Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 176 of 318
Found at i:55404243 original size:180 final size:176
Alignment explanation
Indices: 55403847--55404415 Score: 820
Period size: 180 Copynumber: 3.2 Consensus size: 176
55403837 CTGGTGACTT
* * *
55403847 AAATTTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCATTGATCTGCTCCACAACTGCT
1 AAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATC-TTGATCTGCTCCACAACTACT
55403912 TAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAAT
65 TAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAAT
**
55403977 CGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTA-ATGGCTA
130 CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGA-GGCTA
* * *
55404024 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCCATCTGCTCCACAACTTCT
1 AAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATCTT-GATCTGCTCCACAACTACT
*
55404089 TAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTGCTACCTTAGGAAGATAAGACTAC
65 TAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCC-T--TGCTACCTCAGGAAGATAAGACTAC
* * *
55404154 CATCTTCAACTTGCTCTCTTGCTACCTCAGATAGATAAGGCTAGAGGCTA
127 AATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGAGGCTA
* * ** *
55404204 AAAACTACTCTATTGCCGATACATGGAGATAAGATTCGCCATCTTTGATCTGCTCTGCTACTACT
1 AAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATC-TTGATCTGCTCCACAACTACT
* * * *
55404269 GAGGGAGATAAGATCCTT-AATCTTCAGTCAGGTTCCTTGCTACCTCAGGAAGATAAGACT-CAA
65 TAAGGAGATAAGAT-CTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* * *
55404332 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATATGGTTAGTGGCTA
129 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGAGGCTA
*
55404380 AAATCTGCTCTATTGCTGATACATGGAGATAAGATT
1 AAATCTGCTCTATTGCCGATACATGGAGATAAGATT
55404416 TGTCGTCTTT
Statistics
Matches: 354, Mismatches: 31, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
176 80 0.23
177 117 0.33
178 1 0.00
179 1 0.00
180 149 0.42
181 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (176 bp):
AAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATCTTGATCTGCTCCACAACTACTT
AAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
TTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGAGGCTA
Found at i:55404501 original size:176 final size:176
Alignment explanation
Indices: 55403847--55404501 Score: 684
Period size: 180 Copynumber: 3.7 Consensus size: 176
55403837 CTGGTGACTT
* * *
55403847 AAATTTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCATTGATCTGCTCCA--CAACTG
1 AAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATCTTTGATCTGCTCCATGCAACT-
* * * * * *
55403910 CTTAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACA
65 CTTAGGGAGATAAGACCTTC-ATCTTCAGTCTAC-TCCCTGCAACTTCAGGAAGATAAGACTACA
** *
55403975 ATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAATGGCTA
128 ATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
* **
55404024 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCCATCTGCTCCA--CAACTT
1 AAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATCTTTGATCTGCTCCATGCAAC-T
* * * *
55404087 CTTAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTGCTACCTT-AGGAAGATAAGAC
65 CTTAGGGAGATAAGACCTTC-ATCTTCAGTCTAC-TCC---CTGC-AACTTCAGGAAGATAAGAC
* * * *
55404151 TACCATCTTCAACTTGCTCTCTTGCTACCTCAGATAGATAAGGCTAGAGGCTA
124 TACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
* * *
55404204 AAAACTACTCTATTGCCGATACATGGAGATAAGATTCGCCATCTTTGATCTGCT-C-TGCTACTA
1 AAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATCTTTGATCTGCTCCATGCAACT-
* * * * * *
55404267 CTGAGGGAGATAAGATCCTTAATCTTCAGTC-AGGTTCCTTGCTACCTCAGGAAGATAAGACT-C
65 CTTAGGGAGATAAGA-CCTTCATCTTCAGTCTA--CTCCCTGCAACTTCAGGAAGATAAGACTAC
* *
55404330 AATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATATGGTTAGTGGCTA
127 AATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
* * * * * *
55404380 AAATCTGCTCTATTGCTGATACATGGAGATAAGATTTGTCGTCTTTGGTCTACTCCATTGCAACT
1 AAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATCTTTGATCTGCTCCA-TGCAACT
* ** *
55404445 -TTAGGGAAATAAGACCTGTCA-CTTCAACCTACTCCACTGCAACTTCAGGGAGATAAG
65 CTTAGGGAGATAAGACCT-TCATCTTCAGTCTACTCC-CTGCAACTTCAGGAAGATAAG
55404502 GTTTGTAATC
Statistics
Matches: 404, Mismatches: 56, Indels: 37
0.81 0.11 0.07
Matches are distributed among these distances:
175 3 0.01
176 119 0.29
177 128 0.32
178 1 0.00
179 8 0.02
180 140 0.35
181 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (176 bp):
AAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATCTTTGATCTGCTCCATGCAACTC
TTAGGGAGATAAGACCTTCATCTTCAGTCTACTCCCTGCAACTTCAGGAAGATAAGACTACAATC
TTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
Found at i:55404752 original size:63 final size:64
Alignment explanation
Indices: 55404614--55404792 Score: 218
Period size: 63 Copynumber: 2.8 Consensus size: 64
55404604 TTCATGTATC
* * * * *
55404614 ATGCTTATGCCAATTAATTAGGATTG-TATGATCAAAATGAATCAAGTACTCCTAACTAGATGTG
1 ATGCTGATGTCAAATAATTAGGA-TGCTATGATCAAAATGAATCAAATACTCCAAACTAGATGTG
* * * *
55404678 ATGATGATGTCAAATAATTAGGACGCTATGATCGAAATTAATCAAAT-CTCCAAACTAGATGTG
1 ATGCTGATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCAAACTAGATGTG
* * * *
55404741 ATGCTGATGTCAAATAATTAGGATACTATGATCAAAGTGAATGAAATGCTCC
1 ATGCTGATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCC
55404793 TAATGTGATG
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
63 56 0.58
64 41 0.42
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (64 bp):
ATGCTGATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCAAACTAGATGTG
Found at i:55404848 original size:13 final size:13
Alignment explanation
Indices: 55404830--55404854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55404820 CAAAAATAAG
55404830 AATGATCTTTTTA
1 AATGATCTTTTTA
55404843 AATGATCTTTTT
1 AATGATCTTTTT
55404855 TTTTAATGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (13 bp):
AATGATCTTTTTA
Found at i:55405954 original size:8 final size:8
Alignment explanation
Indices: 55405941--55405965 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
55405931 TTTATTTTTA
55405941 TTTAATTT
1 TTTAATTT
55405949 TTTAATTT
1 TTTAATTT
55405957 TTTAATTT
1 TTTAATTT
55405965 T
1 T
55405966 GATTTTTTAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTAATTT
Found at i:55405964 original size:21 final size:20
Alignment explanation
Indices: 55405916--55405978 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 20
55405906 ATTTTCTTTC
*
55405916 TTTTTTATTTTTA-TTTTTA
1 TTTTTTATTTTAATTTTTTA
55405935 -TTTTTA-TTTAATTTTTTAA
1 TTTTTTATTTTAATTTTTT-A
*
55405954 TTTTTTAATTTTGATTTTTTA
1 TTTTTT-ATTTTAATTTTTTA
55405975 TTTT
1 TTTT
55405979 GATCTCTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 4 0.11
18 11 0.30
19 1 0.03
20 5 0.14
21 6 0.16
22 10 0.27
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTTATTTTAATTTTTTA
Found at i:55405965 original size:6 final size:6
Alignment explanation
Indices: 55405917--55405943 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
55405907 TTTTCTTTCT
55405917 TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
55405944 AATTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:55405973 original size:8 final size:7
Alignment explanation
Indices: 55405916--55405978 Score: 56
Period size: 7 Copynumber: 8.6 Consensus size: 7
55405906 ATTTTCTTTC
55405916 TTTTTTA
1 TTTTTTA
55405923 -TTTTTA
1 TTTTTTA
*
55405929 TTTTTATT
1 TTTTT-TA
55405937 TTTATTTAA
1 TTT-TTT-A
55405946 TTTTTTAA
1 TTTTTT-A
55405954 TTTTTTA
1 TTTTTTA
* *
55405961 ATTTTGA
1 TTTTTTA
55405968 TTTTTTA
1 TTTTTTA
55405975 TTTT
1 TTTT
55405979 GATCTCTTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
6 6 0.13
7 19 0.41
8 16 0.35
9 5 0.11
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (7 bp):
TTTTTTA
Found at i:55405979 original size:13 final size:13
Alignment explanation
Indices: 55405916--55405981 Score: 64
Period size: 13 Copynumber: 5.1 Consensus size: 13
55405906 ATTTTCTTTC
*
55405916 TTTTTTATTTTTA
1 TTTTTTATTTTGA
*
55405929 -TTTTTATTTTTA
1 TTTTTTATTTTGA
* *
55405941 TTTAATT-TTTTAA
1 TTT-TTTATTTTGA
55405954 TTTTTTAATTTTGA
1 TTTTTT-ATTTTGA
55405968 TTTTTTATTTTGA
1 TTTTTTATTTTGA
55405981 T
1 T
55405982 CTCTTTCTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
12 14 0.31
13 18 0.40
14 13 0.29
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTTTATTTTGA
Found at i:55410171 original size:20 final size:20
Alignment explanation
Indices: 55410146--55410183 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55410136 CTGATAAAAC
* *
55410146 ATTTTGTTCCATTTAAATCA
1 ATTTTGGTCCATGTAAATCA
55410166 ATTTTGGTCCATGTAAAT
1 ATTTTGGTCCATGTAAAT
55410184 TTAAAACTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (20 bp):
ATTTTGGTCCATGTAAATCA
Found at i:55421457 original size:20 final size:18
Alignment explanation
Indices: 55421425--55421461 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
55421415 GGAAATGGAT
55421425 TGTAACACCCTAAACCCGG
1 TGTAACACCCT-AACCCGG
55421444 TGTAACACCCCTAACCCG
1 TGTAACA-CCCTAACCCG
55421462 TATCCATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.30, C:0.41, G:0.14, T:0.16
Consensus pattern (18 bp):
TGTAACACCCTAACCCGG
Found at i:55426345 original size:23 final size:22
Alignment explanation
Indices: 55426305--55426350 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
55426295 TCGACAAAGG
55426305 GAAAAGGGAAATAAAAAGGTAGA
1 GAAAAGGGAAATAAAAAGG-AGA
*
55426328 GAAAAGAGGAAA-AGAAAGGAGA
1 GAAAAG-GGAAATAAAAAGGAGA
55426350 G
1 G
55426351 TTTTAGTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.04
Consensus pattern (22 bp):
GAAAAGGGAAATAAAAAGGAGA
Found at i:55431877 original size:40 final size:40
Alignment explanation
Indices: 55431815--55432084 Score: 261
Period size: 40 Copynumber: 6.8 Consensus size: 40
55431805 AATTATTGTA
*
55431815 TGATTGCACATACATGCCCCTGTTTCTACTTCGGTACCCC
1 TGATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* ** * *
55431855 TGCTTGCACATATGTGCTCCTGTTTGTAATTCGGTACCCC
1 TGATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * * **
55431895 TCATTGCACATACATGCCCCTATTTGTACTTTGGTACCGT
1 TGATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
55431935 TGATTGCACTTACATGCCCTTATTTGTACTTCGTTACCTC
1 TGATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * *
55431975 TGATTGCACATACGTGCCCCTGTTTGTACTTCAGTGCCCC
1 TGATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * * * * * **
55432015 TAAATGCACATACGTACCCCTGTTTGAACTTTGGTACCTT
1 TGATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * * *
55432055 TGATTACACATACGTGCCGCTGTTTATACT
1 TGATTGCACATACATGCCCCTGTTTGTACT
55432085 CTGGTAACTC
Statistics
Matches: 183, Mismatches: 47, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
Found at i:55432035 original size:120 final size:120
Alignment explanation
Indices: 55431815--55432072 Score: 327
Period size: 120 Copynumber: 2.1 Consensus size: 120
55431805 AATTATTGTA
* * * *
55431815 TGATTGCACATACATGCCCCTGTTTCTACTTCGGTACCCCTGCTTGCACATATGTGCTCCTGTTT
1 TGATTGCACATACATGCCCCTATTTCTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTT
* * * * *
55431880 GTAATTCGGTACCCCTCATTGCACATACATGCCCCTATTTGTACTTTGGTACCGT
66 GTAATTCAGTACCCCTAAATGCACATACATACCCCTATTTGAACTTTGGTACCGT
* * * * *
55431935 TGATTGCACTTACATGCCCTTATTTGTACTTCGTTACCTCTGATTGCACATACGTGCCCCTGTTT
1 TGATTGCACATACATGCCCCTATTTCTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTT
* * * * *
55432000 GTACTTCAGTGCCCCTAAATGCACATACGTACCCCTGTTTGAACTTTGGTACCTT
66 GTAATTCAGTACCCCTAAATGCACATACATACCCCTATTTGAACTTTGGTACCGT
* *
55432055 TGATTACACATACGTGCC
1 TGATTGCACATACATGCC
55432073 GCTGTTTATA
Statistics
Matches: 116, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.36
Consensus pattern (120 bp):
TGATTGCACATACATGCCCCTATTTCTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTT
GTAATTCAGTACCCCTAAATGCACATACATACCCCTATTTGAACTTTGGTACCGT
Found at i:55434231 original size:31 final size:31
Alignment explanation
Indices: 55434193--55434372 Score: 261
Period size: 31 Copynumber: 5.8 Consensus size: 31
55434183 ACAAATGACA
**
55434193 AGTGAAAAGTGGTAGCTTTTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * **
55434224 AGTGAAAAGTGGTAGCTCCGACTACCAAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
55434255 AGTGAATAGTGGTAGCTTCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
55434286 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
55434317 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
55434348 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
55434373 AAGTGACAAG
Statistics
Matches: 130, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 130 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:55434352 original size:93 final size:93
Alignment explanation
Indices: 55434193--55434372 Score: 324
Period size: 93 Copynumber: 1.9 Consensus size: 93
55434183 ACAAATGACA
*
55434193 AGTGAAAAGTGGTAGCTTTTGCTACCTGATCAGTGAAAAGTGGTAGCTCCGACTACCAAATCAGT
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATCAGTGAAAAGTGGTAGCTCCGACTACCAAATCAGT
55434258 GAATAGTGGTAGCTTCGGCTACTTGATC
66 GAATAGTGGTAGCTTCGGCTACTTGATC
* **
55434286 AGTGAAAAGTGGTAGCTTCTGCTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGT
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATCAGTGAAAAGTGGTAGCTCCGACTACCAAATCAGT
55434351 GAATAGTGGTAGCTTCGGCTAC
66 GAATAGTGGTAGCTTCGGCTAC
55434373 AAGTGACAAG
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 83 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (93 bp):
AGTGAAAAGTGGTAGCTTCTGCTACCTGATCAGTGAAAAGTGGTAGCTCCGACTACCAAATCAGT
GAATAGTGGTAGCTTCGGCTACTTGATC
Found at i:55434468 original size:47 final size:47
Alignment explanation
Indices: 55434397--55434610 Score: 190
Period size: 47 Copynumber: 4.6 Consensus size: 47
55434387 AAGTGATTTT
* * *
55434397 TGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTAC
1 TGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC
* * * * * *
55434444 TATATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTC
1 TGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC
* * *
55434491 -GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTA-
1 TGTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TAC
* * * *
55434539 TGTGTAAGACCATAGCTGGGCTATGGCATC-G-AT-ATATG-AATA-
1 TGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC
* *
55434581 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 TGTATAAGACCATAGCTGGGATATGGCATC
55434611 ATTATGTGAA
Statistics
Matches: 144, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
42 32 0.22
43 1 0.01
44 5 0.03
45 1 0.01
46 24 0.17
47 40 0.28
48 11 0.08
49 30 0.21
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (47 bp):
TGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC
Found at i:55434550 original size:49 final size:48
Alignment explanation
Indices: 55434401--55434654 Score: 207
Period size: 42 Copynumber: 5.6 Consensus size: 48
55434391 GATTTTTGTA
* * * * * * *
55434401 TAAGACCATATCTGGGATATGGCATCG-GTGTGATATATG-CTACTATA
1 TAAGACCATAGCTGGGCTATGGCATCGAATGTGATATGTGATTA-TGTG
* * * * * *
55434448 TAAGACCATATCTGGGATATGACATC-AGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCGAATGTGATATGTGATTATGTG
55434494 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-ATGTGATATGTGATTATGTG
*
55434543 TAAGACCATAGCTGGGCTATGGCATCG-A--T-ATA--TGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGAATGTGATATGTGATTATGTG
**
55434585 TAAGACCATAGCTGGGCTATGGCATC--A--T--TATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGAATGTGATATGTGATTATGTG
* **
55434627 TAAGACCATAGTTGAACTATGGCATCGA
1 TAAGACCATAGCTGGGCTATGGCATCGA
55434655 GGAAATGAAG
Statistics
Matches: 180, Mismatches: 18, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 67 0.37
44 3 0.02
45 1 0.01
46 24 0.13
47 37 0.21
48 14 0.08
49 30 0.17
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGAATGTGATATGTGATTATGTG
Found at i:55436035 original size:26 final size:25
Alignment explanation
Indices: 55435984--55436037 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
55435974 CAGATTTAAG
**
55435984 TTTATTTTCATATTATTTTTGCTAT
1 TTTATTTTCATATTATTACTGCTAT
* *
55436009 TTTATTATTTATATTATTACTGTTAT
1 TTTATT-TTCATATTATTACTGCTAT
55436035 TTT
1 TTT
55436038 TATTCCTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTATTTTCATATTATTACTGCTAT
Found at i:55436134 original size:21 final size:22
Alignment explanation
Indices: 55436110--55436174 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
55436100 TATATGACGT
55436110 ATATATTTTTTTAATATTA-TA
1 ATATATTTTTTTAATATTATTA
* * *
55436131 ATATATTTATGTAATATTATTT
1 ATATATTTTTTTAATATTATTA
55436153 ATAAGTTATTTTTTTAATATTA
1 AT-A--TATTTTTTTAATATTA
55436175 ATAGTATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 17 0.49
22 3 0.09
23 1 0.03
25 14 0.40
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (22 bp):
ATATATTTTTTTAATATTATTA
Found at i:55436155 original size:25 final size:25
Alignment explanation
Indices: 55436126--55436174 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
55436116 TTTTTTAATA
55436126 TTATAA-TATATTTATGTAATATTAT
1 TTATAAGT-TATTTATGTAATATTAT
* *
55436151 TTATAAGTTATTTTTTTAATATTA
1 TTATAAGTTATTTATGTAATATTA
55436175 ATAGTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (25 bp):
TTATAAGTTATTTATGTAATATTAT
Found at i:55438095 original size:27 final size:27
Alignment explanation
Indices: 55438037--55438126 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
55438027 AGGAAGCGTC
55438037 CTGGTGGCTA-TGCCACAAATTATCTATT
1 CTGGTGGC-ACTGCCACAAA-TATCTATT
* *
55438065 CTGGTGGCCCTGCCACATATATCTATT
1 CTGGTGGCACTGCCACAAATATCTATT
*
55438092 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTAT-T
55438121 CTGGTG
1 CTGGTG
55438127 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTATT
Found at i:55438137 original size:29 final size:28
Alignment explanation
Indices: 55438047--55438137 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
55438037 CTGGTGGCTA
* * *
55438047 TGCCACAAATTATCTATTCTGGTGGCCC
1 TGCCACAAAATATCTATTCTGGTGACAC
* *
55438075 TGCCAC-ATATATCTATTCTGGTGGCAC
1 TGCCACAAAATATCTATTCTGGTGACAC
* *
55438102 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTAT-TCTGGTGACAC
*
55438131 TGTCACA
1 TGCCACA
55438138 TTTTCTGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 24 0.45
28 14 0.26
29 15 0.28
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTATTCTGGTGACAC
Found at i:55439217 original size:11 final size:10
Alignment explanation
Indices: 55439189--55439222 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
55439179 AGCCTGTAAG
55439189 TATTCTGAAT
1 TATTCTGAAT
*
55439199 TTTTCTGAAT
1 TATTCTGAAT
55439209 ATATTCTGAAT
1 -TATTCTGAAT
55439220 TAT
1 TAT
55439223 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:55444499 original size:28 final size:28
Alignment explanation
Indices: 55444448--55444538 Score: 141
Period size: 27 Copynumber: 3.3 Consensus size: 28
55444438 ATTTACTAGA
*
55444448 ATACCCCTATATAT-CAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
55444475 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
55444503 ATACCCCTATGTATGC-AAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
55444530 ATACCCCTA
1 ATACCCCTA
55444539 GGGTTAATTT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 31 0.52
28 29 0.48
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:55444690 original size:27 final size:27
Alignment explanation
Indices: 55444644--55444720 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
55444634 GGTGGCTATG
*
55444644 CCACAAATTATCTATTCTGGTGGCCCTA
1 CCACAAA-TATCTATTCTGGTGGCACTA
* *
55444672 CCACATATATCTATTCTGGTGGCACTG
1 CCACAAATATCTATTCTGGTGGCACTA
*
55444699 CCACAAATATCTGTATCTGGTG
1 CCACAAATATCTAT-TCTGGTG
55444721 ACTCTGTCAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 30 0.70
28 13 0.30
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (27 bp):
CCACAAATATCTATTCTGGTGGCACTA
Found at i:55444731 original size:28 final size:28
Alignment explanation
Indices: 55444642--55444745 Score: 79
Period size: 27 Copynumber: 3.8 Consensus size: 28
55444632 CTGGTGGCTA
* * *
55444642 TGCCACAAATTATCTAT-TCTGGTGGCCC
1 TGCCACAAA-TATCTGTATCTGGTGACAC
* * * *
55444670 TACCACATATATCTAT-TCTGGTGGCAC
1 TGCCACAAATATCTGTATCTGGTGACAC
*
55444697 TGCCACAAATATCTGTATCTGGTGACTC
1 TGCCACAAATATCTGTATCTGGTGACAC
* * *
55444725 TGTCAC-ATTTTCTGTATCTGG
1 TGCCACAAATATCTGTATCTGG
55444746 CAGCCATGCT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 43 0.67
28 21 0.33
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (28 bp):
TGCCACAAATATCTGTATCTGGTGACAC
Found at i:55445976 original size:16 final size:16
Alignment explanation
Indices: 55445955--55446007 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
55445945 ACATCATGTA
55445955 TATTTTTATTTTTTAT
1 TATTTTTATTTTTTAT
* *
55445971 TATTTTTATTATTAAT
1 TATTTTTATTTTTTAT
* *
55445987 TATATGTT-TTTTATAT
1 TAT-TTTTATTTTTTAT
55446003 TATTT
1 TATTT
55446008 CATGTATATG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
15 1 0.03
16 25 0.86
17 3 0.10
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (16 bp):
TATTTTTATTTTTTAT
Found at i:55446011 original size:59 final size:66
Alignment explanation
Indices: 55445948--55446071 Score: 154
Period size: 68 Copynumber: 1.9 Consensus size: 66
55445938 TATATATACA
* *
55445948 TCATGTATA-TTTTTAT-TT-T-TTATTATTTTTATT-A-TTAATTATATGTTTT-TTATATTAT
1 TCATGTATAGTTTTTATATTATCTTATTATTATTATTAACTTAAGTATATGTTTTATTATATTAT
55446006 T
66 T
55446007 TCATGTATATGTTTTTATATTATCCTTATTATTATTATTAATCTTAAGTATATGTTTTATTATAT
1 TCATGTATA-GTTTTTATATTAT-CTTATTATTATTATTAA-CTTAAGTATATGTTTTATTATAT
55446072 ATATGTCTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
59 9 0.17
61 7 0.13
62 2 0.04
63 1 0.02
65 13 0.25
66 1 0.02
68 14 0.26
69 6 0.11
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (66 bp):
TCATGTATAGTTTTTATATTATCTTATTATTATTATTAACTTAAGTATATGTTTTATTATATTAT
T
Found at i:55446087 original size:17 final size:16
Alignment explanation
Indices: 55446055--55446092 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
55446045 TAATCTTAAG
*
55446055 TATATGTTTTATTATA
1 TATATGTTTTAATATA
55446071 TATATGTCTTTAATATA
1 TATATGT-TTTAATATA
55446088 TATAT
1 TATAT
55446093 AGGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (16 bp):
TATATGTTTTAATATA
Found at i:55446393 original size:19 final size:20
Alignment explanation
Indices: 55446369--55446407 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
55446359 TACTTTAACA
55446369 TTACTA-GTTATATATATTT
1 TTACTACGTTATATATATTT
* *
55446388 TTACTACTTTATGTATATTT
1 TTACTACGTTATATATATTT
55446408 CAAATATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (20 bp):
TTACTACGTTATATATATTT
Found at i:55446427 original size:23 final size:22
Alignment explanation
Indices: 55446400--55446523 Score: 111
Period size: 23 Copynumber: 5.8 Consensus size: 22
55446390 ACTACTTTAT
55446400 GTATATTTCAAATATTATATATA
1 GTATATTTC-AATATTATATATA
* *
55446423 GTATATTTCTAACATTAT-TACA
1 GTATATTTC-AATATTATATATA
*
55446445 TGTATA--T--ATATTATGTATA
1 -GTATATTTCAATATTATATATA
55446464 GTATATTTCAA-A-TATATAT-
1 GTATATTTCAATATTATATATA
55446483 GTATATTTCAAATATTATATATA
1 GTATATTTC-AATATTATATATA
*
55446506 GTATATTTCTAACATTAT
1 GTATATTTC-AATATTAT
55446524 TACTATTTAT
Statistics
Matches: 83, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
18 11 0.13
19 12 0.14
20 9 0.11
21 3 0.04
22 11 0.13
23 37 0.45
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (22 bp):
GTATATTTCAATATTATATATA
Found at i:55447413 original size:24 final size:25
Alignment explanation
Indices: 55447385--55447467 Score: 75
Period size: 24 Copynumber: 3.4 Consensus size: 25
55447375 TTGGAGGCCT
55447385 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCCTCTTTTAATAAACTGGGGCAA
* *
55447409 TGCCT-TTTTGATAAACTGGGGCAA
1 AGCCTCTTTTAATAAACTGGGGCAA
** * *
55447433 AGCC-CTTTTCGGTAAACTGAGGCAT
1 AGCCTCTTTT-AATAAACTGGGGCAA
55447458 AGCC-CTTTTA
1 AGCCTCTTTTA
55447468 GCACTTCCTC
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
23 6 0.12
24 22 0.45
25 21 0.43
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (25 bp):
AGCCTCTTTTAATAAACTGGGGCAA
Found at i:55447448 original size:25 final size:25
Alignment explanation
Indices: 55447398--55447466 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
55447388 CTCTTTTAAT
* *
55447398 AACTGGGGCAATG-CCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
55447422 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
55447447 AACTGAGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
55447467 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 12 0.31
25 27 0.69
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:55447699 original size:27 final size:27
Alignment explanation
Indices: 55447669--55447910 Score: 313
Period size: 27 Copynumber: 9.0 Consensus size: 27
55447659 GGGGCAAAAT
* * * *
55447669 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
55447696 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
55447723 GATATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55447750 TGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55447777 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
55447804 GGTAATTCAACCCTACAGGGTTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55447831 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
55447858 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
55447885 AGTAATTTTACCTTATAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
55447911 TAGTATTTTA
Statistics
Matches: 187, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 187 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:55447911 original size:27 final size:27
Alignment explanation
Indices: 55447670--55447971 Score: 297
Period size: 27 Copynumber: 11.2 Consensus size: 27
55447660 GGGCAAAATG
* * * * **
55447670 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
*
55447697 GTAATTCTACCCTACAGGGGTA-TTTC
1 GTAATTCTACCCTACAGGGGTATTTTA
* * *
55447723 GATATTTCTACCCTACAAGGGTATTTTT
1 G-TAATTCTACCCTACAGGGGTATTTTA
*
55447751 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
**
55447778 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
55447805 GTAATTCAACCCTACAGGGTTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
**
55447832 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
55447859 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* * *
55447886 GTAATTTTACCTTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* ** * *
55447913 GT-ATTTTA-CAAATCAAGGGTATTTTG
1 GTAATTCTACCCTA-CAGGGGTATTTTA
* **
55447939 GTAATTTTA-CAAACTAGGGGTATTTTA
1 GTAATTCTACCCTAC-AGGGGTATTTTA
55447966 GTAATT
1 GTAATT
55447972 TTACAAACCA
Statistics
Matches: 236, Mismatches: 34, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
25 2 0.01
26 21 0.09
27 209 0.89
28 4 0.02
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTA
Found at i:55447945 original size:53 final size:53
Alignment explanation
Indices: 55447876--55448053 Score: 209
Period size: 53 Copynumber: 3.3 Consensus size: 53
55447866 TACCCTACAG
*
55447876 GGGTATTTTAGTAATTTTACCTTATAGGGGTATTTTAGT-ATTTTACAAATCAA
1 GGGTATTTTAGTAATTTTA-CTTATAGGGGTATTTTAGTAATTTTACAAACCAA
* ** *
55447929 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACTTA-TAGGGGTATTTTAGTAATTTTACAAACCAA
* * * * *
55447983 GGGTGTTTTGGTAATTTTA-TTGATCAAGGGTATTTTGGTAATTTT-TAAACCAA
1 GGGTATTTTAGTAATTTTACTT-AT-AGGGGTATTTTAGTAATTTTACAAACCAA
55448036 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
55448054 GTAAATCGAG
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
52 2 0.02
53 56 0.52
54 49 0.46
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (53 bp):
GGGTATTTTAGTAATTTTACTTATAGGGGTATTTTAGTAATTTTACAAACCAA
Found at i:55447964 original size:80 final size:80
Alignment explanation
Indices: 55447873--55448053 Score: 231
Period size: 80 Copynumber: 2.3 Consensus size: 80
55447863 TTCTACCCTA
** *
55447873 CAGGGGTATTTTAGTAATTTTACCTTA-TAGGGGTATTTTAGT-ATTTTACAAATCAAGGGTATT
1 CAGGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTAGTAATTTTACAAATCAAGGGTATT
55447936 TTGGTAATTTTACAAAC
65 TTGGTAATTTT-CAAAC
* * * ***
55447953 TAGGGGTATTTTAGTAATTTTACAAACCAGGGGTGTTTTGGTAATTTTATTGATCAAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATCAAGGGTATTT
*
55448018 TGGTAATTTTTAAAC
66 TGGTAATTTTCAAAC
*
55448033 CAAGGGTATTTTAGTAATTTT
1 CAGGGGTATTTTAGTAATTTT
55448054 GTAAATCGAG
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.02
80 56 0.64
81 29 0.33
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (80 bp):
CAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATCAAGGGTATTT
TGGTAATTTTCAAAC
Found at i:55447972 original size:27 final size:26
Alignment explanation
Indices: 55447874--55448053 Score: 157
Period size: 27 Copynumber: 6.8 Consensus size: 26
55447864 TCTACCCTAC
**
55447874 AGGGGTATTTTAGTAATTTTACCTTAT
1 AGGGGTATTTTAGTAATTTTA-CAAAT
55447901 AGGGGTATTTTAGT-ATTTTACAAAT
1 AGGGGTATTTTAGTAATTTTACAAAT
* *
55447926 CAAGGGTATTTTGGTAATTTTACAAACT
1 -AGGGGTATTTTAGTAATTTTACAAA-T
*
55447954 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTAGTAATTTTACAAA-T
* * ***
55447981 AGGGGTGTTTTGGTAATTTTATTGAT
1 AGGGGTATTTTAGTAATTTTACAAAT
* * **
55448007 CAAGGGTATTTTGGTAATTTTTA-AACC
1 -AGGGGTATTTTAGTAA-TTTTACAAAT
*
55448034 AAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTAGTAATTTT
55448054 GTAAATCGAG
Statistics
Matches: 128, Mismatches: 20, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
25 7 0.05
26 33 0.26
27 82 0.64
28 6 0.05
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.44
Consensus pattern (26 bp):
AGGGGTATTTTAGTAATTTTACAAAT
Found at i:55448066 original size:27 final size:27
Alignment explanation
Indices: 55447903--55448161 Score: 175
Period size: 27 Copynumber: 9.7 Consensus size: 27
55447893 TACCTTATAG
* *
55447903 GGGTATTTTAGT-ATTTTACAAATCAA
1 GGGTATTTTGGTAATTTTATAAATCAA
* *
55447929 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTATAAATC-AA
* * * *
55447956 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAATCAA
* **
55447983 GGGTGTTTTGGTAATTTTATTGATCAA
1 GGGTATTTTGGTAATTTTATAAATCAA
*
55448010 GGGTATTTTGGTAATTTT-TAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCAA
* * *
55448036 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCAA
**** * * *
55448063 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCAA
*** * *
55448090 GGGTA-AACGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCAA
* * * **
55448116 GGATATTTGGGTAGTTTTATAAATCGG
1 GGGTATTTTGGTAATTTTATAAATCAA
**
55448143 GGGTACGTTGGTAATTTTA
1 GGGTATTTTGGTAATTTTA
55448162 CAACTGGGGG
Statistics
Matches: 192, Mismatches: 36, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
26 58 0.30
27 133 0.69
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCAA
Found at i:55448104 original size:26 final size:27
Alignment explanation
Indices: 55448046--55448117 Score: 119
Period size: 26 Copynumber: 2.7 Consensus size: 27
55448036 GGGTATTTTA
*
55448046 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
55448073 GTAATTCTGTAAATCGAGGGT-AAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
55448099 GTAATTCTATAAATCGAGG
1 GTAATTCTGTAAATCGAGG
55448118 ATATTTGGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
26 23 0.53
27 20 0.47
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:55462290 original size:93 final size:93
Alignment explanation
Indices: 55462177--55462348 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
55462167 CGCCCATAAG
*
55462177 CGAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55462242 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
55462270 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
55462335 ATGAGTTCGGATGC
66 ACGAGTTCGGATGC
55462349 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55462343 original size:46 final size:46
Alignment explanation
Indices: 55462170--55462345 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
55462160 TGTAACCCGC
* * *
55462170 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
55462216 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55462266 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
55462309 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55462346 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55463916 original size:72 final size:72
Alignment explanation
Indices: 55463817--55464019 Score: 320
Period size: 72 Copynumber: 2.8 Consensus size: 72
55463807 TATTTTGATG
* *
55463817 TTTTT-ATTTCTG-TTTTCAAGATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATG
1 TTTTTAATTCCTGTTTTTCAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATG
55463880 CTGAGGTA
65 CTGAGGTA
55463888 TTTTTAATTCCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATGC
1 TTTTTAATTCCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATGC
55463953 TGAGGTA
66 TGAGGTA
* * *
55463960 TTTTTAATTCCTATTTTTCAAAAAATCAACTCATATTGAGAGATGTGAGTTGAGCCTCAG
1 TTTTTAATTCCTGTTTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
55464020 TGTAACACCC
Statistics
Matches: 123, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
71 5 0.04
72 74 0.60
73 7 0.06
74 37 0.30
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (72 bp):
TTTTTAATTCCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATGC
TGAGGTA
Found at i:55464701 original size:6 final size:6
Alignment explanation
Indices: 55464684--55464846 Score: 149
Period size: 6 Copynumber: 26.8 Consensus size: 6
55464674 AACCAAAATG
* *
55464684 AGAATC AAAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
*
55464732 AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC
1 AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* * *
55464781 A-ATATT AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC
1 AGA-ATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
*
55464830 AGAATC AGAACC AGAAT
1 AGAATC AGAATC AGAAT
55464847 GTGAATACAA
Statistics
Matches: 129, Mismatches: 14, Indels: 28
0.75 0.08 0.16
Matches are distributed among these distances:
5 9 0.07
6 108 0.84
7 9 0.07
8 3 0.02
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:55464792 original size:85 final size:85
Alignment explanation
Indices: 55464684--55464839 Score: 278
Period size: 85 Copynumber: 1.8 Consensus size: 85
55464674 AACCAAAATG
55464684 AGAATCAAAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGAA
1 AGAATCAAAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGAA
55464749 TCAGAATCAGTAACAGAATC
66 TCAGAATCAGTAACAGAATC
* *
55464769 AGAATCAGAATCA-ATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGA
1 AGAATCAAAATCAGA-ATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGA
55464833 ATCAGAA
65 ATCAGAA
55464840 CCAGAATGTG
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
84 1 0.01
85 67 0.99
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (85 bp):
AGAATCAAAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGAA
TCAGAATCAGTAACAGAATC
Found at i:55465001 original size:27 final size:26
Alignment explanation
Indices: 55464964--55465029 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
55464954 AGCATGGTTG
* *
55464964 CCAGAACAGATATCGTGATAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
55464990 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
55465017 CCAGAATCAGATA
1 CCAGAA-CAGATA
55465030 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:55465034 original size:27 final size:27
Alignment explanation
Indices: 55464983--55465037 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
55464973 ATATCGTGAT
* *
55464983 AGAGTCACCAGATACAGATATTGTGGC
1 AGAGCCACCAGATACAGATAATGTGGC
55465010 AGAGCCACCAGA-ATCAGATAATGTGGC
1 AGAGCCACCAGATA-CAGATAATGTGGC
55465037 A
1 A
55465038 AACCCACCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
AGAGCCACCAGATACAGATAATGTGGC
Found at i:55465044 original size:27 final size:27
Alignment explanation
Indices: 55464988--55465045 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
55464978 GTGATAGAGT
* * *
55464988 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
55465015 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
55465042 CACC
1 CACC
55465046 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:55465250 original size:22 final size:22
Alignment explanation
Indices: 55465202--55465260 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
55465192 GTAAATACGT
55465202 TTGGCACAAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * * *
55465224 ATGGCACAAAGTCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
55465246 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
55465261 TAATAACGGG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:55465427 original size:27 final size:26
Alignment explanation
Indices: 55465348--55465430 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
55465338 TCGATCGGTC
** * *
55465348 AACAGATATTGTGATAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
55465374 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
55465401 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
55465428 AAC
1 AAC
55465431 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:55465659 original size:27 final size:27
Alignment explanation
Indices: 55465629--55465762 Score: 160
Period size: 27 Copynumber: 5.0 Consensus size: 27
55465619 GGGGCAAAAT
* * *
55465629 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
55465656 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
55465683 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
55465710 GGTAATTCTATCCTATAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
55465737 AGAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
55465763 TAGTAATTTC
Statistics
Matches: 89, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:55465761 original size:54 final size:54
Alignment explanation
Indices: 55465631--55465770 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
55465621 GGCAAAATGG
* * * * * *
55465631 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAAGGTATTTCGA
* *
55465685 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAAGGTATTTCAGA
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAAGGTATTTC-GA
*
55465740 -AATTCTACCCTACAGGGGTATTTTAGTAATT
1 TAATTCTACCCTACAGGGGTATTTTGGTAATT
55465771 TCACAATTAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 74 0.97
55 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAAGGTATTTCGA
Found at i:55465814 original size:27 final size:28
Alignment explanation
Indices: 55465779--55466176 Score: 438
Period size: 27 Copynumber: 14.8 Consensus size: 28
55465769 TTTCACAATT
55465779 AACG-GTAATTCTGTAAATCGAGGGTAA
1 AACGAGTAATTCTGTAAATCGAGGGTAA
* *
55465806 AACGA-TAATTTTGTAAATTGAGGGT-A
1 AACGAGTAATTCTGTAAATCGAGGGTAA
* *
55465832 AACCAGTAATTCTGTAAATCAAGGGTAA
1 AACGAGTAATTCTGTAAATCGAGGGTAA
* **
55465860 AAC-AGTAATTTTACAAATCGAGGGTAA
1 AACGAGTAATTCTGTAAATCGAGGGTAA
55465887 AACG-GTAATTCTGTAAATCGAGGGTAA
1 AACGAGTAATTCTGTAAATCGAGGGTAA
55465914 AAC-AGTAATTCTGTAAA-CTGAGGGTAA
1 AACGAGTAATTCTGTAAATC-GAGGGTAA
55465941 AAC-AGTAATTCTGTAAATCGAGGGTAA
1 AACGAGTAATTCTGTAAATCGAGGGTAA
* *
55465968 AA-TAGTAATTCTATAAA-CTGAGGGTAA
1 AACGAGTAATTCTGTAAATC-GAGGGTAA
*
55465995 AAC-AGTAATTCTATAAATCGAGGGTAA
1 AACGAGTAATTCTGTAAATCGAGGGTAA
* *
55466022 AA-TAGTAATTCTATAAA-CTGAGGGTAA
1 AACGAGTAATTCTGTAAATC-GAGGGTAA
*
55466049 AACG-GTAATTCTATAAATCGAGGGTAA
1 AACGAGTAATTCTGTAAATCGAGGGTAA
* ** **
55466076 AACG-GTAATTTTACAAATTAAGGGTAA
1 AACGAGTAATTCTGTAAATCGAGGGTAA
* *
55466103 AATG-GTAATTCTATAAATCGAGGGTAA
1 AACGAGTAATTCTGTAAATCGAGGGTAA
*
55466130 AA-TAGTAATTCTGTAAA-CTGAGGGTAA
1 AACGAGTAATTCTGTAAATC-GAGGGTAA
55466157 AACG-GTAATTCTGTAAATCG
1 AACGAGTAATTCTGTAAATCG
55466177 GGAGTACTTT
Statistics
Matches: 325, Mismatches: 27, Indels: 38
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.03
27 308 0.95
28 8 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (28 bp):
AACGAGTAATTCTGTAAATCGAGGGTAA
Found at i:55465847 original size:54 final size:55
Alignment explanation
Indices: 55465779--55466176 Score: 533
Period size: 54 Copynumber: 7.4 Consensus size: 55
55465769 TTTCACAATT
* * * *
55465779 AACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTTTGTAAATTGAGGGTAA
1 AACGGTAATTCTGTAAATCGAGGGTAAAACTAGTAATTCTATAAACTGAGGGTAA
* * * * *
55465833 ACCAGTAATTCTGTAAATCAAGGGTAAAAC-AGTAATTTTACAAA-TCGAGGGTAA
1 AACGGTAATTCTGTAAATCGAGGGTAAAACTAGTAATTCTATAAACT-GAGGGTAA
*
55465887 AACGGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAACTGAGGGTAA
1 AACGGTAATTCTGTAAATCGAGGGTAAAACTAGTAATTCTATAAACTGAGGGTAA
*
55465941 AACAGTAATTCTGTAAATCGAGGGTAAAA-TAGTAATTCTATAAACTGAGGGTAA
1 AACGGTAATTCTGTAAATCGAGGGTAAAACTAGTAATTCTATAAACTGAGGGTAA
* *
55465995 AACAGTAATTCTATAAATCGAGGGTAAAA-TAGTAATTCTATAAACTGAGGGTAA
1 AACGGTAATTCTGTAAATCGAGGGTAAAACTAGTAATTCTATAAACTGAGGGTAA
* * * * * *
55466049 AACGGTAATTCTATAAATCGAGGGTAAAAC-GGTAATTTTACAAATTAAGGGTAA
1 AACGGTAATTCTGTAAATCGAGGGTAAAACTAGTAATTCTATAAACTGAGGGTAA
* * *
55466103 AATGGTAATTCTATAAATCGAGGGTAAAA-TAGTAATTCTGTAAACTGAGGGTAA
1 AACGGTAATTCTGTAAATCGAGGGTAAAACTAGTAATTCTATAAACTGAGGGTAA
55466157 AACGGTAATTCTGTAAATCG
1 AACGGTAATTCTGTAAATCG
55466177 GGAGTACTTT
Statistics
Matches: 309, Mismatches: 29, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
53 2 0.01
54 306 0.99
55 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (55 bp):
AACGGTAATTCTGTAAATCGAGGGTAAAACTAGTAATTCTATAAACTGAGGGTAA
Found at i:55465896 original size:81 final size:81
Alignment explanation
Indices: 55465783--55466175 Score: 493
Period size: 81 Copynumber: 4.9 Consensus size: 81
55465773 ACAATTAACG
* * * *
55465783 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATTGAGGGTAAACCAGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTA
55465848 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACA
* * *
55465864 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTA
*
55465929 AA-CTGAGGGTAAAACA
66 AATC-AAGGGTAAAACA
* ** * * *
55465945 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAACTGAGGGTAAAACAGTAATTCTATA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTA
* *
55466010 AATCGAGGGTAAAATA
66 AATCAAGGGTAAAACA
* * * * **
55466026 GTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTAC
1 GTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGT
* **
55466090 AAATTAAGGGTAAAATG
65 AAATCAAGGGTAAAACA
** * *
55466107 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTA
55466172 AATC
66 AATC
55466176 GGGAGTACTT
Statistics
Matches: 270, Mismatches: 38, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
80 2 0.01
81 266 0.99
82 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTA
AATCAAGGGTAAAACA
Found at i:55466199 original size:108 final size:108
Alignment explanation
Indices: 55465779--55466176 Score: 591
Period size: 108 Copynumber: 3.7 Consensus size: 108
55465769 TTTCACAATT
* * * * *
55465779 AACGGTAATTCTGTAAATCGAGGGTAAAA-CGATAATTTTGTAAATTGAGGGTAAACCAGTAATT
1 AACGGTAATTCTATAAATCGAGGGTAAAATAG-TAATTCTGTAAACTGAGGGTAAAACAGTAATT
* *
55465843 CTGTAAATCAAGGGTAAAACAGTAATTTTACAAATCGAGGGTAA
65 CTGTAAATCGAGGGTAAAACAGTAATTTTACAAATTGAGGGTAA
* *
55465887 AACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACAGTAATTC
1 AACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACAGTAATTC
* * * *
55465952 TGTAAATCGAGGGTAAAATAGTAATTCTATAAACTGAGGGTAA
66 TGTAAATCGAGGGTAAAACAGTAATTTTACAAATTGAGGGTAA
* * *
55465995 AACAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAACTGAGGGTAAAACGGTAATTC
1 AACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACAGTAATTC
* * *
55466060 TATAAATCGAGGGTAAAACGGTAATTTTACAAATTAAGGGTAA
66 TGTAAATCGAGGGTAAAACAGTAATTTTACAAATTGAGGGTAA
* *
55466103 AATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTC
1 AACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACAGTAATTC
55466168 TGTAAATCG
66 TGTAAATCG
55466177 GGAGTACTTT
Statistics
Matches: 263, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
108 262 1.00
109 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (108 bp):
AACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACAGTAATTC
TGTAAATCGAGGGTAAAACAGTAATTTTACAAATTGAGGGTAA
Found at i:55477751 original size:9 final size:9
Alignment explanation
Indices: 55477737--55477813 Score: 109
Period size: 9 Copynumber: 8.6 Consensus size: 9
55477727 ATAAGTATAA
55477737 AATTAACCG
1 AATTAACCG
*
55477746 AATTAACTG
1 AATTAACCG
*
55477755 AATTAATCG
1 AATTAACCG
55477764 AATTAACCG
1 AATTAACCG
*
55477773 AATTACCCG
1 AATTAACCG
**
55477782 AATTGCCCG
1 AATTAACCG
55477791 AATTAACCG
1 AATTAACCG
55477800 AATTAACCG
1 AATTAACCG
55477809 AATTA
1 AATTA
55477814 TTTGTATAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:55477861 original size:20 final size:20
Alignment explanation
Indices: 55477838--55477876 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55477828 TATGTTTTTT
55477838 ATTTTTAGTTTTAGTTTTAG
1 ATTTTTAGTTTTAGTTTTAG
* *
55477858 ATTTTTATTTTTATTTTTA
1 ATTTTTAGTTTTAGTTTTA
55477877 TTTATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
ATTTTTAGTTTTAGTTTTAG
Found at i:55477874 original size:5 final size:6
Alignment explanation
Indices: 55477833--55477879 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
55477823 AATTATATGT
* *
55477833 TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTTTTA TTT
55477880 ATTAAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 27 0.77
7 7 0.20
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:55477920 original size:13 final size:13
Alignment explanation
Indices: 55477904--55477928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55477894 AATTTTTATG
55477904 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
55477917 ATTGGGTTGGGT
1 ATTGGGTTGGGT
55477929 TGGGTTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:55479018 original size:17 final size:17
Alignment explanation
Indices: 55478996--55479039 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
55478986 GGACAATCTA
* *
55478996 GGCATGTGGGCAACATG
1 GGCATGTGGCCAACACG
*
55479013 GGCATGTTGGCCCACACG
1 GGCATG-TGGCCAACACG
55479031 GGCATGTGG
1 GGCATGTGG
55479040 ACCCAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.18, C:0.23, G:0.41, T:0.18
Consensus pattern (17 bp):
GGCATGTGGCCAACACG
Found at i:55479496 original size:13 final size:14
Alignment explanation
Indices: 55479458--55479498 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
55479448 ATGGGGATAG
55479458 GATTCTGCATATCT
1 GATTCTGCATATCT
* *
55479472 G-TACTGCTTATCT
1 GATTCTGCATATCT
55479485 GATTCTG-ATATCT
1 GATTCTGCATATCT
55479498 G
1 G
55479499 TATCTGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.44
Consensus pattern (14 bp):
GATTCTGCATATCT
Found at i:55482665 original size:45 final size:45
Alignment explanation
Indices: 55482570--55482731 Score: 188
Period size: 45 Copynumber: 3.6 Consensus size: 45
55482560 CCGGTATTTC
* * * *
55482570 GCCTGCTAGGCTCGAA-GTCCG-ATA-TCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCAACGGCATTATA
* * * *
55482613 GCTTGCTAGGTTCGAAGGCTCGAATAGTATCTCAACGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAACGGCATTATA
* *
55482658 GCCTGCTAGGCTCAAAGGCCCAAATAGTATCTC-ACTGGCATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAAC-GGCATTATA
55482703 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
55482732 CTGTACGATA
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
43 14 0.14
44 5 0.05
45 82 0.80
46 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAACGGCATTATA
Found at i:55493644 original size:20 final size:20
Alignment explanation
Indices: 55493619--55493656 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55493609 GTTATAACAT
*
55493619 TTATACACATATGTTTCACA
1 TTATACACATATGATTCACA
*
55493639 TTATACACTTATGATTCA
1 TTATACACATATGATTCA
55493657 ATTCAAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.42
Consensus pattern (20 bp):
TTATACACATATGATTCACA
Found at i:55493873 original size:45 final size:45
Alignment explanation
Indices: 55493813--55493900 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
55493803 CAATATCATT
* * *
55493813 TCACCGGCATTATAGCCTACTAGGCTCGAAGGCTCGAATAGTATC
1 TCACCGGCATCATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
*
55493858 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATCATAGCCTACTAGGCTCAAAGGCCCGAATAGTA
55493901 CTGTACGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (45 bp):
TCACCGGCATCATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
Found at i:55496939 original size:28 final size:28
Alignment explanation
Indices: 55496874--55497024 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
55496864 GAGATTGGCG
* * * *
55496874 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
55496903 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
55496931 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
55496959 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
55496987 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
55497014 CTGAGTGTGCG
1 CTAAGTGTGCG
55497025 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:55502292 original size:43 final size:43
Alignment explanation
Indices: 55502227--55502491 Score: 298
Period size: 43 Copynumber: 6.2 Consensus size: 43
55502217 TAAAAAAAGA
* * ***
55502227 CCGCTAAAGACCATGACTTTTAGCGGTGCTTTTTTTACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACG
* * *
55502270 CCGGTAAAGACCATGACCTTTAGCGGCGCTTTT-CAAAAAACG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACG
* * * * *
55502312 CCACTAAAGACCACGACCTTTAGTGGCGTTTTTCCCAAAAACG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACG
* * * *
55502355 CCGCTAAAAATCATGACCTTTAACGACGCTTTTCCCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACG
* * * *
55502398 CCGCTAAAAATCATGACCTTTAGCGACACTTTTCCCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACG
* * * *
55502441 CCACTAAAGAACATGACTTTTAGCGGCGCTTTTCTCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACG
55502484 CCGCTAAA
1 CCGCTAAA
55502492 AATCATGAAC
Statistics
Matches: 190, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
42 34 0.18
43 156 0.82
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (43 bp):
CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACG
Found at i:55502495 original size:129 final size:128
Alignment explanation
Indices: 55502263--55502499 Score: 339
Period size: 129 Copynumber: 1.8 Consensus size: 128
55502253 TGCTTTTTTT
* * * * *
55502263 ACAAACGCCGGTAAAGACCATGACCTTTAGCGGCGCTTTTCAAAAAACGCCACTAAAGACCACGA
1 ACAAACGCCGCTAAAAACCATGACCTTTAGCGACACTTTTCAAAAAACGCCACTAAAGAACACGA
* *
55502328 CCTTTAGTGGCGTTTTTCCCAAAAACGCCGCTAAAAATCATGACCTTTAACGACGCTTTTCCC
66 CCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAAATCATGACCTTTAACGACGCTTTTCCC
* * * *
55502391 ACAAACGCCGCTAAAAATCATGACCTTTAGCGACACTTTTCCCACAAACGCCACTAAAGAACATG
1 ACAAACGCCGCTAAAAACCATGACCTTTAGCGACACTTTT-CAAAAAACGCCACTAAAGAACACG
* * *
55502456 ACTTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAAATCATGA
65 ACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAAATCATGA
55502500 ACTTCAAAAA
Statistics
Matches: 94, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
128 35 0.37
129 59 0.63
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (128 bp):
ACAAACGCCGCTAAAAACCATGACCTTTAGCGACACTTTTCAAAAAACGCCACTAAAGAACACGA
CCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAAATCATGACCTTTAACGACGCTTTTCCC
Found at i:55504286 original size:21 final size:22
Alignment explanation
Indices: 55504254--55504306 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
55504244 CAACTTTCAG
55504254 ACACCATAAA-TTGCAGCATTTA
1 ACACC-TAAATTTGCAGCATTTA
* *
55504276 ACACCTAAATTTTCAGTATTTA
1 ACACCTAAATTTGCAGCATTTA
*
55504298 ACACATAAA
1 ACACCTAAA
55504307 ATGGTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (22 bp):
ACACCTAAATTTGCAGCATTTA
Found at i:55506487 original size:6 final size:6
Alignment explanation
Indices: 55506478--55506508 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
55506468 TTTCAAAACC
*
55506478 AAAGGG AAAGGG AAAGGG AAAGGG GAAGGG A
1 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG A
55506509 TCGTATGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
AAAGGG
Found at i:55506735 original size:40 final size:41
Alignment explanation
Indices: 55506651--55506736 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 41
55506641 AAGTAAAATG
*
55506651 ATTTTTTGTGGCGTTTTTTTAAAAAAACGCCACTATTGCTT
1 ATTTTTTGTGGCGTTTTTTTAAAAAAACGCCACTAATGCTT
* *
55506692 ATTTTTTGTGGCG-TTTTTTATATAAACGCCACTAAT-CTCT
1 ATTTTTTGTGGCGTTTTTTTAAAAAAACGCCACTAATGCT-T
55506732 ATTTT
1 ATTTT
55506737 ATACATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
39 2 0.05
40 26 0.63
41 13 0.32
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (41 bp):
ATTTTTTGTGGCGTTTTTTTAAAAAAACGCCACTAATGCTT
Found at i:55506774 original size:7 final size:6
Alignment explanation
Indices: 55506741--55506774 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
55506731 TATTTTATAC
55506741 ATTTTT ATTTTT ATATTTT ATTTTT ATTTATT AT
1 ATTTTT ATTTTT AT-TTTT ATTTTT ATTT-TT AT
55506775 CAATGTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.62
7 10 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:55506774 original size:13 final size:12
Alignment explanation
Indices: 55506741--55506774 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
55506731 TATTTTATAC
55506741 ATTTTTATTTTT
1 ATTTTTATTTTT
55506753 ATATTTTATTTTT
1 AT-TTTTATTTTT
55506766 ATTTATTAT
1 ATTT-TTAT
55506775 CAATGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:55506783 original size:19 final size:20
Alignment explanation
Indices: 55506761--55506805 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
55506751 TTATATTTTA
55506761 TTTTTATTTA-TTATCAATG
1 TTTTTATTTATTTATCAATG
*
55506780 TTTTTATTTATTTATCAATT
1 TTTTTATTTATTTATCAATG
55506800 TTTTTA
1 TTTTTA
55506806 AATCTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTATTTATTTATCAATG
Found at i:55506784 original size:20 final size:19
Alignment explanation
Indices: 55506761--55506803 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
55506751 TTATATTTTA
55506761 TTTTTATTTA-TTATCAAT
1 TTTTTATTTATTTATCAAT
55506779 GTTTTTATTTATTTATCAAT
1 -TTTTTATTTATTTATCAAT
55506799 TTTTT
1 TTTTT
55506804 TAAATCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTTATTTATTTATCAAT
Found at i:55507241 original size:15 final size:14
Alignment explanation
Indices: 55507222--55507284 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
55507212 CCATGGCCAT
55507222 TAAACCTTAAACCA
1 TAAACCTTAAACCA
*
55507236 TAAAACCTTAAATCA
1 T-AAACCTTAAACCA
* * *
55507251 TAGACCTTAAATCT
1 TAAACCTTAAACCA
** *
55507265 TAAATATTAAACCC
1 TAAACCTTAAACCA
55507279 TAAACC
1 TAAACC
55507285 CAAAAATAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.27
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:55507257 original size:14 final size:15
Alignment explanation
Indices: 55507223--55507268 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
55507213 CATGGCCATT
*
55507223 AAACCTTAAACCATA
1 AAACCTTAAATCATA
55507238 AAACCTTAAATCAT-
1 AAACCTTAAATCATA
* *
55507252 AGACCTTAAATCTTA
1 AAACCTTAAATCATA
55507267 AA
1 AA
55507269 TATTAAACCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (15 bp):
AAACCTTAAATCATA
Found at i:55507454 original size:18 final size:18
Alignment explanation
Indices: 55507422--55507473 Score: 65
Period size: 16 Copynumber: 3.1 Consensus size: 18
55507412 AGGGTTATAG
55507422 ATTAGTGTTTAGGGTTTT
1 ATTAGTGTTTAGGGTTTT
*
55507440 ATTAG-GTTTAGGGGTTT
1 ATTAGTGTTTAGGGTTTT
*
55507457 A--AGAGTTTAGGGTTTT
1 ATTAGTGTTTAGGGTTTT
55507473 A
1 A
55507474 GAGTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 2 0.06
16 12 0.39
17 12 0.39
18 5 0.16
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (18 bp):
ATTAGTGTTTAGGGTTTT
Found at i:55507471 original size:15 final size:16
Alignment explanation
Indices: 55507445--55507478 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
55507435 GTTTTATTAG
55507445 GTTTAGGGGTTTAAGA
1 GTTTAGGGGTTTAAGA
*
55507461 GTTTA-GGGTTTTAGA
1 GTTTAGGGGTTTAAGA
55507476 GTT
1 GTT
55507479 AATTTGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (16 bp):
GTTTAGGGGTTTAAGA
Found at i:55507787 original size:16 final size:15
Alignment explanation
Indices: 55507741--55507791 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 15
55507731 AGGGGTTATA
55507741 GTTTAGTGTTTAGGG
1 GTTTAGTGTTTAGGG
55507756 GTTTTTAG-GATTTAGGG
1 G--TTTAGTG-TTTAGGG
55507773 GTTTAGTGTTTTAGGG
1 GTTTAGTG-TTTAGGG
55507789 GTT
1 GTT
55507792 ATAGATTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 6 0.19
16 12 0.39
17 13 0.42
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (15 bp):
GTTTAGTGTTTAGGG
Found at i:55508136 original size:41 final size:41
Alignment explanation
Indices: 55507846--55508127 Score: 361
Period size: 41 Copynumber: 6.9 Consensus size: 41
55507836 ATTATATGAC
* * * **
55507846 TTTTAACGGCGTTTTATCGAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGGT
*
55507887 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGGT
* *
55507928 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGGT
*
55507969 TTTTAGCGGCGTTTCACCAAAAACGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGGT
* **** *
55508010 TTTTTGCGGCGTTTTTGGTAAAACGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGGT
* * * *
55508050 TTTTAGCGGCGTTTTATCAAAAAACGCCGTTATTGCTCT-AT
1 TTTTAGCGGCGTTTTA-CCAAAAACGCCGCTAATGCTCTGGT
*
55508091 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTC
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTC
55508128 CGTGTTTTAT
Statistics
Matches: 216, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
40 35 0.16
41 181 0.84
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGGT
Found at i:55508675 original size:43 final size:43
Alignment explanation
Indices: 55508604--55508707 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 43
55508594 ATTCACTGGT
* *
55508604 ATTAT-GCCTGCTAGGCTCGAAGCACGATATTAACTCACCAGC
1 ATTATAGCCTGCTAGGCTCAAAGCACGATATTAAATCACCAGC
* * *
55508646 ATTATAGCCTGCTAGGCTTAAAGCCCGATATTAAATCACCGGC
1 ATTATAGCCTGCTAGGCTCAAAGCACGATATTAAATCACCAGC
55508689 ATTATAGCCTGCTAGGCTC
1 ATTATAGCCTGCTAGGCTC
55508708 GAAGGCTCGA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
42 5 0.09
43 50 0.91
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
ATTATAGCCTGCTAGGCTCAAAGCACGATATTAAATCACCAGC
Found at i:55517068 original size:13 final size:14
Alignment explanation
Indices: 55517052--55517080 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
55517042 TTTTAAATAT
55517052 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
55517065 TTATAATGGTTTAA
1 TTATAATGGTTTAA
55517079 TT
1 TT
55517081 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:55517977 original size:43 final size:43
Alignment explanation
Indices: 55517895--55518013 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
55517885 GCGTTCATGT
* * *
55517895 AAAAGCG-CTGCTAAAGGTCATGCTCTTTAGCGGAATTTGTATG
1 AAAAGCGAC-GCTAAAGGTCACGTTCTTTAGCAGAATTTGTATG
** *
55517938 AAAAGC-ATCGCTAAAGGTCACGTTCTTTAGCAGTGTTTGTGTG
1 AAAAGCGA-CGCTAAAGGTCACGTTCTTTAGCAGAATTTGTATG
* *
55517981 AAAGGCGACACTAAAGGTCACGTTCTTTAGCAG
1 AAAAGCGACGCTAAAGGTCACGTTCTTTAGCAG
55518014 CGCTTTCTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 63 0.97
44 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
AAAAGCGACGCTAAAGGTCACGTTCTTTAGCAGAATTTGTATG
Found at i:55524784 original size:43 final size:42
Alignment explanation
Indices: 55524724--55524836 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 42
55524714 TACCATACCA
* * *
55524724 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* *
55524766 ATGCCAATAGCCCAGATATGGTCTTACACGAAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
55524809 AGGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
55524837 ATAGTCTTAG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 27 0.44
43 34 0.55
44 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:55524843 original size:42 final size:42
Alignment explanation
Indices: 55524726--55524843 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
55524716 CCATACCAAT
* * *
55524726 GCCATATCCCAGATATGGTCTT--ACATGGGATCTCGTATCGAT
1 GCCATATCCCAGATATGGTCTTACACAT-AG-TCTCATATCGAG
* *
55524768 GCCAATAGCCCAGATATGGTCTTACACGA-AGTCTCATATTGAG
1 GCC-ATATCCCAGATATGGTCTTACAC-ATAGTCTCATATCGAG
55524811 GCCATATCCCAGATATGGTCTTACACATAGTCT
1 GCCATATCCCAGATATGGTCTTACACATAGTCT
55524844 TAGTAACCCT
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
41 1 0.02
42 30 0.46
43 30 0.46
44 1 0.02
45 2 0.03
46 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACACATAGTCTCATATCGAG
Found at i:55531341 original size:45 final size:45
Alignment explanation
Indices: 55531289--55531375 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
55531279 TATGTGATCT
* *
55531289 AAACTCATTGAGCTGTGGTTTAAGTTCATGATATATGTGACATCC
1 AAACTCATTGAGCTGTGGTCTAAGTTCATGATATATATGACATCC
* * **
55531334 AAACTCATTGAGTTGTGGTCTGAGTTTGTGATATATATGACA
1 AAACTCATTGAGCTGTGGTCTAAGTTCATGATATATATGACA
55531376 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.37
Consensus pattern (45 bp):
AAACTCATTGAGCTGTGGTCTAAGTTCATGATATATATGACATCC
Found at i:55533740 original size:38 final size:38
Alignment explanation
Indices: 55533594--55533782 Score: 157
Period size: 38 Copynumber: 4.9 Consensus size: 38
55533584 ATTTGATGTG
* * *
55533594 TATCCGGGCTTAAAGACCCGCAGGCTATA-TGCT-GAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGAT-TAGTGCTGGTATTA
* * * * * *
55533633 TATCCGGGTTAAATCCTGTAGGCTTCGTGCTAGTAATA
1 TATCCGGGTTAAATCCCGCAGGATTAGTGCTGGTATTA
* *
55533671 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGATTAGTGCTGGTATTA
* * *
55533709 TATCTGGGTTAAATCCCGCAGTATTATTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGATTAGTGCTGGTATTA
* * * *
55533747 TATCCGAGCTTAAAGTCCCACAGGTTTTGTGCTGGT
1 TATCCG-GGTTAAA-TCCCGCAGGATTAGTGCTGGT
55533783 GACTGGATTC
Statistics
Matches: 124, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
36 1 0.01
37 12 0.10
38 81 0.65
39 14 0.11
40 16 0.13
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGATTAGTGCTGGTATTA
Found at i:55533749 original size:76 final size:76
Alignment explanation
Indices: 55533594--55533782 Score: 184
Period size: 76 Copynumber: 2.4 Consensus size: 76
55533584 ATTTGATGTG
* * * * * *
55533594 TATCCGGGCTTAAAGACCCGCAGGCTATATGCT-GAATTATATCCGGGTTAAATCCTGTAGGCTT
1 TATCCGGG-TTAAAGTCCCGCAGGCT-TGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGATT
*
55533658 CGTGCTAGTAATA
64 AGTGCTAGTAATA
* *
55533671 TATCCGGGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATCCCGCAGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGCTT-GTGCTGGTATTATATCCGGGTTAAATCCCGCAGGATTA
* * *
55533735 TTGCTGGTATTA
65 GTGCTAGTAATA
* * *
55533747 TATCCGAGCTTAAAGTCCCACAGGTTTTGTGCTGGT
1 TATCCG-GGTTAAAGTCCCGCAGG-CTTGTGCTGGT
55533783 GACTGGATTC
Statistics
Matches: 92, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
74 1 0.01
75 14 0.15
76 45 0.49
77 14 0.15
78 16 0.17
79 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (76 bp):
TATCCGGGTTAAAGTCCCGCAGGCTTGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGATTAG
TGCTAGTAATA
Found at i:55537271 original size:21 final size:21
Alignment explanation
Indices: 55537247--55537322 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
55537237 CTAGGAAATA
55537247 TGTGATCTGAACTCATTGAGT
1 TGTGATCTGAACTCATTGAGT
* ** *
55537268 TGTGGTCTGAGTTCA-TGATAT
1 TGTGATCTGAACTCATTGA-GT
55537289 ATGTGACATCTGAACTCATTGAGT
1 -TGTG--ATCTGAACTCATTGAGT
*
55537313 TGTGGTCTGA
1 TGTGATCTGA
55537323 GCTCGTGATA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
20 3 0.07
21 18 0.44
22 4 0.10
23 4 0.10
24 9 0.22
25 3 0.07
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.38
Consensus pattern (21 bp):
TGTGATCTGAACTCATTGAGT
Found at i:55537306 original size:45 final size:45
Alignment explanation
Indices: 55537244--55537341 Score: 155
Period size: 45 Copynumber: 2.2 Consensus size: 45
55537234 TCACTAGGAA
*
55537244 ATATGTG--ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
1 ATATGTGACATCTGAACTCATTGAGTTGTGGTCTGAGCTCATGAT
*
55537287 ATATGTGACATCTGAACTCATTGAGTTGTGGTCTGAGCTCGTGAT
1 ATATGTGACATCTGAACTCATTGAGTTGTGGTCTGAGCTCATGAT
*
55537332 ATATATGACA
1 ATATGTGACA
55537342 CATGTTTTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
43 7 0.14
45 43 0.86
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (45 bp):
ATATGTGACATCTGAACTCATTGAGTTGTGGTCTGAGCTCATGAT
Found at i:55542402 original size:48 final size:49
Alignment explanation
Indices: 55542336--55542607 Score: 225
Period size: 48 Copynumber: 5.6 Consensus size: 49
55542326 CTGGTACGGA
* *
55542336 TAGTAGCCTGCACATAGTACTACACTTGCAACCAATTATCCGGTACAC-
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
**
55542384 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
* ** ** * *
55542433 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCCGGTACACG
* * ** * *
55542483 TAGTAGCCTGCAC--ACTAC-ACACGTG--ACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCCGGTACACG
* * * ** * *
55542528 TAGTAGCCTGCACTTAGTACTACACACGTG-ATCACAGTTTTTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACA--TGCAAC-CAATTATCCGGTACACG
*
55542579 TAGTAGTCTGCACTTAGTACTACACATGC
1 TAGTAGCCTGCACTTAGTACTACACATGC
55542608 GACCTCACAA
Statistics
Matches: 189, Mismatches: 25, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
45 33 0.17
47 9 0.05
48 52 0.28
49 34 0.18
50 27 0.14
51 33 0.17
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
Found at i:55542481 original size:24 final size:24
Alignment explanation
Indices: 55542453--55542526 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
55542443 CACTTAGTAC
55542453 TACACACGTGACCTAACCATCTGA
1 TACACACGTGACCTAACCATCTGA
* * **
55542477 T--ACACGT-A-GTAGCC-TGCACA
1 TACACACGTGACCTAACCAT-CTGA
55542497 CTACACACGTGACCTAACCATCTGA
1 -TACACACGTGACCTAACCATCTGA
55542522 TACAC
1 TACAC
55542527 GTAGTAGCCT
Statistics
Matches: 35, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 2 0.06
22 6 0.17
23 6 0.17
24 7 0.20
25 6 0.17
26 1 0.03
ACGTcount: A:0.32, C:0.34, G:0.14, T:0.20
Consensus pattern (24 bp):
TACACACGTGACCTAACCATCTGA
Found at i:55542483 original size:22 final size:22
Alignment explanation
Indices: 55542456--55542528 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
55542446 TTAGTACTAC
55542456 ACACGTGACCTAACCATCTGAT
1 ACACGTGACCTAACCATCTGAT
* *
55542478 ACACGTAGTAGCCT-GCACA-CT-AC
1 ACACGT-G-A-CCTAAC-CATCTGAT
55542501 ACACGTGACCTAACCATCTGAT
1 ACACGTGACCTAACCATCTGAT
55542523 ACACGT
1 ACACGT
55542529 AGTAGCCTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
20 5 0.12
21 4 0.10
22 14 0.35
23 8 0.20
24 4 0.10
25 5 0.12
ACGTcount: A:0.32, C:0.33, G:0.15, T:0.21
Consensus pattern (22 bp):
ACACGTGACCTAACCATCTGAT
Found at i:55542507 original size:45 final size:46
Alignment explanation
Indices: 55542379--55542541 Score: 188
Period size: 45 Copynumber: 3.4 Consensus size: 46
55542369 AATTATCCGG
* ** * *
55542379 TACAC-TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGG
1 TACACGTAGTAGCCTGCAC----TACTACACACGTGACCTAACCATCTGA
55542427 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGA
1 TACACGTAGTAGCCTGCAC----TACTACACACGTGACCTAACCATCTGA
55542477 TACACGTAGTAGCCTGCAC-ACTACACACGTGACCTAACCATCTGA
1 TACACGTAGTAGCCTGCACTACTACACACGTGACCTAACCATCTGA
55542522 TACACGTAGTAGCCTGCACT
1 TACACGTAGTAGCCTGCACT
55542542 TAGTACTACA
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
45 45 0.42
48 5 0.05
49 32 0.30
50 25 0.23
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (46 bp):
TACACGTAGTAGCCTGCACTACTACACACGTGACCTAACCATCTGA
Found at i:55553944 original size:14 final size:14
Alignment explanation
Indices: 55553925--55553973 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
55553915 TGGTAAGTGA
55553925 TATATATAATGCCT
1 TATATATAATGCCT
**
55553939 TATATATAATGTGT
1 TATATATAATGCCT
*
55553953 GATGTATATAATGCCT
1 --TATATATAATGCCT
55553969 TATAT
1 TATAT
55553974 GTTGGCTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 16 0.59
16 11 0.41
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (14 bp):
TATATATAATGCCT
Found at i:55575040 original size:27 final size:27
Alignment explanation
Indices: 55574916--55575031 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
55574906 ATAAATACAT
* * *
55574916 CACAT-AGGGCAAAACAATCATCTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * * **
55574942 CATATGAGGGCAAAACAGTCATCCTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
55574969 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
55574996 CACATAAGGGTAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
55575023 CACATAAGG
1 CACATAAGG
55575032 CCATGATAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 4 0.05
27 76 0.95
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:55575049 original size:54 final size:54
Alignment explanation
Indices: 55574938--55575067 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 54
55574928 AACAATCATC
* * * *
55574938 TTACCATATGAGGGCAAAACAGTCATCCTACCACATAAGGGCAAAATAGTCATT
1 TTACCACATAAGGGCAAAACAGTCATCCTACCACATAAGGCCAAAATAGTCAAT
* * ** **
55574992 TTACCACATAAGGGTAAAATAGTCATTTTACCACATAAGGCCATGATAG-CAAAT
1 TTACCACATAAGGGCAAAACAGTCATCCTACCACATAAGGCCAAAATAGTC-AAT
* * *
55575046 TTACCTCATAGGGGCAGAACAG
1 TTACCACATAAGGGCAAAACAG
55575068 ACATTTATCA
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (54 bp):
TTACCACATAAGGGCAAAACAGTCATCCTACCACATAAGGCCAAAATAGTCAAT
Found at i:55585012 original size:17 final size:18
Alignment explanation
Indices: 55584983--55585016 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
55584973 TGTGGCTTGA
55584983 CTGTGTGGGCCCACATGC
1 CTGTGTGGGCCCACATGC
55585001 CTGTGT-GGCCCACATG
1 CTGTGTGGGCCCACATG
55585017 GCCCAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.24
Consensus pattern (18 bp):
CTGTGTGGGCCCACATGC
Found at i:55588460 original size:47 final size:47
Alignment explanation
Indices: 55588406--55588854 Score: 790
Period size: 47 Copynumber: 9.5 Consensus size: 47
55588396 TATTTGAATA
*
55588406 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
55588453 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
55588502 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
55588549 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
55588596 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
55588643 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
55588690 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
55588737 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
55588784 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
55588831 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
55588855 GAGTCCCGAA
Statistics
Matches: 388, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 342 0.88
49 46 0.12
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:55594760 original size:37 final size:37
Alignment explanation
Indices: 55594691--55594953 Score: 222
Period size: 37 Copynumber: 7.0 Consensus size: 37
55594681 CGTATCAATG
* * **
55594691 GATAATGCTCGTTTGAGCGTGCATTCCTTATAATCAGTA
1 GATATTGCTCGTTTGAGC--ACATTCAGTATAATCAGTA
* * * * *
55594730 GATATCGCTCATTTGAGCCCATTCAGTATAATCAATG
1 GATATTGCTCGTTTGAGCACATTCAGTATAATCAGTA
* * *
55594767 GACATTGCTCGTTTGAGTAACTTTCAGTATAATCAGTA
1 GATATTGCTCGTTTGAG-CACATTCAGTATAATCAGTA
* * * ** * *
55594805 GACATTTCTCTTTTGAGCATGTTCAGTATATTCAATA
1 GATATTGCTCGTTTGAGCACATTCAGTATAATCAGTA
* * * *
55594842 GATATTGCTCGTTTGAGCCCATTCAATATAATTAGTG
1 GATATTGCTCGTTTGAGCACATTCAGTATAATCAGTA
*
55594879 GATATTGCTCGTTTGAGCAACTTTCAGTATAATCAGTA
1 GATATTGCTCGTTTGAGC-ACATTCAGTATAATCAGTA
* * * *
55594917 AATATTGCT-TTTATGAGCACGTTCAGTATATTCAGTA
1 GATATTGCTCGTT-TGAGCACATTCAGTATAATCAGTA
55594954 TTCCATTTTT
Statistics
Matches: 178, Mismatches: 43, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
37 106 0.60
38 57 0.32
39 15 0.08
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (37 bp):
GATATTGCTCGTTTGAGCACATTCAGTATAATCAGTA
Found at i:55594887 original size:112 final size:112
Alignment explanation
Indices: 55594719--55594950 Score: 331
Period size: 112 Copynumber: 2.1 Consensus size: 112
55594709 GTGCATTCCT
* * *
55594719 TATAATCAGTAGATATCGCTCATTTGAGCCCATTCAGTATAATCAATGGACATTGCTCGTTTGAG
1 TATATTCAATAGATATCGCTCATTTGAGCCCATTCAATATAATCAATGGACATTGCTCGTTTGAG
* * * *
55594784 TAACTTTCAGTATAATCAGTAGACATTTCTCTTT-TGAGCATGTTCAG
66 CAACTTTCAGTATAATCAGTAAACATTGCT-TTTATGAGCACGTTCAG
* * * * *
55594831 TATATTCAATAGATATTGCTCGTTTGAGCCCATTCAATATAATTAGTGGATATTGCTCGTTTGAG
1 TATATTCAATAGATATCGCTCATTTGAGCCCATTCAATATAATCAATGGACATTGCTCGTTTGAG
*
55594896 CAACTTTCAGTATAATCAGTAAATATTGCTTTTATGAGCACGTTCAG
66 CAACTTTCAGTATAATCAGTAAACATTGCTTTTATGAGCACGTTCAG
55594943 TATATTCA
1 TATATTCA
55594951 GTATTCCATT
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
111 3 0.03
112 103 0.97
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (112 bp):
TATATTCAATAGATATCGCTCATTTGAGCCCATTCAATATAATCAATGGACATTGCTCGTTTGAG
CAACTTTCAGTATAATCAGTAAACATTGCTTTTATGAGCACGTTCAG
Found at i:55594922 original size:75 final size:74
Alignment explanation
Indices: 55594684--55594953 Score: 229
Period size: 75 Copynumber: 3.6 Consensus size: 74
55594674 TATTTCACGT
* * * ** * *
55594684 ATCAATGGATAATGCTCGTTTGAGCGTGCATTCCTTATAATCAGTAGATATCGCTCATTTGAGCC
1 ATCAATAGATATTGCTCGTTTGAGC--ACATTCAATATAATCAGTAGATATTGCTCATTTGAGCA
*
55594749 CATTCAGTATA
64 CTTTCAGTATA
* * * * * * * *
55594760 ATCAATGGACATTGCTCGTTTGAGTAACTTTCAGTATAATCAGTAGACATTTCTCTTTTGAGCA-
1 ATCAATAGATATTGCTCGTTTGAG-CACATTCAATATAATCAGTAGATATTGCTCATTTGAGCAC
55594824 TGTTCAGTATA
65 T-TTCAGTATA
* * * * *
55594835 TTCAATAGATATTGCTCGTTTGAGCCCATTCAATATAATTAGTGGATATTGCTCGTTTGAGCAAC
1 ATCAATAGATATTGCTCGTTTGAGCACATTCAATATAATCAGTAGATATTGCTCATTTGAGC-AC
55594900 TTTCAGTATA
65 TTTCAGTATA
* * * * * *
55594910 ATCAGTAAATATTGCT-TTTATGAGCACGTTCAGTATATTCAGTA
1 ATCAATAGATATTGCTCGTT-TGAGCACATTCAATATAATCAGTA
55594954 TTCCATTTTT
Statistics
Matches: 154, Mismatches: 35, Indels: 11
0.77 0.17 0.05
Matches are distributed among these distances:
74 31 0.20
75 100 0.65
76 23 0.15
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (74 bp):
ATCAATAGATATTGCTCGTTTGAGCACATTCAATATAATCAGTAGATATTGCTCATTTGAGCACT
TTCAGTATA
Found at i:55597032 original size:18 final size:18
Alignment explanation
Indices: 55597009--55597051 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
55596999 TAAGTTTCTA
*
55597009 AAAATGGAAATAGAAATG
1 AAAATGAAAATAGAAATG
55597027 AAAATGAAAATAGAAATG
1 AAAATGAAAATAGAAATG
55597045 AAAATGA
1 AAAATGA
55597052 TGCATTCGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (18 bp):
AAAATGAAAATAGAAATG
Found at i:55607770 original size:13 final size:13
Alignment explanation
Indices: 55607752--55607776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55607742 CAAACTTACG
55607752 AGAAGAAAAAAAA
1 AGAAGAAAAAAAA
55607765 AGAAGAAAAAAA
1 AGAAGAAAAAAA
55607777 TTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAAGAAAAAAAA
Found at i:55609098 original size:17 final size:17
Alignment explanation
Indices: 55609076--55609110 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
55609066 ACCTTGTGCT
55609076 TCAGAACTTAGGAAAAG
1 TCAGAACTTAGGAAAAG
55609093 TCAGAACTTAGGAAAAG
1 TCAGAACTTAGGAAAAG
55609110 T
1 T
55609111 TAGTTATAAT
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:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (17 bp):
TCAGAACTTAGGAAAAG
Found at i:55609498 original size:13 final size:13
Alignment explanation
Indices: 55609424--55609500 Score: 93
Period size: 13 Copynumber: 5.9 Consensus size: 13
55609414 AGTTTGGCAA
55609424 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
55609437 TGCTGTAT-AAAAG
1 TGCT-TTTGAAAAG
* *
55609450 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
55609463 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
55609476 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
55609489 TACTTTTGAAAA
1 TGCTTTTGAAAA
55609501 ATTTAAGTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
12 2 0.04
13 51 0.93
14 2 0.04
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:55609678 original size:8 final size:9
Alignment explanation
Indices: 55609660--55609707 Score: 50
Period size: 8 Copynumber: 5.6 Consensus size: 9
55609650 TATTATAACT
55609660 TATTATTAA
1 TATTATTAA
55609669 TATT-TTAATA
1 TATTATT-A-A
55609679 TATTATTAA
1 TATTATTAA
55609688 TATT-TTAA
1 TATTATTAA
55609696 TA-TA-TAA
1 TATTATTAA
55609703 TATTA
1 TATTA
55609708 ATTTTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
7 6 0.18
8 10 0.29
9 10 0.29
10 6 0.18
11 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATTATTAA
Found at i:55609706 original size:21 final size:19
Alignment explanation
Indices: 55609660--55609718 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
55609650 TATTATAACT
55609660 TATTATTAATATTTTAATA
1 TATTATTAATATTTTAATA
55609679 TATTATTAATATTTTAATA
1 TATTATTAATATTTTAATA
*
55609698 TATAATATTAAT-TTTAAATA
1 TAT--TATTAATATTTTAATA
55609718 T
1 T
55609719 TTCTAAGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 22 0.59
20 8 0.22
21 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTATTAATATTTTAATA
Found at i:55610611 original size:29 final size:30
Alignment explanation
Indices: 55610565--55610628 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
55610555 TAATTTGGTT
55610565 AAAATAGATTTTTAAAATAAGGTTTAATTTG
1 AAAATAGATTTTTAAAATAAGGTTTAA-TTG
* * *
55610596 AAAATA-A-TTTTGAAATTAGTTTTAATTG
1 AAAATAGATTTTTAAAATAAGGTTTAATTG
55610624 AAAAT
1 AAAAT
55610629 TAAGGACCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 8 0.27
29 15 0.50
30 1 0.03
31 6 0.20
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (30 bp):
AAAATAGATTTTTAAAATAAGGTTTAATTG
Found at i:55611941 original size:27 final size:29
Alignment explanation
Indices: 55611891--55612006 Score: 80
Period size: 29 Copynumber: 3.9 Consensus size: 29
55611881 TAAAAGGTAT
55611891 GTGTATATATAATAGATACGTATA-GAAGTTTT-
1 GTGTATATAT-ATA-ATA--TATATG-AGTTTTG
55611923 GT-TATATATATAATATATATGAGTTTTG
1 GTGTATATATATAATATATATGAGTTTTG
* * * *
55611951 GTGTTTTTATATAATATATAT--GTGTGG
1 GTGTATATATATAATATATATGAGTTTTG
* *
55611978 GTTTTATTATATATAATATATATGTGTTT
1 G-TGTA-TATATATAATATATATGAGTTT
55612007 ATAGGTTTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
27 15 0.22
28 5 0.07
29 34 0.49
30 3 0.04
31 10 0.14
32 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (29 bp):
GTGTATATATATAATATATATGAGTTTTG
Found at i:55611971 original size:29 final size:29
Alignment explanation
Indices: 55611924--55612033 Score: 98
Period size: 29 Copynumber: 3.7 Consensus size: 29
55611914 AGAAGTTTTG
* *
55611924 TTATATATATAATATATATGAGTTTTGGTG
1 TTATTTATATAATATATATG-GTTTTGGTT
* *
55611954 TT-TTTATATAATATATAT-GTGTGGGTT
1 TTATTTATATAATATATATGGTTTTGGTT
55611981 TTATTATATATAATATATATGTGTTTATAGGTT
1 TTATT-TATATAATATATATG-GTTT-T-GGTT
* *
55612014 TTGTATTATCTAATATATAT
1 TTAT-TTATATAATATATAT
55612034 AAATGTATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
27 8 0.12
28 2 0.03
29 29 0.45
30 2 0.03
31 3 0.05
33 20 0.31
34 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.54
Consensus pattern (29 bp):
TTATTTATATAATATATATGGTTTTGGTT
Found at i:55616023 original size:42 final size:42
Alignment explanation
Indices: 55615921--55616075 Score: 202
Period size: 43 Copynumber: 3.6 Consensus size: 42
55615911 TTCTGAAATG
*
55615921 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT
* * *
55615963 ATGATTACGTGTAAGACCATGTCTGGAACATTGCCATCGTATT
1 -TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT
* * *
55616006 TGATTTCATGTAAGACCATGTCTGGGACAGTGGCATCGATATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATT
* * *
55616049 TGATAACATGTAAGATCATATCTGGGA
1 TGATTACATGTAAGACCATGTCTGGGA
55616076 TATGACATTG
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 33 0.34
43 64 0.66
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT
Found at i:55626230 original size:46 final size:47
Alignment explanation
Indices: 55626120--55626241 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 47
55626110 TGTCCTCGAC
** * *
55626120 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* * *
55626170 ATGGGCTTATATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
55626216 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
55626242 CTGTCCTATC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.53
50 29 0.47
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:55630362 original size:30 final size:30
Alignment explanation
Indices: 55630328--55630402 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
55630318 CTGCTGGTGA
*
55630328 TGGTGGTGGTGGTGAAAGTTTTTCTCCTAG
1 TGGTGGCGGTGGTGAAAGTTTTTCTCCTAG
* * *
55630358 TGGTGGCGGTGGTGAATGTTTTTCTTCTTG
1 TGGTGGCGGTGGTGAAAGTTTTTCTCCTAG
55630388 TGGTGGCGGTGGTGA
1 TGGTGGCGGTGGTGA
55630403 CGTTTTAGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.09, C:0.09, G:0.41, T:0.40
Consensus pattern (30 bp):
TGGTGGCGGTGGTGAAAGTTTTTCTCCTAG
Found at i:55632640 original size:32 final size:31
Alignment explanation
Indices: 55632599--55632669 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
55632589 TGGGTCAGCT
*
55632599 TACAAATT-AATTACAAGAATATGTTGTTTGC
1 TACAAATTAAATTACAA-AATAGGTTGTTTGC
* * *
55632630 TACAATATTAAATTTCGAAATGGGTTGTTTGC
1 TACAA-ATTAAATTACAAAATAGGTTGTTTGC
55632662 TACAAATT
1 TACAAATT
55632670 GGTAGGGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 8 0.24
32 20 0.59
33 6 0.18
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (31 bp):
TACAAATTAAATTACAAAATAGGTTGTTTGC
Found at i:55633747 original size:19 final size:20
Alignment explanation
Indices: 55633717--55633754 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
55633707 TTTAAGGGCC
55633717 ACACGCCCATGTGGCTTGGG
1 ACACGCCCATGTGGCTTGGG
*
55633737 ACACG-CCATGTGGGTTGG
1 ACACGCCCATGTGGCTTGG
55633755 CCGTGTGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.16, C:0.26, G:0.37, T:0.21
Consensus pattern (20 bp):
ACACGCCCATGTGGCTTGGG
Found at i:55643180 original size:40 final size:40
Alignment explanation
Indices: 55643000--55643220 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
55642990 CTCGTTCAAG
* * * * *
55643000 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* *
55643039 TGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
55643079 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* * *
55643119 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* ** * * * *
55643159 GGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAA
* *
55643199 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
55643221 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 115 0.73
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
Found at i:55643229 original size:41 final size:41
Alignment explanation
Indices: 55643152--55643229 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
55643142 TTAGTATCTC
* * *
55643152 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
55643193 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
55643230 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Done.