10 0.17
79 38 0.66
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (78 bp):
GTAAATCAATATAAAAAGAAATATAATAGAAATAATAATGCAAAACTAACTAATATAATAATAAG
ATAATAATAACAA
Found at i:49283058 original size:44 final size:44
Alignment explanation
Indices: 49283000--49283143 Score: 148
Period size: 44 Copynumber: 3.3 Consensus size: 44
49282990 CTCACTGTAT
* *
49283000 CTTCAGGG-GTATAAGAATTGTCGCTTCGATTGAATCCACTGCAA
1 CTTCAGGGAG-ATAAGACTTGTAGCTTCGATTGAATCCACTGCAA
** * *
49283044 CTTCAGGGAGATAAGACTTGTAGCTTCGATCCATTCCACTGTAA
1 CTTCAGGGAGATAAGACTTGTAGCTTCGATTGAATCCACTGCAA
* * * * * *
49283088 CTTAAGGGTGATAAGACTTATAGCTTCAATCTG-CTCCGCTGCAA
1 CTTCAGGGAGATAAGACTTGTAGCTTCGAT-TGAATCCACTGCAA
49283132 CTTCAGGGAGAT
1 CTTCAGGGAGAT
49283144 GAAATTTGTG
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
44 80 0.99
45 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (44 bp):
CTTCAGGGAGATAAGACTTGTAGCTTCGATTGAATCCACTGCAA
Found at i:49283189 original size:88 final size:88
Alignment explanation
Indices: 49283038--49283211 Score: 192
Period size: 88 Copynumber: 2.0 Consensus size: 88
49283028 ATTGAATCCA
* * * * *
49283038 CTGCAACTTCAGGGAGATAAGACTTGTAGCTTCGATCCATTCCACTGTAACTTAAGGGTGATAAG
1 CTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCCACTCCACTATAACCTAAGGGAGATAA-
49283103 ACT-TATAGCTTCAATCTGCTCCG
65 ACTGTATAGCTTCAATCTGCTCCG
* * * *
49283126 CTGCAACTTCAGGGAGATGAA-ATTTGT-GTCTTCAATCGACTCCACTATGACCTCAGGGAGATA
1 CTGCAACTTCAGGGAGAT-AAGACTTGTAG-CTTCAATCCACTCCACTATAACCTAAGGGAGATA
* * *
49283189 AAGTGTGTAGCTTTAATCTGCTC
64 AACTGTATAGCTTCAATCTGCTC
49283212 TGTTGTAACT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
87 3 0.04
88 66 0.93
89 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (88 bp):
CTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCCACTCCACTATAACCTAAGGGAGATAAA
CTGTATAGCTTCAATCTGCTCCG
Found at i:49283414 original size:46 final size:47
Alignment explanation
Indices: 49283297--49283427 Score: 131
Period size: 46 Copynumber: 2.8 Consensus size: 47
49283287 GGTTTGCAGC
* *
49283297 TTTT-AACCTGCTCCATTACAACTTCAAGGAGATAAGATTTGGAGCTTA
1 TTTTCAACCTGCTCCACTACAACTTCAAGGAAATAAGATTT-G-GCTTA
* * * * * * *
49283345 TCTTCAATCTACTCCACTGCAACTTTAGGGAAATAAGATTT-GTTTA
1 TTTTCAACCTGCTCCACTACAACTTCAAGGAAATAAGATTTGGCTTA
* *
49283391 TTTTCAACCTGCTCCACTACAACTTCAACGAGATAAG
1 TTTTCAACCTGCTCCACTACAACTTCAAGGAAATAAG
49283428 GTTTATAGCT
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
46 33 0.51
48 3 0.05
49 29 0.45
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (47 bp):
TTTTCAACCTGCTCCACTACAACTTCAAGGAAATAAGATTTGGCTTA
Found at i:49283635 original size:44 final size:43
Alignment explanation
Indices: 49283346--49283915 Score: 313
Period size: 44 Copynumber: 12.8 Consensus size: 43
49283336 TGGAGCTTAT
* * * * *
49283346 CTTCAATCTACTCCACTGCAACTTTAGGGAAATAAGATTTGTTTAT
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAGATAAGACTTG--TAA
* * * * ** * *
49283392 TTTCAACCTGCTCCACTACAACTTCAACGAGATAAGGTTTATAG
1 CTTCAATCTGCTCCACTGCAACTTC-AGGAGATAAGACTTGTAA
* * * * * *
49283436 CTTTAATCTGCTCTACTGCAACTTCGGAGAGATAAGATTTACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAG-GAGATAAGACTT-GTAA
* * * * * *
49283481 CTCCGATCTACTCCACTGCAACTTCAGAAGATAATA-TCTATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGAGATAAGACT-TGTAA
** * ** * * *
49283524 CTTCAATCCACCCCACTAAAACTTCAGGGAGACAATATTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAGATAAGACTTGTAA
** *
49283568 CCTTCAGGCTGCTCCACTACAACTTCGAGGAGATAAGACTTGTAA
1 -CTTCAATCTGCTCCACTGCAACTTC-AGGAGATAAGACTTGTAA
** * * **
49283613 CTTCAATCTGCTCTGCTGCAACTTCAAGGAGATGAGATTTGTGT
1 CTTCAATCTGCTCCACTGCAACTTC-AGGAGATAAGACTTGTAA
* * ** * * * *
49283657 CTTCAATCTACTCCGCTGCGGCCTCAGAGAGATAAGATTTACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAG-GAGATAAGACTT-GTAA
* * *
49283702 CTTCAATTTGCTCTACTGCAACTTCAGGGAGATAAAACTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAGATAAGACTTGTAA
* * ** * * *
49283746 CTTCAATCTACTCCGCTATAACTTCAAGGAGATGAG-GTTCGTAT
1 CTTCAATCTGCTCCACTGCAACTTC-AGGAGATAAGACTT-GTAA
* *
49283790 CTTCAATCTGCTCCACTGTAA-TCTCAGGAAGATAAGATTTGCTATA
1 CTTCAATCTGCTCCACTGCAACT-TCAGG-AGATAAGACTTG-TA-A
* * *
49283836 -TTTAGTCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAG-GAGATAAGACTTGTAA
49283879 CTTCAA-CTTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CTTCAATC-TGCTCCACTGCAACTTCA-GGAGATAAGA
49283916 TTCGTCATAA
Statistics
Matches: 400, Mismatches: 101, Indels: 48
0.73 0.18 0.09
Matches are distributed among these distances:
43 33 0.08
44 207 0.52
45 125 0.31
46 34 0.09
47 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAGATAAGACTTGTAA
Found at i:49283653 original size:89 final size:89
Alignment explanation
Indices: 49283346--49283917 Score: 355
Period size: 89 Copynumber: 6.4 Consensus size: 89
49283336 TGGAGCTTAT
* * * * ** * *
49283346 CTTCAATCTACTCCACTGCAACTTTAGGGAAATAAGATTTGTTTATTTTCAACCTGCTCCACTAC
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTG--TAACTTCAATCTACTCCACTAC
** *
49283411 AACTTCA-ACGAGATAAGGTTTA-TAG
64 AACTTCAGA-GAGATAAGACTTAGTAA
* * * * * * * *
49283436 CTTTAATCTGCTCTACTGCAACTTC-GGAGAGATAAGATTTACTATCTCCGATCTACTCCACTGC
1 CTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTT-GTAACTTCAATCTACTCCACTAC
*
49283500 AACTTCAGA-AGATAATA-TCTA-TAA
64 AACTTCAGAGAGATAAGACT-TAGTAA
** * ** * * * ** *
49283524 CTTCAATCCACCCCACTAAAACTTCAGGGAGACAATATTTGTAACCTTCAGGCTGCTCCACTACA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAA-CTTCAATCTACTCCACTACA
49283589 ACTTC-GAGGAGATAAGACTT-GTAA
65 ACTTCAGA-GAGATAAGACTTAGTAA
** * ** * * **
49283613 CTTCAATCTGCTCTGCTGCAACTTCAAGGAGATGAGATTTGTGTCTTCAATCTACTCCGCTGCGG
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATCTACTCCACTACAA
* * * *
49283678 CCTCAGAGAGATAAGATTTACTAT
66 CTTCAGAGAGATAAGACTTAGTAA
* * * * * * *
49283702 CTTCAATTTGCTCTACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAATCTACTCCGCTATAA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATCTACTCCACTACAA
* * * *
49283767 CTTCA-AGGAGATGAG-GTTCGTAT
66 CTTCAGA-GAGATAAGACTTAGTAA
* * * * *
49283790 CTTCAATCTGCTCCACTGTAA-TCTC-AGGAAGATAAGATTTGCTATA-TTTAGTCTGCTCTACT
1 CTTCAATCTGCTCCACTGCAACT-TCAAGG-AGATAAGATTTG-TA-ACTTCAATCTACTCCACT
*
49283852 GCAACTTCAGAGAGATAAGACTT-GTAA
62 ACAACTTCAGAGAGATAAGACTTAGTAA
*
49283879 CTTCAA-CTTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 CTTCAATC-TGCTCCACTGCAACTTCAAGGAGATAAGATT
49283918 CGTCATAATG
Statistics
Matches: 368, Mismatches: 92, Indels: 45
0.73 0.18 0.09
Matches are distributed among these distances:
87 8 0.02
88 122 0.33
89 197 0.54
90 41 0.11
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (89 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATCTACTCCACTACAA
CTTCAGAGAGATAAGACTTAGTAA
Found at i:49283661 original size:133 final size:131
Alignment explanation
Indices: 49283346--49283920 Score: 410
Period size: 133 Copynumber: 4.3 Consensus size: 131
49283336 TGGAGCTTAT
* * * * * * * * * *
49283346 CTTCAATCTACTCCACTGCAACTTTAGGGAAATAAGATTTGTTTATTTTCAACCTGCTCCACT-A
1 CTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATTCG--TATCTTCAATCTACTCCACTGA
** * * * * * * *
49283410 CAACTTCAACGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCGGAGAGATAAGATT
64 -AACTTCAGGGAGATAAGATTTGTAACTTCAGTCTGCTCTACTGCAACTTCAG-GAGATAAGACT
* *
49283475 TACTAT
127 T-GTAA
* * * * * * * *
49283481 CTCCGATCTACTCCACTGCAACTTC-AGAAGAT-A-ATATC-TATAACTTCAATCCACCCCACTA
1 CTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGAT-TCGTAT--CTTCAATCTACTCCACTG
* * * * *
49283542 AAACTTCAGGGAGACAATATTTGTAACCTTCAGGCTGCTCCACTACAACTTCGAGGAGATAAGAC
63 AAACTTCAGGGAGATAAGATTTGTAA-CTTCAGTCTGCTCTACTGCAACTTC-AGGAGATAAGAC
49283607 TTGTAA
126 TTGTAA
* * * * ***
49283613 CTTCAATCTGCTCTGCTGCAACTTCAAGGAGATGAGATTTGTGTCTTCAATCTACTCCGCTGCGG
1 CTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATTCGTATCTTCAATCTACTCCACTGAAA
* * * * * * *
49283678 CCTCAGAGAGATAAGATTTACTATCTTCAATTTGCTCTACTGCAACTTCAGGGAGATAAAACTTG
66 CTTCAGGGAGATAAGATTT-GTAACTTCAGTCTGCTCTACTGCAACTTCA-GGAGATAAGACTTG
49283743 TAA
129 TAA
* ** * * *
49283746 CTTCAATCTACTCCGCTATAACTTCAAGGAGATGAGGTTCGTATCTTCAATCTGCTCCACTGTAA
1 CTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATTCGTATCTTCAATCTACTCCACTGAAA
* *
49283811 -TCTCAGGAAGATAAGATTTGCTATA-TTTAGTCTGCTCTACTGCAACTTCAGAGAGATAAGACT
66 CT-TCAGGGAGATAAGATTTG-TA-ACTTCAGTCTGCTCTACTGCAACTTCAG-GAGATAAGACT
49283874 TGTAA
127 TGTAA
* * *
49283879 CTTCAA-CTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGT
1 CTTCAATC-TGCTCCGCTGCAACTTCAAGGAGATGAGATTCGT
49283921 CATAATGACT
Statistics
Matches: 340, Mismatches: 83, Indels: 36
0.74 0.18 0.08
Matches are distributed among these distances:
130 3 0.01
132 57 0.17
133 245 0.72
134 9 0.03
135 26 0.08
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (131 bp):
CTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATTCGTATCTTCAATCTACTCCACTGAAA
CTTCAGGGAGATAAGATTTGTAACTTCAGTCTGCTCTACTGCAACTTCAGGAGATAAGACTTGTA
A
Found at i:49295980 original size:50 final size:50
Alignment explanation
Indices: 49295865--49296020 Score: 204
Period size: 50 Copynumber: 3.1 Consensus size: 50
49295855 GATCATAACA
* ** * *
49295865 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATATTCTCATATTGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
49295916 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
49295966 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
49296016 TGCCA
1 TGCCA
49296021 GACATGGTCT
Statistics
Matches: 91, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 59 0.65
51 32 0.35
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:49296031 original size:37 final size:37
Alignment explanation
Indices: 49295981--49296057 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
49295971 ACGCCATGTC
49295981 CCAGACATAGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAGACATAGTCTTACATGGGACCTCTCATCTCGGTG
* *
49296018 CCAGACATGGTCTTACATTGGACCTCTCATCTCGGTG
1 CCAGACATAGTCTTACATGGGACCTCTCATCTCGGTG
49296055 CCA
1 CCA
49296058 ACGCCATCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (37 bp):
CCAGACATAGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:49298555 original size:3 final size:3
Alignment explanation
Indices: 49298547--49298611 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
49298537 GAGTTTTCAA
* * * * *
49298547 AAT AAT AAT ACT AAT AAT AAT GAG AAT AAT -AT GAAT GAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
49298592 AAT AAT AAAT AAT GAAT AAT
1 AAT AAT -AAT AAT -AAT AAT
49298612 CTAAGGTTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.04
3 38 0.79
4 8 0.17
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:49298833 original size:79 final size:78
Alignment explanation
Indices: 49298693--49298839 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 78
49298683 AAAATATTAG
* * *
49298693 GTAAATCAATATAAAAAGAAATATAATAGAAATAATTATGCAAAACTAACTAATTTAATAATATG
1 GTAAATCAATATAAAAAGAAATATAATAGAAATAATAATGCAAAACTAACTAATATAATAATAAG
49298758 ATAATAATAACAA
66 ATAATAATAACAA
* ** * *
49298771 GTAAAT-AA-ATAAAAAGGAAAATAATAATAGTAATAATAATGTTAAATTAATTAATATAATAAT
1 GTAAATCAATATAAAAA-G-AAAT-ATAATAGAAATAATAATGCAAAACTAACTAATATAATAAT
49298834 AAGATA
63 AAGATA
49298840 GCAAAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
76 7 0.12
77 3 0.05
78 10 0.17
79 38 0.66
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (78 bp):
GTAAATCAATATAAAAAGAAATATAATAGAAATAATAATGCAAAACTAACTAATATAATAATAAG
ATAATAATAACAA
Found at i:49307086 original size:33 final size:33
Alignment explanation
Indices: 49307044--49307110 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
49307034 AAAGGACTTT
* *
49307044 GAATTATGGAGTGAATTTTGAGAAGACAAAAGA
1 GAATTATGGAGTGAAATTTAAGAAGACAAAAGA
49307077 GAATTATGGAGTGAAATTTAAGAAGACAAAAGA
1 GAATTATGGAGTGAAATTTAAGAAGACAAAAGA
49307110 G
1 G
49307111 CTTAAGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.48, C:0.03, G:0.27, T:0.22
Consensus pattern (33 bp):
GAATTATGGAGTGAAATTTAAGAAGACAAAAGA
Found at i:49311662 original size:103 final size:103
Alignment explanation
Indices: 49311554--49311752 Score: 326
Period size: 103 Copynumber: 1.9 Consensus size: 103
49311544 ATGGGTGTAC
* * ** *
49311554 AATAATACTTTGTTATCTTTAAAATTTACTGATGCGACTTTATTTTATTAGTGTCTAAAAATTAT
1 AATAATACTTTGTTACCTTTAAAATTTAATGATGCGACACTATTTTATTAGTGCCTAAAAATTAT
49311619 GTTTTTTAGGATGATCCTAATATAAGTTATTCTCGTAT
66 GTTTTTTAGGATGATCCTAATATAAGTTATTCTCGTAT
* * *
49311657 AATAATACTTTGTTACCTTTAAAATTTAATGATGTGGCACTATTTTATTGGTGCCTAAAAATTAT
1 AATAATACTTTGTTACCTTTAAAATTTAATGATGCGACACTATTTTATTAGTGCCTAAAAATTAT
49311722 GTTTTTTAGGATGATCCTAATATAAGTTATT
66 GTTTTTTAGGATGATCCTAATATAAGTTATT
49311753 GTCATTTTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 88 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.46
Consensus pattern (103 bp):
AATAATACTTTGTTACCTTTAAAATTTAATGATGCGACACTATTTTATTAGTGCCTAAAAATTAT
GTTTTTTAGGATGATCCTAATATAAGTTATTCTCGTAT
Found at i:49323501 original size:24 final size:27
Alignment explanation
Indices: 49323462--49323514 Score: 85
Period size: 25 Copynumber: 2.1 Consensus size: 27
49323452 AAAAAACTTT
49323462 AACCCTAACCCTTAAAAAAT-TAA-AA
1 AACCCTAACCCTTAAAAAATCTAATAA
49323487 AACCCTAACCC-TAAAAAATCTAATAA
1 AACCCTAACCCTTAAAAAATCTAATAA
49323513 AA
1 AA
49323515 GTGTGTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 8 0.31
25 14 0.54
26 4 0.15
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.19
Consensus pattern (27 bp):
AACCCTAACCCTTAAAAAATCTAATAA
Found at i:49338886 original size:43 final size:45
Alignment explanation
Indices: 49338809--49338892 Score: 111
Period size: 43 Copynumber: 1.9 Consensus size: 45
49338799 ATTTTTATTT
* *
49338809 TTATTTAATTATATTTAGTAATAATTATATTAAAATATAATTAAA
1 TTATTTAATTATATTTAATAATAATTATAGTAAAATATAATTAAA
*
49338854 TTATTT-ATTAT-TTTAATAATAATCT-TAGTAAAATTTAAT
1 TTATTTAATTATATTTAATAATAAT-TATAGTAAAATATAAT
49338893 AACAATAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 23 0.66
44 6 0.17
45 6 0.17
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (45 bp):
TTATTTAATTATATTTAATAATAATTATAGTAAAATATAATTAAA
Found at i:49339072 original size:16 final size:16
Alignment explanation
Indices: 49339048--49339101 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
49339038 TAAATTACTG
*
49339048 ATTACAGTTCTATTCC
1 ATTATAGTTCTATTCC
49339064 ATTATAGTTCTATTCC
1 ATTATAGTTCTATTCC
**
49339080 ATT-TCAACTCTATTCC
1 ATTAT-AGTTCTATTCC
49339096 ATTATA
1 ATTATA
49339102 ACTCTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 1 0.03
16 31 0.94
17 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTATAGTTCTATTCC
Found at i:49339115 original size:16 final size:16
Alignment explanation
Indices: 49339056--49339109 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
49339046 TGATTACAGT
**
49339056 TCTATTCCATTATAGT
1 TCTATTCCATTATAAC
49339072 TCTATTCCATT-TCAAC
1 TCTATTCCATTAT-AAC
49339088 TCTATTCCATTATAAC
1 TCTATTCCATTATAAC
49339104 TCTATT
1 TCTATT
49339110 TTATTACAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.02, T:0.48
Consensus pattern (16 bp):
TCTATTCCATTATAAC
Found at i:49339450 original size:34 final size:34
Alignment explanation
Indices: 49339407--49339476 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
49339397 TTAGAAATAT
49339407 TTTATAAAAGATATTTTCAATGAAACAAACATAC
1 TTTATAAAAGATATTTTCAATGAAACAAACATAC
49339441 TTTATAAAAGATATTTTCAATGAAACAAACATAC
1 TTTATAAAAGATATTTTCAATGAAACAAACATAC
49339475 TT
1 TT
49339477 ATATGAGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (34 bp):
TTTATAAAAGATATTTTCAATGAAACAAACATAC
Found at i:49358807 original size:21 final size:22
Alignment explanation
Indices: 49358777--49358840 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
49358767 CAAAAGCAGT
* *
49358777 ATACAACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
*
49358799 A-ACGACACACT-TGGTGCCT-A
1 ATACGACACA-TATAGTGCCTGA
49358819 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
49358841 TCGGCAAAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 3 0.09
21 28 0.82
22 3 0.09
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:49359709 original size:5 final size:6
Alignment explanation
Indices: 49359694--49359718 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
49359684 CAAACTCTAG
49359694 TTTTTC TTTTTC TTTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC T
49359719 CCTTTCCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:49359967 original size:14 final size:17
Alignment explanation
Indices: 49359948--49359985 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
49359938 ATTTATTTCT
49359948 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
49359962 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
49359979 TAATATA
1 TAATATA
49359986 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:49360003 original size:11 final size:11
Alignment explanation
Indices: 49359965--49360003 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
49359955 ATATTTATAA
49359965 TATAATTAATT
1 TATAATTAATT
*
49359976 TAATAATATACTT
1 T-ATAAT-TAATT
49359989 TATAATTAATT
1 TATAATTAATT
49360000 TATA
1 TATA
49360004 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:49362719 original size:51 final size:51
Alignment explanation
Indices: 49362654--49362844 Score: 228
Period size: 51 Copynumber: 3.8 Consensus size: 51
49362644 CCAGTTCACA
* * * *
49362654 TAGTAGCCTGCACATAGCACTACAAATGTGACCATCACTATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
* * * * *
49362705 TAGTAGCCTACACATAGTACTACACACGTGATCA-AAGCTATCCGGTA-AGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTATCTGGTACA-CG
*
49362756 TAGTAGCCTGCACATAGTACTACACATGTGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTACACG
*
49362806 TAGTAGCCTGCAAATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
49362845 TTCAATTTCA
Statistics
Matches: 117, Mismatches: 17, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
49 4 0.03
50 41 0.35
51 70 0.60
52 1 0.01
53 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
Found at i:49362836 original size:101 final size:102
Alignment explanation
Indices: 49362652--49362836 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
49362642 TACCAGTTCA
49362652 CATAGTAGCCTGCACATAGCACTACAAATGTGACCATCACTATCTGATACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGCACTACAAATGTGACCATCACTATCTGATACACGTAGTAGCCTACA
*
49362717 CATAGTACTACACACGTGATCAAAGCTATCCGGTAAG
66 AATAGTACTACACACGTGATCAAAGCTATCCGGTAAG
* * * *
49362754 CATAGTAGCCTGCACATAGTACTACACATGTGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGCACTACAAATGTGACC-ATCACTATCTGATACACGTAGTAGCCTAC
49362817 AAATAGTACTACACACGTGA
65 AAATAGTACTACACACGTGA
49362837 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 39 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGCACTACAAATGTGACCATCACTATCTGATACACGTAGTAGCCTACA
AATAGTACTACACACGTGATCAAAGCTATCCGGTAAG
Found at i:49366492 original size:25 final size:25
Alignment explanation
Indices: 49366464--49366784 Score: 189
Period size: 25 Copynumber: 12.8 Consensus size: 25
49366454 GTGAGTTGTA
49366464 TATCGGGAAGCTCATGCA-AGCCATT
1 TATCGGGAAGCTCATG-AGAGCCATT
* * *
49366489 TATCGGGAAGCTTAAGAGAGCTATT
1 TATCGGGAAGCTCATGAGAGCCATT
* **
49366514 AATCGGGAAGCTCATGAGAGCCAAG
1 TATCGGGAAGCTCATGAGAGCCATT
** **
49366539 TATCGGGAAGCTCAAAAGAGTTATT
1 TATCGGGAAGCTCATGAGAGCCATT
* * * **
49366564 AATTGGGAAGCTCATGAGAGCAAAG
1 TATCGGGAAGCTCATGAGAGCCATT
* * *
49366589 TATCGAGAAGCTCAAGAGAGCTATT
1 TATCGGGAAGCTCATGAGAGCCATT
* * * **
49366614 AATCGGGAAGCTCATGAAAGCAAAG
1 TATCGGGAAGCTCATGAGAGCCATT
* ** *
49366639 TATAGGGAAGCTCAAAAGAGCTATT
1 TATCGGGAAGCTCATGAGAGCCATT
* ** * **
49366664 AATTAGAAAGCTCATGAGAGCCAAG
1 TATCGGGAAGCTCATGAGAGCCATT
* *
49366689 TATCGGGAAGCTCAAGAGAGCTA-T
1 TATCGGGAAGCTCATGAGAGCCATT
* ** *
49366713 TACTTGGGAAGCTCAT-ATGAGCTGTA
1 TA-TCGGGAAGCTCATGA-GAGCCATT
* * * **
49366739 TATTGGGAAGCTCTTGCGAGCCAAA
1 TATCGGGAAGCTCATGAGAGCCATT
*
49366764 TATCGGGAAGCTCAAGAGAGC
1 TATCGGGAAGCTCATGAGAGC
49366785 TGTGGTGTGT
Statistics
Matches: 216, Mismatches: 75, Indels: 10
0.72 0.25 0.03
Matches are distributed among these distances:
24 4 0.02
25 210 0.97
26 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.21
Consensus pattern (25 bp):
TATCGGGAAGCTCATGAGAGCCATT
Found at i:49366751 original size:50 final size:50
Alignment explanation
Indices: 49366468--49366728 Score: 362
Period size: 50 Copynumber: 5.2 Consensus size: 50
49366458 GTTGTATATC
** * *
49366468 GGGAAGCTCATGCA-AGCCATTTATCGGGAAGCTTAAGAGAGCTATTAATC
1 GGGAAGCTCATG-AGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTAATT
* *
49366518 GGGAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAAAGAGTTATTAATT
1 GGGAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTAATT
* * *
49366568 GGGAAGCTCATGAGAGCAAAGTATCGAGAAGCTCAAGAGAGCTATTAATC
1 GGGAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTAATT
* * * *
49366618 GGGAAGCTCATGAAAGCAAAGTATAGGGAAGCTCAAAAGAGCTATTAATT
1 GGGAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTAATT
* * *
49366668 AGAAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTACTT
1 GGGAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTAATT
49366718 GGGAAGCTCAT
1 GGGAAGCTCAT
49366729 ATGAGCTGTA
Statistics
Matches: 185, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
49 1 0.01
50 184 0.99
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (50 bp):
GGGAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTAATT
Found at i:49368327 original size:3 final size:3
Alignment explanation
Indices: 49368321--49368378 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
49368311 ATCATTACAT
* * * *
49368321 TTA TTA TTA TTA TTG TTA TTG TTA TTA TTA TTA CTA TTA TTA CTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
49368370 TTA CTA TTA
1 TTA TTA TTA
49368379 GTTTTATTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:49368462 original size:14 final size:14
Alignment explanation
Indices: 49368445--49368474 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49368435 GCTTTATTAT
49368445 TATATATACATACA
1 TATATATACATACA
*
49368459 TATATATACTTACA
1 TATATATACATACA
49368473 TA
1 TA
49368475 CTCTTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TATATATACATACA
Found at i:49369290 original size:74 final size:75
Alignment explanation
Indices: 49369147--49369290 Score: 202
Period size: 74 Copynumber: 1.9 Consensus size: 75
49369137 TCTTTTCAAA
* *
49369147 CTCAAATTTTCAACGATCTCGGGAATTAAAAAGAGATCGTGTCCTAACTTACTGGGCATGATTTC
1 CTCAAATTTTAAACGATCTCGGGAATTAAAAAGAGATCGTGTCCTAACTTACTGGGCATGATCTC
49369212 TTTTTTCTTT
66 TTTTTTCTTT
* * * * * *
49369222 CTCAAGTTTTAAATGATCTCGGGATTTATAAA-AGATCGTGTCCTAACTTACTGGTCGTGATC-C
1 CTCAAATTTTAAACGATCTCGGGAATTAAAAAGAGATCGTGTCCTAACTTACTGGGCATGATCTC
49369285 TTTTTT
66 TTTTTT
49369291 AAAATCCGAG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
73 7 0.11
74 27 0.44
75 27 0.44
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.40
Consensus pattern (75 bp):
CTCAAATTTTAAACGATCTCGGGAATTAAAAAGAGATCGTGTCCTAACTTACTGGGCATGATCTC
TTTTTTCTTT
Found at i:49371822 original size:22 final size:22
Alignment explanation
Indices: 49371794--49371843 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
49371784 AAAGCATCGT
49371794 AGTGCTAAACAGAGAACACTGA
1 AGTGCTAAACAGAGAACACTGA
** *
49371816 AGTGCTAAGTAGAGATCACTGA
1 AGTGCTAAACAGAGAACACTGA
49371838 AGTGCT
1 AGTGCT
49371844 GAACCTGTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (22 bp):
AGTGCTAAACAGAGAACACTGA
Found at i:49375120 original size:19 final size:19
Alignment explanation
Indices: 49375096--49375135 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
49375086 GAATTTAGGC
49375096 AAATATTGAGTA-AAAATTG
1 AAATATT-AGTATAAAATTG
*
49375115 AAATATTAGTATGAAATTG
1 AAATATTAGTATAAAATTG
49375134 AA
1 AA
49375136 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (19 bp):
AAATATTAGTATAAAATTG
Found at i:49375605 original size:41 final size:39
Alignment explanation
Indices: 49375548--49375660 Score: 142
Period size: 37 Copynumber: 2.9 Consensus size: 39
49375538 TTTCTTCGAG
49375548 TCGATGAGACACTGGGTGTCAATTTATTACTTCAGATTTA
1 TCGATGAGACACTGGGTGTCAATTTATTACTTC-GATTTA
* *
49375588 TTCGATGAGGCACTGGGTGTCAA--T-TTACTTCGGTTTA
1 -TCGATGAGACACTGGGTGTCAATTTATTACTTCGATTTA
* *
49375625 ACTGATGAGACACTGGGTGTCAATTTACTACTTCGA
1 TC-GATGAGACACTGGGTGTCAATTTATTACTTCGA
49375661 AGTATCCGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
36 1 0.02
37 24 0.39
38 7 0.11
39 2 0.03
40 7 0.11
41 21 0.34
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAATTTATTACTTCGATTTA
Found at i:49376604 original size:110 final size:110
Alignment explanation
Indices: 49376411--49376630 Score: 318
Period size: 110 Copynumber: 2.0 Consensus size: 110
49376401 TAGCATACGG
* * * * *
49376411 GCGTGTGAGGCCATTTTGAAAGGGTACACAGTCTGGCACATGGGCGTGTGGTTCGGCTGTGTGAC
1 GCGTGTGAGGCCATTTCGAAAGGGCACACAGTCTAGCACACGGGCGTGTAGTTCGGCTGTGTGAC
* *
49376476 CCAAGTCAGAGAGTTACACAGGTATAAACA-TCGGCTGGGACACGA
66 CCAAGCCAGAGAGTTACACAGGTATAAACACT-GGCTGAGACACGA
*
49376521 GCGTGTGAGGCCATTTCGAAAGGGCATAC-GATCTAGCACACGGGCGTGTAGTTCGGCTGTGTGA
1 GCGTGTGAGGCCATTTCGAAAGGGCACACAG-TCTAGCACACGGGCGTGTAGTTCGGCTGTGTGA
* *
49376585 TCCAAGCCAGAGAGTTACACAGGTATAGACACTGGCTGAGACACGA
65 CCCAAGCCAGAGAGTTACACAGGTATAAACACTGGCTGAGACACGA
49376631 CCGCGTGTCC
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
109 1 0.01
110 96 0.98
111 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (110 bp):
GCGTGTGAGGCCATTTCGAAAGGGCACACAGTCTAGCACACGGGCGTGTAGTTCGGCTGTGTGAC
CCAAGCCAGAGAGTTACACAGGTATAAACACTGGCTGAGACACGA
Found at i:49381183 original size:16 final size:17
Alignment explanation
Indices: 49381149--49381187 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
49381139 TTGGAAAAGA
*
49381149 AAATATTTTTTAATAAT
1 AAATATTTTATAATAAT
49381166 AAATATTTTATAAT-AT
1 AAATATTTTATAATAAT
49381182 AAATAT
1 AAATAT
49381188 GAGTACTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATATTTTATAATAAT
Found at i:49386385 original size:44 final size:44
Alignment explanation
Indices: 49386204--49386427 Score: 149
Period size: 44 Copynumber: 5.1 Consensus size: 44
49386194 TACCTCGGGA
* * **
49386204 AGATAAGAGTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * *
49386248 AGACAGGATATAC--AATCTTCAACCTACTCCACTACTGCTTAGGG
1 AGATAAGAT-T-CGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
49386292 AGATAGGACTGGT-GGCTTAAATCCGCTTCCTACTA-T-C-TCGGG
1 AGATAAGATTCGTCGTCTTCAATCTGC-TCC-ACTACTGCTTAGGG
49386334 AAGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
1 -AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * *
49386379 AGATAAGATT--TACAATCTTCAACCTACTCCACTACTGCTTAGGG
1 AGATAAGATTCGT-C-GTCTTCAATCTGCTCCACTACTGCTTAGGG
49386423 AGATA
1 AGATA
49386428 GGGCTGGTGG
Statistics
Matches: 138, Mismatches: 29, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
42 9 0.07
43 24 0.17
44 95 0.69
45 9 0.07
46 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:49386393 original size:131 final size:130
Alignment explanation
Indices: 49386156--49386543 Score: 571
Period size: 131 Copynumber: 2.9 Consensus size: 130
49386146 CTGCAACTTC
* *
49386156 AGGGAGATAAGGCTGGTGGCTTAAATTTGCTTCCCTACTACCTCGGGAAGATAAGAGTCGCCGTC
1 AGGGAGAT-AGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTC
*
49386221 TTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCCACTACTGC
65 TTTGATCTGCTCCACTACTGCTTAGGGAGA-AAGATATACAATCTTCAACCTACTCCACTACTGC
49386286 TT
129 TT
* * *
49386288 AGGGAGATAGGACTGGTGGCTTAAATCCGCTT-CCTACTATCTCGGGAAGATAAGATTCGTCGTC
1 AGGGAGATAGG-CTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTC
** *
49386352 TTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTACAATCTTCAACCTACTCCACTACTGC
65 TTTGATCTGCTCCACTACTGCTTAGGGAGA-AAGATATACAATCTTCAACCTACTCCACTACTGC
49386417 TT
129 TT
*
49386419 AGGGAGATAGGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTC
1 AGGGAGATA-GGCTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTC
* * * * * *
49386484 TTTGATATACTACACTACTTCTTAGGAAGAAATGATCTACAATCTTCAACCTACTCCACT
65 TTTGATCTGCTCCACTACTGCTTAGGGAGAAA-GATATACAATCTTCAACCTACTCCACT
49386544 GCAAACTCAG
Statistics
Matches: 230, Mismatches: 22, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
131 124 0.54
132 106 0.46
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (130 bp):
AGGGAGATAGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTCT
TTGATCTGCTCCACTACTGCTTAGGGAGAAAGATATACAATCTTCAACCTACTCCACTACTGCTT
Found at i:49386658 original size:89 final size:89
Alignment explanation
Indices: 49386537--49386810 Score: 370
Period size: 89 Copynumber: 3.1 Consensus size: 89
49386527 CTTCAACCTA
* * *
49386537 CTCCACTGCAAACTCAGAGAGGCAAGGCTGGTGTTTTCGATCTGCTTTACTGCCAGTACAGGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTTGCTGCCAATACAGGAAG
* *
49386602 ACAAGATCTACTATTTTTAGTCTG
66 ACAAGATATACTATTTTCAGTCTG
** *
49386626 CTCTGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGCCAATACAGGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTTGCTGCCAATACAGGAAG
** *
49386691 ACAAGATATGTTATCTTCAGTCTG
66 ACAAGATATACTATTTTCAGTCTG
* * *
49386715 CTCCACTGCAAACTCAAGGAGGCAAGGCTGGTGTCTTT-GATTTGCTTCGCTGCCAATACAGGAA
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGT-TTTCGATCTGCTTTGCTGCCAATACAGGAA
* * * *
49386779 GATAAGATTTACTATTGTCAGCCTG
65 GACAAGATATACTATTTTCAGTCTG
49386804 CTCCACT
1 CTCCACT
49386811 TTAACTTTAG
Statistics
Matches: 160, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
89 158 0.99
90 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (89 bp):
CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTTGCTGCCAATACAGGAAG
ACAAGATATACTATTTTCAGTCTG
Found at i:49386671 original size:44 final size:44
Alignment explanation
Indices: 49386622--49386760 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 44
49386612 CTATTTTTAG
49386622 TCTGCTCTGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGA
1 TCTGCTCTGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGA
* * * * ** * *
49386666 TCTGCTTTGCTGCCAA-TACAGGAAGACAAGATATGTTATCTTC-A
1 TCTGCTCTGCTGCAAACT-CAGGGAGGCAAG-GCTGGTGTCTTCGA
** * *
49386710 GTCTGCTCCACTGCAAACTCAAGGAGGCAAGGCTGGTGTCTTTGA
1 -TCTGCTCTGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGA
*
49386755 TTTGCT
1 TCTGCT
49386761 TCGCTGCCAA
Statistics
Matches: 69, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
43 1 0.01
44 37 0.54
45 30 0.43
46 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (44 bp):
TCTGCTCTGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGA
Found at i:49386715 original size:45 final size:45
Alignment explanation
Indices: 49386577--49386716 Score: 115
Period size: 45 Copynumber: 3.1 Consensus size: 45
49386567 GTGTTTTCGA
* * * * *
49386577 TCTGCTTTACTGCCAGTACAGGAAGACAAGATCTACTATTTTTAG
1 TCTGCTTTGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
* * * * * * *
49386622 TCTGCTCTGCTGCAAACT-CAGGGAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTTGCTGCCAA-TACAGGAAGACAAGATCTGCTATCTTCAG
* *
49386665 ATCTGCTTTGCTGCCAATACAGGAAGACAAGATATGTTATCTTCAG
1 -TCTGCTTTGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
49386711 TCTGCT
1 TCTGCT
49386717 CCACTGCAAA
Statistics
Matches: 70, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
43 2 0.03
44 30 0.43
45 36 0.51
46 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (45 bp):
TCTGCTTTGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
Found at i:49386955 original size:44 final size:44
Alignment explanation
Indices: 49386884--49387002 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 44
49386874 TCATCATTTT
*
49386884 AATC-GCTCCACTGCAACTTCAGAGAGATAGGACTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGTAGCTTC
* * * **
49386927 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATTTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGTAGCTTC
* * *
49386971 AACCTGCTCCTCTGTAACTTCAGAGAGATAAG
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAG
49387003 GTTTGATGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 4 0.06
44 61 0.94
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGTAGCTTC
Found at i:49387391 original size:44 final size:45
Alignment explanation
Indices: 49387335--49387603 Score: 155
Period size: 44 Copynumber: 6.1 Consensus size: 45
49387325 GCTTTCTTCA
49387335 ATAAGACT-TGTAACTTTTATTCGCTCCACTGCAACTTCAGGGAG
1 ATAAGACTATGTAACTTTTATTCGCTCCACTGCAACTTCAGGGAG
* * *
49387379 ATAAGA-TATGTAAC-TTTAATCTGCTCCACTGTAACTTTAGGGAG
1 ATAAGACTATGTAACTTTTATTC-GCTCCACTGCAACTTCAGGGAG
* * ** * *
49387423 ATAGGATTAT-TGGCTTTAATTTGCTCCACTGCAACTTCAGGGAG
1 ATAAGACTATGTAACTTTTATTCGCTCCACTGCAACTTCAGGGAG
* * * * * * *
49387467 ATTAGA-T-TCGTCA-TCTTCAGTCTACCCCACTACAACTTCAAGGG-G
1 ATAAGACTAT-GTAACT-TTTATTC-GCTCCACTGCAACTTC-AGGGAG
** * * * * *
49387512 ATAAGACT-TGCTTTC-TTCAGTCTGCTCTACTACAACTTTAGGGAG
1 ATAAGACTATG-TAACTTTTATTC-GCTCCACTGCAACTTCAGGGAG
* * * *
49387557 ATAAGACT-TGTAACTTTAATCCGCTCCACTGCAACCTCAGAGAG
1 ATAAGACTATGTAACTTTTATTCGCTCCACTGCAACTTCAGGGAG
49387601 ATA
1 ATA
49387604 GGATTTGTGG
Statistics
Matches: 173, Mismatches: 38, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.01
43 9 0.05
44 94 0.54
45 62 0.36
46 7 0.04
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
ATAAGACTATGTAACTTTTATTCGCTCCACTGCAACTTCAGGGAG
Found at i:49387503 original size:45 final size:45
Alignment explanation
Indices: 49387448--49387566 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 45
49387438 TTAATTTGCT
* *
49387448 CCACTGCAACTTCAGGGAGATTAGA-TT-CGTCATCTTCAGTCTACC
1 CCACTACAACTTCAGGGAGATAAGACTTGC-T-ATCTTCAGTCTACC
* * *
49387493 CCACTACAACTTCAAGGG-GATAAGACTTGCTTTCTTCAGTCTGCT
1 CCACTACAACTTC-AGGGAGATAAGACTTGCTATCTTCAGTCTACC
* *
49387538 CTACTACAACTTTAGGGAGATAAGACTTG
1 CCACTACAACTTCAGGGAGATAAGACTTG
49387567 TAACTTTAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
44 4 0.06
45 51 0.81
46 7 0.11
47 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (45 bp):
CCACTACAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTACC
Found at i:49396025 original size:14 final size:14
Alignment explanation
Indices: 49395991--49396029 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
49395981 CCAGAAAAGT
49395991 AAGTCATTTTCCAA
1 AAGTCATTTTCCAA
* **
49396005 AAATCATTTTCCGG
1 AAGTCATTTTCCAA
49396019 AAGTCATTTTC
1 AAGTCATTTTC
49396030 AGTGAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (14 bp):
AAGTCATTTTCCAA
Found at i:49399708 original size:73 final size:73
Alignment explanation
Indices: 49399588--49399983 Score: 522
Period size: 73 Copynumber: 5.4 Consensus size: 73
49399578 AACAATAAGC
* * **
49399588 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACTTAAGCCAAAACGACGTTGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
49399653 TTGGGGGA
66 TTCGGGGA
** * * * * * *
49399661 TTTAGCGGTATTTTTGAGGAGGCACCGTAAAAAACCTAAGCCAAAACGACGCCGTTTTGTAAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
49399726 TTCGAGGA
66 TTCGGGGA
* * *
49399734 TTTAACGGCGTTTTTAAGAAAACGCCGCAAAAAACCTAAGCCAAAACAACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
49399799 TTCGGGGA
66 TTCGGGGA
* * *
49399807 TTTAGCGGCGTTTTTAAGAAAGCGGCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
49399872 TTGGGGGA
66 TTCGGGGA
* * * * * * *
49399880 TTTAGCTGCGTTTTTGAGGAAGCGCCGCAAAAAATCTAAGCCAAAACAACACCGTTTTATGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
49399945 TTTGGGGA
66 TTCGGGGA
*
49399953 TTTAGCGGCGTTTTTAAGAAAGCGTCGCAAA
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAA
49399984 TGCTCAGGGC
Statistics
Matches: 275, Mismatches: 48, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
73 275 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
TTCGGGGA
Found at i:49399967 original size:219 final size:219
Alignment explanation
Indices: 49399588--49399983 Score: 621
Period size: 219 Copynumber: 1.8 Consensus size: 219
49399578 AACAATAAGC
* *
49399588 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACTTAAGCCAAAACGACGTTGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
* * * * *
49399653 TTGGGGGATTTAGCGGTATTTTTGAGGAGGCACCGTAAAAAACCTAAGCCAAAACGACGCCGTTT
66 TTGGGGGATTTAGCGGCATTTTTGAGGAAGCACCGCAAAAAACCTAAGCCAAAACAACACCGTTT
*
49399718 TGTAAGCTTTCGAGGATTTAACGGCGTTTTTAAGAAAACGCCGCAAAAAACCTAAGCCAAAACAA
131 TATAAGCTTTCGAGGATTTAACGGCGTTTTTAAGAAAACGCCGCAAAAAACCTAAGCCAAAACAA
49399783 CGCCGTTTTGTGAGCTTTCGGGGA
196 CGCCGTTTTGTGAGCTTTCGGGGA
*
49399807 TTTAGCGGCGTTTTTAAGAAAGCGGCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
* * * *
49399872 TTGGGGGATTTAGCTGCGTTTTTGAGGAAGCGCCGCAAAAAATCTAAGCCAAAACAACACCGTTT
66 TTGGGGGATTTAGCGGCATTTTTGAGGAAGCACCGCAAAAAACCTAAGCCAAAACAACACCGTTT
* * * * * *
49399937 TATGAGCTTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCAAA
131 TATAAGCTTTCGAGGATTTAACGGCGTTTTTAAGAAAACGCCGCAAA
49399984 TGCTCAGGGC
Statistics
Matches: 158, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
219 158 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (219 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
TTGGGGGATTTAGCGGCATTTTTGAGGAAGCACCGCAAAAAACCTAAGCCAAAACAACACCGTTT
TATAAGCTTTCGAGGATTTAACGGCGTTTTTAAGAAAACGCCGCAAAAAACCTAAGCCAAAACAA
CGCCGTTTTGTGAGCTTTCGGGGA
Found at i:49400023 original size:114 final size:114
Alignment explanation
Indices: 49399880--49400093 Score: 311
Period size: 114 Copynumber: 1.9 Consensus size: 114
49399870 CTTTGGGGGA
* * * * *
49399880 TTTAGCTGCGTTTTTGAGGAAGCGCCGCAAAAAATCTAAGCCAAAACAACACCGTTTTATGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCGTTTTATAAGCT
*
49399945 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCAAATGCTCAGGGC
66 TTGGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCAAATGCTCAGGGC
* * ** *
49399994 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATAACCTAAGCCAAAACGACGTCGTTTTGTAAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCGTTTTATAAGCT
* *
49400059 TTGGGGGATTTAGCGGCGTTTTTGAGGAAGCGTCG
66 TTGGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCG
49400094 TAAAAAACCT
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
114 87 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCGTTTTATAAGCT
TTGGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCAAATGCTCAGGGC
Found at i:49400075 original size:73 final size:73
Alignment explanation
Indices: 49399994--49400165 Score: 254
Period size: 73 Copynumber: 2.4 Consensus size: 73
49399984 TGCTCAGGGC
* *
49399994 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATAACCTAAGCCAAAACGACGTCGTTTTGTAAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTAAGCT
*
49400059 TTGGGGGA
66 TTCGGGGA
* * * * *
49400067 TTTAGCGGCGTTTTTGAGGAAGCGTCGTAAAAAACCTAAGCCAAAACGATGCCGTTTTGTAAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTAAGCT
49400132 TTCGGGGA
66 TTCGGGGA
* *
49400140 TTTAGCGGTGTTTTTAGGAAAGCGCC
1 TTTAGCGGCGTTTTTAAGAAAGCGCC
49400166 ACTAATGCTC
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 86 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTAAGCT
TTCGGGGA
Found at i:49400124 original size:187 final size:187
Alignment explanation
Indices: 49399807--49400206 Score: 620
Period size: 187 Copynumber: 2.1 Consensus size: 187
49399797 CTTTCGGGGA
* *
49399807 TTTAGCGGCGTTTTTAAGAAAGCGGCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTAAGCT
* *
49399872 TTGGGGGATTTAGCTGCGTTTTTGAGGAAGCGCCGCAAAAAATCTAAGCCAAAACAACACCGTTT
66 TTGGGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCGTTT
* * * *
49399937 TATGAGCTTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCAAATGCTCAGGGC
131 TATAAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACAAATGCTCAGGGC
*
49399994 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATAACCTAAGCCAAAACGACGTCGTTTTGTAAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTAAGCT
* * * **
49400059 TTGGGGGATTTAGCGGCGTTTTTGAGGAAGCGTCGTAAAAAACCTAAGCCAAAACGATGCCGTTT
66 TTGGGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCGTTT
* * * *
49400124 TGTAAGCTTTCGGGGATTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
131 TATAAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACAAATGCTCAGGGC
* *
49400181 TTTAGCGGTGTTTTTAGGAAAGCGCC
1 TTTAGCGGCGTTTTTAAGAAAGCGCC
49400207 ACTAATGCTC
Statistics
Matches: 193, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
187 193 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (187 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTAAGCT
TTGGGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCGTTT
TATAAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACAAATGCTCAGGGC
Found at i:49400197 original size:41 final size:41
Alignment explanation
Indices: 49400140--49400247 Score: 191
Period size: 41 Copynumber: 2.6 Consensus size: 41
49400130 CTTTCGGGGA
49400140 TTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
1 TTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
49400181 TTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
1 TTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
*
49400222 TTTAGCGGCGTTTTTGAGG-AAGCGCC
1 TTTAGCGGTGTTTTT-AGGAAAGCGCC
49400248 GCAAAAAATC
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
41 62 0.95
42 3 0.05
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (41 bp):
TTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
Found at i:49400348 original size:154 final size:155
Alignment explanation
Indices: 49400067--49400360 Score: 439
Period size: 154 Copynumber: 1.9 Consensus size: 155
49400057 CTTTGGGGGA
* * *
49400067 TTTAGCGGCGTTTTTGAGGAAGCGTCGTAAAAAACCTAAGCCAAAACGATGCCGTTTTGTAAGCT
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACAATGCCGTTTTGTAAGCT
* * * * *
49400132 TTCGGGGATTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGCTTTAGCGGTGTTTTTA
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGAGCTTTAGCGGCGTTTTCA
*
49400197 GGAAAGCGCCACTAATGCTCAGGGC
131 AGAAAGCGCCACTAATGCTCAGGGC
* *
49400222 TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAATCTAAGCCAAAACAACT-CCG-TTTGTGAGC
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACAA-TGCCGTTTTGTAAGC
* * *
49400285 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGAGCTTTAGTGGCGTTTTC
65 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGAGCTTTAGCGGCGTTTTC
49400350 AAGAAAGCGCC
130 AAGAAAGCGCC
49400361 GCAAAGAACT
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
154 75 0.60
155 48 0.39
156 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (155 bp):
TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACAATGCCGTTTTGTAAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGAGCTTTAGCGGCGTTTTCA
AGAAAGCGCCACTAATGCTCAGGGC
Found at i:49400379 original size:113 final size:114
Alignment explanation
Indices: 49400181--49400413 Score: 319
Period size: 113 Copynumber: 2.1 Consensus size: 114
49400171 TGCTCAGGGC
* * * ** *
49400181 TTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGGAAGCG
1 TTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGAGCTTTAGCGGCGTTTTCAAGAAAGCG
49400246 CCGCAAAAAATCTAAGCCAAAACAAC-TCCG-TTTGTGAGCTTTCGGGGA
66 CCGCAAAAAATCTAAGCCAAAACAACGT-CGTTTTGTGAGCTTTCGGGGA
* * *
49400294 TTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGAGCTTTAGTGGCGTTTTCAAGAAAGCG
1 TTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGAGCTTTAGCGGCGTTTTCAAGAAAGCG
* * *
49400359 CCGCAAAGAA-CTTAAGCCAAAACGACGTCGTTTTGTGAGCTTTGGGGGA
66 CCGCAAAAAATC-TAAGCCAAAACAACGTCGTTTTGTGAGCTTTCGGGGA
49400408 TTTAGC
1 TTTAGC
49400414 AATGTTTTTG
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
112 1 0.01
113 80 0.76
114 24 0.23
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGAGCTTTAGCGGCGTTTTCAAGAAAGCG
CCGCAAAAAATCTAAGCCAAAACAACGTCGTTTTGTGAGCTTTCGGGGA
Found at i:49400393 original size:341 final size:342
Alignment explanation
Indices: 49399880--49400525 Score: 1051
Period size: 341 Copynumber: 1.9 Consensus size: 342
49399870 CTTTGGGGGA
*
49399880 TTTAGCTGCGTTTTTGAGGAAGCGCCGCAAAAAATCTAAGCCAAAACAACACCGTTTTATGAGCT
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAATCTAAGCCAAAACAACACCGTTTTATGAGCT
* * * *
49399945 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCAAATGCTCAGGGCTTTAGCGGCGTTTTTA
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTCAGAGCTTTAGCGGCGTTTTCA
* **
49400010 AGAAAGCGCCGCAAATAACCTAAGCCAAAACGACGTCGTTTTGTAAGCTTTGGGGGATTTAGCGG
131 AGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTAAGCTTTGGGGGATTTAGCAA
* * *
49400075 CGTTTTTGAGGAAGCGTCGTAAAAAACCTAAGCCAAAACGATGCCGTTTTGTAAGCTTTCGGGGA
196 CGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACGATGCCGTTTTGTAAGCTTTCAGGGA
* *
49400140 TTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGCTTTAGCGGTGTTTTTAGGAAAGCG
261 TTTAGCGGCGTTTTTAGGAAAGCGCCACTAATGCTCAGGGATTTAGCGGTGTTTTTAGGAAAGCG
49400205 CCACTAATGCTCAGGGC
326 CCACTAATGCTCAGGGC
* *
49400222 TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAATCTAAGCCAAAACAACTCCG-TTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAATCTAAGCCAAAACAACACCGTTTTATGAGCT
* * *
49400286 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGAGCTTTAGTGGCGTTTTCA
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTCAGAGCTTTAGCGGCGTTTTCA
* *
49400351 AGAAAGCGCCGCAAAGAACTTAAGCCAAAACGACGTCGTTTTGTGAGCTTTGGGGGATTTAGCAA
131 AGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTAAGCTTTGGGGGATTTAGCAA
* * * *
49400416 TGTTTTTGAGGAGGCGCCGCAAAAAACCTAAGCCAAAACGGTGCCGTTTTGTGAGCTTTCAGGGA
196 CGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACGATGCCGTTTTGTAAGCTTTCAGGGA
* *
49400481 TTTAGCGGCGTTTTTAGGAAAGCGCCTCTAATGCTTAGGGATTTA
261 TTTAGCGGCGTTTTTAGGAAAGCGCCACTAATGCTCAGGGATTTA
49400526 AAATAATTTA
Statistics
Matches: 278, Mismatches: 26, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
341 226 0.81
342 52 0.19
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (342 bp):
TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAATCTAAGCCAAAACAACACCGTTTTATGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTCAGAGCTTTAGCGGCGTTTTCA
AGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTAAGCTTTGGGGGATTTAGCAA
CGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACGATGCCGTTTTGTAAGCTTTCAGGGA
TTTAGCGGCGTTTTTAGGAAAGCGCCACTAATGCTCAGGGATTTAGCGGTGTTTTTAGGAAAGCG
CCACTAATGCTCAGGGC
Found at i:49400506 original size:73 final size:73
Alignment explanation
Indices: 49400335--49400506 Score: 202
Period size: 73 Copynumber: 2.4 Consensus size: 73
49400325 TGCTTAGAGC
* * * * * *
49400335 TTTAGTGGCGTTTTCAAGAAAGCGCCGCAAAGAACTTAAGCCAAAACGACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
**
49400400 TTGGGGGA
66 TTCAGGGA
*** * **
49400408 TTTAGCAATGTTTTTGAGG-AGGCGCCGCAAAAAACCTAAGCCAAAACGGTGCCGTTTTGTGAGC
1 TTTAGCGGCGTTTTT-AGGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGC
49400472 TTTCAGGGA
65 TTTCAGGGA
49400481 TTTAGCGGCGTTTTTAGGAAAGCGCC
1 TTTAGCGGCGTTTTTAGGAAAGCGCC
49400507 TCTAATGCTT
Statistics
Matches: 79, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
72 3 0.04
73 74 0.94
74 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
TTCAGGGA
Found at i:49400711 original size:14 final size:14
Alignment explanation
Indices: 49400692--49400796 Score: 61
Period size: 14 Copynumber: 7.4 Consensus size: 14
49400682 TATCACTATA
*
49400692 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
49400706 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* **
49400720 GTTTAGAGTTTAAA
1 GTTTAGGGTTTATG
*
49400734 GTTTAGGTGTTACCAT-
1 GTTTAGG-GTT--TATG
*
49400750 -TTTAAGGTTTATG
1 GTTTAGGGTTTATG
* *
49400763 GATTATGGGTTTAGG
1 GTTTA-GGGTTTATG
* *
49400778 GGTTATGGTTTATG
1 GTTTAGGGTTTATG
49400792 GTTTA
1 GTTTA
49400797 AAAGGCTGGG
Statistics
Matches: 67, Mismatches: 18, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
12 2 0.03
14 45 0.67
15 19 0.28
17 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:49400775 original size:22 final size:21
Alignment explanation
Indices: 49400750--49400797 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
49400740 GTGTTACCAT
*
49400750 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTAT-GG
* *
49400772 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
49400793 TTTAA
1 TTTAA
49400798 AAGGCTGGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATGGATTATGG
Found at i:49400878 original size:14 final size:14
Alignment explanation
Indices: 49400837--49400880 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
49400827 GTGCATGTTA
*
49400837 AGGGTTTATAGTTTT
1 AGGGTTTA-AGGTTT
49400852 AGGGTTTAA-GTTT
1 AGGGTTTAAGGTTT
*
49400865 ATGGTTTAAGGTTT
1 AGGGTTTAAGGTTT
49400879 AG
1 AG
49400881 ATTAACTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 11 0.44
14 6 0.24
15 8 0.32
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.48
Consensus pattern (14 bp):
AGGGTTTAAGGTTT
Found at i:49405949 original size:5 final size:5
Alignment explanation
Indices: 49405908--49405933 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49405898 TCAAATTTAA
49405908 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
49405934 TTTATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:49406136 original size:85 final size:85
Alignment explanation
Indices: 49406008--49406213 Score: 283
Period size: 85 Copynumber: 2.4 Consensus size: 85
49405998 TTTTTGTGAG
** * *
49406008 AAGCGCCGCTAAAGGTTTATTCTTTAGCGACGTTTGTGATAAAAGCGCTGCTAAAGGTCTTGGTC
1 AAGCGCCGCTAAAGGTTTGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
49406073 TTTAGCGGC-TTT-TTAGGAA
66 TTTAACGGCGTTTGTGA-AAA
*
49406092 AAGCGCCACTAAAGGTCTTGGTCTTTAGCGGCGTTTGT-AGTAAAAGCGCCGCTAAAGGTCTTGG
1 AAGCGCCGCTAAAGGT-TTGGTCTTTAGCGGCGTTTGTGA-TAAAAGCGCCGCTAAAGGTCTTGG
49406156 TCTTTAACGGCGTTTGTGAAAA
64 TCTTTAACGGCGTTTGTGAAAA
49406178 AAGCGCCGCTAAAGGTTTTGGTCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGG-TTTGGTCTTTAGCGGCGTTT
49406214 TTTTCAGTGC
Statistics
Matches: 108, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
84 16 0.15
85 51 0.47
86 38 0.35
87 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (85 bp):
AAGCGCCGCTAAAGGTTTGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
TTTAACGGCGTTTGTGAAAA
Found at i:49406151 original size:43 final size:43
Alignment explanation
Indices: 49406008--49406213 Score: 276
Period size: 43 Copynumber: 4.8 Consensus size: 43
49405998 TTTTTGTGAG
** *
49406008 AAGCGCCGCTAAAGGT-TTATTCTTTAGCGACGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGATAA
* * *
49406050 AAGCGCTGCTAAAGGTCTTGGTCTTTAGCGGC-TTT-TTAGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGA-TAA
*
49406092 AAGCGCCACTAAAGGTCTTGGTCTTTAGCGGCGTTTGT-AGTAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGA-TAA
* *
49406135 AAGCGCCGCTAAAGGTCTTGGTCTTTAACGGCGTTTGTGAAAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGATAA
*
49406178 AAGCGCCGCTAAAGGTTTTGGTCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
49406214 TTTTCAGTGC
Statistics
Matches: 145, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
41 2 0.01
42 50 0.34
43 91 0.63
44 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGATAA
Found at i:49407010 original size:61 final size:60
Alignment explanation
Indices: 49406913--49407032 Score: 168
Period size: 61 Copynumber: 2.0 Consensus size: 60
49406903 AAGTTTTTCC
* * *
49406913 ACAAAGGCGTTCCTTAATATCAGTACTCACCGCAAAGGCTTTCCTGTCTAGAGCTTTGCT
1 ACAAAAGCGTTCCTTAACATCAGTACTCACCACAAAGGCTTTCCTGTCTAGAGCTTTGCT
* * * *
49406973 ACAAAAGCGTTCTTTAACATTCAGTACTCACTACAAAGGCTTTCTTGTCTAGAGTTTTGC
1 ACAAAAGCGTTCCTTAACA-TCAGTACTCACCACAAAGGCTTTCCTGTCTAGAGCTTTGC
49407033 CATAAAGACT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
60 16 0.31
61 36 0.69
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (60 bp):
ACAAAAGCGTTCCTTAACATCAGTACTCACCACAAAGGCTTTCCTGTCTAGAGCTTTGCT
Found at i:49410892 original size:29 final size:27
Alignment explanation
Indices: 49410860--49410921 Score: 63
Period size: 28 Copynumber: 2.2 Consensus size: 27
49410850 TTACTTATAG
*
49410860 TATTTAATTTCAATAATGT-TTAAATTTAT
1 TATTTAATTT-AA-AATGTAATAAA-TTAT
*
49410889 TATTATAGTTTAAAATGTAATAAATTAT
1 TATT-TAATTTAAAATGTAATAAATTAT
49410917 TATTT
1 TATTT
49410922 TAGTCCGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 13 0.45
29 10 0.34
30 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (27 bp):
TATTTAATTTAAAATGTAATAAATTAT
Found at i:49413049 original size:24 final size:24
Alignment explanation
Indices: 49412979--49413040 Score: 90
Period size: 24 Copynumber: 2.5 Consensus size: 24
49412969 ATTTCATAAT
*
49412979 AGAATACAAATGCATACTCAGATTC
1 AGAA-ACAAATGCATATTCAGATTC
49413004 AGAAACAAATGCATATTCAGATTC
1 AGAAACAAATGCATATTCAGATTC
49413028 -GAAAACAAATGCA
1 AG-AAACAAATGCA
49413041 ATCATAGATC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 1 0.03
24 30 0.86
25 4 0.11
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.21
Consensus pattern (24 bp):
AGAAACAAATGCATATTCAGATTC
Found at i:49421183 original size:25 final size:25
Alignment explanation
Indices: 49421141--49421249 Score: 107
Period size: 25 Copynumber: 4.4 Consensus size: 25
49421131 ATCATGTAAT
49421141 CGGGAAGCTCTTTCGAGCCATATAA
1 CGGGAAGCTCTTTCGAGCCATATAA
* *
49421166 CGGGAAGTTCATTT-GAGCCATGTAA
1 CGGGAAGCTC-TTTCGAGCCATATAA
* * *
49421191 CAGGAAGCTCTTGCGAGCCA-ATTAT
1 CGGGAAGCTCTTTCGAGCCATA-TAA
* * *
49421216 CGGGAAGCTCATACAAGCCATA-AA
1 CGGGAAGCTCTTTCGAGCCATATAA
49421240 CGGGAAGCTC
1 CGGGAAGCTC
49421250 AAGAGAGCCA
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
24 13 0.19
25 51 0.75
26 4 0.06
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (25 bp):
CGGGAAGCTCTTTCGAGCCATATAA
Found at i:49421235 original size:50 final size:50
Alignment explanation
Indices: 49421133--49421249 Score: 130
Period size: 50 Copynumber: 2.3 Consensus size: 50
49421123 CCAATGCAAT
* * ***
49421133 CATGTAATCGGGAAGCTCTTTCGAGCCATATAACGGGAAGTTCATTTGAGC
1 CATGTAA-CGGGAAGCTCTTGCGAGCCATATAACGGGAAGCTCATACAAGC
* *
49421184 CATGTAACAGGAAGCTCTTGCGAGCCA-ATTATCGGGAAGCTCATACAAGC
1 CATGTAACGGGAAGCTCTTGCGAGCCATA-TAACGGGAAGCTCATACAAGC
*
49421234 CAT-AAACGGGAAGCTC
1 CATGTAACGGGAAGCTC
49421250 AAGAGAGCCA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 12 0.21
50 37 0.66
51 7 0.12
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (50 bp):
CATGTAACGGGAAGCTCTTGCGAGCCATATAACGGGAAGCTCATACAAGC
Found at i:49422291 original size:21 final size:19
Alignment explanation
Indices: 49422265--49422303 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
49422255 TTTGCCCGAG
49422265 CCCAAAACTAAATAAATAAAA
1 CCCAAAA-TAAA-AAATAAAA
49422286 CCCAAAATAAAAAATAAA
1 CCCAAAATAAAAAATAAA
49422304 CAGTCCATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.69, C:0.18, G:0.00, T:0.13
Consensus pattern (19 bp):
CCCAAAATAAAAAATAAAA
Found at i:49423537 original size:26 final size:26
Alignment explanation
Indices: 49423508--49423774 Score: 174
Period size: 26 Copynumber: 10.2 Consensus size: 26
49423498 TGAAAATTAT
*
49423508 TTATTTATTTTAAACCT-TTTTATACA
1 TTATTTATTTTAAA-CTATTTTATATA
* * *
49423534 TTATTCATTTTAAATTGTTTTAT-TA
1 TTATTTATTTTAAACTATTTTATATA
* *
49423559 TTATTTATTTT-AAGT-TTTTCACATA
1 TTATTTATTTTAAACTATTTT-ATATA
* * *
49423584 TTATGTATTTTAAACTATATTAAACTA
1 TTATTTATTTTAAACTATTTTATA-TA
** *
49423611 TTATCCATTTTAAA-TTTTTTATATA
1 TTATTTATTTTAAACTATTTTATATA
*
49423636 TTATTTATTTTAAACTATTATATATA
1 TTATTTATTTTAAACTATTTTATATA
* * *
49423662 TTATTTATTTTGAATTGTTTTTATACATA
1 TTATTTATTTTAAACT-ATTTTAT--ATA
* * *
49423691 TCATTT-TCTTAAGACTATTTTGTATA
1 TTATTTATTTTAA-ACTATTTTATATA
* * *
49423717 TTGTTTATTTGAAATTTCT-TTTTACATA
1 TTATTTATTTTAAA---CTATTTTATATA
*
49423745 TTATTTATTTTAAA--ATTTTATAAA
1 TTATTTATTTTAAACTATTTTATATA
49423769 TTATTT
1 TTATTT
49423775 TAAATTGTCT
Statistics
Matches: 186, Mismatches: 39, Indels: 34
0.72 0.15 0.13
Matches are distributed among these distances:
23 4 0.02
24 17 0.09
25 38 0.20
26 61 0.33
27 26 0.14
28 28 0.15
29 12 0.06
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (26 bp):
TTATTTATTTTAAACTATTTTATATA
Found at i:49423717 original size:55 final size:53
Alignment explanation
Indices: 49423626--49423750 Score: 128
Period size: 55 Copynumber: 2.3 Consensus size: 53
49423616 CATTTTAAAT
* * *
49423626 TTTTTATATATTATTTATTTTAAACTATTATATATATTATTTATTTTG-AATTGT-
1 TTTTTACATATCATTT-TCTTAAACTATTATATATATTATTTA-TTTGAAATT-TC
* * *
49423680 TTTTATACATATCATTTTCTTAAGACTATTTTGTATATTGTTTATTTGAAATTTC
1 TTTT-TACATATCATTTTCTTAA-ACTATTATATATATTATTTATTTGAAATTTC
*
49423735 TTTTTACATATTATTT
1 TTTTTACATATCATTT
49423751 ATTTTAAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
54 25 0.42
55 35 0.58
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.61
Consensus pattern (53 bp):
TTTTTACATATCATTTTCTTAAACTATTATATATATTATTTATTTGAAATTTC
Found at i:49423798 original size:26 final size:26
Alignment explanation
Indices: 49423769--49423873 Score: 92
Period size: 26 Copynumber: 4.1 Consensus size: 26
49423759 ATTTTATAAA
*
49423769 TTATTTTAAATTGTCTTCTATGTTAT
1 TTATTTTAAATTGTCTTCTATATTAT
* * *
49423795 TTATTTTAATTTG-CTTTGTATGTTAT
1 TTATTTTAAATTGTC-TTCTATATTAT
* *
49423821 TTATTTTAATTTGTGTTGC-ATATTAT
1 TTATTTTAAATTGTCTT-CTATATTAT
* *
49423847 TTACTTTGAATTGT-TT-TATATTAT
1 TTATTTTAAATTGTCTTCTATATTAT
49423871 TTA
1 TTA
49423874 CCTCAAATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
24 10 0.15
25 3 0.04
26 54 0.81
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.63
Consensus pattern (26 bp):
TTATTTTAAATTGTCTTCTATATTAT
Found at i:49423847 original size:52 final size:50
Alignment explanation
Indices: 49423769--49423873 Score: 115
Period size: 52 Copynumber: 2.1 Consensus size: 50
49423759 ATTTTATAAA
* * *
49423769 TTATTTTAAATTGTCTTCTATGTTATTTA-TTTTAATTTGCTTTGTATGTTAT
1 TTATTTTAAATTGTCTTCTATATTATTTACTTTGAA-TTG-TTT-TATATTAT
* *
49423821 TTATTTTAATTTGTGTTGC-ATATTATTTACTTTGAATTGTTTTATATTAT
1 TTATTTTAAATTGTCTT-CTATATTATTTACTTTGAATTGTTTTATATTAT
49423871 TTA
1 TTA
49423874 CCTCAAATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
50 10 0.22
51 3 0.07
52 27 0.59
53 6 0.13
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.63
Consensus pattern (50 bp):
TTATTTTAAATTGTCTTCTATATTATTTACTTTGAATTGTTTTATATTAT
Found at i:49426484 original size:17 final size:18
Alignment explanation
Indices: 49426451--49426487 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
49426441 TGATATATTT
49426451 ATGTTATTAAATGTTATG
1 ATGTTATTAAATGTTATG
49426469 ATGTT-TTAATAT-TTATG
1 ATGTTATTAA-ATGTTATG
49426486 AT
1 AT
49426488 TGTACGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
ATGTTATTAAATGTTATG
Found at i:49427255 original size:30 final size:31
Alignment explanation
Indices: 49427221--49427280 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
49427211 AAACATTTTA
* *
49427221 TTTTCCCTTAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
*
49427251 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
49427281 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:49443227 original size:20 final size:21
Alignment explanation
Indices: 49443202--49443241 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49443192 TATGGATTTA
*
49443202 GGGA-TTATGGTTTAAGGGTC
1 GGGATTTAAGGTTTAAGGGTC
49443222 GGGATTTAAGGTTTAAGGGT
1 GGGATTTAAGGTTTAAGGGT
49443242 TAAGAGTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.23, C:0.03, G:0.40, T:0.35
Consensus pattern (21 bp):
GGGATTTAAGGTTTAAGGGTC
Found at i:49443263 original size:22 final size:22
Alignment explanation
Indices: 49443227--49443287 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
49443217 GGGTCGGGAT
49443227 TTAA-GGTTTAAGGGTTAAGA-G
1 TTAAGGGTTTAAGGGTT-AGACG
* *
49443248 TTAGGGGTTTAGGGGTTAGACG
1 TTAAGGGTTTAAGGGTTAGACG
*
49443270 TTAAGGG-TTAAGAGTTAG
1 TTAAGGGTTTAAGGGTTAG
49443288 GGATTTAGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 15 0.45
22 18 0.55
ACGTcount: A:0.28, C:0.02, G:0.38, T:0.33
Consensus pattern (22 bp):
TTAAGGGTTTAAGGGTTAGACG
Found at i:49443281 original size:36 final size:36
Alignment explanation
Indices: 49443234--49443302 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
49443224 GATTTAAGGT
*
49443234 TTAAGGGTTAAGAGTTAGGGGTTTAGGGGTTAGACG
1 TTAAGGGTTAAGAGTTAGGGATTTAGGGGTTAGACG
*
49443270 TTAAGGGTTAAGAGTTAGGGATTTAGGGTTTAG
1 TTAAGGGTTAAGAGTTAGGGATTTAGGGGTTAG
49443303 GGATTTAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.26, C:0.01, G:0.39, T:0.33
Consensus pattern (36 bp):
TTAAGGGTTAAGAGTTAGGGATTTAGGGGTTAGACG
Found at i:49443304 original size:15 final size:15
Alignment explanation
Indices: 49443284--49443312 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49443274 GGGTTAAGAG
49443284 TTAGGGATTTAGGGT
1 TTAGGGATTTAGGGT
49443299 TTAGGGATTTAGGG
1 TTAGGGATTTAGGG
49443313 GTCGAGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (15 bp):
TTAGGGATTTAGGGT
Found at i:49443330 original size:8 final size:8
Alignment explanation
Indices: 49443284--49443312 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
49443274 GGGTTAAGAG
49443284 TTAGGGAT
1 TTAGGGAT
49443292 TTAGGG-T
1 TTAGGGAT
49443299 TTAGGGAT
1 TTAGGGAT
49443307 TTAGGG
1 TTAGGG
49443313 GTCGAGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (8 bp):
TTAGGGAT
Found at i:49443509 original size:7 final size:7
Alignment explanation
Indices: 49443497--49443533 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
49443487 ATAGATTTAG
49443497 GGATTAT
1 GGATTAT
*
49443504 GGATTAG
1 GGATTAT
49443511 GGATTAT
1 GGATTAT
*
49443518 GGATTAA
1 GGATTAT
49443525 GGATTAT
1 GGATTAT
49443532 GG
1 GG
49443534 TTTAAGGGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (7 bp):
GGATTAT
Found at i:49443512 original size:14 final size:14
Alignment explanation
Indices: 49443493--49443533 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
49443483 GAGTATAGAT
49443493 TTAGGGATTATGGA
1 TTAGGGATTATGGA
49443507 TTAGGGATTATGGA
1 TTAGGGATTATGGA
*
49443521 TTAAGGATTATGG
1 TTAGGGATTATGG
49443534 TTTAAGGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:49443538 original size:14 final size:14
Alignment explanation
Indices: 49443476--49443540 Score: 67
Period size: 14 Copynumber: 4.6 Consensus size: 14
49443466 CTATTTTAAA
*
49443476 GTTTAAGGAGTATAG
1 GTTTAAGGATTAT-G
* *
49443491 ATTTAGGGATTATG
1 GTTTAAGGATTATG
* *
49443505 GATTAGGGATTATG
1 GTTTAAGGATTATG
*
49443519 GATTAAGGATTATG
1 GTTTAAGGATTATG
49443533 GTTTAAGG
1 GTTTAAGG
49443541 GTAAGGTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 33 0.77
15 10 0.23
ACGTcount: A:0.31, C:0.00, G:0.32, T:0.37
Consensus pattern (14 bp):
GTTTAAGGATTATG
Found at i:49462688 original size:22 final size:22
Alignment explanation
Indices: 49462653--49462698 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
49462643 TTTCTTGTTG
*
49462653 TTTTGCTACAATTTTGTTGCTA
1 TTTTGCTACAATTTTATTGCTA
** *
49462675 TTTTGCTATTATTTTATTGTTA
1 TTTTGCTACAATTTTATTGCTA
49462697 TT
1 TT
49462699 GTTTGGATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.17, C:0.09, G:0.11, T:0.63
Consensus pattern (22 bp):
TTTTGCTACAATTTTATTGCTA
Found at i:49465928 original size:3 final size:3
Alignment explanation
Indices: 49465920--49465982 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
49465910 CCTGAGCAGT
* *
49465920 AGA AGA AGA AG- AGA AAA AGA AGA ATA AG- AGA AGA A-A TAGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA
*
49465963 AG- AGA AGA AGA AGA ATA AGA
1 AGA AGA AGA AGA AGA AGA AGA
49465983 GAAAAATGGA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
2 7 0.14
3 41 0.84
4 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.05
Consensus pattern (3 bp):
AGA
Found at i:49465942 original size:17 final size:17
Alignment explanation
Indices: 49465920--49465988 Score: 86
Period size: 17 Copynumber: 4.1 Consensus size: 17
49465910 CCTGAGCAGT
49465920 AGAAGAAGAAGAGAAAA
1 AGAAGAAGAAGAGAAAA
*
49465937 AGAAGAATAAGAGAAGAA
1 AGAAGAAGAAGAGAA-AA
* *
49465955 A-TAGAAGAAGAGAAGA
1 AGAAGAAGAAGAGAAAA
*
49465971 AGAAGAATAAGAGAAAA
1 AGAAGAAGAAGAGAAAA
49465988 A
1 A
49465989 TGGAAGGAGC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
16 2 0.05
17 38 0.88
18 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (17 bp):
AGAAGAAGAAGAGAAAA
Found at i:49465948 original size:20 final size:20
Alignment explanation
Indices: 49465920--49465974 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
49465910 CCTGAGCAGT
49465920 AGAAGAAGA-AGAGAAAAAGA
1 AGAAGAAGAGA-AGAAAAAGA
* *
49465940 AGAATAAGAGAAGAAATAGA
1 AGAAGAAGAGAAGAAAAAGA
49465960 AGAAG-AGAAGAAGAA
1 AGAAGAAG-AGAAGAA
49465975 GAATAAGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 27 0.90
21 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (20 bp):
AGAAGAAGAGAAGAAAAAGA
Found at i:49465961 original size:34 final size:33
Alignment explanation
Indices: 49465923--49465994 Score: 117
Period size: 34 Copynumber: 2.2 Consensus size: 33
49465913 GAGCAGTAGA
49465923 AGAAGAAGAGAAAAAGAAGAATAAGAGAAGAAAT
1 AGAAGAAGAGAAAAAGAAGAATAAGAGAA-AAAT
*
49465957 AGAAGAAGAGAAGAAGAAGAATAAGAGAAAAAT
1 AGAAGAAGAGAAAAAGAAGAATAAGAGAAAAAT
*
49465990 GGAAG
1 AGAAG
49465995 GAGCTTCGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 8 0.22
34 28 0.78
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (33 bp):
AGAAGAAGAGAAAAAGAAGAATAAGAGAAAAAT
Found at i:49466908 original size:20 final size:21
Alignment explanation
Indices: 49466883--49466921 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
49466873 TTGAGGGAGA
*
49466883 AGAAGATAAAG-AGAAAGATG
1 AGAAGAAAAAGAAGAAAGATG
49466903 AGAAGAAAAAGAAGAAAGA
1 AGAAGAAAAAGAAGAAAGA
49466922 CACAAAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (21 bp):
AGAAGAAAAAGAAGAAAGATG
Found at i:49483152 original size:16 final size:16
Alignment explanation
Indices: 49483127--49483168 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
49483117 TATGTTCACG
*
49483127 GTAATGGAATAGAGCT
1 GTAATTGAATAGAGCT
*
49483143 GTAATTGAATAGAGTT
1 GTAATTGAATAGAGCT
49483159 GTAATT-AATA
1 GTAATTGAATA
49483169 ATTCAATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.33
Consensus pattern (16 bp):
GTAATTGAATAGAGCT
Found at i:49486507 original size:84 final size:84
Alignment explanation
Indices: 49486361--49486529 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
49486351 AAGTTCAGAT
* *
49486361 GAACGAAATCCTCCCAACCACAAAAAGCACCTCTCTGCAGGTGTTTTCCACATACCATATAGCAT
1 GAACGAAATCCTCCCAACCACAAAAAGCACATCTCTGCAGGTGTTTTCCACATACCAGATAGCAT
49486426 GTGAAATACATCTGCCTTG
66 GTGAAATACATCTGCCTTG
* *
49486445 GAACGAAATCCTCCCAACCACATAAAGCACATCTCTGTAGGTGTTTTCCACATACCAGATAGCAT
1 GAACGAAATCCTCCCAACCACAAAAAGCACATCTCTGCAGGTGTTTTCCACATACCAGATAGCAT
49486510 GTGAAATACATCTGCCTTG
66 GTGAAATACATCTGCCTTG
49486529 G
1 G
49486530 CACCAGTGTT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.24
Consensus pattern (84 bp):
GAACGAAATCCTCCCAACCACAAAAAGCACATCTCTGCAGGTGTTTTCCACATACCAGATAGCAT
GTGAAATACATCTGCCTTG
Found at i:49488508 original size:27 final size:27
Alignment explanation
Indices: 49488467--49488522 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
49488457 CTAAAAAAAG
*
49488467 AAATTTCCCATAGTCAAGTTCATACAT
1 AAATTTCCCACAGTCAAGTTCATACAT
49488494 AAATTTCCCACAGTCAAGTTCATACAT
1 AAATTTCCCACAGTCAAGTTCATACAT
49488521 AA
1 AA
49488523 TAAAACATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATTTCCCACAGTCAAGTTCATACAT
Found at i:49489500 original size:10 final size:10
Alignment explanation
Indices: 49489469--49489510 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
49489459 TCTAATTATA
49489469 ATAATTTATTT
1 ATAA-TTATTT
*
49489480 AT-ATGATTT
1 ATAATTATTT
49489489 ATAATTATTT
1 ATAATTATTT
*
49489499 ATAATAATTT
1 ATAATTATTT
49489509 AT
1 AT
49489511 TTATATTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 7 0.26
10 18 0.67
11 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
ATAATTATTT
Found at i:49489508 original size:20 final size:20
Alignment explanation
Indices: 49489469--49489510 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
49489459 TCTAATTATA
*
49489469 ATAATTTATTTATATGATTT
1 ATAATTTATTTATATAATTT
49489489 ATAA-TTATTTATAATAATTT
1 ATAATTTATTTAT-ATAATTT
49489509 AT
1 AT
49489511 TTATATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATAATTTATTTATATAATTT
Found at i:49489522 original size:14 final size:14
Alignment explanation
Indices: 49489464--49489515 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
49489454 TTTAATCTAA
49489464 TTATAATAATTTAT
1 TTATAATAATTTAT
*
49489478 TTATATGATTTATAATTAT
1 TTATA--A--TA-ATTTAT
49489497 TTATAATAATTTAT
1 TTATAATAATTTAT
49489511 TTATA
1 TTATA
49489516 TTGATTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 15 0.48
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
TTATAATAATTTAT
Found at i:49490424 original size:184 final size:184
Alignment explanation
Indices: 49490115--49490482 Score: 700
Period size: 184 Copynumber: 2.0 Consensus size: 184
49490105 ATGTTGGCAA
* *
49490115 GGAGGATGAAAGCATACCCTTACATCCCAAGAGTTTTCCAATAACCCCCGGAAGATATTCTTGAT
1 GGAGGATGAAAGCATACCCTGACATCCCAAGAGTTTTCCAAGAACCCCCGGAAGATATTCTTGAT
*
49490180 CAATTAAGGATAGATAGTTGTTTTATGCATGATGATTTTGAAATAATACTGTAATTATTTTGGGT
66 CAATTAAGGATAGATAGTCGTTTTATGCATGATGATTTTGAAATAATACTGTAATTATTTTGGGT
49490245 GTTATCTATATAAAAAAAATTCTATTTAGGTCAAAATCTGAAATTTTAAACAAT
131 GTTATCTATATAAAAAAAATTCTATTTAGGTCAAAATCTGAAATTTTAAACAAT
*
49490299 GGAGGATGAAAGCATACCCTGACATCCCAATAGTTTTCCAAGAACCCCCGGAAGATATTCTTGAT
1 GGAGGATGAAAGCATACCCTGACATCCCAAGAGTTTTCCAAGAACCCCCGGAAGATATTCTTGAT
49490364 CAATTAAGGATAGATAGTCGTTTTATGCATGATGATTTTGAAATAATACTGTAATTATTTTGGGT
66 CAATTAAGGATAGATAGTCGTTTTATGCATGATGATTTTGAAATAATACTGTAATTATTTTGGGT
49490429 GTTATCTATATAAAAAAAATTCTATTTAGGTCAAAATCTGAAATTTTAAACAAT
131 GTTATCTATATAAAAAAAATTCTATTTAGGTCAAAATCTGAAATTTTAAACAAT
49490483 TTTATCCTTT
Statistics
Matches: 180, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 180 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (184 bp):
GGAGGATGAAAGCATACCCTGACATCCCAAGAGTTTTCCAAGAACCCCCGGAAGATATTCTTGAT
CAATTAAGGATAGATAGTCGTTTTATGCATGATGATTTTGAAATAATACTGTAATTATTTTGGGT
GTTATCTATATAAAAAAAATTCTATTTAGGTCAAAATCTGAAATTTTAAACAAT
Found at i:49492954 original size:28 final size:28
Alignment explanation
Indices: 49492832--49493260 Score: 315
Period size: 28 Copynumber: 15.1 Consensus size: 28
49492822 TTATGACAGC
* * *
49492832 CCGTATGGACTATCTTTCAAGCAAAAAT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
**
49492860 TTGTAGGGACTATCTTTCATA-CAAGAGT
1 CCGTAGGGACTATCTTTCA-AGCAAGAGT
* * *
49492888 CGGTAGGGACTATCTTTCATGCAAGATT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
** *
49492916 TTGCAGGGACTATCTTTCAAGCAAGAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
* * *
49492944 CCATAGAGACTATCTTT-AATGCAAAAGT
1 CCGTAGGGACTATCTTTCAA-GCAAGAGT
** * *
49492972 CCACATGGATTATCTTTCAAGCAAGAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
* * * *
49493000 CCGTAAGGATTATCTTTCATGCAAGAGC
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
*
49493028 CCGCAGGGACTATCTTTATCTTTTAAGCAAGAGT
1 CCGTAGGGACTATC-TT-TC----AAGCAAGAGT
* ** * * * *
49493062 TCACAGAGACTATTTTTCATGCAAAAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
* ** * * * *
49493090 TCACAGGGACTCTGTTTCATGCAAGAGC
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
*
49493118 CCGTAGGGATTATCTTTCAAGCAAGAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
* * *** *
49493146 CTGCAATAACTATCTTTCATGCAAGAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
* * *
49493174 CTGCAAGGACTATCTTTCAAGCAAGAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
*
49493202 TCGTAGGGACTATCTTTCACA-CAAGAGT
1 CCGTAGGGACTATCTTTCA-AGCAAGAGT
*
49493230 CCGTAGGGACTATCTTTCAAGTAAGAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
49493258 CCG
1 CCG
49493261 CAGAAACTAA
Statistics
Matches: 319, Mismatches: 70, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
27 3 0.01
28 286 0.90
29 6 0.02
30 2 0.01
32 2 0.01
33 2 0.01
34 18 0.06
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (28 bp):
CCGTAGGGACTATCTTTCAAGCAAGAGT
Found at i:49493108 original size:118 final size:118
Alignment explanation
Indices: 49492926--49493263 Score: 327
Period size: 118 Copynumber: 2.9 Consensus size: 118
49492916 TTGCAGGGAC
* * *
49492926 TATCTTTCAAGCAAGAGTCCATAGAGACTATCTTTAATGCAAAAGTCCACATGGATTATCTTTCA
1 TATCTTTCAAGCAAGAGTCCACAGAGACTATCTTTAATGCAAAAGTCCACAGGGACTATCTTTCA
* *
49492991 AGCAAGAGTCCGTAAGGATTATCTTTCATGCAAGAGCCCGCAGGGACTATCTT
66 AGCAAGAGCCCGTAAGGATTATCTTTCAAGCAAGAGCCCGCAGGGACTATCTT
* * * * * * *
49493044 TATCTTTTAAGCAAGAGTTCACAGAGACTATTTTTCATGCAAAAGTTCACAGGGACTCTGTTTCA
1 TATCTTTCAAGCAAGAGTCCACAGAGACTATCTTTAATGCAAAAGTCCACAGGGACTATCTTTCA
* * * * *
49493109 TGCAAGAGCCCGTAGGGATTATCTTTCAAGCAAGAGTCTGCA---A-TAAC--
66 AGCAAGAGCCCGTAAGGATTATCTTTCAAGCAAGAGCCCGCAGGGACTATCTT
* * * **
49493156 TATCTTTCATGCAAGAGTCTGCA-AG-GACTATCTTTCAA-GCAAGAGTTCGTAGGGACTATCTT
1 TATCTTTCAAGCAAGAGTC--CACAGAGACTATCTTT-AATGCAAAAGTCCACAGGGACTATCTT
* * * * *
49493218 TCACA-CAAGAGTCCGTAGGGACTATCTTTCAAGTAAGAGTCCGCAG
63 TCA-AGCAAGAGCCCGTAAGGATTATCTTTCAAGCAAGAGCCCGCAG
49493264 AAACTAATTG
Statistics
Matches: 183, Mismatches: 32, Indels: 15
0.80 0.14 0.07
Matches are distributed among these distances:
112 83 0.45
113 3 0.02
114 5 0.03
115 1 0.01
118 91 0.50
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (118 bp):
TATCTTTCAAGCAAGAGTCCACAGAGACTATCTTTAATGCAAAAGTCCACAGGGACTATCTTTCA
AGCAAGAGCCCGTAAGGATTATCTTTCAAGCAAGAGCCCGCAGGGACTATCTT
Found at i:49493301 original size:20 final size:20
Alignment explanation
Indices: 49493276--49493318 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
49493266 ACTAATTGTA
*
49493276 AGTATGAATCCTTATGTATG
1 AGTATGAATCCTCATGTATG
49493296 AGTATGAATCCTCATGTATG
1 AGTATGAATCCTCATGTATG
49493316 AGT
1 AGT
49493319 CCACTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
AGTATGAATCCTCATGTATG
Found at i:49493340 original size:29 final size:29
Alignment explanation
Indices: 49493296--49493472 Score: 264
Period size: 29 Copynumber: 6.1 Consensus size: 29
49493286 CTTATGTATG
* *
49493296 AGTATGAATCCTCATGTATGAGTCCACTA
1 AGTATGAATCCACATGTATGAGTCCACCA
* * *
49493325 ATTATGAATCTACATGTATTAGTCCACCA
1 AGTATGAATCCACATGTATGAGTCCACCA
49493354 AGTATGAATCCACATGTATGAGTCCACCA
1 AGTATGAATCCACATGTATGAGTCCACCA
*
49493383 GGTATGAATCCACATGTATGAGTCCACCA
1 AGTATGAATCCACATGTATGAGTCCACCA
* * *
49493412 AGTATGAATCCACATGTATAAGTTCACCC
1 AGTATGAATCCACATGTATGAGTCCACCA
*
49493441 GGTATGAATCCACATGTATGAGTCCACCA
1 AGTATGAATCCACATGTATGAGTCCACCA
49493470 AGT
1 AGT
49493473 CTTTGTGATA
Statistics
Matches: 130, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 130 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (29 bp):
AGTATGAATCCACATGTATGAGTCCACCA
Found at i:49498739 original size:68 final size:69
Alignment explanation
Indices: 49498630--49498817 Score: 272
Period size: 68 Copynumber: 2.8 Consensus size: 69
49498620 TTTATCTGAC
* * * **
49498630 TCCATAGCCCAACTAAGGTCATACATTTTATGAACCCATGTTTAATGTCCTGGAAAACTCCATAT
1 TCCATAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATGTCCTGGAAAACTCCATAT
49498695 GTT-
66 GTTG
* ***
49498698 TCCATAGTCTAACTATGGTCTTACACATTATGAACCCATGTTTAATGTCCTGGTGGACTCCATAT
1 TCCATAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATGTCCTGGAAAACTCCATAT
49498763 GTTG
66 GTTG
*
49498767 T-CACAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATGTCCTG
1 TCCATAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATGTCCTG
49498818 ACGGGCTCCA
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
68 107 0.99
69 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (69 bp):
TCCATAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATGTCCTGGAAAACTCCATAT
GTTG
Found at i:49501783 original size:21 final size:21
Alignment explanation
Indices: 49501758--49501814 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
49501748 GCAGTATACA
*
49501758 ACACATAAAGTGCCTAAAACG
1 ACACATATAGTGCCTAAAACG
* * * *
49501779 ACACATGTGGTGCCTAATATG
1 ACACATATAGTGCCTAAAACG
49501800 ACACATATAGTGCCT
1 ACACATATAGTGCCT
49501815 GATCAGCAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (21 bp):
ACACATATAGTGCCTAAAACG
Found at i:49505042 original size:24 final size:24
Alignment explanation
Indices: 49505006--49505052 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 24
49504996 TGAAATATTT
49505006 TTTTTTATTTTATTTTGAGAAAATGA
1 TTTTTTA-TTTATTTT-AGAAAATGA
49505032 TTTTTTA-TTATTTTAGAAAAT
1 TTTTTTATTTATTTTAGAAAAT
49505053 TGAAAAACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
26 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.60
Consensus pattern (24 bp):
TTTTTTATTTATTTTAGAAAATGA
Found at i:49506703 original size:19 final size:19
Alignment explanation
Indices: 49506676--49506715 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
49506666 CCGGGCCCAA
*
49506676 AAAATCCAATACCCAAA-AC
1 AAAACCCAA-ACCCAAATAC
49506695 AAAACCCAAACCCAAATAC
1 AAAACCCAAACCCAAATAC
49506714 AA
1 AA
49506716 TCCAAACCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.60, C:0.33, G:0.00, T:0.07
Consensus pattern (19 bp):
AAAACCCAAACCCAAATAC
Found at i:49507103 original size:12 final size:12
Alignment explanation
Indices: 49507075--49507104 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49507065 TACTTATTCA
*
49507075 TTTTATTATTTG
1 TTTTCTTATTTG
49507087 TTTTCTTATTTG
1 TTTTCTTATTTG
49507099 TTTTCT
1 TTTTCT
49507105 GTTACAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.77
Consensus pattern (12 bp):
TTTTCTTATTTG
Found at i:49508143 original size:4 final size:4
Alignment explanation
Indices: 49508134--49508158 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
49508124 TTTGGTGTTC
49508134 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
49508159 CATGCCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:49509756 original size:23 final size:24
Alignment explanation
Indices: 49509729--49509780 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
49509719 TGTATCATTT
* *
49509729 TAAAAATACAATAAT-TAAAAAAG
1 TAAAAACAAAATAATATAAAAAAG
* *
49509752 TAAAAACAAAATTATATAAAAAAT
1 TAAAAACAAAATAATATAAAAAAG
49509776 TAAAA
1 TAAAA
49509781 TTTGTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (24 bp):
TAAAAACAAAATAATATAAAAAAG
Found at i:49510742 original size:20 final size:20
Alignment explanation
Indices: 49510717--49510762 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
49510707 TATATATATG
* **
49510717 ATTAAGAGATAATTATGTTA
1 ATTAAGACATAATTAACTTA
*
49510737 ATTAAGACATGATTAACTTA
1 ATTAAGACATAATTAACTTA
49510757 ATTAAG
1 ATTAAG
49510763 CTAGATTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.13, T:0.37
Consensus pattern (20 bp):
ATTAAGACATAATTAACTTA
Found at i:49512296 original size:13 final size:13
Alignment explanation
Indices: 49512278--49512303 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49512268 TTGGATCTGT
49512278 ACCAAAACAATCA
1 ACCAAAACAATCA
49512291 ACCAAAACAATCA
1 ACCAAAACAATCA
49512304 TGAAACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:49520617 original size:26 final size:23
Alignment explanation
Indices: 49520586--49520639 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 23
49520576 AGGTGGATCT
*
49520586 AAATTTTGAAAATAAATAAATAAATA
1 AAATTTTAAAAAT-AA-AAATAAA-A
49520612 AAATTTTAAAAATAAAAATAAAA
1 AAATTTTAAAAATAAAAATAAAA
49520635 AAATT
1 AAATT
49520640 ACAAAAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.22
24 7 0.26
25 2 0.07
26 12 0.44
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATTTTAAAAATAAAAATAAAA
Found at i:49520873 original size:2 final size:2
Alignment explanation
Indices: 49520866--49520891 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49520856 CACGTCCCTC
49520866 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
49520892 AAAATCTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:49523713 original size:2 final size:2
Alignment explanation
Indices: 49523706--49523730 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49523696 CAAAGCAATC
49523706 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
49523731 TTGGATGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Done.