Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 3 of 235
Found at i:526763 original size:18 final size:20
Alignment explanation
Indices: 526721--526757 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
526711 ATATTTTATG
*
526721 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
526740 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
526758 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:528972 original size:46 final size:46
Alignment explanation
Indices: 528920--529343 Score: 688
Period size: 46 Copynumber: 9.2 Consensus size: 46
528910 AGTGTGCTCT
528920 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
528966 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
529012 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
529058 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
529104 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
529150 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** **
529196 GTGATAAAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
**
529242 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
529288 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
529333 CTGATATGAAA
1 CTGATATGAAA
529344 CGGATAAACG
Statistics
Matches: 359, Mismatches: 19, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
45 11 0.03
46 348 0.97
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:529927 original size:31 final size:31
Alignment explanation
Indices: 529892--529953 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
529882 TTACACTACT
529892 GCATTTCATAGATTATCATGCAATCAATATC
1 GCATTTCATAGATTATCATGCAATCAATATC
*
529923 GCATTTCATGGATTATCATGCAATCAATATC
1 GCATTTCATAGATTATCATGCAATCAATATC
529954 TAGATTAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Consensus pattern (31 bp):
GCATTTCATAGATTATCATGCAATCAATATC
Found at i:534265 original size:51 final size:51
Alignment explanation
Indices: 534188--534712 Score: 281
Period size: 51 Copynumber: 10.9 Consensus size: 51
534178 AGGACTCGTT
* * * *
534188 GCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAAATTTGTAACTTATA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTATA
* * * *
534239 GCTTTAATTTGTTCCATTGTAACTTCAAGGAAATAAGATTTG-------TA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTATA
* **** * *
534283 GCTTTAATCTGCTCCACTGTTTTTTCAGGGAGATAAGATTTGTAACTTGTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTATA
* *
534334 GCTTTAATCTGTTCAACTGCAACTTCAGGGAAATAAGATTCG---C-TAT-
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTATA
* * * * *
534380 -CTTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTAACTTGTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTATA
* * * * *
534430 GCTTCAATCTGTTCCATTGCAACTTTAGGGAAATAAGA--T-TCAC-TCT-
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTATA
* * *
534476 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-T--C-TAT-
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTATA
* * ** ** * * **
534521 -CTTCAACCTACTCTGCTGCAACTTCAGGGAGATAAGATTTGTCAC-GGT-
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTATA
** * * *** * *
534569 GACTCCAATCCGTCCCACTGCAACTTCAGGGGTTTAGGATTTGTAACTTGTA
1 G-CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTATA
* * * * *
534621 GCTTTAATCTATTCCACTGCAACTTTAAGGAAATAGGA--T-TCAC--AT-
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTATA
* * * *
534666 -CCTCAATCTGTTCCACTTCAACTTCAGGGAGATAAGATTTGTAACTT
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTT
534713 CAATCTACTC
Statistics
Matches: 362, Mismatches: 85, Indels: 56
0.72 0.17 0.11
Matches are distributed among these distances:
44 65 0.18
45 107 0.30
46 3 0.01
47 9 0.02
48 10 0.03
49 4 0.01
50 32 0.09
51 131 0.36
52 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (51 bp):
GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTATA
Found at i:534406 original size:45 final size:45
Alignment explanation
Indices: 534193--535288 Score: 639
Period size: 44 Copynumber: 23.8 Consensus size: 45
534183 TCGTTGCTTT
* * *
534193 AATCTGCTCCGCTGCAACTTCAGGGAGATAAAATTTGTAACTTATAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG---C-TAT--CTTC
* * * * * * * *
534244 AATTTGTTCCATTGTAACTTCAAGGAAATAAGATTTG-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
**** * *
534288 AATCTGCTCCACTGTTTTTTCAGGGAGATAAGATTTGTAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG---C---TATCTTC
* * * *
534339 AATCTGTTCAACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* *
534384 AATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTAACTTGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG---C---TATCTTC
* * * * ** *
534435 AATCTGTTCCATTGCAACTTTAGGGAAATAAGATTCACTCTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
*
534480 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * ** *
534525 AACCTACTCTGCTGCAACTTCAGGGAGATAAGATTTG-TCACGGTGACTCC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-A---T--CTTC
* * * * *
534575 AATCCG-TCCCACTGCAACTTCAGGG-GTTTAGGATTTGTAACTTGTAGCTTT
1 AATCTGCT-CCACTGCAACTTCAGGGAG-ATAAGATTTG---C---TATCTTC
** * * * * ** *
534626 AATCTATTCCACTGCAACTTTAAGGAAATAGGATTCAC-ATCCTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * *
534670 AATCTGTTCCACTTCAACTTCAGGGAGATAAGATTTG-TAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * *** * *
534714 AATCTACTCTACTGCAACTTCAATAAGATAAGATTTG-TAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * * ** * * * *
534758 AATATACTCTACTATAACTTCAGTGAGATAAGATTT-ATAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* *
534802 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * * * *
534847 AATTTGCTCCACTGTAACTTCATGGAGATAAGATCT-ATAAT-TTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-ATCTTC
** * * *
534891 AATCTGCTCCACTATAACTTCAGGGAGATAAG-TTTAC-AACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * *
534934 AATCTACTCTACTGTAACTTC-GGAGAGATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGG-GAGATAAGATTTGCTATCTTC
* * * * * *
534979 GATCTACTCCACTGCAACTTCAGGGAGATAAGGTTT-ATAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * **
535023 AATCTGCTCTACTACAACTTCAAAGAGATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* ** * *
535068 AATCTGCTCCACTACAACTTCATAGAGATAATATTTG-TGA-CTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-ATCTTC
* * * *
535112 AATATGCTCCACTGTAACTTCAAGGAGATAAGATTTTCCATAATAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGC-T-AT--CTTC
* ** *
535162 AATC--CATCCCACTGCAACTTCATGGG-TATGGGATTTG-TAACTTC
1 AATCTGC-T-CCACTGCAACTTCA-GGGAGATAAGATTTGCTATCTTC
* * *
535206 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTATTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * * *
535251 AACCTGCTTCACTGCAACTTCGGGGAGATAAGGTTTGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC
535289 CATAATGATT
Statistics
Matches: 813, Mismatches: 177, Indels: 116
0.74 0.16 0.10
Matches are distributed among these distances:
42 3 0.00
43 33 0.04
44 306 0.38
45 264 0.32
46 6 0.01
47 3 0.00
48 6 0.01
49 6 0.01
50 52 0.06
51 131 0.16
52 1 0.00
56 1 0.00
57 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
Found at i:534425 original size:96 final size:96
Alignment explanation
Indices: 534193--535243 Score: 531
Period size: 89 Copynumber: 11.4 Consensus size: 96
534183 TCGTTGCTTT
* * * * *
534193 AATCTGCTCCGCTGCAACTTCAGGGAGATAAAATTTGTAACTTATAGCTTTAATTTGTTCCATTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * * * *
534258 TAACTTCAAGGAAATAAGATTTG-TAGCTTT
66 CAACTTCAGGGAAATAAGATTCGCTATCTTC
**** *
534288 AATCTGCTCCACTGTTTTTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCAACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
534353 CAACTTCAGGGAAATAAGATTCGCTATCTTC
66 CAACTTCAGGGAAATAAGATTCGCTATCTTC
* * *
534384 AATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCATTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * *
534449 CAACTTTAGGGAAATAAGATTCACTCTCTTC
66 CAACTTCAGGGAAATAAGATTCGCTATCTTC
* * * ** **
534480 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-T--C---TATCTTCAACCTACTCTGCTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * *
534539 CAACTTCAGGGAGATAAGATTTG-TCACGGTGACTCC
66 CAACTTCAGGGAAATAAGATTCGCT-A---T--CTTC
* * * *
534575 AATCCG-TCCCACTGCAACTTCAGGG-GTTTAGGATTTGTAACTTGTAGCTTTAATCTATTCCAC
1 AATCTGCT-CCACTGCAACTTCAGGGAG-ATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCAC
* * * * *
534638 TGCAACTTTAAGGAAATAGGATTCAC-ATCCTC
64 TGCAACTTCAGGGAAATAAGATTCGCTATCTTC
* * ** *
534670 AATCTGTTCCACTTCAACTTCAGGGAGATAAGATTTGTAAC-T-T--C---AATCTACTCTACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
** * * *
534728 CAACTTCA-ATAAGATAAGATTTG-TAACTTT
66 CAACTTCAGGGAA-ATAAGATTCGCTATCTTC
* * * ** * * *
534758 AATATACTCTACTATAACTTCAGTGAGATAAGA-TT-T-A----TAGCTTTAATCTGCTCTACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * *
534816 CAACTTCAGAGAGATAAGATTTGCTATCTTC
66 CAACTTCAGGGAAATAAGATTCGCTATCTTC
* * * * * * *
534847 AATTTGCTCCACTGTAACTTCATGGAGATAAGATCTATAA-TT-T--C---AATCTGCTCCACTA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * ** * *
534905 TAACTTCAGGGAGATAAG-TTTAC-AACTTT
66 CAACTTCAGGGAAATAAGATTCGCTATCTTC
* * * * ** **
534934 AATCTACTCTACTGTAACTTC-GGAGAGATAAGATTTG---C---TATCTTCGATCTACTCCACT
1 AATCTGCTCCACTGCAACTTCAGG-GAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACT
* * ** * *
534992 GCAACTTCAGGGAGATAAGGTT-TATAGCTTT
65 GCAACTTCAGGGAAATAAGATTCGCTATCTTC
* * ** * * * *
535023 AATCTGCTCTACTACAACTTCAAAGAGATAAGATTTG---C---TATCTTCAATCTGCTCCACTA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
** * * * *
535082 CAACTTCATAGAGATAATATTTG-TGA-CTTT
66 CAACTTCAGGGAAATAAGATTCGCT-ATCTTC
* * * * ** * * ** *
535112 AATATGCTCCACTGTAACTTCAAGGAGATAAGATTT-T-CCATAATAACTTCAATCCATCCCACT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC-TTGTAGCTTTAATCTGTTCCACT
* ** * *
535175 GCAACTTCATGGG-TATGGGATTTG-TAACTTC
65 GCAACTTCA-GGGAAATAAGATTCGCTATCTTC
535206 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
535244 TATTTTTAAC
Statistics
Matches: 760, Mismatches: 143, Indels: 106
0.75 0.14 0.11
Matches are distributed among these distances:
83 2 0.00
85 3 0.00
86 2 0.00
87 37 0.05
88 118 0.16
89 173 0.23
90 36 0.05
91 2 0.00
92 2 0.00
93 4 0.01
94 71 0.09
95 145 0.19
96 130 0.17
97 1 0.00
98 1 0.00
100 1 0.00
101 32 0.04
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (96 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
CAACTTCAGGGAAATAAGATTCGCTATCTTC
Found at i:534589 original size:191 final size:189
Alignment explanation
Indices: 534392--534751 Score: 517
Period size: 191 Copynumber: 1.9 Consensus size: 189
534382 TCAATCTGCT
* * *
534392 CCACTGCAATTTCAGGGAG-ATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCATTGCAACTTT
1 CCACTGCAACTTCAGGG-GTATAAGATTTGTAACTTGTAGCTTCAATCTATTCCACTGCAACTTT
*
534456 AGGGAAATAAGATTCAC-TCTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCTA
65 AAGGAAATAAGATTCACATC-C-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTCTA
* * * *
534520 TCTTCAACCTACTCTGCTGCAACTTCAGGGAGATAAGATTTGTCACGGTGACTCCAATCCGTC
127 ACTTCAACCTACTCTACTGCAACTTCAAGAAGATAAGATTTGTCACGGTGACTCCAATCCGTC
* * *
534583 CCACTGCAACTTCAGGGGTTTAGGATTTGTAACTTGTAGCTTTAATCTATTCCACTGCAACTTTA
1 CCACTGCAACTTCAGGGGTATAAGATTTGTAACTTGTAGCTTCAATCTATTCCACTGCAACTTTA
* * * *
534648 AGGAAATAGGATTCACATCCTCAATCTGTTCCACTTCAACTTCAGGGAGATAAGATTTGTAACTT
66 AGGAAATAAGATTCACATCCTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCTAACTT
* *
534713 CAATCTACTCTACTGCAACTTCAATAAGATAAGATTTGT
131 CAACCTACTCTACTGCAACTTCAAGAAGATAAGATTTGT
534752 AACTTTAATA
Statistics
Matches: 150, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
189 42 0.28
190 34 0.23
191 72 0.48
192 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (189 bp):
CCACTGCAACTTCAGGGGTATAAGATTTGTAACTTGTAGCTTCAATCTATTCCACTGCAACTTTA
AGGAAATAAGATTCACATCCTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCTAACTT
CAACCTACTCTACTGCAACTTCAAGAAGATAAGATTTGTCACGGTGACTCCAATCCGTC
Found at i:535000 original size:221 final size:221
Alignment explanation
Indices: 534668--535241 Score: 647
Period size: 221 Copynumber: 2.6 Consensus size: 221
534658 ATTCACATCC
* **
534668 TCAATCTGTTCCACTTCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTACTCTACTGCAACT
1 TCAATCTGCTCCACTT-AACTTCAGGGAGATAAGATTTACAACTTCAATCTACTCTACTGCAACT
* * * *
534733 TCAATAAGATAAGATTTGTAACTTTAATATACTCTACTATAACTTCAGTGAGATAAGATTTATAG
65 TCAATAAGATAAGATTTGTAACTTCAATATACTCCACTACAACTTCAGGGAGATAAGATTTATAG
* * * **
534798 CTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATTTGCTCCACTGTA
130 CTTTAATCTGCTCTACTACAACTTCAAAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACA
*
534863 ACTTCATGGAGATAAGATCTAT-AATT
195 ACTTCATAGAGATAAGATCTATGAATT
* *
534889 TCAATCTGCTCCACTATAACTTCAGGGAGATAAG-TTTACAACTTTAATCTACTCTACTGTAACT
1 TCAATCTGCTCCACT-TAACTTCAGGGAGATAAGATTTACAACTTCAATCTACTCTACTGCAACT
* * * * * * *
534953 TCGGA-GAGATAAGATTTGCTATCTTCGATCTACTCCACTGCAACTTCAGGGAGATAAGGTTTAT
65 TC-AATAAGATAAGATTTG-TAACTTCAATATACTCCACTACAACTTCAGGGAGATAAGATTTAT
535017 AGCTTTAATCTGCTCTACTACAACTTCAAAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTA
128 AGCTTTAATCTGCTCTACTACAACTTCAAAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTA
* * * *
535082 CAACTTCATAGAGATAATATTTGTGACTT
193 CAACTTCATAGAGATAAGATCTATGAATT
* * * * *
535111 T-AATATGCTCCACTGTAACTTCAAGGAGATAAGATTTTCCATAATAACTTCAATCCA-TCCCAC
1 TCAATCTGCTCCACT-TAACTTCAGGGAGATAAGA--TT---T-ACAACTTCAATCTACT-CTAC
** ** * * *
535174 TGCAACTTC-ATGGGTATGGGATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
58 TGCAACTTCAATAAG-ATAAGATTTGTAACTTCAATATACTCCACTACAACTTCAGGGAGATAAG
535238 ATTT
122 ATTT
535242 GTTATTTTTA
Statistics
Matches: 298, Mismatches: 41, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
220 40 0.13
221 177 0.59
222 5 0.02
224 2 0.01
226 1 0.00
227 43 0.14
228 30 0.10
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (221 bp):
TCAATCTGCTCCACTTAACTTCAGGGAGATAAGATTTACAACTTCAATCTACTCTACTGCAACTT
CAATAAGATAAGATTTGTAACTTCAATATACTCCACTACAACTTCAGGGAGATAAGATTTATAGC
TTTAATCTGCTCTACTACAACTTCAAAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTACAA
CTTCATAGAGATAAGATCTATGAATT
Found at i:535292 original size:139 final size:138
Alignment explanation
Indices: 535054--535338 Score: 363
Period size: 139 Copynumber: 2.1 Consensus size: 138
535044 AAAGAGATAA
* * * *
535054 GATTTGCTATCTTCAATCTGCTCCACTACAACTTCATAGAGATAATATTTGTGACTTTAATATGC
1 GATTTG-TAACTTCAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTGACTTTAACATGC
* *
535119 TCCACTGTAACTTCAAGGAGATAAGATTTTCCATAATAACTTCAATCCATCCCACTGCAACTTCA
65 TCCACTGCAACTTCAAGGAGATAAGATTTGCCATAATAACTTCAATCCATCCCACTGCAACTTCA
* *
535184 TGGGTATGG
130 GGGGTATAG
* * * * *
535193 GATTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTATTTTTAACCTGC
1 GATTTGTAACTTCAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTGA-CTTTAACATGC
* ** * * * *
535258 TTCACTGCAACTTCGGGGAGATAAGGTTTGCCATAATGATTTCAATCTATCCCACTGCAACTTCA
65 TCCACTGCAACTTCAAGGAGATAAGATTTGCCATAATAACTTCAATCCATCCCACTGCAACTTCA
*
535323 GGGGTATAT
130 GGGGTATAG
535332 GATTTGT
1 GATTTGT
535339 GATTTTTTTG
Statistics
Matches: 124, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
138 41 0.33
139 83 0.67
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (138 bp):
GATTTGTAACTTCAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTGACTTTAACATGCT
CCACTGCAACTTCAAGGAGATAAGATTTGCCATAATAACTTCAATCCATCCCACTGCAACTTCAG
GGGTATAG
Found at i:536200 original size:15 final size:16
Alignment explanation
Indices: 536180--536209 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
536170 CTCTCCTCTT
536180 TTTTTTTCT-TTTTTC
1 TTTTTTTCTATTTTTC
536195 TTTTTTTCTATTTTT
1 TTTTTTTCTATTTTT
536210 TTTATTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTTCTATTTTTC
Found at i:536208 original size:17 final size:17
Alignment explanation
Indices: 536176--536210 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
536166 TCTCCTCTCC
* *
536176 TCTTTTTTTTTCTTTTT
1 TCTTTTTTTCTATTTTT
536193 TCTTTTTTTCTATTTTT
1 TCTTTTTTTCTATTTTT
536210 T
1 T
536211 TTATTTAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (17 bp):
TCTTTTTTTCTATTTTT
Found at i:544660 original size:12 final size:12
Alignment explanation
Indices: 544636--544676 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
544626 CAAAAATAAA
544636 AATAAAT-AAGG
1 AATAAATAAAGG
544647 AATAAATAAAGG
1 AATAAATAAAGG
* *
544659 AATGAATAAAGA
1 AATAAATAAAGG
544671 AATAAA
1 AATAAA
544677 ATTTTGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (12 bp):
AATAAATAAAGG
Found at i:546805 original size:4 final size:4
Alignment explanation
Indices: 546792--546820 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
546782 TGGTTTTTTG
546792 AATT -ATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AA
546821 ATTTTGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:548535 original size:42 final size:42
Alignment explanation
Indices: 548481--548578 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 42
548471 TTCCATTTAG
*
548481 CTCTCACGAGCTTCAGTTTAA-CTCATAT-GAGTTTCCGTTCAA
1 CTCTTACGAGCTTCAGTTTAACCT-ATATAG-GTTTCCGTTCAA
** ** * *
548523 CTCTTTTGAGCTTTTGTTTAACCTTTATAGGTTTCCGTTCAG
1 CTCTTACGAGCTTCAGTTTAACCTATATAGGTTTCCGTTCAA
548565 CTCTTACGAGCTTC
1 CTCTTACGAGCTTC
548579 CATTCAACCA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
42 41 0.93
43 3 0.07
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.42
Consensus pattern (42 bp):
CTCTTACGAGCTTCAGTTTAACCTATATAGGTTTCCGTTCAA
Found at i:551797 original size:20 final size:21
Alignment explanation
Indices: 551766--551809 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
551756 AACTCAGTAA
551766 AAAATATTATTCCTAA-AAAAT
1 AAAATATTATT-CTAAGAAAAT
551787 AAAAT-TTATTCTAAGAAAAT
1 AAAATATTATTCTAAGAAAAT
551807 AAA
1 AAA
551810 TTTCCACTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 13 0.59
21 5 0.23
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAATATTATTCTAAGAAAAT
Found at i:553462 original size:31 final size:31
Alignment explanation
Indices: 553427--553486 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
553417 TTTAATTTGA
** * *
553427 TCAATTTTAGTTTTTATAGTTTTTGAATTGG
1 TCAATTTTAGCCTGTATAATTTTTGAATTGG
553458 TCAATTTTAGCCTGTATAATTTTTGAATT
1 TCAATTTTAGCCTGTATAATTTTTGAATT
553487 TTGAAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.07, G:0.13, T:0.55
Consensus pattern (31 bp):
TCAATTTTAGCCTGTATAATTTTTGAATTGG
Found at i:563388 original size:328 final size:321
Alignment explanation
Indices: 562798--563450 Score: 1126
Period size: 328 Copynumber: 2.0 Consensus size: 321
562788 ATGTAAAAGG
*
562798 TTTTTTCTGATGCAATCAATCATTATAAGCACTAAACTAAATAACTAACTATAACTAAAAGAACC
1 TTTTTTCCGATGCAATCAATCATTATAAGCACTAAACTAAATAACTAACTATAACTAAAAGAACC
*
562863 CATGCATTTACATAAGGTGAGACTCAAATCGCAAAGTCTCTAGGGCCTCAATCTTGCCATTGAGC
66 CATGCATTTACATAAGATGAGACTCAAATCGCAAAGTCTCTAGGGCCTCAATCTTGCCATTGAGC
*
562928 CAAGGCCTCATTGGTGTAAATGATAAATGCTAGTGATTTTGTTTTTGTTTGAAAAGCTAGAAAAA
131 CAAGGCCTCATTGGTGTAAACGATAAATGCTAGTGATTTTGTTTTTGTTTGAAAAGCTAGAAAAA
* *
562993 GAGTGCAAACCTAAAAACCACATAGAGAACAATGAGAGATATTATCATCCTCTTTAACATCAGGT
196 GAGTGCAAACCTAAAAACCACATAGAGAACAATAAGAGATATTATCATCCTCCTTAACATCAGGT
563058 GAAACTGCATCATCTTTCATGACAAGGGGAAATGGTAACAATGGTTCCATTTGGAAATTGA
261 GAAACTGCATCATCTTTCATGACAAGGGGAAATGGTAACAATGGTTCCATTTGGAAATTGA
*
563119 TTTTTTCCGATGCAATCAATCATTATAAGCACTAAACTAAATAATTAACTATAACTAAAAGAACC
1 TTTTTTCCGATGCAATCAATCATTATAAGCACTAAACTAAATAACTAACTATAACTAAAAGAACC
* *
563184 CATGCATTTACATACATAAGATGAGACTCAAATCTCAAAGTCTGTAGGGCCTCAATCTTGCCATT
66 CATGCA-TT---TACATAAGATGAGACTCAAATCGCAAAGTCTCTAGGGCCTCAATCTTGCCATT
* *
563249 GAGCCAAGGCCTCATTGGTGTAAACGATAAATGCAAGTAGTGATTTTGTTTTTGTTTGGACAGCT
127 GAGCCAAGGCCTCATTGGTGTAAACGATAAATGC---TAGTGATTTTGTTTTTGTTTGAAAAGCT
* *
563314 AGAAAAAGAGTGCAAACCTCAAAATCACATAGAGAACAATAAGAGATATTATCATCCTCCTTAAC
189 AGAAAAAGAGTGCAAACCTAAAAACCACATAGAGAACAATAAGAGATATTATCATCCTCCTTAAC
563379 ATCAGGTGAAACTGCATCATCTTTCATGACAAGGGGAAATGGTAACAATGGTTCCATTTGGAAAT
254 ATCAGGTGAAACTGCATCATCTTTCATGACAAGGGGAAATGGTAACAATGGTTCCATTTGGAAAT
*
563444 TGG
319 TGA
563447 TTTT
1 TTTT
563451 CCATGGATCT
Statistics
Matches: 312, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
321 69 0.22
322 2 0.01
325 83 0.27
328 158 0.51
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (321 bp):
TTTTTTCCGATGCAATCAATCATTATAAGCACTAAACTAAATAACTAACTATAACTAAAAGAACC
CATGCATTTACATAAGATGAGACTCAAATCGCAAAGTCTCTAGGGCCTCAATCTTGCCATTGAGC
CAAGGCCTCATTGGTGTAAACGATAAATGCTAGTGATTTTGTTTTTGTTTGAAAAGCTAGAAAAA
GAGTGCAAACCTAAAAACCACATAGAGAACAATAAGAGATATTATCATCCTCCTTAACATCAGGT
GAAACTGCATCATCTTTCATGACAAGGGGAAATGGTAACAATGGTTCCATTTGGAAATTGA
Found at i:571594 original size:25 final size:25
Alignment explanation
Indices: 571565--571612 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
571555 TTATAATATG
* * *
571565 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
571590 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
571613 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:571681 original size:20 final size:20
Alignment explanation
Indices: 571656--571714 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
571646 TAAACATGGT
* *
571656 ATGTATGGTATGCATATGAC
1 ATGTATGATATGCACATGAC
* *
571676 ATGTATGATATGCACATTAT
1 ATGTATGATATGCACATGAC
571696 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
571715 TGTATTCGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:571822 original size:24 final size:24
Alignment explanation
Indices: 571763--571883 Score: 183
Period size: 24 Copynumber: 5.0 Consensus size: 24
571753 GGAGGAAGTG
571763 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
571787 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
571812 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
571836 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
571859 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
571884 ATGATAAAGC
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
23 19 0.21
24 40 0.44
25 31 0.34
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:571835 original size:49 final size:48
Alignment explanation
Indices: 571763--571892 Score: 183
Period size: 49 Copynumber: 2.6 Consensus size: 48
571753 GGAGGAAGTG
571763 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTT-TGCCCCAGTTAT
*
571812 TAAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTTGCCCCAGTTAT
*
571859 TAAAAGAGGC-TAGGCCTCCAGTTATATGATAAAG
1 TAAAAG-GGCTTATGCC-CCAG-T-TATGATAAAG
571893 CAGCTATGCT
Statistics
Matches: 73, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
47 23 0.32
48 16 0.22
49 26 0.36
50 4 0.05
51 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (48 bp):
TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTTGCCCCAGTTAT
Found at i:572112 original size:31 final size:31
Alignment explanation
Indices: 572077--572140 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
572067 CGTTTACAGT
572077 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
572108 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
572139 AA
1 AA
572141 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:573930 original size:5 final size:6
Alignment explanation
Indices: 573916--574000 Score: 82
Period size: 6 Copynumber: 13.5 Consensus size: 6
573906 GAAGTCTAAG
* *
573916 AAAATA AAAATAA AACAATTA AAAATA AAAATA GAAACA-A AAAATG AAAATG
1 AAAATA AAAAT-A AA-AA-TA AAAATA AAAATA -AAA-ATA AAAATA AAAATA
* *
573968 AAAATA AAAATA AAACTA AAAATG AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
574001 GAGATAAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
5 1 0.01
6 50 0.75
7 9 0.13
8 6 0.09
9 1 0.01
ACGTcount: A:0.76, C:0.04, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:575570 original size:17 final size:16
Alignment explanation
Indices: 575531--575583 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 16
575521 AATCAAAATC
*
575531 AAATCAAATTAAATAAA
1 AAAT-AAATAAAATAAA
575548 CTAAATAAATAAAAATAAA
1 --AAATAAAT-AAAATAAA
*
575567 AAATAAGTAAAATAAA
1 AAATAAATAAAATAAA
575583 A
1 A
575584 GCAATGAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 9 0.29
17 7 0.23
18 4 0.13
19 11 0.35
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (16 bp):
AAATAAATAAAATAAA
Found at i:583921 original size:47 final size:48
Alignment explanation
Indices: 583836--583930 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 48
583826 TTAAAATTTC
* * *
583836 TTTTATATTTATTTATTTTAAGCTACTTTAGTATTATTTATTTTAAGT
1 TTTTATATTTATTTATTTGAAACTACTTTAGTATTATTTACTTTAAGT
* *
583884 TTTTATATATTATTTGTTTGAAACT-TTTTA-TATTATTTACTTTAAGT
1 TTTTATAT-TTATTTATTTGAAACTACTTTAGTATTATTTACTTTAAGT
583931 CGCTTTATTC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 16 0.39
48 12 0.29
49 13 0.32
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.62
Consensus pattern (48 bp):
TTTTATATTTATTTATTTGAAACTACTTTAGTATTATTTACTTTAAGT
Found at i:584019 original size:25 final size:25
Alignment explanation
Indices: 583977--584026 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
583967 TTTACTTTAA
583977 TTTCATTTTATGAATATT-ATGTTG
1 TTTCATTTTATGAATATTAATGTTG
*
584001 TTTCATTGTTATGATTATTAATGTTG
1 TTTCATT-TTATGAATATTAATGTTG
584027 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 10 0.43
26 6 0.26
ACGTcount: A:0.24, C:0.04, G:0.14, T:0.58
Consensus pattern (25 bp):
TTTCATTTTATGAATATTAATGTTG
Found at i:593675 original size:21 final size:21
Alignment explanation
Indices: 593637--593676 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
593627 AAAAACTTAG
** *
593637 AATAAAATAGTATTAAAAAGA
1 AATAAAATAAAATAAAAAAGA
593658 AATAAAATAAAATAAAAAA
1 AATAAAATAAAATAAAAAA
593677 ATAATTTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AATAAAATAAAATAAAAAAGA
Found at i:609670 original size:38 final size:38
Alignment explanation
Indices: 609615--609688 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
609605 AGTACATTTG
*
609615 TCATAATTAATCAGAGTTGATTGCACACTTAGAGATTA
1 TCATAATTAAGCAGAGTTGATTGCACACTTAGAGATTA
*
609653 TCATAATTAAGCGGAGTTGATTGCACACTTAGAGAT
1 TCATAATTAAGCAGAGTTGATTGCACACTTAGAGAT
609689 AGGGTGACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (38 bp):
TCATAATTAAGCAGAGTTGATTGCACACTTAGAGATTA
Found at i:622888 original size:32 final size:32
Alignment explanation
Indices: 622844--622909 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
622834 AGCTTATCCC
*
622844 TAAGGCCGTCCTCAAAACGGACGCATCTCTCA
1 TAAGGCCATCCTCAAAACGGACGCATCTCTCA
622876 TAAGGCCATCCTCAAAACGGACGCATCTCTCA
1 TAAGGCCATCCTCAAAACGGACGCATCTCTCA
622908 TA
1 TA
622910 CTCAGACGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (32 bp):
TAAGGCCATCCTCAAAACGGACGCATCTCTCA
Found at i:626341 original size:31 final size:31
Alignment explanation
Indices: 626293--626468 Score: 246
Period size: 31 Copynumber: 5.7 Consensus size: 31
626283 TTAGTCTTGA
626293 CATAT-ACTGGGCCGAAGCCTTATCATAAAT
1 CATATCACTGGGCCGAAGCCTTATCATAAAT
*
626323 CATATCACTGGGCAGAAGCCTTATCATAAAT
1 CATATCACTGGGCCGAAGCCTTATCATAAAT
* * *
626354 CATATCTCTGGGCAGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTATCATAAAT
*
626385 CATATCACTAGGCCGAAGCCTTATCATAAAT
1 CATATCACTGGGCCGAAGCCTTATCATAAAT
* * * *
626416 CTTATCTCTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTATCATAAAT
* *
626447 CATATCATTGGGCTGAAGCCTT
1 CATATCACTGGGCCGAAGCCTT
626469 TACTGTAAAC
Statistics
Matches: 130, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
30 5 0.04
31 125 0.96
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTATCATAAAT
Found at i:626558 original size:17 final size:17
Alignment explanation
Indices: 626536--626570 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
626526 TGTATGAAAG
626536 CCCATTTGGGGAGACTA
1 CCCATTTGGGGAGACTA
626553 CCCATTTGGGGAGACTA
1 CCCATTTGGGGAGACTA
626570 C
1 C
626571 TCGACCCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.23
Consensus pattern (17 bp):
CCCATTTGGGGAGACTA
Found at i:626733 original size:25 final size:25
Alignment explanation
Indices: 626692--626775 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
626682 CTGGAGGCCT
626692 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
**
626716 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
626741 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
626767 AGCCCTTTT
1 AGCCCTTTT
626776 GCACTTCCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.09
24 5 0.09
25 33 0.62
26 10 0.19
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:627639 original size:27 final size:27
Alignment explanation
Indices: 627553--627628 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
627543 TATTCATCAT
*
627553 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCAC
* *
627580 TTTACCCTATAGGGGCTTTAGGGTCAC
1 TTTACCCTACAGGGGCTTTACGGTCAC
627607 TTTACCCTACAGGGGCTTTACG
1 TTTACCCTACAGGGGCTTTACG
627629 ATCTTTTTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 42 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCAC
Found at i:627723 original size:27 final size:27
Alignment explanation
Indices: 627693--627800 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 27
627683 GTAAATCTAC
627693 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
627720 AAACTAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
** *
627746 AGAAAGTTAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
627776 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
627801 ACAAATTGAG
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.02
27 39 0.59
28 7 0.11
29 18 0.27
30 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:627806 original size:27 final size:27
Alignment explanation
Indices: 627756--627909 Score: 168
Period size: 27 Copynumber: 5.7 Consensus size: 27
627746 AGAAAGTTAA
** *
627756 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAACCAG
**
627783 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
627809 AGGATATTTTAGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
* *
627837 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
627864 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
627891 GGGTATTTTAGCAATTTTA
1 GGGTATTTTGGTAATTTTA
627910 NNNNNNNNNN
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
26 2 0.02
27 103 0.97
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:640922 original size:21 final size:19
Alignment explanation
Indices: 640898--640941 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
640888 TAGGAGGTAA
640898 TTATAGCATTTAGATTAGTTT
1 TTATAGCATTT-GA-TAGTTT
* *
640919 TTATTGCATTTTATAGTTT
1 TTATAGCATTTGATAGTTT
640938 TTAT
1 TTAT
640942 TGGATTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 1 0.05
21 10 0.48
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (19 bp):
TTATAGCATTTGATAGTTT
Found at i:644133 original size:23 final size:22
Alignment explanation
Indices: 644074--644133 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
644064 TTCGCAAATT
*
644074 TTAAAATATTTTAATAGAGTAA
1 TTAAAATATTTTATTAGAGTAA
* * *
644096 TTTAAATATTATTATTATATTAA
1 TTAAAATATT-TTATTAGAGTAA
644119 TTAAAATTATTTTAT
1 TTAAAA-TATTTTAT
644134 CAGTTTAGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 9 0.29
23 18 0.58
24 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (22 bp):
TTAAAATATTTTATTAGAGTAA
Found at i:650812 original size:21 final size:21
Alignment explanation
Indices: 650782--650823 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
650772 TTTTCGAAAG
* *
650782 ATATGTATTGGATTGAATTGA
1 ATATGAATTGGATTAAATTGA
*
650803 ATATGAATTGTATTAAATTGA
1 ATATGAATTGGATTAAATTGA
650824 GTTAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (21 bp):
ATATGAATTGGATTAAATTGA
Found at i:651216 original size:25 final size:25
Alignment explanation
Indices: 651183--651251 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
651173 AGCATCCGAT
*
651183 TTTGGCTCTCACGAGTTTCTCAATA
1 TTTGGCTCTCACGAGCTTCTCAATA
**
651208 TTTGGCTCTCTTGAGCTTCTCAATA
1 TTTGGCTCTCACGAGCTTCTCAATA
** * *
651233 AATGGCTCGCAAGAGCTTC
1 TTTGGCTCTCACGAGCTTC
651252 CAGTTATACA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (25 bp):
TTTGGCTCTCACGAGCTTCTCAATA
Found at i:651299 original size:50 final size:50
Alignment explanation
Indices: 651219--651328 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 50
651209 TTGGCTCTCT
* * *
651219 TGAGCTTCTCAATAAATGGCTCGCAAGAGC-TTCCAGTTATACA-GCTCACA
1 TGAGCTTCCCAATAAATGGATCGAAAGAGCTTTCC-GTT-TACATGCTCACA
* * *
651269 TGAGCTTCCCATTATATGGATCGAAAGAGCTTTCCGTTTACATGCTCATA
1 TGAGCTTCCCAATAAATGGATCGAAAGAGCTTTCCGTTTACATGCTCACA
651319 TGAGCATTCC
1 TGAGC-TTCC
651329 TGAATATGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
49 4 0.08
50 39 0.76
51 8 0.16
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (50 bp):
TGAGCTTCCCAATAAATGGATCGAAAGAGCTTTCCGTTTACATGCTCACA
Found at i:659221 original size:3 final size:3
Alignment explanation
Indices: 659213--659253 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
659203 AATAAAAAGA
659213 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
659254 GTGTGTATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:666828 original size:18 final size:18
Alignment explanation
Indices: 666802--666836 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
666792 ATTATTTATT
*
666802 TATTGTTATTAAGTAAAA
1 TATTGTTATTAAATAAAA
*
666820 TATTTTTATTAAATAAA
1 TATTGTTATTAAATAAA
666837 TAATTATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
TATTGTTATTAAATAAAA
Found at i:668088 original size:35 final size:35
Alignment explanation
Indices: 668042--668113 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
668032 ATCCGCCAAA
668042 GTCTGAATCTATTAATAAGAGTAATTAAAGGAAAG
1 GTCTGAATCTATTAATAAGAGTAATTAAAGGAAAG
*
668077 GTCTGAATCTATTAATAGGAGTAATTAAAGGAAAG
1 GTCTGAATCTATTAATAAGAGTAATTAAAGGAAAG
668112 GT
1 GT
668114 TAAACTGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.29
Consensus pattern (35 bp):
GTCTGAATCTATTAATAAGAGTAATTAAAGGAAAG
Found at i:673711 original size:25 final size:25
Alignment explanation
Indices: 673683--673759 Score: 91
Period size: 25 Copynumber: 3.1 Consensus size: 25
673673 AGCTTCCCAT
* * *
673683 TATTTAGCTCTTATAAGCATCCTGA
1 TATTTGGCTCTCATAAGCATCCCGA
*
673708 TATTTGGCTCTCATAAGCTTCCCGA
1 TATTTGGCTCTCATAAGCATCCCGA
* * *
673733 TATTTGGCTCTCTTGAGCTTCCCGA
1 TATTTGGCTCTCATAAGCATCCCGA
673758 TA
1 TA
673760 AATGGCTCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.39
Consensus pattern (25 bp):
TATTTGGCTCTCATAAGCATCCCGA
Found at i:673765 original size:25 final size:25
Alignment explanation
Indices: 673712--673781 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
673702 TCCTGATATT
* **
673712 TGGCTCTCATAAGCTTCCCGATATT
1 TGGCTCTCATGAGCTTCCCGATAAA
*
673737 TGGCTCTCTTGAGCTTCCCGATAAA
1 TGGCTCTCATGAGCTTCCCGATAAA
* *
673762 TGGCTCACAAGAGCTTCCCG
1 TGGCTCTCATGAGCTTCCCG
673782 TTATACAACT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (25 bp):
TGGCTCTCATGAGCTTCCCGATAAA
Found at i:673793 original size:25 final size:25
Alignment explanation
Indices: 673765--673837 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
673755 CGATAAATGG
673765 CTCACAAGAGCTTCCCGTTATACAA
1 CTCACAAGAGCTTCCCGTTATACAA
* * * **
673790 CTCACATGAGATTCCCTTTATACGG
1 CTCACAAGAGCTTCCCGTTATACAA
*
673815 CTCGA-AAGAGCTTCTCGTT-TACA
1 CTC-ACAAGAGCTTCCCGTTATACA
673838 TGCTCGTATG
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
24 3 0.08
25 33 0.89
26 1 0.03
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (25 bp):
CTCACAAGAGCTTCCCGTTATACAA
Found at i:687840 original size:16 final size:17
Alignment explanation
Indices: 687811--687843 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
687801 ATTATCACAT
687811 GTTTTTTTAAAATATTTA
1 GTTTTTTT-AAATATTTA
687829 GTTTTTTT-AATATTT
1 GTTTTTTTAAATATTT
687844 TATTATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
GTTTTTTTAAATATTTA
Found at i:688728 original size:88 final size:88
Alignment explanation
Indices: 688579--688753 Score: 287
Period size: 88 Copynumber: 2.0 Consensus size: 88
688569 CATCATGGAT
* * *
688579 ATGAATATATAAATACGAAGAAAGATATATTCAGGGTTGATTGAGTCTTAGCTTGGCTAATAACG
1 ATGAATATATAAATACGAAGAAAGATATATTCAGGGTCGACTAAGTCTTAGCTTGGCTAATAACG
* *
688644 ATATTATTGATAGTACAAGAGGC
66 ATATCATTGATAATACAAGAGGC
688667 ATGAATATATAAATACGAAGAAAGATATATTCAGGGTCGACTAAGTCTTAGCTTGGCTAATAACG
1 ATGAATATATAAATACGAAGAAAGATATATTCAGGGTCGACTAAGTCTTAGCTTGGCTAATAACG
* *
688732 GTATCATTGATAATGCAAGAGG
66 ATATCATTGATAATACAAGAGG
688754 ACGTGAGTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 80 1.00
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (88 bp):
ATGAATATATAAATACGAAGAAAGATATATTCAGGGTCGACTAAGTCTTAGCTTGGCTAATAACG
ATATCATTGATAATACAAGAGGC
Found at i:690473 original size:49 final size:49
Alignment explanation
Indices: 690378--690474 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 49
690368 ATCTATTTAT
* * * * *
690378 AGGTTGAAAAACCTTATTCTAATCAATGTCAAATAGATGAAGTATAGTA
1 AGGTTGAAAAACATTATTCTAATAAATGTAAAATAAAAGAAGTATAGTA
*
690427 AGGTTGAAAAACATTATTCTAATAAATGTAAAATAAAAGAATTATAGT
1 AGGTTGAAAAACATTATTCTAATAAATGTAAAATAAAAGAAGTATAGT
690475 TCTATATGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.31
Consensus pattern (49 bp):
AGGTTGAAAAACATTATTCTAATAAATGTAAAATAAAAGAAGTATAGTA
Found at i:692012 original size:34 final size:34
Alignment explanation
Indices: 691974--692039 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
691964 TTTTAACCTT
*
691974 AAACCTTG-ACCCCAAACCCCAAACTCTAAACTCC
1 AAACCTCGAACCCCAAA-CCCAAACTCTAAACTCC
* *
692008 AAACCTCGAACCTCAAACTCAAACTCTAAACT
1 AAACCTCGAACCCCAAACCCAAACTCTAAACT
692040 TGAACCCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 21 0.75
35 7 0.25
ACGTcount: A:0.41, C:0.39, G:0.03, T:0.17
Consensus pattern (34 bp):
AAACCTCGAACCCCAAACCCAAACTCTAAACTCC
Found at i:693131 original size:14 final size:14
Alignment explanation
Indices: 693108--693143 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
693098 TACAATATCC
693108 AAATAATAGCAACA
1 AAATAATAGCAACA
*
693122 AAATAGTAGCAACA
1 AAATAATAGCAACA
*
693136 TAATAATA
1 AAATAATA
693144 AAATGGTAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.61, C:0.11, G:0.08, T:0.19
Consensus pattern (14 bp):
AAATAATAGCAACA
Found at i:693814 original size:16 final size:17
Alignment explanation
Indices: 693795--693827 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
693785 AATTTAAAAA
*
693795 TAAAAA-AATAAATTTC
1 TAAAAATAAAAAATTTC
693811 TAAAAATAAAAAATTTC
1 TAAAAATAAAAAATTTC
693828 AAATTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAAATAAAAAATTTC
Found at i:693836 original size:22 final size:20
Alignment explanation
Indices: 693784--693838 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 20
693774 TTAAATTTTG
693784 AAATTTAAAAATAAAAAAAT
1 AAATTTAAAAATAAAAAAAT
*
693804 AAATTTCTAAAAATAAAAAATTT
1 AAA-TT-TAAAAATAAAAAA-AT
693827 CAAATTTAAAAA
1 -AAATTTAAAAA
693839 AATACATCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.10
21 2 0.07
22 19 0.63
23 3 0.10
24 3 0.10
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATTTAAAAATAAAAAAAT
Found at i:693839 original size:24 final size:22
Alignment explanation
Indices: 693790--693842 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
693780 TTTGAAATTT
**
693790 AAAAATAAAAAAATAAATTTCT
1 AAAAATAAAAAAATAAATTTAA
*
693812 AAAAATAAAAAATTTCAAATTTAA
1 AAAAATAAAAAA-AT-AAATTTAA
693836 AAAAATA
1 AAAAATA
693843 CATCACATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 12 0.46
23 1 0.04
24 13 0.50
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAATAAAAAAATAAATTTAA
Found at i:698983 original size:29 final size:28
Alignment explanation
Indices: 698937--698991 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
698927 ACTTTTGTTA
* *
698937 AATACATGTATCAGATTAGACAAAAAAAT
1 AATACAAGTACCAGATTAGA-AAAAAAAT
*
698966 AATACAAGTACCATATTAGAAAAAAA
1 AATACAAGTACCAGATTAGAAAAAAA
698992 TATTAAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.58, C:0.11, G:0.09, T:0.22
Consensus pattern (28 bp):
AATACAAGTACCAGATTAGAAAAAAAAT
Found at i:701139 original size:60 final size:59
Alignment explanation
Indices: 701075--701218 Score: 166
Period size: 60 Copynumber: 2.4 Consensus size: 59
701065 TATTTCTTAT
* *
701075 ATACTTAAATTTAATATCACTTATTT-TATTTATTTATTTATTTATTCTTTTACATTTTAA
1 ATACTTAAATTTAATATTACTTATTTCTATTTATATATTTA-TTATTCTTTTA-ATTTTAA
* * * *
701135 ATACTCAAATTCAATATTA-TTTTTTGCCTATTTATATATTTATTATTCTTTTATTTTTAA
1 ATACTTAAATTTAATATTACTTATTT--CTATTTATATATTTATTATTCTTTTAATTTTAA
* *
701195 ATATTTAAATTTGATATTACTTAT
1 ATACTTAAATTTAATATTACTTAT
701219 ACTTCCCTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
59 5 0.07
60 37 0.54
61 14 0.20
62 13 0.19
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.58
Consensus pattern (59 bp):
ATACTTAAATTTAATATTACTTATTTCTATTTATATATTTATTATTCTTTTAATTTTAA
Found at i:708087 original size:9 final size:10
Alignment explanation
Indices: 708069--708098 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
708059 CTTTGAAACC
708069 AAAAGAAAAA
1 AAAAGAAAAA
708079 AAAAGAAAAA
1 AAAAGAAAAA
708089 AAAAGGAAAA
1 AAAA-GAAAA
708099 GCTAAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:709059 original size:88 final size:88
Alignment explanation
Indices: 708910--709075 Score: 242
Period size: 88 Copynumber: 1.9 Consensus size: 88
708900 GTGAATTCAC
* * * * * *
708910 AGATCTTATCTTCCTAAGCATTAGTGAAGCGAATCGAAGACAATGAGCCTTAACCTCCTAAGTAG
1 AGATCTTATCTCCCTAAGCAGTAGTGAAGCAAATCAAAGACAATGAGCCTTAACCCCCTAAGCAG
708975 TAGGGTAACAGGCCGAAGATTGT
66 TAGGGTAACAGGCCGAAGATTGT
* * **
708998 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACGGTGAGCCTTAACCCCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGAAGCAAATCAAAGACAATGAGCCTTAACCCCCTAAGCAG
709063 TAGGGTAACAGGC
66 TAGGGTAACAGGC
709076 TGAAAATTAC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 68 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (88 bp):
AGATCTTATCTCCCTAAGCAGTAGTGAAGCAAATCAAAGACAATGAGCCTTAACCCCCTAAGCAG
TAGGGTAACAGGCCGAAGATTGT
Found at i:709098 original size:88 final size:88
Alignment explanation
Indices: 708903--709100 Score: 236
Period size: 88 Copynumber: 2.2 Consensus size: 88
708893 AACATCGGTG
* * * * *
708903 AATTCACAGATCTTATCTTCCTAAGCATTAGTGAAGCGAATCGAAGACAATGAGCCTTAACCTCC
1 AATTCA-AGATCTTATCTCCCTAAGCAGTAGTGAAGCAAATCAAAGACAATGAGCCTTAACCCCC
*
708968 TAAGTAGTAGGGTAACAGGCCGAA
65 TAAGCAGTAGGGTAACAGGCCGAA
* ** * * **
708992 GATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACGGTGAGCCTTAACCCCCT
1 AATTCAAGATCTTATCTCCCTAAGCAGTAGTGAAGCAAATCAAAGACAATGAGCCTTAACCCCCT
*
709057 AAGCAGTAGGGTAACAGGCTGAA
66 AAGCAGTAGGGTAACAGGCCGAA
*
709080 AATTACAAG-TTTTATCTCCCT
1 AATT-CAAGATCTTATCTCCCT
709101 GAAGTTGCAG
Statistics
Matches: 89, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
88 84 0.94
89 5 0.06
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (88 bp):
AATTCAAGATCTTATCTCCCTAAGCAGTAGTGAAGCAAATCAAAGACAATGAGCCTTAACCCCCT
AAGCAGTAGGGTAACAGGCCGAA
Found at i:709271 original size:14 final size:14
Alignment explanation
Indices: 709252--709281 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
709242 ATCTCCCTAA
*
709252 AGTTGCAGTGGAGC
1 AGTTGCAGTAGAGC
709266 AGTTGCAGTAGAGC
1 AGTTGCAGTAGAGC
709280 AG
1 AG
709282 ATTAAAAGCT
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:0.27, C:0.13, G:0.40, T:0.20
Consensus pattern (14 bp):
AGTTGCAGTAGAGC
Found at i:710067 original size:20 final size:20
Alignment explanation
Indices: 710027--710067 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
710017 ATCTGCTTAC
*
710027 TTCATTTTTTTATGTGTATT
1 TTCATTTTTTTATGTGCATT
*
710047 TTCATTTTTTTATTTGCATT
1 TTCATTTTTTTATGTGCATT
710067 T
1 T
710068 AAAAACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.71
Consensus pattern (20 bp):
TTCATTTTTTTATGTGCATT
Found at i:710315 original size:11 final size:12
Alignment explanation
Indices: 710293--710318 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
710283 GGGTAATGGC
710293 TTTTAGATTTTT
1 TTTTAGATTTTT
710305 TTTTAGATTTTT
1 TTTTAGATTTTT
710317 TT
1 TT
710319 ACTCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTAGATTTTT
Found at i:713931 original size:6 final size:6
Alignment explanation
Indices: 713922--713976 Score: 92
Period size: 6 Copynumber: 9.2 Consensus size: 6
713912 TCTGTACCTG
*
713922 ACTGTG ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT
*
713970 ACCGTT A
1 ACTGTT A
713977 TGGTATATTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (6 bp):
ACTGTT
Found at i:714119 original size:18 final size:18
Alignment explanation
Indices: 714096--714130 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
714086 TACTGAAAAA
714096 TTGATTGCTACCGAATAT
1 TTGATTGCTACCGAATAT
* *
714114 TTGATTGTTACTGAATA
1 TTGATTGCTACCGAATA
714131 AATGAATAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (18 bp):
TTGATTGCTACCGAATAT
Found at i:735249 original size:12 final size:12
Alignment explanation
Indices: 735232--735257 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
735222 TAGATTGAAG
735232 TCACAAATCTTA
1 TCACAAATCTTA
735244 TCACAAATCTTA
1 TCACAAATCTTA
735256 TC
1 TC
735258 TTTTTGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (12 bp):
TCACAAATCTTA
Found at i:735298 original size:45 final size:44
Alignment explanation
Indices: 735246--735385 Score: 131
Period size: 45 Copynumber: 3.1 Consensus size: 44
735236 AAATCTTATC
*
735246 ACAAATCTTATCTTTTTGAAGTTGCAGTGGAGCAAATTGAAGAT
1 ACAAATCTTATCTTTTTGAAGTTGCAGTGGAGCAAATTAAAGAT
* * * * * *
735290 AGCAAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGCT
1 A-CAAATCTTATCTTTTTGAAGTTGCAGTGGAGCAAATTAAAGAT
* * * *
735335 ACAAATCCTAT-TTCTTTGAAAGTTGTAGTGGAACAGATTAAA-ACT
1 ACAAATCTTATCTT-TTTG-AAGTTGCAGTGGAGCAAATTAAAGA-T
735380 ACAAAT
1 ACAAAT
735386 TACAAGTCTT
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
43 1 0.01
44 13 0.17
45 63 0.82
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (44 bp):
ACAAATCTTATCTTTTTGAAGTTGCAGTGGAGCAAATTAAAGAT
Found at i:735635 original size:44 final size:44
Alignment explanation
Indices: 735585--735836 Score: 246
Period size: 44 Copynumber: 5.8 Consensus size: 44
735575 TTGCAGATAG
* * *
735585 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAACA-CTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAA-AGCTA
* *
735629 CAAATCTTATCT--CT---TTTGCAGTGGAGTAGATTAAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
** * * *
735668 CAAATCTTATCTCTTTAAAATTGCAGTGGAGTAGATTAAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * **
735712 CAAATCTCATCTCCCTGAAGTTGTAGTAGAGTAGATTGAATATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * *
735756 CGAGTCTCATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
* *
735800 CAAGTCTAATCTCCCTGAAGTTGCAGTGGAGTAGATT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
735837 GGAGTAACAA
Statistics
Matches: 173, Mismatches: 29, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
38 1 0.01
39 31 0.18
41 1 0.01
42 2 0.01
44 138 0.80
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTA
Found at i:735740 original size:83 final size:83
Alignment explanation
Indices: 735585--735741 Score: 183
Period size: 83 Copynumber: 1.9 Consensus size: 83
735575 TTGCAGATAG
* * * ** *
735585 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAACACTACAAATCTTATCTCTTTTGCAG
1 CAAATCTTATCTCTCTAAAATTGCAGTAGAGCAGATTAACACTACAAATCTCATCTCTCCTGAAG
735650 TGGAGTAGATTAAAGTTA
66 TGGAGTAGATTAAAGTTA
* * * *
735668 CAAATCTTATCTCTTTAAAATTGCAGTGGAGTAGATTAA-AGTTACAAATCTCATCTC-CCTGAA
1 CAAATCTTATCTCTCTAAAATTGCAGTAGAGCAGATTAACA-CTACAAATCTCATCTCTCCTGAA
*
735731 GTTGTAGTAGA
65 G-TGGAGTAGA
735742 GTAGATTGAA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
82 5 0.08
83 56 0.92
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (83 bp):
CAAATCTTATCTCTCTAAAATTGCAGTAGAGCAGATTAACACTACAAATCTCATCTCTCCTGAAG
TGGAGTAGATTAAAGTTA
Found at i:736434 original size:17 final size:17
Alignment explanation
Indices: 736412--736446 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
736402 TTTTTTTGAA
736412 ACAAAAATAA-AAAAAAC
1 ACAAAAA-AATAAAAAAC
736429 ACAAAAAAATAAAAAAC
1 ACAAAAAAATAAAAAAC
736446 A
1 A
736447 GAACACAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.83, C:0.11, G:0.00, T:0.06
Consensus pattern (17 bp):
ACAAAAAAATAAAAAAC
Found at i:743913 original size:42 final size:42
Alignment explanation
Indices: 743849--744005 Score: 127
Period size: 42 Copynumber: 3.7 Consensus size: 42
743839 TCGTGTTTAC
* * * *
743849 TTTCCGTTTAGCTCTCACGAGCTTCTGTTCAACTCC-TATGAG
1 TTTCCATTCAGCTCTTATGAGCTTCTGTTCAAC-CCTTATGAG
* * * *
743891 TTTCCATTCAGCTCTTTTGAGCTTCTTTTTAACCCTTATGGG
1 TTTCCATTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGAG
*** * * *
743933 TTTTTGTTCAGCTCTTATGAGCTTCCGCTCAACCCTTATGGG
1 TTTCCATTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGAG
* * ** *
743975 TTTCTATTTAGGACTTATGTGCTTCTGTTCA
1 TTTCCATTCAGCTCTTATGAGCTTCTGTTCA
744006 GCTTTCTAGC
Statistics
Matches: 90, Mismatches: 24, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
41 2 0.02
42 88 0.98
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (42 bp):
TTTCCATTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGAG
Found at i:750036 original size:62 final size:58
Alignment explanation
Indices: 749904--750063 Score: 162
Period size: 63 Copynumber: 2.7 Consensus size: 58
749894 AATTCTTTTT
* * *
749904 AACCTTTAAAATTTTAAAAATTTTAATTATACCCCAAAAATTTTAGAATATCTTATTA
1 AACCTTTAAATTTTTAAAAATTTTAATTAGACCCCAAAAATTTTAGAATATCTCATTA
*
749962 AACCTTTCAAATTTTTAAAAATTTTTAATTAGATCCTTCC-AAAATTTTTGTCAAT-TCTCATTA
1 AACCTTT-AAATTTTTAAAAA-TTTTAATTAGA-CC--CCAAAAATTTTAG--AATATCTCATTA
** * *
750025 GCCCTTTAAATTTTTTGAAAATTTTAATTAAACCCCAAA
1 AACCTTTAAA-TTTTTAAAAATTTTAATTAGACCCCAAA
750064 TCTTAACACC
Statistics
Matches: 85, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
58 7 0.08
59 14 0.16
60 12 0.14
61 4 0.05
62 22 0.26
63 23 0.27
64 3 0.04
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.42
Consensus pattern (58 bp):
AACCTTTAAATTTTTAAAAATTTTAATTAGACCCCAAAAATTTTAGAATATCTCATTA
Found at i:751451 original size:29 final size:28
Alignment explanation
Indices: 751393--751451 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 28
751383 CGACTTATTT
* * **
751393 TATTTTAAAATTATTTAAAATATATTTA
1 TATTTTAAAATTATATAAAATAAACATA
*
751421 TATTTTATAATATATATAAAATAAACATA
1 TATTTTAAAAT-TATATAAAATAAACATA
751450 TA
1 TA
751452 ACTATAGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TATTTTAAAATTATATAAAATAAACATA
Found at i:752308 original size:30 final size:30
Alignment explanation
Indices: 752274--752333 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
752264 ACTTAACAAG
752274 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
752304 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
752334 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:758306 original size:11 final size:11
Alignment explanation
Indices: 758290--758319 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
758280 TTCTTAAAAT
758290 TTCTAAAGGGA
1 TTCTAAAGGGA
758301 TTCTAAAGGGA
1 TTCTAAAGGGA
758312 TTCTAAAG
1 TTCTAAAG
758320 TAATTTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (11 bp):
TTCTAAAGGGA
Found at i:759626 original size:29 final size:30
Alignment explanation
Indices: 759584--759664 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
759574 GGGGAGAAGG
* **
759584 TTAATGAAAATTTTCAAAATTTTAGGAG-T
1 TTAATTAAAATTTTCAAAATTTTAAAAGAT
*
759613 TTAATTAAAATTTTCAAATCTTTTAAAAGAT
1 TTAATTAAAATTTTCAAA-ATTTTAAAAGAT
* *
759644 CTAATTAAAATTTTTAAAATT
1 TTAATTAAAATTTTCAAAATT
759665 GTACAAGTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.40
30 9 0.21
31 17 0.40
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (30 bp):
TTAATTAAAATTTTCAAAATTTTAAAAGAT
Found at i:763522 original size:88 final size:87
Alignment explanation
Indices: 763406--763582 Score: 300
Period size: 88 Copynumber: 2.0 Consensus size: 87
763396 ATTGGTATCT
*
763406 AAATTAAGTTTTTTATCACTTACCGTAAATGATTTATTTGAATCAATTTAAACTTTTAAATCAAA
1 AAATTAAGTTTTTTATCACTTACCGTAAATGATTTATTTGAATCAATTTAAACTATTAAATCAAA
*
763471 TTTAGGTACTTAATTGTATAAA
66 TTTAAGTACTTAATTGTATAAA
* *
763493 AAATTAAGTTTTTTGGTCACTTACCGTAAATGATTTATTTGAATCAATTTAAACTATTAAATCAG
1 AAATTAAGTTTTTT-ATCACTTACCGTAAATGATTTATTTGAATCAATTTAAACTATTAAATCAA
*
763558 ATTTAAGTACTTTATTGTATAAA
65 ATTTAAGTACTTAATTGTATAAA
763581 AA
1 AA
763583 GAAAAAAACT
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 14 0.17
88 70 0.83
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (87 bp):
AAATTAAGTTTTTTATCACTTACCGTAAATGATTTATTTGAATCAATTTAAACTATTAAATCAAA
TTTAAGTACTTAATTGTATAAA
Found at i:766823 original size:18 final size:18
Alignment explanation
Indices: 766802--766885 Score: 53
Period size: 18 Copynumber: 4.6 Consensus size: 18
766792 TTAATAAATT
766802 TATTAAAATTATTTTTAA
1 TATTAAAATTATTTTTAA
* *
766820 TATTAATATT-TTATATAA
1 TATTAAAATTATT-TTTAA
* * **
766838 TTTTATAATTAAATTTAA
1 TATTAAAATTATTTTTAA
* * *
766856 TTTTAAAAATATTTTTTA
1 TATTAAAATTATTTTTAA
*
766874 TCATTTAAATTA
1 T-ATTAAAATTA
766886 AATTCAAATT
Statistics
Matches: 47, Mismatches: 16, Indels: 5
0.69 0.24 0.07
Matches are distributed among these distances:
17 2 0.04
18 38 0.81
19 7 0.15
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTAAAATTATTTTTAA
Found at i:774929 original size:8 final size:8
Alignment explanation
Indices: 774916--774940 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
774906 AGTTGATTAA
774916 TTAGTGTC
1 TTAGTGTC
774924 TTAGTGTC
1 TTAGTGTC
774932 TTAGTGTC
1 TTAGTGTC
774940 T
1 T
774941 AAAATTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.52
Consensus pattern (8 bp):
TTAGTGTC
Found at i:775946 original size:26 final size:26
Alignment explanation
Indices: 775896--775947 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
775886 TATATGTATT
*
775896 AAAATATATACGTAATAATAGAAATA
1 AAAATATATACGTAATAATAAAAATA
* * *
775922 AAAATGTATACGTAGTATTAAAAATA
1 AAAATATATACGTAATAATAAAAATA
775948 TATACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.29
Consensus pattern (26 bp):
AAAATATATACGTAATAATAAAAATA
Found at i:776152 original size:23 final size:23
Alignment explanation
Indices: 776107--776152 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
776097 AATACCTCAT
* *
776107 AAATATATACATATATATGTTAA
1 AAATAAATACATATATATATTAA
776130 AAATAAATACATAT-TAATATTAA
1 AAATAAATACATATAT-ATATTAA
776153 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAATACATATATATATTAA
Found at i:777848 original size:45 final size:45
Alignment explanation
Indices: 777784--777869 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
777774 CGATATCTAC
* *
777784 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTGT
777829 TATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAAAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAAAT
777870 TTGCTTCTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTGT
Found at i:778318 original size:205 final size:205
Alignment explanation
Indices: 777963--778473 Score: 713
Period size: 205 Copynumber: 2.5 Consensus size: 205
777953 AAATCTGCTT
* *
777963 CTTCGATTTGTTCTCTGACAATACAGAGAT-ATCAAATCATCTTAGATTTGCTTTAACTTAAGAA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGA-CAAATCATCTTAGATTTGCTTCAACGTAAGAA
* * * * *
778027 CGTGAAAGCCAAATCAGCTACGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAGACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATACCAAACCATCT
* *
778092 TGGATCTGCTTCAGTATAAACATCTGAAGGTTG-GATCTGCTATGTGTCTACCCTCAATCGAAGT
130 TGGATCTGCTTCAGCATAAACATCTGAAGG-TGAGATCTGCTATGTATCTACCCTCAATCGAAGT
* *
778156 GGAGATGTCAGA
194 AGAGATGCCAGA
* * * *
778168 TTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATTATCTTAGATTTGCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCAACGTAAGAAC
*
778233 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATACCAAACCATCTT
* * * *
778298 GGATCTGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCTATTGAAGTAG
131 GGATCTGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTACCCTCAATCGAAGTAG
778363 AGATGCCAGA
196 AGATGCCAGA
* ** * * *
778373 CTTCGATTTGTTCTCTGACACTACAGAGGCGACAAATCATATTGGATTTGCTTCATCGTAA-ATA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCAACGTAAGA-A
* * *
778437 CGTGAAAACCAAATCAGCTATATCTTCGATCTGCTCC
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCC
778474 CCGCCGAATA
Statistics
Matches: 269, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
204 2 0.01
205 267 0.99
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCAACGTAAGAAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATACCAAACCATCTT
GGATCTGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTACCCTCAATCGAAGTAG
AGATGCCAGA
Found at i:789618 original size:11 final size:9
Alignment explanation
Indices: 789599--789642 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
789589 TAACATAATA
789599 AAAATATAT
1 AAAATATAT
789608 ATAATATATAT
1 A-AA-ATATAT
*
789619 AAAATGTAT
1 AAAATATAT
789628 AAAATATAT
1 AAAATATAT
*
789637 ATAATA
1 AAAATA
789643 CATACACATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 19 0.63
10 4 0.13
11 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (9 bp):
AAAATATAT
Found at i:789622 original size:20 final size:20
Alignment explanation
Indices: 789599--789640 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
789589 TAACATAATA
*
789599 AAAATATATATAATATATAT
1 AAAATATATAAAATATATAT
*
789619 AAAATGTATAAAATATATAT
1 AAAATATATAAAATATATAT
789639 AA
1 AA
789641 TACATACACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATATATAAAATATATAT
Found at i:789746 original size:23 final size:23
Alignment explanation
Indices: 789701--789746 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
789691 AATACCTCAT
* *
789701 AAATATATACATATATATGTTAA
1 AAATAAATACATATATATATTAA
789724 AAATAAATACATAT-TAATATTAA
1 AAATAAATACATATAT-ATATTAA
789747 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAATACATATATATATTAA
Found at i:797826 original size:43 final size:43
Alignment explanation
Indices: 797762--797843 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
797752 TACTATGTGG
* *
797762 AAATAACAAGATAACACGACATTATACATATGATAATATATGA
1 AAATAACAAGATAACACGACATTACACATATGACAATATATGA
* * * *
797805 AAATAATAAGATGACATGACATTACATATATGACAATAT
1 AAATAACAAGATAACACGACATTACACATATGACAATAT
797844 GTTTGTCACA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.27
Consensus pattern (43 bp):
AAATAACAAGATAACACGACATTACACATATGACAATATATGA
Found at i:798583 original size:258 final size:257
Alignment explanation
Indices: 798107--798621 Score: 633
Period size: 258 Copynumber: 2.0 Consensus size: 257
798097 GGTAGAAACA
* * *
798107 AATCAATTGTCGTTGATGAAACCTTACAGAAGAAAAAAAAATACCAACTAAAAAAAAGTAAATTC
1 AATCAATTATCGTTGATGAAACCTTACAGAAGAAAAAAAAATACAAACTAAAAAAAAGCAAATTC
* * * **
798172 AGTGTGATAAATAGGAGTGTGAATACATTAAAGCTTGCAAGCCAAATAGCTTTAGCAACATGATC
66 AGTGTGACAAATAGGAGTGTGAATACATTAAAGCTTGCAAGCCAAATAGCTTCAACAACACAATC
* * * *
798237 GAGCAATAAAGTTCCCTGAATGTGCATCACTAAAAGAACATTGAAATACAACTGCACCTTTAGAG
131 GAGCAATAAAGTGCCCTAAATGTGCATCACTAAAAGAACATTGAAATACAACTGCACCATTAGAA
* * * * *
798302 TTATTGGGTTCTTAAAGCTAATAATCAAATACTTGTGTATACATGTCAATTCTTACATAAAT
196 TTATTGGGTTCTCAAAGCTAATAATCAAATACTTATGGATACATATCAATTCTCACATAAAT
* * * *
798364 AATCAATTATCGTTGGTGAAACCTTACGGAAGGAAAAAATAA-ACAAACTAAAAGAAAGCAAA-T
1 AATCAATTATCGTTGATGAAACCTTACAGAA-GAAAAAAAAATACAAACTAAAAAAAAGCAAATT
* * * *
798427 CTAGTGTGACAAATAGGAGTTTGACTTCATTAAAGCTTGCAATCCAAATAG-TTGGCAACAACAC
65 C-AGTGTGACAAATAGGAGTGTGAATACATTAAAGCTTGCAAGCCAAATAGCTT--CAACAACAC
** * * * * *
798491 AATCGAGCAATAAAGTGGTCTAAATGTGTAGT-ATTAGAGGAACATTGAAATCCAACTGCACCAT
127 AATCGAGCAATAAAGTGCCCTAAATGTGCA-TCACTAAAAGAACATTGAAATACAACTGCACCAT
** * *
798555 TAGAATTATTGGGTTCTCAAAGCTAATAATTTATTTCTTATGGATACATATCAATTCTCACATAA
191 TAGAATTATTGGGTTCTCAAAGCTAATAATCAAATACTTATGGATACATATCAATTCTCACATAA
798620 AT
256 AT
798622 TTGAAATTTT
Statistics
Matches: 217, Mismatches: 36, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
256 4 0.02
257 89 0.41
258 123 0.57
259 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (257 bp):
AATCAATTATCGTTGATGAAACCTTACAGAAGAAAAAAAAATACAAACTAAAAAAAAGCAAATTC
AGTGTGACAAATAGGAGTGTGAATACATTAAAGCTTGCAAGCCAAATAGCTTCAACAACACAATC
GAGCAATAAAGTGCCCTAAATGTGCATCACTAAAAGAACATTGAAATACAACTGCACCATTAGAA
TTATTGGGTTCTCAAAGCTAATAATCAAATACTTATGGATACATATCAATTCTCACATAAAT
Found at i:800620 original size:17 final size:17
Alignment explanation
Indices: 800598--800631 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
800588 ATGGAAACTA
800598 ATCTTAGAAGATTGGAT
1 ATCTTAGAAGATTGGAT
800615 ATCTTAGAAGATTGGAT
1 ATCTTAGAAGATTGGAT
800632 TTTGTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (17 bp):
ATCTTAGAAGATTGGAT
Found at i:802642 original size:18 final size:16
Alignment explanation
Indices: 802619--802653 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
802609 TCACATCAAT
802619 AATTAATTAATTTAAAAA
1 AATTAATT-A-TTAAAAA
802637 AATTAATTATTAAAAA
1 AATTAATTATTAAAAA
802653 A
1 A
802654 TATTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 1 0.06
18 8 0.47
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATTAATTATTAAAAA
Found at i:803660 original size:17 final size:17
Alignment explanation
Indices: 803638--803685 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
803628 CAAATAATTT
803638 AAAAATTATAAAAACAA
1 AAAAATTATAAAAACAA
***
803655 AAAAATTCAT-ATTTCAA
1 AAAAATT-ATAAAAACAA
803672 AAAAATTATAAAAA
1 AAAAATTATAAAAA
803686 ATTCATAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAATTATAAAAACAA
Found at i:805175 original size:16 final size:16
Alignment explanation
Indices: 805137--805184 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
805127 GATAAGAAAG
805137 TTAGAAAGATGAAAAA
1 TTAGAAAGATGAAAAA
*
805153 TTA-AAAGGTAGAAAAA
1 TTAGAAAGAT-GAAAAA
*
805169 -TAGAAAGATGGAAAA
1 TTAGAAAGATGAAAAA
805184 T
1 T
805185 ATAGTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.19
Consensus pattern (16 bp):
TTAGAAAGATGAAAAA
Found at i:807494 original size:29 final size:30
Alignment explanation
Indices: 807428--807495 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
807418 CATTTGAGAA
807428 GCCCTTATTTGAGCACGTTCAAAAAGGTTTG
1 GCCCTTATTTGAGCACGTTC-AAAAGGTTTG
* *
807459 GCTCTTATTTGAGCAC-TCTC-AAAGTTTTG
1 GCCCTTATTTGAGCACGT-TCAAAAGGTTTG
807488 GCCCTTAT
1 GCCCTTAT
807496 CGAAGCACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 15 0.45
30 1 0.03
31 17 0.52
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (30 bp):
GCCCTTATTTGAGCACGTTCAAAAGGTTTG
Found at i:809681 original size:24 final size:23
Alignment explanation
Indices: 809654--809700 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
809644 TATAATTCTT
809654 TATT-TTTTTTAAAGATTTATTTAG
1 TATTATTTTTTAAA-A-TTATTTAG
809678 TATTAATTTTTTAAAATTATTTA
1 TATT-ATTTTTTAAAATTATTTA
809701 AATATCTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 1 0.05
26 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TATTATTTTTTAAAATTATTTAG
Found at i:809980 original size:30 final size:29
Alignment explanation
Indices: 809941--810008 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
809931 TCATATTGTT
**
809941 TTATGTATATAT-TTT-CTTTTAAATCTA
1 TTATGTATATATATTTCCTTGCAAATCTA
809968 TTTATGTATATATATTTCCTTGCAAATCTA
1 -TTATGTATATATATTTCCTTGCAAATCTA
809998 TTATGTATATA
1 TTATGTATATA
810009 GTTTATTCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 12 0.33
29 14 0.39
30 10 0.28
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (29 bp):
TTATGTATATATATTTCCTTGCAAATCTA
Found at i:813932 original size:18 final size:18
Alignment explanation
Indices: 813898--813931 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
813888 ATAACTTTTA
*
813898 AAAGTAAAAATTGAAAAT
1 AAAGTAAAAATCGAAAAT
813916 AAAGT-AAAATCGAAAA
1 AAAGTAAAAATCGAAAA
813932 AAGAGAGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.68, C:0.03, G:0.12, T:0.18
Consensus pattern (18 bp):
AAAGTAAAAATCGAAAAT
Found at i:815398 original size:18 final size:19
Alignment explanation
Indices: 815368--815403 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
815358 GAAAAGAATT
815368 TAGAAATAATATATAAATC
1 TAGAAATAATATATAAATC
815387 TAGAAA-AATATATAAAT
1 TAGAAATAATATATAAAT
815404 TATAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (19 bp):
TAGAAATAATATATAAATC
Found at i:815411 original size:18 final size:18
Alignment explanation
Indices: 815375--815413 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
815365 ATTTAGAAAT
*
815375 AATATATAAATCTAGAAA
1 AATATATAAATCTAAAAA
815393 AATATATAAAT-TATAAAA
1 AATATATAAATCTA-AAAA
815411 AAT
1 AAT
815414 TAAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
AATATATAAATCTAAAAA
Found at i:815514 original size:21 final size:22
Alignment explanation
Indices: 815488--815528 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
815478 ACAATAATAT
815488 TTTTTTA-AAAAGTT-TAAAATG
1 TTTTTTATAAAA-TTATAAAATG
815509 TTTTTTATAAAATTATAAAA
1 TTTTTTATAAAATTATAAAA
815529 GTATTTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
TTTTTTATAAAATTATAAAATG
Found at i:822485 original size:59 final size:59
Alignment explanation
Indices: 822372--822488 Score: 137
Period size: 59 Copynumber: 2.0 Consensus size: 59
822362 TAAATTATGA
* ** * *
822372 TTTTTTAATCAATCAACTATGAAAAGTTATAAAATGGTTATTTAATTATAATTTTTTTC
1 TTTTTTAATCAATCAACTATGAAAAATTATAAAATAATTACTTAACTATAATTTTTTTC
* * * *
822431 TTTTTTTATCACAT-AATTATGAAAAATTATAAACTAATTACTTAACTATGATTTTTTT
1 TTTTTTAATCA-ATCAACTATGAAAAATTATAAAATAATTACTTAACTATAATTTTTTT
822489 TATCACCGGC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
59 46 0.96
60 2 0.04
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.50
Consensus pattern (59 bp):
TTTTTTAATCAATCAACTATGAAAAATTATAAAATAATTACTTAACTATAATTTTTTTC
Found at i:822627 original size:58 final size:58
Alignment explanation
Indices: 822537--822672 Score: 218
Period size: 58 Copynumber: 2.3 Consensus size: 58
822527 AAAATCCAAG
** * **
822537 ATAGTTGGGTGACAAAAAAACAAGATTGAATAGTTGGGTGTTCATTTTGTAACTTTTT
1 ATAGTTGAATGACAAAAAAACAAGATTGAATAGTTGAGTGCCCATTTTGTAACTTTTT
*
822595 ATAGTTGAATGACAAAAAAATAAGATTGAATAGTTGAGTGCCCATTTTGTAACTTTTT
1 ATAGTTGAATGACAAAAAAACAAGATTGAATAGTTGAGTGCCCATTTTGTAACTTTTT
822653 ATAGTTGAATGACAAAAAAA
1 ATAGTTGAATGACAAAAAAA
822673 AAAACCATAG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 72 1.00
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (58 bp):
ATAGTTGAATGACAAAAAAACAAGATTGAATAGTTGAGTGCCCATTTTGTAACTTTTT
Found at i:828374 original size:109 final size:109
Alignment explanation
Indices: 828261--828464 Score: 318
Period size: 109 Copynumber: 1.9 Consensus size: 109
828251 TCATTTTGTA
* * *
828261 TATTGAATCCTAAATTTGAGTCTCATCATATGTATTTATTATGTGTGGGTCTTCAATCCTAAAAT
1 TATTGAATCCTAAATTTGAGTCTCATCATATGTATCTATGATGTGTGAGTCTTCAATCCTAAAAT
* *
828326 GTGTGCATTTGCCATAGTTGAATTTTATCCTACGTTGTGTTTTG
66 GTGCGCATTTGCCATAGTTGAACTTTATCCTACGTTGTGTTTTG
** *
828370 TATTGGTTCCTAAATTTGAGTCTCATCATATGTATCTATGATGTGTGAGTCTTCAATCCTAACAT
1 TATTGAATCCTAAATTTGAGTCTCATCATATGTATCTATGATGTGTGAGTCTTCAATCCTAAAAT
* *
828435 GTGCGCATTTGCCATGGTTGGACTTTATCC
66 GTGCGCATTTGCCATAGTTGAACTTTATCC
828465 AATTATTCAT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
109 85 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (109 bp):
TATTGAATCCTAAATTTGAGTCTCATCATATGTATCTATGATGTGTGAGTCTTCAATCCTAAAAT
GTGCGCATTTGCCATAGTTGAACTTTATCCTACGTTGTGTTTTG
Found at i:831974 original size:6 final size:6
Alignment explanation
Indices: 831935--831959 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
831925 GGGAATCGGT
831935 ATATAC ATATAC ATATAC ATATAC A
1 ATATAC ATATAC ATATAC ATATAC A
831960 CACATATATA
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAC
Found at i:832402 original size:3 final size:3
Alignment explanation
Indices: 832394--832423 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
832384 AACACAAACT
832394 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
832424 ACCAAATGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:834549 original size:20 final size:20
Alignment explanation
Indices: 834524--834567 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
834514 TTTTTTATAT
*
834524 TTAAAGGTTTAATT-TAAAAA
1 TTAAA-GTTCAATTATAAAAA
834544 TTAAAGTTCAATTGATAAAAA
1 TTAAAGTTCAATT-ATAAAAA
834565 TTA
1 TTA
834568 TTTAATTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (20 bp):
TTAAAGTTCAATTATAAAAA
Found at i:834706 original size:61 final size:61
Alignment explanation
Indices: 834639--834761 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
834629 GTAGAAACAT
834639 TACATTCCTTAAATTAAAGTAGAGGGGACCAGTTGCAAAAGTTTGAAGAGTAGTGGGATTG
1 TACATTCCTTAAATTAAAGTAGAGGGGACCAGTTGCAAAAGTTTGAAGAGTAGTGGGATTG
*
834700 TACATTCCTTAAATTAAAGTAGGGGGGACCAGTTGCAAAAGTTTGAAGAGTAGTGGGATTG
1 TACATTCCTTAAATTAAAGTAGAGGGGACCAGTTGCAAAAGTTTGAAGAGTAGTGGGATTG
834761 T
1 T
834762 GGGCAAAATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.28
Consensus pattern (61 bp):
TACATTCCTTAAATTAAAGTAGAGGGGACCAGTTGCAAAAGTTTGAAGAGTAGTGGGATTG
Found at i:840391 original size:132 final size:132
Alignment explanation
Indices: 840112--840457 Score: 371
Period size: 132 Copynumber: 2.6 Consensus size: 132
840102 AAGACGAGAT
* * *
840112 TCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCGA
1 TCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAA
* * *
840177 AATAATCGAATATCCCTTCAAACTTTCACTCGTGCCTCTTAAAAAGTTTTTAAAACGAAGGCAAA
66 AATAATCGAATATCCCTTCAAACTTCCACTCGTGCCTCTTAAAAAGTCTCTAAAACGAAGGCAAA
*
840242 GT
131 GC
* * *
840244 TTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTAGGTTGCAATTTCTCATTTGCTCAA
1 TCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAA
* * * *
840309 AATAATCAAATATCCCTTCAAGA-TTCCATTAAG-GTCT-TCTAAAAA-TCCTCTAAAACGAAGG
66 AATAATCGAATATCCCTTCAA-ACTTCCACT-CGTGCCTCT-TAAAAAGT-CTCTAAAACGAAGG
840370 CAATA-C
127 CAA-AGC
* * * * * * * ** *
840376 TCGGTGTTTGACAATTCG-AGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAA
1 TCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAA
* *
840440 AACAATCGAATATTCCTT
66 AATAATCGAATATCCCTT
840458 TAGGTTTTCA
Statistics
Matches: 179, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
131 54 0.30
132 122 0.68
133 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (132 bp):
TCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAA
AATAATCGAATATCCCTTCAAACTTCCACTCGTGCCTCTTAAAAAGTCTCTAAAACGAAGGCAAA
GC
Found at i:841484 original size:163 final size:163
Alignment explanation
Indices: 841214--841539 Score: 607
Period size: 163 Copynumber: 2.0 Consensus size: 163
841204 TAAGAAACTA
841214 CGCTTTCGTGAGGTTTTTCACCTCTGCATGAGCTAGTGGATTGCTTCTAGGGTACATCCGTACCT
1 CGCTTTCGTGAGGTTTTTCACCTCTGCATGAGCTAGTGGATTGCTTCTAGGGTACATCCGTACCT
*
841279 ATGATTTCATGAGATTTTCATCTCCGCATGGTCATAGGGAAATGTATCCCCCCGACCCGAACTCG
66 ATGATTTCATGAGATTTTCATCTCCGCATGGTCATAGGGAAATGTATCCCCCCGAACCGAACTCG
841344 ATCTATATGAGCCTATAATGGGTGAAGATTGAG
131 ATCTATATGAGCCTATAATGGGTGAAGATTGAG
841377 CGCTTTCGTGAGGTTTTTCACCTCTGCATGAGCTAGTGGATTGCTTCTAGGGTACATCCGTACCT
1 CGCTTTCGTGAGGTTTTTCACCTCTGCATGAGCTAGTGGATTGCTTCTAGGGTACATCCGTACCT
* * *
841442 ATGATTTCGTGAGGTTTTCATCTCCGCATGGTCATAGGGAAATGTATCCCCCCGAACCGAACTTG
66 ATGATTTCATGAGATTTTCATCTCCGCATGGTCATAGGGAAATGTATCCCCCCGAACCGAACTCG
*
841507 ATCTATATGAGCCTATAATTGGTGAAGATTGAG
131 ATCTATATGAGCCTATAATGGGTGAAGATTGAG
841540 GAATCTGTTG
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
163 158 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (163 bp):
CGCTTTCGTGAGGTTTTTCACCTCTGCATGAGCTAGTGGATTGCTTCTAGGGTACATCCGTACCT
ATGATTTCATGAGATTTTCATCTCCGCATGGTCATAGGGAAATGTATCCCCCCGAACCGAACTCG
ATCTATATGAGCCTATAATGGGTGAAGATTGAG
Found at i:850372 original size:8 final size:8
Alignment explanation
Indices: 850353--850390 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
850343 CGATATACTT
850353 TAAAACATA
1 TAAAA-ATA
850362 TAAAAATA
1 TAAAAATA
*
850370 TAATAATA
1 TAAAAATA
850378 -AAAAATA
1 TAAAAATA
850385 TAAAAA
1 TAAAAA
850391 AATTTACCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 15 0.58
9 5 0.19
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (8 bp):
TAAAAATA
Found at i:851432 original size:22 final size:22
Alignment explanation
Indices: 851407--851449 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
851397 TTAATCTTAA
*
851407 TATATGTTTTATA-TATATTATG
1 TATAT-TTTAATATTATATTATG
851429 TATATTTTAATATTATATTAT
1 TATATTTTAATATTATATTAT
851450 ATGTACGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
TATATTTTAATATTATATTATG
Found at i:851532 original size:21 final size:20
Alignment explanation
Indices: 851498--851536 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
851488 TTTTGTACTA
*
851498 TATTATTTTATTAGTTTTGC
1 TATTATTGTATTAGTTTTGC
851518 TATTATTAGTATTAGTTTT
1 TATTATT-GTATTAGTTTT
851537 AGTTTCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
TATTATTGTATTAGTTTTGC
Found at i:852878 original size:28 final size:27
Alignment explanation
Indices: 852828--852941 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 27
852818 CTATTCAGAA
*
852828 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
852855 ATCAGTATTAATCTGGGCCATAGCCC-T
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
* *
852882 ATTACAATATCAGAGCATACTGGGCCTAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCTAGCCCAT
* *
852916 ATCAGTATCAGTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCC-TAGCCC
852942 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 19 0.27
28 21 0.30
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (27 bp):
ATCAGTATTAATCTGGGCCTAGCCCAT
Found at i:852883 original size:62 final size:60
Alignment explanation
Indices: 852805--852949 Score: 177
Period size: 61 Copynumber: 2.4 Consensus size: 60
852795 TCAAGCTTTA
* * *
852805 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAAT
* *
852867 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
852928 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
852950 GTCGAGATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 39 0.53
62 31 0.42
63 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
Found at i:853013 original size:19 final size:20
Alignment explanation
Indices: 852970--853025 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
852960 ATTGGGTCTT
852970 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
852990 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
853009 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
853026 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:857721 original size:19 final size:20
Alignment explanation
Indices: 857678--857733 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
857668 ATTGGGTCTT
857678 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
857698 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
857717 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
857734 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:867615 original size:73 final size:73
Alignment explanation
Indices: 867524--868519 Score: 837
Period size: 73 Copynumber: 13.0 Consensus size: 73
867514 CTATTTTTTT
* *
867524 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGAGCACGCTGAGGTATTTTCAATTACTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GCACGCTGAGGTATTTTCAATTTCTG
867589 TTTGTC-AA
65 TTTGTCAAA
* * * * * *
867597 AAATTAACTCATGTTGCGGGAGGTGAGTTGAGCCTCGGAGCACGCCGAGGTATTTTCAAATTCTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GCACGCTGAGGTATTTTCAATTTCTG
*
867662 CTT-TCAAAA
65 TTTGTC-AAA
* * * * *
867671 AAATCAACTCATATTGCGAGAGATGAGTTGAGCC-CTGGCTCAC-CTGTTGACTCACTTTCAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GCACGCTG-AG-GT-ATTTTCAATT
***
867734 TCTGTTTTTATGTCTGTTTTTT
61 TCTG---TT-TGTC-----AAA
* * *
867756 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTAAGGTATTTTCAATTGCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTCTG
*
867821 ATTGTC-AA
65 TTTGTCAAA
* * * * *
867829 AAATCAACTCATGTTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTCTG
*
867894 CTT-TCAAAA
65 TTTGTC-AAA
* * * * *
867903 AAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTGGCTCACG-TGTTGAGTCACTTTCAATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GCACGCTG-AG-GT-ATTTTCAATTT
***
867967 CTGTTTTTATGTCTGTTTTTT
62 CTG---TT-TGTC-----AAA
* * * *
867988 AAATCAACTCATATTGCGGGAGGTGAGTTAAGCCTCGGGGCACGTTGAGGTATTTTCAATTGCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTCTG
868053 TTTGTC-AA
65 TTTGTCAAA
*
868061 AAATCAACTCATATTGCGGGAGGTGAGTT-AGGCCTCAGGGCACGCTGAGGTATTTTCAATTTCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGA-GCCTC-GGGCACGCTGAGGTATTTTCAATTTCT
868125 GCTTT-TCAAA
64 G-TTTGTCAAA
* * * *
868135 AGAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACATGCTGAGGTAATTGCAATTTCT
1 A-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACGCTGAGGTATTTTCAATTTCT
*
868200 -ATTGTCAAAA
64 GTTTGTC-AAA
* * * *
868210 AAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCACGTGTTGAGGTATTTTCAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GCAC--GCTGAGGTATTTTCAATTTC
***
868275 TGTTTCTGTTTGTCA
63 TG-TT-TG--TCAAA
*
868290 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTCTG
868355 TTTGTCAAAAAA
65 TTTGTC---AAA
* *
868367 AAACCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTCTG
868432 TTTGTCAAAAAA
65 TTTGTC---AAA
* * **
868444 AAACCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CAC--GCT-GAGGTATTTTCAATTT
*
868508 CTGTTTTTCAAA
62 CTGTTTGTCAAA
868520 TTATTTTTCA
Statistics
Matches: 762, Mismatches: 103, Indels: 113
0.78 0.11 0.12
Matches are distributed among these distances:
72 5 0.01
73 192 0.25
74 125 0.16
75 59 0.08
76 49 0.06
77 116 0.15
78 23 0.03
79 35 0.05
80 43 0.06
81 6 0.01
83 24 0.03
84 3 0.00
85 73 0.10
86 9 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (73 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTCTGT
TTGTCAAA
Found at i:867840 original size:232 final size:231
Alignment explanation
Indices: 867431--868401 Score: 1243
Period size: 232 Copynumber: 4.2 Consensus size: 231
867421 TCGTTTCTGT
*
867431 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-TCACGTGTTGAGTCACTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACGTGTTGAGTCACTT
* *
867495 TCAATTTCTATTTTTATGTCTATTTTTTTAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTC
66 TCAATTTCTGTTTTTATGTCT-GTTTTTTAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTC
* * *
867560 GGAGCACGCTGAGGTATTTTCAATTACTGTTTGTCAAAAATTAACTCATGTTGCGGGAGGTGAGT
130 GGGGCACGCTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATGTTGCGGGAGGTGAGT
867625 TGAGCCTCGGAGCACGCCGAGGTATTTTCAAATTCTAC
195 TGAGCCTCGG-GCACGCCGAGGTATTTTCAAATTCTAC
* * *
867663 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCCTGGCTCACCTGTTGACTCACTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACGTGTTGAGTCACTT
867728 TCAATTTCTGTTTTTATGTCTGTTTTTTAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCG
66 TCAATTTCTGTTTTTATGTCTGTTTTTTAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCG
* *
867793 GGGCACGCTAAGGTATTTTCAATTGCTGATTGTCAAAAATCAACTCATGTTGCGGGAGGTGAGTT
131 GGGCACGCTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATGTTGCGGGAGGTGAGTT
867858 GAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTAC
196 GAGCCTC-GGGCACGCCGAGGTATTTTCAAATTCTAC
* *
867895 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGTCACTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACGTGTTGAGTCACTT
*
867960 TCAATTTCTGTTTTTATGTCTGTTTTTTAAATCAACTCATATTGCGGGAGGTGAGTTAAGCCTCG
66 TCAATTTCTGTTTTTATGTCTGTTTTTTAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCG
* *
868025 GGGCACGTTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGGGAGGTGAGTT
131 GGGCACGCTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATGTTGCGGGAGGTGAGTT
* * *
868090 -AGGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
196 GA-GCCTC-GGGCACGCCGAGGTATTTTCAAATTCTAC
* * * * * *
868127 TTTTCAAAAGAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGG--GACATGCTGAGGT-AA
1 -TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACGTGTTGA-GTCAC
* ***** ** *
868189 TTGCAATTTC------TA--T-TGTCAAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCT
64 TTTCAATTTCTGTTTTTATGTCTGTTTTTTAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCT
** * * *
868245 CGGCTCACGTGTTGAGGTATTTTCAATTTCTGTTTCTGTTTGTC-AAAATCAACTCATATTGCGA
129 CGGGGCAC--GCTGAGGTATTTTCAA--T-TG---CTGTTTGTCAAAAATCAACTCATGTTGCGG
* * * **
868309 GAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGT
186 GAGGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTCAAATTCTAC
* * *
868356 TTGTCAAAAAAAAACCAACTCATATTGTGAGAGGTGAGTTGAGCCT
1 TT-TC--AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCT
868402 CAGGGCACGC
Statistics
Matches: 670, Mismatches: 52, Indels: 35
0.89 0.07 0.05
Matches are distributed among these distances:
222 40 0.06
223 1 0.00
224 16 0.02
225 2 0.00
226 1 0.00
227 2 0.00
228 2 0.00
229 64 0.10
230 10 0.01
231 53 0.08
232 399 0.60
233 80 0.12
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (231 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACGTGTTGAGTCACTT
TCAATTTCTGTTTTTATGTCTGTTTTTTAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCG
GGGCACGCTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATGTTGCGGGAGGTGAGTT
GAGCCTCGGGCACGCCGAGGTATTTTCAAATTCTAC
Found at i:868545 original size:87 final size:87
Alignment explanation
Indices: 868442--868763 Score: 315
Period size: 87 Copynumber: 3.6 Consensus size: 87
868432 TTTGTCAAAA
* * * **
868442 AAAAACCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGTCGAGGTATTTTCAATT
*
868507 TCTGTTTTTCAAATTATTTTTC
66 TCTGTTTTTCAATTTATTTTTC
* * ** * *
868529 AAAAACCAACTGATATTGCGAGAAGTGAGTTGAGCCTTGGCTCATGTGAT-GAGCTACTTTCAAT
1 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATG-TCGAGGTATTTTCAAT
* * *
868593 TTCTGTTTTTTAATTTCCGCTTTTTTAAAA
65 TTCTGTTTTTCAATTT----ATTTTT---C
* *
868623 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATG-CTGAGGTATTTTTAAT
1 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGTC-GAGGTATTTTCAAT
*
868687 TTATGTTTTCTCAATTTATATTTTTC
65 TTCTGTTTT-TCAA-TT-TATTTTTC
* * * *
868713 AAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCCGTGGGTTCACATGTC
1 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC-TTGGCTCACATGTC
868764 AAGTTTTAAG
Statistics
Matches: 190, Mismatches: 30, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
87 65 0.34
88 1 0.01
90 35 0.18
91 15 0.08
92 1 0.01
93 5 0.03
94 62 0.33
95 3 0.02
96 2 0.01
97 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (87 bp):
AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGTCGAGGTATTTTCAATT
TCTGTTTTTCAATTTATTTTTC
Found at i:868704 original size:15 final size:14
Alignment explanation
Indices: 868677--868714 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
868667 CATGCTGAGG
868677 TATTTTT-AATTTA
1 TATTTTTCAATTTA
*
868690 TGTTTTCTCAATTTA
1 TATTTT-TCAATTTA
868705 TATTTTTCAA
1 TATTTTTCAA
868715 AGATCAACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 5 0.24
14 5 0.24
15 11 0.52
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (14 bp):
TATTTTTCAATTTA
Found at i:869933 original size:22 final size:22
Alignment explanation
Indices: 869908--869965 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
869898 AAATTACCTG
*
869908 TTTATGTTTAATATTATCATTA
1 TTTACGTTTAATATTATCATTA
869930 TTTACGTTTAATATTATCATTA
1 TTTACGTTTAATATTATCATTA
869952 TTTACGTTTAATAT
1 TTTACGTTTAATAT
869966 CGCATGCGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (22 bp):
TTTACGTTTAATATTATCATTA
Found at i:872327 original size:44 final size:44
Alignment explanation
Indices: 872261--872875 Score: 793
Period size: 44 Copynumber: 14.0 Consensus size: 44
872251 GGCAAATCCT
* *
872261 GCAGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
872305 GCAGATTTGGTGTCTCTATATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * * *
872349 ACAAATTTGGCGTCTCTGTATTGGTAGGGAGCAGATCGAGGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
872393 GTAGATTTGGTGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
872437 ACAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
*
872481 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
872525 GTAGATTTGGCATCTCTATATTGGCAGAAAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
872569 GCAGATTTGGGGTCTCTGTATTGGCGGAGAGCAGATC-AAGGATG
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAA-GATA
* * * * * *
872613 GTAGATTTGGCATCTCTGTGTTGACAAAAAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
872657 GCAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATAGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
*
872701 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATC-AAGGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAA-GATA
* * * *
872745 GCAGATTTGGCATCTCTGTGTTGACAGATAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
872789 GCGGATTTGGCGTCTCTGTATTGGCAGGGAACAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
** * * * *
872833 GCAGATTTGGTATCTTTGTATTGTCAGTGAAGCAGATCAAAGA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAG-AGCAGATCGAAGA
872876 GGGTGAATCT
Statistics
Matches: 489, Mismatches: 77, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
43 4 0.01
44 470 0.96
45 15 0.03
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (44 bp):
GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
Done.