Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 18 of 295
Found at i:5152780 original size:12 final size:12
Alignment explanation
Indices: 5152763--5152822 Score: 79
Period size: 12 Copynumber: 4.9 Consensus size: 12
5152753 TGAAAAATAA
5152763 AATAATATAAAT
1 AATAATATAAAT
5152775 AATAATATAAAT
1 AATAATATAAAT
5152787 AAT-ATATAAAT
1 AATAATATAAAT
5152798 AGATAATTATATAAT
1 A-ATAA-TATA-AAT
5152813 -ATAATATAAA
1 AATAATATAAA
5152823 AGTAAGGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
11 11 0.25
12 21 0.48
13 5 0.11
14 4 0.09
15 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:5152797 original size:23 final size:23
Alignment explanation
Indices: 5152767--5152815 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
5152757 AAATAAAATA
5152767 ATATAAATA-ATAATATAAATAAT
1 ATATAAATAGATAAT-TAAATAAT
*
5152790 ATATAAATAGATAATTATATAAT
1 ATATAAATAGATAATTAAATAAT
5152813 ATA
1 ATA
5152816 ATATAAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
ATATAAATAGATAATTAAATAAT
Found at i:5154777 original size:27 final size:27
Alignment explanation
Indices: 5154732--5154787 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
5154722 AGGTGGCTTT
* * *
5154732 GGAGTTGGAGGCGGGGGTGGTTTTGGA
1 GGAGCTGGAGGCGGGGGTGGATTCGGA
* *
5154759 GGAGCTGGAGGTGGTGGTGGATTCGGA
1 GGAGCTGGAGGCGGGGGTGGATTCGGA
5154786 GG
1 GG
5154788 TGGGCATGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.12, C:0.05, G:0.59, T:0.23
Consensus pattern (27 bp):
GGAGCTGGAGGCGGGGGTGGATTCGGA
Found at i:5154870 original size:30 final size:30
Alignment explanation
Indices: 5154836--5154994 Score: 82
Period size: 30 Copynumber: 5.3 Consensus size: 30
5154826 GTGGTGGATA
5154836 TGGTGGTGGGATTGGCAAAGGAGGAGGTGT
1 TGGTGGTGGGATTGGCAAAGGAGGAGGTGT
* * ***
5154866 TGGTGGT-GGATACGG---AGGTGGCATAGGAAA
1 TGGTGGTGGGAT-TGGCAAAGGAGG---AGGTGT
*
5154896 AGGTGGTGGGATTGGCAAAGGAGGAGGTGT
1 TGGTGGTGGGATTGGCAAAGGAGGAGGTGT
* * ***
5154926 TGGTGGT-GGATACGG---AGGTGGCATAGGAAA
1 TGGTGGTGGGAT-TGGCAAAGGAGG---AGGTGT
*
5154956 GGGTGGTGGGATTGGCAAAGGAGGAGGTGT
1 TGGTGGTGGGATTGGCAAAGGAGGAGGTGT
5154986 TGGTGGTGG
1 TGGTGGTGG
5154995 AATCGGAAAG
Statistics
Matches: 89, Mismatches: 24, Indels: 32
0.61 0.17 0.22
Matches are distributed among these distances:
27 10 0.11
29 8 0.09
30 53 0.60
31 8 0.09
33 10 0.11
ACGTcount: A:0.22, C:0.04, G:0.52, T:0.21
Consensus pattern (30 bp):
TGGTGGTGGGATTGGCAAAGGAGGAGGTGT
Found at i:5154870 original size:60 final size:59
Alignment explanation
Indices: 5154837--5154995 Score: 291
Period size: 60 Copynumber: 2.7 Consensus size: 59
5154827 TGGTGGATAT
5154837 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGATACGGAGGTGGCATAGGAAAA
1 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGATACGGAGGTGG-ATAGGAAAA
*
5154897 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGATACGGAGGTGGCATAGGAAAG
1 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGATACGGAGGTGG-ATAGGAAAA
5154957 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGA
1 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGA
5154996 ATCGGAAAGG
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 98 1.00
ACGTcount: A:0.23, C:0.04, G:0.52, T:0.21
Consensus pattern (59 bp):
GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGATACGGAGGTGGATAGGAAAA
Found at i:5154888 original size:36 final size:36
Alignment explanation
Indices: 5154848--5154953 Score: 92
Period size: 36 Copynumber: 3.3 Consensus size: 36
5154838 GTGGTGGGAT
5154848 TGGCAAAGGAGGAGGTGTTGGTGGTGGATACGGAGG
1 TGGCAAAGGAGGAGGTGTTGGTGGTGGATACGGAGG
* * *
5154884 TGGCATAGGA-AAAG-G-TGGT-G-GGAT-------
1 TGGCAAAGGAGGAGGTGTTGGTGGTGGATACGGAGG
5154908 TGGCAAAGGAGGAGGTGTTGGTGGTGGATACGGAGG
1 TGGCAAAGGAGGAGGTGTTGGTGGTGGATACGGAGG
*
5154944 TGGCATAGGA
1 TGGCAAAGGA
5154954 AAGGGTGGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 24
0.62 0.09 0.29
Matches are distributed among these distances:
24 9 0.18
25 2 0.04
26 1 0.02
27 4 0.08
28 1 0.02
29 4 0.08
31 4 0.08
32 1 0.02
33 4 0.08
34 1 0.02
35 2 0.04
36 18 0.35
ACGTcount: A:0.25, C:0.06, G:0.50, T:0.20
Consensus pattern (36 bp):
TGGCAAAGGAGGAGGTGTTGGTGGTGGATACGGAGG
Found at i:5155072 original size:78 final size:78
Alignment explanation
Indices: 5154927--5155090 Score: 240
Period size: 78 Copynumber: 2.1 Consensus size: 78
5154917 AGGAGGTGTT
* * * *
5154927 GGTGGTGGATACGGAGGTGGCATAGGAAAGGGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGG
1 GGTGGAGGATACGGAGGTGGCATAGGAAAAGGTGGTGGGATTGGCAAAGGAGGAGGTGATGGAGG
5154992 TGGAATCGGAAAG
66 TGGAATCGGAAAG
*
5155005 GGTGGAGGATACGGAGGTGGCGTAGGAAAAGGTGGTGGGATTGGCAAAGGAGGAGGAT-ATGGAG
1 GGTGGAGGATACGGAGGTGGCATAGGAAAAGGTGGTGGGATTGGCAAAGGAGGAGG-TGATGGAG
* *
5155069 GTGGAATTGGTAAG
65 GTGGAATCGGAAAG
*
5155083 GGAGGAGG
1 GGTGGAGG
5155091 CCATGGAATT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
78 76 0.99
79 1 0.01
ACGTcount: A:0.26, C:0.04, G:0.52, T:0.18
Consensus pattern (78 bp):
GGTGGAGGATACGGAGGTGGCATAGGAAAAGGTGGTGGGATTGGCAAAGGAGGAGGTGATGGAGG
TGGAATCGGAAAG
Found at i:5155097 original size:30 final size:30
Alignment explanation
Indices: 5155038--5155097 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
5155028 AGGAAAAGGT
* *
5155038 GGTGGGATTGGCAAAGGAGGAGGATATGGA
1 GGTGGAATTGGCAAAGGAGGAGGACATGGA
* * *
5155068 GGTGGAATTGGTAAGGGAGGAGGCCATGGA
1 GGTGGAATTGGCAAAGGAGGAGGACATGGA
5155098 ATTGGTGGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.05, G:0.50, T:0.17
Consensus pattern (30 bp):
GGTGGAATTGGCAAAGGAGGAGGACATGGA
Found at i:5155263 original size:24 final size:24
Alignment explanation
Indices: 5155183--5155264 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
5155173 GGATATGGCA
5155183 AGGGTGGTGGTTTTGGAGGTGGAG
1 AGGGTGGTGGTTTTGGAGGTGGAG
*** *
5155207 TA-GGTGGTGGAGCTGGAGGTGGAA
1 -AGGGTGGTGGTTTTGGAGGTGGAG
* *
5155231 AGGGCGGTGGTTTTGGAGGTGGTG
1 AGGGTGGTGGTTTTGGAGGTGGAG
*
5155255 GGGGTGGTGG
1 AGGGTGGTGG
5155265 AAATGGACAC
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
23 1 0.02
24 42 0.95
25 1 0.02
ACGTcount: A:0.12, C:0.02, G:0.60, T:0.26
Consensus pattern (24 bp):
AGGGTGGTGGTTTTGGAGGTGGAG
Found at i:5156173 original size:30 final size:29
Alignment explanation
Indices: 5156133--5156202 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
5156123 TGTTTAATAA
5156133 TTTTTTTATTTAT-TCATTT-AGAATTTAGT
1 TTTTTTTATTTATAT--TTTAAGAATTTAGT
5156162 TTTTTTCTATTTATATTTTCAAGAATTTAG-
1 TTTTTT-TATTTATATTTT-AAGAATTTAGT
5156192 TTTTTTTATTT
1 TTTTTTTATTT
5156203 TTTTAATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
29 14 0.38
30 13 0.35
31 10 0.27
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.67
Consensus pattern (29 bp):
TTTTTTTATTTATATTTTAAGAATTTAGT
Found at i:5156952 original size:42 final size:42
Alignment explanation
Indices: 5156901--5157186 Score: 434
Period size: 42 Copynumber: 6.8 Consensus size: 42
5156891 GTTTACAAAC
* *
5156901 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
5156943 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
5156985 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-AA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
5157026 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
* * * *
5157068 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
5157110 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
5157152 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
5157187 TTTTTTTTCT
Statistics
Matches: 224, Mismatches: 16, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
40 2 0.01
41 36 0.16
42 183 0.82
43 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:5157048 original size:125 final size:126
Alignment explanation
Indices: 5156901--5157188 Score: 454
Period size: 125 Copynumber: 2.3 Consensus size: 126
5156891 GTTTACAAAC
* * * *
5156901 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTAGTAAAAAAACGCCACTAAAGACCATG
*
5156965 TTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA-A
65 TTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGA
* *
5157026 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCACTAAAGACCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTAGTAAAAAAACGCCACTAAAGACCATGT
* *
5157091 TCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGG
66 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGA
* *
5157152 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTT
5157189 TTTTTTCTAA
Statistics
Matches: 150, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
124 3 0.02
125 112 0.75
126 35 0.23
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (126 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTAGTAAAAAAACGCCACTAAAGACCATGT
TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGA
Found at i:5157101 original size:167 final size:167
Alignment explanation
Indices: 5156912--5157273 Score: 503
Period size: 167 Copynumber: 2.2 Consensus size: 167
5156902 AAAACGCCGT
*
5156912 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
5156977 GCTT-AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTAAAAAAAACGCCGCTAA
66 GCTTAAG-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTCTTAAAAAAAACGCCGCTAA
*
5157040 AGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
130 AGAACATGTTCTTTAGCGGCATTT-TAAAAAAATGCCAC
*
5157079 TAAAGACCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
** * ***** *
5157144 GCTTAAGGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTCTAATCGCCGCTAA
66 GCTTAAGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-TCTTAAAAAAAACGCCGCTAA
* ** * *
5157209 AGAACATGTTCTTTAGTGGCATTTTTTACAAATGCCGC
130 AGAACATGTTCTTTAGCGGCATTTTAAAAAAATGCCAC
* * *
5157247 AAAAGAACATGTTCTTTAGTGGCGCTT
1 TAAAGACCATGTTCTTTAGCGGCGCTT
5157274 TTATACAAAA
Statistics
Matches: 172, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
167 101 0.59
168 36 0.21
169 35 0.20
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (167 bp):
TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
GCTTAAGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTCTTAAAAAAAACGCCGCTAAA
GAACATGTTCTTTAGCGGCATTTTAAAAAAATGCCAC
Found at i:5157246 original size:41 final size:42
Alignment explanation
Indices: 5156901--5157288 Score: 408
Period size: 42 Copynumber: 9.2 Consensus size: 42
5156891 GTTTACAAAC
* * **
5156901 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTAA
* **
5156943 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTAA
* *
5156985 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTAAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTAA
5157026 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTT-TAA
* * * ***
5157068 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTAA
5157110 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGC--TTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTAA
* * * **
5157150 GGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTT
1 --AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTTTAA
** * * * **
5157195 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTAA
* * * *
5157236 ACAAATGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTATA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTA-A
5157279 CAAAAACGCC
1 -AAAAACGCC
5157289 ACTATTTTGG
Statistics
Matches: 296, Mismatches: 39, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
40 1 0.00
41 74 0.25
42 181 0.61
43 31 0.10
44 7 0.02
45 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTAA
Found at i:5157668 original size:21 final size:21
Alignment explanation
Indices: 5157600--5157670 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
5157590 TTTTGCTCTG
* * *
5157600 CTCTGCTTCTCTTGTTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
5157621 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
5157642 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
5157663 CTCTGCTT
1 CTCTGCTT
5157671 TAAGTTGTAG
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.03, C:0.44, G:0.18, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:5158152 original size:73 final size:73
Alignment explanation
Indices: 5158073--5158217 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 73
5158063 TTAAACCATT
5158073 TTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
1 TTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
5158138 TTTTATAA
66 TTTTATAA
*
5158146 TTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAGTATTCCACATATTT
1 TTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
5158211 TTTTATA
66 TTTTATA
5158218 TTTTATTTTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (73 bp):
TTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
TTTTATAA
Found at i:5158211 original size:35 final size:35
Alignment explanation
Indices: 5158099--5158211 Score: 95
Period size: 35 Copynumber: 3.1 Consensus size: 35
5158089 ATAAAATAAC
5158099 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
* * **** *
5158134 ATTTT-TTTATAATTATTAATAATATTTAATAAAATA-AC
1 ATTTTATTT-TAA-TAGT--CAAT-TTTAATATTCCACAT
*
5158172 ATTTTATTTTAATAGTCAATTTTAGTATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
5158207 ATTTT
1 ATTTT
5158212 TTTATATTTT
Statistics
Matches: 56, Mismatches: 15, Indels: 14
0.66 0.18 0.16
Matches are distributed among these distances:
34 10 0.18
35 17 0.30
36 3 0.05
37 3 0.05
38 12 0.21
39 11 0.20
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (35 bp):
ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
Found at i:5158215 original size:38 final size:37
Alignment explanation
Indices: 5158100--5158216 Score: 98
Period size: 38 Copynumber: 3.2 Consensus size: 37
5158090 TAAAATAACA
5158100 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
1 TTTTATTTTAATAGTCAATTTT-ATATTCCACATATTT
* * * * * ***
5158138 TTTTATAATTATTAAT-AATATTTA-A-T-AAAATAACA
1 TTTTAT-TTTAATAGTCAAT-TTTATATTCCACATATTT
5158173 TTTTATTTTAATAGTCAATTTTAGTATTCCACATATTT
1 TTTTATTTTAATAGTCAATTTTA-TATTCCACATATTT
5158211 TTTTAT
1 TTTTAT
5158217 ATTTTATTTT
Statistics
Matches: 56, Mismatches: 16, Indels: 14
0.65 0.19 0.16
Matches are distributed among these distances:
34 10 0.18
35 13 0.23
36 2 0.04
37 2 0.04
38 20 0.36
39 9 0.16
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (37 bp):
TTTTATTTTAATAGTCAATTTTATATTCCACATATTT
Found at i:5158382 original size:13 final size:13
Alignment explanation
Indices: 5158364--5158434 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
5158354 ATTTATAATT
5158364 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
5158377 ATTTAAGTAACAT
1 ATTTAAGTAATAA
5158390 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
5158403 ATTTAAGTAACAT
1 ATTTAAGTAATAA
5158416 ATTTAAGTAATAA
1 ATTTAAGTAATAA
5158429 ATTTAA
1 ATTTAA
5158435 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:5158393 original size:26 final size:26
Alignment explanation
Indices: 5158363--5158434 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
5158353 TATTTATAAT
5158363 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
5158389 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
5158415 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
5158435 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:5158461 original size:17 final size:17
Alignment explanation
Indices: 5158439--5158596 Score: 149
Period size: 17 Copynumber: 8.6 Consensus size: 17
5158429 ATTTAAACAA
5158439 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
5158456 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
5158473 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
5158490 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
5158513 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
5158530 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
*
5158547 AAACAAATTTTAGTAAGTAATTT
1 ------ATTTTAGTAAGTAATGT
5158570 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
5158587 ATTTTAGTAA
1 ATTTTAGTAA
5158597 TAAATTTAAC
Statistics
Matches: 121, Mismatches: 4, Indels: 32
0.77 0.03 0.20
Matches are distributed among these distances:
16 2 0.02
17 88 0.73
23 29 0.24
24 2 0.02
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.46
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:5158485 original size:57 final size:57
Alignment explanation
Indices: 5158406--5158605 Score: 364
Period size: 57 Copynumber: 3.5 Consensus size: 57
5158396 GTAATAAATT
** *
5158406 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
5158463 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
*
5158520 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
5158577 TAAGTAATGTATTTTAGTAATAAATTTAA
1 TAAGTAATGTATTTTAGTAATAAATTTAA
5158606 CATTCAATCG
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 139 1.00
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (57 bp):
TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
Found at i:5159952 original size:11 final size:11
Alignment explanation
Indices: 5159936--5159975 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
5159926 GATGATAATA
5159936 CATTAGTTACC
1 CATTAGTTACC
5159947 CATTAGTTACC
1 CATTAGTTACC
*
5159958 CACTAGTTACC
1 CATTAGTTACC
5159969 CA-TAGTT
1 CATTAGTT
5159976 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:5161065 original size:84 final size:83
Alignment explanation
Indices: 5160958--5161158 Score: 330
Period size: 84 Copynumber: 2.4 Consensus size: 83
5160948 ATTAACACCG
5160958 TTTTGTGGCGTTTTTGGTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
1 TTTTGTGGCGTTTTT-G-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
5161023 TCGTGGTCTGGAATTGCATT
64 TCGTGGTCTGGAATTGCATT
*
5161043 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
1 TTTTGTGGCGTTTTT-GAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTT
5161108 CGTGGTCTGGAATTGCATT
65 CGTGGTCTGGAATTGCATT
* * *
5161127 ATTTGTGGCATTTTCTTAAAAACGCCACTAAA
1 TTTTGTGGCGTTTT-TGAAAAACGCCACTAAA
5161159 AGTTTAACTA
Statistics
Matches: 110, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
84 93 0.85
85 17 0.15
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (83 bp):
TTTTGTGGCGTTTTTGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTTC
GTGGTCTGGAATTGCATT
Found at i:5161561 original size:12 final size:12
Alignment explanation
Indices: 5161544--5161569 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5161534 TTAAAATAGC
5161544 ACGACCTCTTTT
1 ACGACCTCTTTT
5161556 ACGACCTCTTTT
1 ACGACCTCTTTT
5161568 AC
1 AC
5161570 AGTTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.35, G:0.08, T:0.38
Consensus pattern (12 bp):
ACGACCTCTTTT
Found at i:5162497 original size:111 final size:111
Alignment explanation
Indices: 5162182--5162772 Score: 957
Period size: 111 Copynumber: 5.3 Consensus size: 111
5162172 AACACCTAGA
* * *
5162182 TTAGCGGCGCTTTACAAAAAACGCCACTAATGCCCCCCCAAAGGACACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAA-GTCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
* * * * * ** *
5162247 GAGTATTATTTGCGGCATTTTTTTATAAGCGCTGCTAATGTTCACTCT
65 GTGTATTATTTGCGGC-GTTATCTATAAACGCCACTAATGCTCACTCT
5162295 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGT-CCCCCCAAAGGCCACAAAACGGCACCGTCTGG
5162360 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
65 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
**
5162407 TTAGCGGCGCTTCGCAATAAACGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGG
* *
5162472 TGTATTATTTGCGGCGTTATTTATAAACGCCGCTAATGCTCACTCT
66 TGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
*
5162518 TTAGCGGCGCTTTACAATAAATGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGG
5162583 TGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 TGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
5162629 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCCCAAAGGCCACAAAACGGCACCGTCT
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGT---CCCCCCAAAGGCCACAAAACGGCACCGTCT
5162694 GGGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
63 GGGTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
* **
5162743 TTAGCGGCGCTTTTCCTTAAACGCCACTAA
1 TTAGCGGCGCTTTACAATAAACGCCACTAA
5162773 TGCTCACTCT
Statistics
Matches: 450, Mismatches: 24, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
111 214 0.48
112 55 0.12
113 75 0.17
114 106 0.24
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (111 bp):
TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGG
TGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
Found at i:5162765 original size:40 final size:40
Alignment explanation
Indices: 5162720--5162836 Score: 198
Period size: 40 Copynumber: 2.9 Consensus size: 40
5162710 GCGTTATCTA
**
5162720 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
5162760 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
* *
5162800 TAAACGCCGCTATTGCTCACTCTTTAGCGGCGCTTTT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTT
5162837 GCTCCAAACG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (40 bp):
TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
Found at i:5163410 original size:30 final size:30
Alignment explanation
Indices: 5163370--5163438 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
5163360 AGTATATATC
* *
5163370 TTTATAATTTTTAAAAGATTAAATTA-AATT
1 TTTATTATTTTTAAAAGATTAAAATACAA-T
* *
5163400 TTTATTATTTTTGAAGGATTAAAATACAAT
1 TTTATTATTTTTAAAAGATTAAAATACAAT
5163430 TTTATTATT
1 TTTATTATT
5163439 ACTAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 32 0.94
31 2 0.06
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (30 bp):
TTTATTATTTTTAAAAGATTAAAATACAAT
Found at i:5164205 original size:15 final size:15
Alignment explanation
Indices: 5164160--5164206 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
5164150 CTCAGATTAC
5164160 GTTTTAGTCACTTAT
1 GTTTTAGTCACTTAT
* *
5164175 GTTTGAAAT-A-TTAT
1 GTTT-TAGTCACTTAT
5164189 GTTTTAGTCACTTAT
1 GTTTTAGTCACTTAT
5164204 GTT
1 GTT
5164207 ATCGTCTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
13 2 0.08
14 9 0.36
15 12 0.48
16 2 0.08
ACGTcount: A:0.23, C:0.09, G:0.15, T:0.53
Consensus pattern (15 bp):
GTTTTAGTCACTTAT
Found at i:5166770 original size:15 final size:15
Alignment explanation
Indices: 5166744--5166782 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
5166734 TTGTTATTTT
5166744 AATTAA-TTTTTTAA
1 AATTAATTTTTTTAA
5166758 AATTAATTTTTTTAA
1 AATTAATTTTTTTAA
5166773 ATATT-ATTTT
1 A-ATTAATTTT
5166783 CTATATGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.26
15 14 0.61
16 3 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTAATTTTTTTAA
Found at i:5166782 original size:14 final size:14
Alignment explanation
Indices: 5166744--5166774 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5166734 TTGTTATTTT
5166744 AATTAATTTTTTAA
1 AATTAATTTTTTAA
*
5166758 AATTAATTTTTTTA
1 AATTAATTTTTTAA
5166772 AAT
1 AAT
5166775 ATTATTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTAATTTTTTAA
Found at i:5167053 original size:30 final size:31
Alignment explanation
Indices: 5166996--5167055 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
5166986 AAAAAATTAA
5166996 ATACTAAATTAAAAAAAAGTCAAATTTATAG
1 ATACTAAATTAAAAAAAAGTCAAATTTATAG
* * *
5167027 ATACTAAATTAGAAGAATGT-AAATTTATA
1 ATACTAAATTAAAAAAAAGTCAAATTTATA
5167056 TATGAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (31 bp):
ATACTAAATTAAAAAAAAGTCAAATTTATAG
Found at i:5176199 original size:21 final size:21
Alignment explanation
Indices: 5176175--5176214 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5176165 GCATGTATAT
5176175 GTATATA-TATAGATATTTTTA
1 GTATATATTATA-ATATTTTTA
*
5176196 GTATTTATTATAATATTTT
1 GTATATATTATAATATTTT
5176215 CTTATTCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
GTATATATTATAATATTTTTA
Found at i:5187162 original size:23 final size:23
Alignment explanation
Indices: 5187136--5187210 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
5187126 GTGTTATTGA
*
5187136 TCAGTGGTAGCTTCGGCTACGTT
1 TCAGTGGTAGCTTCGGCTACATT
5187159 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
5187182 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
5187205 TCAGTG
1 TCAGTG
5187211 TTGCACTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:5190708 original size:26 final size:26
Alignment explanation
Indices: 5190677--5190784 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
5190667 TGAAATTCCC
*
5190677 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
5190703 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
5190729 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
5190755 ATAATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
5190781 ATCA
1 ATCA
5190785 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:5193689 original size:16 final size:17
Alignment explanation
Indices: 5193665--5193702 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
5193655 AAAATAGATT
*
5193665 AAAAAAAAATAAAC-AG
1 AAAAAAAAAGAAACGAG
*
5193681 AAAACAAAAGAAACGAG
1 AAAAAAAAAGAAACGAG
5193698 AAAAA
1 AAAAA
5193703 GAACAAACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.79, C:0.08, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAGAAACGAG
Found at i:5198122 original size:10 final size:10
Alignment explanation
Indices: 5198107--5198222 Score: 53
Period size: 10 Copynumber: 11.5 Consensus size: 10
5198097 TTTTTAAAAT
5198107 AATTATTAAA
1 AATTATTAAA
*
5198117 AATTATAAAGA
1 AATTATTAA-A
5198128 AATTA-TAGAA
1 AATTATTA-AA
**
5198138 AACCAATTAAA
1 AA-TTATTAAA
*
5198149 AATTATTAAG
1 AATTATTAAA
*
5198159 AATTATAAAAA
1 AATTAT-TAAA
5198170 AATTA-TAAGA
1 AATTATTAA-A
* *
5198180 GATTGTTAAA
1 AATTATTAAA
*
5198190 AA-TATTTAA
1 AATTATTAAA
5198199 AA-TATTTAAA
1 AATTA-TTAAA
*
5198209 ACTT-TTAAA
1 AATTATTAAA
*
5198218 TATTA
1 AATTA
5198223 CAGAAAATTC
Statistics
Matches: 77, Mismatches: 19, Indels: 20
0.66 0.16 0.17
Matches are distributed among these distances:
9 18 0.23
10 34 0.44
11 23 0.30
12 2 0.03
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (10 bp):
AATTATTAAA
Found at i:5198125 original size:21 final size:20
Alignment explanation
Indices: 5198101--5198175 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 20
5198091 ATAATTTTTT
5198101 TAAAATAATTATTAAAAATTA
1 TAAAA-AATTATTAAAAATTA
**
5198122 TAAAGAAATTA-TAGAAAACCAA
1 TAAA-AAATTATTA-AAAA-TTA
* *
5198144 TTAAAAATTATTAAGAATTA
1 TAAAAAATTATTAAAAATTA
5198164 TAAAAAAATTAT
1 T-AAAAAATTAT
5198176 AAGAGATTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
20 4 0.10
21 31 0.74
22 7 0.17
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (20 bp):
TAAAAAATTATTAAAAATTA
Found at i:5198148 original size:32 final size:31
Alignment explanation
Indices: 5198111--5198170 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 31
5198101 TAAAATAATT
*
5198111 ATTAAAAATTATAAAGAAATTATAGAAAACCA
1 ATTAAAAATTATAAAG-AATTATAAAAAACCA
*
5198143 ATTAAAAATTATTAAGAATTATAAAAAA
1 ATTAAAAATTATAAAGAATTATAAAAAA
5198171 ATTATAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 11 0.42
32 15 0.58
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.28
Consensus pattern (31 bp):
ATTAAAAATTATAAAGAATTATAAAAAACCA
Found at i:5198263 original size:22 final size:22
Alignment explanation
Indices: 5198224--5198268 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
5198214 TAAATATTAC
5198224 AGAAAATTCTATAATCCTTGTTAT
1 AGAAAATTC-ATAATCCTT-TTAT
5198248 AGAAAATTC-TAATCCTTTTAT
1 AGAAAATTCATAATCCTTTTAT
5198269 TAATTCTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
24 9 0.43
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (22 bp):
AGAAAATTCATAATCCTTTTAT
Found at i:5218234 original size:22 final size:22
Alignment explanation
Indices: 5218209--5218252 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5218199 TAATCTTATA
5218209 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
5218231 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
5218253 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:5218288 original size:13 final size:14
Alignment explanation
Indices: 5218272--5218313 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
5218262 TTTTAATTTT
5218272 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
5218285 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
5218300 ATTTTAAATAATAT
1 ATTTT-AATAATAT
5218314 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:5218298 original size:16 final size:16
Alignment explanation
Indices: 5218276--5218312 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
5218266 AATTTTATTT
5218276 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
5218293 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
5218308 TAATA
1 TAATA
5218313 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:5218363 original size:15 final size:15
Alignment explanation
Indices: 5218345--5218398 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 15
5218335 ATTCAATATT
5218345 AATATATTAATAATA
1 AATATATTAATAATA
*
5218360 AATATTTATTACAATTATA
1 AATA--TATT--AATAATA
5218379 AATATATTAATAATA
1 AATATATTAATAATA
5218394 AATAT
1 AATAT
5218399 TTTGTAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 15 0.45
17 8 0.24
19 10 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:5218749 original size:14 final size:14
Alignment explanation
Indices: 5218730--5218768 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
5218720 CCAGAAAAGT
5218730 AAATTATTTTCCAG
1 AAATTATTTTCCAG
**
5218744 AAATTATTTTCTGG
1 AAATTATTTTCCAG
*
5218758 AAATCATTTTC
1 AAATTATTTTC
5218769 AGAGAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (14 bp):
AAATTATTTTCCAG
Found at i:5222966 original size:19 final size:19
Alignment explanation
Indices: 5222942--5222979 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5222932 AACCTCACTT
5222942 GTGAACTGCAATATAATAA
1 GTGAACTGCAATATAATAA
5222961 GTGAACTGCAATATAATAA
1 GTGAACTGCAATATAATAA
5222980 ATACGTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (19 bp):
GTGAACTGCAATATAATAA
Found at i:5230059 original size:22 final size:23
Alignment explanation
Indices: 5230000--5230061 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
5229990 TTTTTGTATT
*
5230000 TAATTACAAATATGTTAAAATAAT
1 TAATTACAAATAT-TTAAAATAAC
* *
5230024 TAA-TAAAAAAATTTAAAAT-AC
1 TAATTACAAATATTTAAAATAAC
5230045 TAATTACAAATATTTAA
1 TAATTACAAATATTTAA
5230062 TGGTTATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 4 0.12
22 18 0.56
23 7 0.22
24 3 0.09
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (23 bp):
TAATTACAAATATTTAAAATAAC
Found at i:5230148 original size:24 final size:24
Alignment explanation
Indices: 5230108--5230159 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
5230098 TTCTAATTAA
*
5230108 ATTTTATAAATAATTAATATTTATT
1 ATTTTATAAATAATTAAAATTTA-T
*
5230133 ATTTTA-AAATATTTAAAATTTAT
1 ATTTTATAAATAATTAAAATTTAT
5230156 ATTT
1 ATTT
5230160 CATATATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 14 0.56
25 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTTATAAATAATTAAAATTTAT
Found at i:5230158 original size:30 final size:30
Alignment explanation
Indices: 5230119--5230175 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
5230109 TTTTATAAAT
*
5230119 AATTAATATTT-ATTATTTTAAAATATTTAA
1 AATTAATATTTCA-TATATTAAAATATTTAA
*
5230149 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
5230176 AACAAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:5237868 original size:31 final size:32
Alignment explanation
Indices: 5237815--5237874 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
5237805 CACCCTTAAA
* * *
5237815 ATATTTTCACTATTAATCCTTCAATTTTTTTC
1 ATATTTACACTATTAACCCTTCAAATTTTTTC
5237847 ATATTTACACT-TTAACCCTTCAAATTTT
1 ATATTTACACTATTAACCCTTCAAATTTT
5237875 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (32 bp):
ATATTTACACTATTAACCCTTCAAATTTTTTC
Found at i:5242114 original size:3 final size:3
Alignment explanation
Indices: 5242101--5242133 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
5242091 CTACAAAGGT
*
5242101 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5242134 TAAAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5242955 original size:18 final size:16
Alignment explanation
Indices: 5242918--5242956 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
5242908 TTCGAAAAAT
5242918 TAAATTTGGATATTTA
1 TAAATTTGGATATTTA
5242934 -AAATTTGGATAATATTA
1 TAAATTTGGAT-AT-TTA
5242951 TAAATT
1 TAAATT
5242957 AAAATTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.50
16 2 0.10
17 3 0.15
18 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (16 bp):
TAAATTTGGATATTTA
Found at i:5243872 original size:8 final size:8
Alignment explanation
Indices: 5243861--5243890 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
5243851 TTTATAGGAT
5243861 TTTTTATA
1 TTTTTATA
5243869 TTTTTATA
1 TTTTTATA
5243877 TTTTTATA
1 TTTTTATA
5243885 TATTTT
1 T-TTTT
5243891 TTAATAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:5250313 original size:43 final size:43
Alignment explanation
Indices: 5250239--5250323 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
5250229 TCCTAATTGG
*
5250239 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
1 GAAAACAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
* * * *
5250282 GAAAACAGTTCCCTTATTTTAGTAAATTACTAAAAGATAAAA
1 GAAAACAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
5250324 TAAAAATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.29
Consensus pattern (43 bp):
GAAAACAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
Found at i:5250375 original size:19 final size:18
Alignment explanation
Indices: 5250353--5250392 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
5250343 TGAATAAAAC
5250353 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
5250372 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
5250390 TTA
1 TTA
5250393 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:5255052 original size:43 final size:44
Alignment explanation
Indices: 5254983--5255075 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 44
5254973 TCCTAATTGG
*
5254983 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* * *
5255026 GAAAATAATTCCCTTATTTTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAATA
5255070 -AAAATA
1 GAAAATA
5255076 TTTCTAGAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (44 bp):
GAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:5257563 original size:32 final size:32
Alignment explanation
Indices: 5257522--5257585 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
5257512 CAATTGTTTC
5257522 ACTTAAAGCCGGACCATCCTGATTTAGACTAA
1 ACTTAAAGCCGGACCATCCTGATTTAGACTAA
5257554 ACTTAAAGCCGGACCATCCTGATTTAGACTAA
1 ACTTAAAGCCGGACCATCCTGATTTAGACTAA
5257586 GTATCCAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (32 bp):
ACTTAAAGCCGGACCATCCTGATTTAGACTAA
Found at i:5266110 original size:26 final size:24
Alignment explanation
Indices: 5266065--5266123 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 24
5266055 GTATTATTTT
5266065 TATTTATTTTTATATTTTTAAATA
1 TATTTATTTTTATATTTTTAAATA
*
5266089 TATTTGATTTATTATATTTTTAAATT
1 TATTT-ATTT-TTATATTTTTAAATA
*
5266115 TTTTTATTT
1 TATTTATTT
5266124 AATAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 5 0.16
25 8 0.26
26 18 0.58
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TATTTATTTTTATATTTTTAAATA
Found at i:5274062 original size:20 final size:21
Alignment explanation
Indices: 5274037--5274075 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5274027 TCTATCTTTT
5274037 AATTATT-ATTAAAATATAAA
1 AATTATTAATTAAAATATAAA
*
5274057 AATTATTAATTTAAATATA
1 AATTATTAATTAAAATATA
5274076 TAACTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTATTAATTAAAATATAAA
Found at i:5280482 original size:39 final size:39
Alignment explanation
Indices: 5280423--5280624 Score: 278
Period size: 39 Copynumber: 5.2 Consensus size: 39
5280413 ACTCTGATGA
* * *
5280423 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGT
1 GCTTCAGTCAGCCTTTGGGCTTCCGTTTAGCACTTCTGT
*
5280462 CCTTCAGTCAGCCTTTGGGCTTCCGTTTAGCACTTCTGT
1 GCTTCAGTCAGCCTTTGGGCTTCCGTTTAGCACTTCTGT
* *
5280501 GCTTCAGTCAGTCTTTGGGCTTCTGTTTAGCACTTCTGT
1 GCTTCAGTCAGCCTTTGGGCTTCCGTTTAGCACTTCTGT
* ** *
5280540 GCTTCAATCAGCCTTTGGGCTTCTATTTAGCACTTGTGT
1 GCTTCAGTCAGCCTTTGGGCTTCCGTTTAGCACTTCTGT
* ** *
5280579 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTCAGCCTTTGGGCTTCCGTTTAGCACTTCTGT
5280618 GCTTCAG
1 GCTTCAG
5280625 CTAAACTTCG
Statistics
Matches: 145, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 145 1.00
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (39 bp):
GCTTCAGTCAGCCTTTGGGCTTCCGTTTAGCACTTCTGT
Found at i:5280484 original size:18 final size:18
Alignment explanation
Indices: 5280463--5280562 Score: 74
Period size: 18 Copynumber: 5.2 Consensus size: 18
5280453 CACTTTTGTC
5280463 CTTCAGTCAGCCTTTGGG
1 CTTCAGTCAGCCTTTGGG
* * *
5280481 CTTCCGTTTAGCACTTCTGTG
1 CTTCAG-TCAGC-CTT-TGGG
*
5280502 CTTCAGTCAGTCTTTGGG
1 CTTCAGTCAGCCTTTGGG
* * *
5280520 CTTCTGTTTAGCACTTCTGTG
1 CTTCAG-TCAGC-CTT-TGGG
*
5280541 CTTCAATCAGCCTTTGGG
1 CTTCAGTCAGCCTTTGGG
5280559 CTTC
1 CTTC
5280563 TATTTAGCAC
Statistics
Matches: 61, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
18 20 0.33
19 13 0.21
20 13 0.21
21 15 0.25
ACGTcount: A:0.11, C:0.27, G:0.22, T:0.40
Consensus pattern (18 bp):
CTTCAGTCAGCCTTTGGG
Found at i:5282018 original size:14 final size:14
Alignment explanation
Indices: 5281995--5282035 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
5281985 AAATTTTTTG
5281995 AAATAA-TTTCTCT
1 AAATAATTTTCTCT
5282008 AAATAATTTTCTCT
1 AAATAATTTTCTCT
**
5282022 CTATAATTTTCTCT
1 AAATAATTTTCTCT
5282036 TGAATTCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 6 0.24
14 19 0.76
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (14 bp):
AAATAATTTTCTCT
Found at i:5283310 original size:11 final size:12
Alignment explanation
Indices: 5283283--5283315 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
5283273 GTCACAAGTG
5283283 AATTAATTCACA
1 AATTAATTCACA
5283295 AATTAATTCA-A
1 AATTAATTCACA
5283306 AATTAATTCA
1 AATTAATTCA
5283316 TTTTGGAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:5285900 original size:3 final size:3
Alignment explanation
Indices: 5285894--5285927 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
5285884 AAAAAAAATG
5285894 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
5285928 AACAAAGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:5286474 original size:36 final size:36
Alignment explanation
Indices: 5286362--5286482 Score: 104
Period size: 36 Copynumber: 3.3 Consensus size: 36
5286352 TAATAGTAAG
* *
5286362 AATAATAATAAT-ATAACAATAATAGTAATATAACTAAAT
1 AATAATAATAATAATAATAATAATA-TAGT-TAA--AAAT
* * * *
5286401 AATAATAATAATGAA-AATAATACTGA-CGGTAATAAT
1 AATAATAATAAT-AATAATAATAAT-ATAGTTAAAAAT
5286437 AATAATAATAATAATAATAATAATATAGTTAAAAAT
1 AATAATAATAATAATAATAATAATATAGTTAAAAAT
*
5286473 AATAGTAATA
1 AATAATAATA
5286483 GTGTTAGAGG
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
35 3 0.05
36 39 0.59
38 3 0.05
39 12 0.18
40 7 0.11
41 2 0.03
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (36 bp):
AATAATAATAATAATAATAATAATATAGTTAAAAAT
Found at i:5286476 original size:3 final size:3
Alignment explanation
Indices: 5286105--5286461 Score: 120
Period size: 3 Copynumber: 121.7 Consensus size: 3
5286095 GATAATATGT
* * * * * *
5286105 TAA TAA GAA TAA TAG TAG TAG TAA TAA TAA -AA -AGA TAA TAG CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * *
5286149 TACA -AA TAA AAA TAA AAA TAA TAG TAA TAA TGA TAA TAA TAA CAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * *
5286194 TAG TAA TAA -AA CAGA GGAA -AA AAA CAA -CA TAA CAA TAA GAG TAA
1 TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
5286238 TAA TAA TAA CT-A TTA TAA TAA TAA CAA T-A TAA -AA TTAA TGA T-A
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
* * *
5286281 TAA TAA -AA TAA TAA TAG GAA -AA TAA GT-A TAA AAA TAA -AA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
* ** * ** * * *
5286322 TAA TCA TGG TAA TAA TAT TTG TAG TAA TAA TAA TAG TAA GAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
5286370 TAA T-A TAA CAA TAA TAG TAA T-A TAA CTAAA TAA TAA TAA TAA TGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -T-AA TAA TAA TAA TAA T-AA
* * ***
5286416 -AA TAA TAC TGA CGG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5286462 TAGTTAAAAA
Statistics
Matches: 262, Mismatches: 65, Indels: 54
0.69 0.17 0.14
Matches are distributed among these distances:
2 31 0.12
3 216 0.82
4 12 0.05
5 3 0.01
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:5286488 original size:21 final size:21
Alignment explanation
Indices: 5286431--5286482 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
5286421 TACTGACGGT
*
5286431 AATAATAATAATA-A--TAAT
1 AATAATAATAATATAGTTAAA
5286449 AATAATAATAATATAGTTAAA
1 AATAATAATAATATAGTTAAA
*
5286470 AATAATAGTAATA
1 AATAATAATAATA
5286483 GTGTTAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 13 0.45
19 1 0.03
21 15 0.52
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (21 bp):
AATAATAATAATATAGTTAAA
Found at i:5286614 original size:14 final size:16
Alignment explanation
Indices: 5286595--5286628 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
5286585 AATATAGGCC
5286595 AATAAAT-TAGAT-AA
1 AATAAATATAGATGAA
5286609 AATAAATATAGATGAA
1 AATAAATATAGATGAA
5286625 AATA
1 AATA
5286629 TACTAATAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 5 0.28
16 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (16 bp):
AATAAATATAGATGAA
Found at i:5286668 original size:3 final size:3
Alignment explanation
Indices: 5286655--5286744 Score: 67
Period size: 3 Copynumber: 30.0 Consensus size: 3
5286645 ACCATAGTAT
* * *
5286655 TAA TGA TAA TAA TAA TGA TAA TAA -AGA TAAA TAA TAA TAA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA
** * ** *
5286701 TGT TAA TAA TAA TAA -AA TAA AAA TTG TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5286745 GAACGTAATA
Statistics
Matches: 65, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
2 3 0.05
3 59 0.91
4 2 0.03
5 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:5286752 original size:23 final size:23
Alignment explanation
Indices: 5286704--5286755 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
5286694 ATACTAATGT
*
5286704 TAATAATAATAAAATAAAAATTG
1 TAATAATAATAAAATAAAAATCG
* *
5286727 TAATAATAGTAATAATAAGAA-CG
1 TAATAATAATAA-AATAAAAATCG
5286750 TAATAA
1 TAATAA
5286756 AAAGAAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (23 bp):
TAATAATAATAAAATAAAAATCG
Found at i:5286820 original size:16 final size:17
Alignment explanation
Indices: 5286787--5286822 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
5286777 TGTAAATAGA
5286787 AATAATAGTATATTAAT
1 AATAATAGTATATTAAT
*
5286804 AATAATA-TATGTTAAT
1 AATAATAGTATATTAAT
5286820 AAT
1 AAT
5286823 GATAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
AATAATAGTATATTAAT
Found at i:5286933 original size:25 final size:23
Alignment explanation
Indices: 5286892--5286943 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
5286882 GAAATAACAG
5286892 TAATAAAAAAAAAATAAT-AAATA
1 TAATAAAAAAAAAATAATGAAA-A
*
5286915 TAATAATAGAAAACAATAATGAAAA
1 TAATAA-A-AAAAAAATAATGAAAA
5286940 TAAT
1 TAAT
5286944 TAATTTGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 6 0.24
24 1 0.04
25 15 0.60
26 3 0.12
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (23 bp):
TAATAAAAAAAAAATAATGAAAA
Found at i:5300099 original size:42 final size:42
Alignment explanation
Indices: 5300035--5300121 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
5300025 TTAACTTGTT
*
5300035 ATTTTTACATGTTACTTTTTAAAAATTTAAAAAATAAATTTA
1 ATTTCTACATGTTACTTTTTAAAAATTTAAAAAATAAATTTA
5300077 ATTTCTACATGTTACTTTTTAAAAATTTAAAAAATAAATTTA
1 ATTTCTACATGTTACTTTTTAAAAATTTAAAAAATAAATTTA
5300119 ATT
1 ATT
5300122 GGTGTCATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (42 bp):
ATTTCTACATGTTACTTTTTAAAAATTTAAAAAATAAATTTA
Found at i:5300644 original size:2 final size:2
Alignment explanation
Indices: 5300637--5300663 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5300627 TACATGTGAA
5300637 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
5300664 AAGATAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5301995 original size:7 final size:7
Alignment explanation
Indices: 5301975--5302013 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
5301965 TATTTTATTT
5301975 TATTTTA
1 TATTTTA
5301982 T-TTTTA
1 TATTTTA
5301988 TATTTTA
1 TATTTTA
5301995 TATTTTA
1 TATTTTA
5302002 TATTTTA
1 TATTTTA
5302009 -ATTTT
1 TATTTT
5302014 TTAAATCTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 11 0.35
7 20 0.65
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TATTTTA
Found at i:5302000 original size:20 final size:20
Alignment explanation
Indices: 5301964--5302013 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
5301954 ATTTAGTAAG
5301964 ATATTTT-A-TTT-TATTTT
1 ATATTTTAATTTTATATTTT
5301981 AT-TTTTATATTTTATATTTT
1 ATATTTTA-ATTTTATATTTT
5302001 ATATTTTAATTTT
1 ATATTTTAATTTT
5302014 TTAAATCTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 4 0.14
17 2 0.07
18 1 0.04
19 3 0.11
20 13 0.46
21 5 0.18
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
ATATTTTAATTTTATATTTT
Found at i:5302002 original size:14 final size:14
Alignment explanation
Indices: 5301975--5302013 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
5301965 TATTTTATTT
5301975 TATTTTAT-TTTTA
1 TATTTTATATTTTA
5301988 TATTTTATATTTTA
1 TATTTTATATTTTA
5302002 TATTTTA-ATTTT
1 TATTTTATATTTT
5302014 TTAAATCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTATATTTTA
Found at i:5302014 original size:14 final size:13
Alignment explanation
Indices: 5301964--5302014 Score: 63
Period size: 14 Copynumber: 4.0 Consensus size: 13
5301954 ATTTAGTAAG
5301964 ATATTTTA--TTT
1 ATATTTTATTTTT
5301975 -TATTTTATTTTT
1 ATATTTTATTTTT
5301987 ATATTTTATATTTT
1 ATATTTTAT-TTTT
5302001 ATATTTTAATTTTT
1 ATATTTT-ATTTTT
5302015 TAAATCTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.20
12 3 0.09
13 8 0.23
14 15 0.43
15 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
ATATTTTATTTTT
Found at i:5302222 original size:22 final size:24
Alignment explanation
Indices: 5302197--5302240 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
5302187 AAAGTATAGA
5302197 GAGTAAAATTTAA-AT-TTTAAAG
1 GAGTAAAATTTAACATATTTAAAG
*
5302219 GAGTATAATTTAACATATTTAA
1 GAGTAAAATTTAACATATTTAA
5302241 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 2 0.11
24 5 0.26
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (24 bp):
GAGTAAAATTTAACATATTTAAAG
Found at i:5302390 original size:18 final size:19
Alignment explanation
Indices: 5302362--5302405 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
5302352 TTTCTAAATA
5302362 AAAAGAAACATT-TTATTTT
1 AAAA-AAACATTATTATTTT
*
5302381 AAAAAAACATTATTTTTTT
1 AAAAAAACATTATTATTTT
5302400 AAAAAA
1 AAAAAA
5302406 TTGGAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAAAAACATTATTATTTT
Found at i:5303007 original size:18 final size:18
Alignment explanation
Indices: 5302986--5303037 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 18
5302976 TAAATTGCTA
5302986 TTTTAATAATAAAAATAT-
1 TTTTAATAATAAAAAT-TG
5303004 TTTTAAT--TAAAAATTG
1 TTTTAATAATAAAAATTG
*
5303020 TTATAATATATAAAAATT
1 TTTTAATA-ATAAAAATT
5303038 AATATAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 1 0.03
16 13 0.45
18 7 0.24
19 8 0.28
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TTTTAATAATAAAAATTG
Found at i:5304956 original size:20 final size:20
Alignment explanation
Indices: 5304931--5304980 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
5304921 AGATCTAAAT
*
5304931 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAAGA
* * *
5304951 TAAAATTCTGAAATTTAAGA
1 TAAAATACTAAAATTCAAGA
5304971 TAAGAATACT
1 TAA-AATACT
5304981 GATGTGGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (20 bp):
TAAAATACTAAAATTCAAGA
Found at i:5306898 original size:18 final size:19
Alignment explanation
Indices: 5306875--5306910 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5306865 AGAATTTTTT
5306875 TAAAA-TTATAAAAAATAA
1 TAAAATTTATAAAAAATAA
*
5306893 TAAAATTTATTAAAAATA
1 TAAAATTTATAAAAAATA
5306911 TCAAAAGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATTTATAAAAAATAA
Found at i:5306916 original size:28 final size:28
Alignment explanation
Indices: 5306874--5306946 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 28
5306864 TAGAATTTTT
* * *
5306874 TTAAAATTATAAAAAATAATAAAATTTA
1 TTAAAAATATCAAAAATAATAAAAATTA
*
5306902 TTAAAAATATCAAAAGAT-GTAAAAATTA
1 TTAAAAATATCAAAA-ATAATAAAAATTA
* *
5306930 TTAGAAAT-TCTAAAATA
1 TTAAAAATATCAAAAATA
5306947 TTGTAAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
26 2 0.05
27 5 0.14
28 28 0.76
29 2 0.05
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (28 bp):
TTAAAAATATCAAAAATAATAAAAATTA
Found at i:5306963 original size:31 final size:30
Alignment explanation
Indices: 5306894--5307006 Score: 83
Period size: 31 Copynumber: 3.7 Consensus size: 30
5306884 AAAAAATAAT
*
5306894 AAAATTTATTAAAAATATC-AAAAGA-TGT--
1 AAAAATTATT-AAAAT-TCTAAAAGATTGTAA
*
5306922 AAAAATTATTAGAAATTCTAAAATATTGTAA
1 AAAAATTATTA-AAATTCTAAAAGATTGTAA
* *
5306953 AAAAAGTATTAACAA-TCATCAAAGATTGTAA
1 AAAAATTATTAA-AATTC-TAAAAGATTGTAA
* *
5306984 AATAATTATTAAAAATTTTAAAA
1 AAAAATTATT-AAAATTCTAAAA
5307007 ACTAGTTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
27 3 0.04
28 18 0.27
29 3 0.04
30 3 0.04
31 37 0.55
32 3 0.04
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (30 bp):
AAAAATTATTAAAATTCTAAAAGATTGTAA
Found at i:5307246 original size:18 final size:18
Alignment explanation
Indices: 5307225--5307281 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
5307215 TTAGAAATTC
5307225 TAAAATATTGTAAAAAAA
1 TAAAATATTGTAAAAAAA
* **
5307243 TAAAAT-TTATTAGAAATCA
1 TAAAATATT-GTA-AAAAAA
*
5307262 TAAAAGATTGTAAAAAAA
1 TAAAATATTGTAAAAAAA
5307280 TA
1 TA
5307282 TTAAATTTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
17 2 0.07
18 14 0.48
19 11 0.38
20 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (18 bp):
TAAAATATTGTAAAAAAA
Found at i:5307254 original size:37 final size:37
Alignment explanation
Indices: 5307207--5307281 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 37
5307197 CAAAAGATAC
*
5307207 AAAAATTATTAGAAATTC-TAAAATATTGTAAAAAAAT
1 AAAAATTATTAGAAA-TCATAAAAGATTGTAAAAAAAT
*
5307244 AAAATTTATTAGAAATCATAAAAGATTGTAAAAAAAT
1 AAAAATTATTAGAAATCATAAAAGATTGTAAAAAAAT
5307281 A
1 A
5307282 TTAAATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 2 0.06
37 33 0.94
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.31
Consensus pattern (37 bp):
AAAAATTATTAGAAATCATAAAAGATTGTAAAAAAAT
Found at i:5307389 original size:285 final size:280
Alignment explanation
Indices: 5306910--5307457 Score: 745
Period size: 285 Copynumber: 1.9 Consensus size: 280
5306900 TATTAAAAAT
** * *
5306910 ATCAAAAGATGTAAAAATTATTAGAAATTCTAAAATATTGTAAAAAAAGTATTAACAATCATCAA
1 ATCAAAAGATACAAAAATTATTAGAAATTCTAAAATATTGTAAAAAAAGTATTAAAAATCATAAA
*
5306975 AGATTGTAAAATAATTATTAAAAATTTTAAAAACTAGTTAAAAGAAATTGTATCTTAGAATAAAA
66 AGATTGTAAAATAAATATTAAAAATTTTAAAAACTAGTTAAAAGAAATTGTATCTTAGAATAAAA
* * *
5307040 TATACCTTTGCTAGTGGCATTTAAAATATTAAAAACTTGATATAAAAAATTTTATGTCGTAATAC
131 TATACCTTCGCTAGTAGCATTTAAAATATT---AACTTGATATAAAAAATTATATGTCGTAATAC
** *
5307105 AAA-CAGTTTTTATAAAAAAAATATTTTAAAATTTTTGAATAAACATTTTATATCAATTTTGTAA
193 AAACCA-TTTTTATAAAAAAAA-ATTTTAAAAAATTTGAATAAACATTTTATATCAAATTT-TAA
5307169 TATTTTGAAAAAATAATAAAAAAAGG
255 TATTTTGAAAAAATAATAAAAAAAGG
5307195 ATCAAAAGATACAAAAATTATTAGAAATTCTAAAATATTGTAAAAAAA-TAAAATTTATTAGAAA
1 ATCAAAAGATACAAAAATTATTAGAAATTCTAAAATATTGTAAAAAAAGT---A-TTA--A-AAA
** *
5307259 TCATAAAAGATTGTAAAA-AAATATTAAATTTTTTAAAAACTAG-TAAAA-AAGTTGTATCTTAG
59 TCATAAAAGATTGTAAAATAAATATTAAAAATTTTAAAAACTAGTTAAAAGAAATTGTATCTTAG
5307321 AATAAAAATATACCTTCGACTAGTAGCATTTTAAAATATT-A-TTGATATAAAAAA-TATA-GAT
124 AAT-AAAATATACCTTCG-CTAGTAGCA-TTTAAAATATTAACTTGATATAAAAAATTATATG-T
*
5307382 TGTAATACAAACCATTTTTATAAAAAAAAATTTTAAAAAATTTGAATAAACATTTTATATCAAAT
185 CGTAATACAAACCATTTTTATAAAAAAAAATTTTAAAAAATTTGAATAAACATTTTATATCAAAT
5307447 TTTAATATTTT
250 TTTAATATTTT
5307458 AAATCAATTT
Statistics
Matches: 236, Mismatches: 15, Indels: 26
0.85 0.05 0.09
Matches are distributed among these distances:
283 9 0.04
284 37 0.16
285 75 0.32
286 15 0.06
287 2 0.01
288 19 0.08
289 18 0.08
290 31 0.13
291 30 0.13
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (280 bp):
ATCAAAAGATACAAAAATTATTAGAAATTCTAAAATATTGTAAAAAAAGTATTAAAAATCATAAA
AGATTGTAAAATAAATATTAAAAATTTTAAAAACTAGTTAAAAGAAATTGTATCTTAGAATAAAA
TATACCTTCGCTAGTAGCATTTAAAATATTAACTTGATATAAAAAATTATATGTCGTAATACAAA
CCATTTTTATAAAAAAAAATTTTAAAAAATTTGAATAAACATTTTATATCAAATTTTAATATTTT
GAAAAAATAATAAAAAAAGG
Found at i:5308042 original size:18 final size:18
Alignment explanation
Indices: 5308005--5308043 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5307995 ATTTTATTTT
*
5308005 ATTTTTACATTTTTATAG
1 ATTTTTACATTTTTACAG
5308023 ATTTTTAACATTTTT-CAG
1 ATTTTT-ACATTTTTACAG
5308041 ATT
1 ATT
5308044 ATGACATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTTACATTTTTACAG
Found at i:5308625 original size:32 final size:29
Alignment explanation
Indices: 5308579--5308685 Score: 92
Period size: 30 Copynumber: 3.6 Consensus size: 29
5308569 TTCATTGTTC
* * *
5308579 AAATTTTTTGAAAATTCTTAAAAGTCCTCTT
1 AAATTTTTTAAAAATTATTAAAAG-CC-CCT
*
5308610 AAATTTTTTTAAAAATTATTTAAAGCCCCT
1 AAA-TTTTTTAAAAATTATTAAAAGCCCCT
* *
5308640 AAATTATTTAAAAATT-TCAAATAAGCCCCTT
1 AAATTTTTTAAAAATTAT-TAA-AAGCCCC-T
5308671 AAA-TTTTTAAAAATT
1 AAATTTTTTAAAAATT
5308686 TTGAACAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
28 1 0.02
29 13 0.20
30 23 0.36
31 9 0.14
32 18 0.28
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (29 bp):
AAATTTTTTAAAAATTATTAAAAGCCCCT
Found at i:5309970 original size:2 final size:2
Alignment explanation
Indices: 5309963--5310005 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
5309953 TACATGAAAT
5309963 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5310005 T
1 T
5310006 GAAGAAAGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5315946 original size:39 final size:39
Alignment explanation
Indices: 5315721--5315935 Score: 349
Period size: 39 Copynumber: 5.5 Consensus size: 39
5315711 CAAAGCATGT
5315721 GGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTC
1 GGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTTC
* **
5315762 GGGACTTAGCCTGGATATAACGCCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTC
** *
5315801 GGGACTTAGCCCGGATATAGCATCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTC
5315840 GGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTC
*
5315879 AGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTC
5315918 GGGACTTAGCCCGGATAT
1 GGGACTTAGCCCGGATAT
5315936 TTTTCCAGCA
Statistics
Matches: 162, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 155 0.96
40 2 0.01
41 5 0.03
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.21
Consensus pattern (39 bp):
GGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTC
Found at i:5315971 original size:39 final size:39
Alignment explanation
Indices: 5315928--5316020 Score: 134
Period size: 39 Copynumber: 2.4 Consensus size: 39
5315918 GGGACTTAGC
* *
5315928 CCGGATATTTTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATATTTTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
* *
5315967 CCGGATATATTTCTAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
5316006 CCGGATATTTTTCCA
1 CCGGATATTTTTCCA
5316021 ATACCATGCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 1 0.02
39 46 0.98
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:5327485 original size:60 final size:60
Alignment explanation
Indices: 5327386--5327572 Score: 256
Period size: 60 Copynumber: 3.2 Consensus size: 60
5327376 ATGAATACAG
* * * * *
5327386 ATTCGTCAGAAAGTTTT-GGTGGAGCCTTAATCGGACTCTGTTCTTCTCTTGCTTCTTGAA
1 ATTCATCAGAAGGTTTTAGG-GGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAA
* * *
5327446 ATTCATCAGAAGGTTTTAGGGGAGACTTCATTGGACTCTGTTCTTCCCTTGCGTCATGAA
1 ATTCATCAGAAGGTTTTAGGGGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAA
*
5327506 ATTCATC---AGGTTTTAGTGGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAA
1 ATTCATCAGAAGGTTTTAGGGGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAA
5327563 ATTCATCAGA
1 ATTCATCAGA
5327573 GCTGGTACTC
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
57 53 0.48
60 56 0.50
61 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (60 bp):
ATTCATCAGAAGGTTTTAGGGGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAA
Found at i:5327544 original size:57 final size:57
Alignment explanation
Indices: 5327398--5327571 Score: 249
Period size: 57 Copynumber: 3.0 Consensus size: 57
5327388 TCGTCAGAAA
* * * *
5327398 GTTTTGGTGGAGCCTTAATCGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATCAGAAG
1 GTTTTAGTGGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATC---AG
* * * *
5327458 GTTTTAGGGGAGACTTCATTGGACTCTGTTCTTCCCTTGCGTCATGAAATTCATCAG
1 GTTTTAGTGGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATCAG
5327515 GTTTTAGTGGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATCAG
1 GTTTTAGTGGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATCAG
5327572 AGCTGGTACT
Statistics
Matches: 102, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
57 55 0.54
60 47 0.46
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.40
Consensus pattern (57 bp):
GTTTTAGTGGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATCAG
Found at i:5328470 original size:9 final size:9
Alignment explanation
Indices: 5328456--5328482 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
5328446 AAAGATCTGG
5328456 TGGAGAAGA
1 TGGAGAAGA
5328465 TGGAGAAGA
1 TGGAGAAGA
5328474 TGGAGAAGA
1 TGGAGAAGA
5328483 ATGATGAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.11
Consensus pattern (9 bp):
TGGAGAAGA
Found at i:5329511 original size:20 final size:20
Alignment explanation
Indices: 5329482--5329520 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5329472 TGTTGTTACT
* *
5329482 ATTTTGTTATTTTATTGTTA
1 ATTTTATTATTTTAGTGTTA
5329502 ATTTTATTATTTTAGTGTT
1 ATTTTATTATTTTAGTGTT
5329521 GTTTAAGTAC
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:0.10, T:0.69
Consensus pattern (20 bp):
ATTTTATTATTTTAGTGTTA
Found at i:5331300 original size:16 final size:18
Alignment explanation
Indices: 5331268--5331302 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
5331258 TAATTAACCC
5331268 CTCAATTAAACTAATTTT
1 CTCAATTAAACTAATTTT
5331286 CTCAATT-AA-TAATTTT
1 CTCAATTAAACTAATTTT
5331302 C
1 C
5331303 CTAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (18 bp):
CTCAATTAAACTAATTTT
Found at i:5333174 original size:11 final size:11
Alignment explanation
Indices: 5333158--5333182 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5333148 ATATCTACAA
5333158 TTCTCTTCATT
1 TTCTCTTCATT
5333169 TTCTCTTCATT
1 TTCTCTTCATT
5333180 TTC
1 TTC
5333183 ATCAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:5336413 original size:17 final size:17
Alignment explanation
Indices: 5336370--5336414 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
5336360 TATAATTAAA
5336370 AATTAAAAATTATTTAT
1 AATTAAAAATTATTTAT
* **
5336387 TATTTTAAATTATTTAT
1 AATTAAAAATTATTTAT
5336404 AATTAAAAATT
1 AATTAAAAATT
5336415 TCTAGTAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTAAAAATTATTTAT
Found at i:5336858 original size:21 final size:21
Alignment explanation
Indices: 5336832--5336922 Score: 123
Period size: 21 Copynumber: 4.3 Consensus size: 21
5336822 GTTTCTAATT
5336832 TCACCGCTACAATATTCAATC
1 TCACCGCTACAATATTCAATC
*
5336853 TCACCGCTACAGT-TTCTAATC
1 TCACCGCTACAATATTC-AATC
*
5336874 TCACCGCTACAATATCCAATC
1 TCACCGCTACAATATTCAATC
*
5336895 TCACCGCTACAGTAATT-AATC
1 TCACCGCTACAAT-ATTCAATC
5336916 TCACCGC
1 TCACCGC
5336923 CACCGCTGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
20 3 0.05
21 55 0.89
22 4 0.06
ACGTcount: A:0.30, C:0.35, G:0.08, T:0.27
Consensus pattern (21 bp):
TCACCGCTACAATATTCAATC
Found at i:5336881 original size:42 final size:42
Alignment explanation
Indices: 5336822--5336922 Score: 159
Period size: 42 Copynumber: 2.4 Consensus size: 42
5336812 CTCCACCATT
* *
5336822 GTTTCTAATTTCACCGCTACAATATTCAATCTCACCGCTACA
1 GTTTCTAATCTCACCGCTACAATATCCAATCTCACCGCTACA
5336864 GTTTCTAATCTCACCGCTACAATATCCAATCTCACCGCTACA
1 GTTTCTAATCTCACCGCTACAATATCCAATCTCACCGCTACA
*
5336906 GTAAT-TAATCTCACCGC
1 GT-TTCTAATCTCACCGC
5336923 CACCGCTGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 54 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.33, G:0.08, T:0.31
Consensus pattern (42 bp):
GTTTCTAATCTCACCGCTACAATATCCAATCTCACCGCTACA
Found at i:5341896 original size:13 final size:13
Alignment explanation
Indices: 5341878--5341902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5341868 TCTAGTCTTT
5341878 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
5341891 TTTTTCTTTTTT
1 TTTTTCTTTTTT
5341903 ATGTAAAACA
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:5342480 original size:17 final size:17
Alignment explanation
Indices: 5342457--5342505 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 17
5342447 TTATTTTGAA
5342457 TTTAAAATATATAAAA-
1 TTTAAAATATATAAAAG
5342473 TCTTAAAA-A-ATAAAAG
1 T-TTAAAATATATAAAAG
*
5342489 TTTATAAATTTATAAAA
1 TTTA-AAATATATAAAA
5342506 ATATTAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 6 0.22
18 6 0.22
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
TTTAAAATATATAAAAG
Found at i:5342486 original size:24 final size:24
Alignment explanation
Indices: 5342459--5342508 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
5342449 ATTTTGAATT
5342459 TAAAA-TATATAAAATCTTA-AAAAA
1 TAAAAGTATAT-AAAT-TTATAAAAA
*
5342483 TAAAAGTTTATAAATTTATAAAAA
1 TAAAAGTATATAAATTTATAAAAA
5342507 TA
1 TA
5342509 TTAGAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 3 0.13
24 16 0.70
25 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
TAAAAGTATATAAATTTATAAAAA
Found at i:5343552 original size:13 final size:15
Alignment explanation
Indices: 5343518--5343554 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
5343508 TAATTATCAC
5343518 TTAATTAATATTAGAG
1 TTAATT-ATATTAGAG
5343534 TTAATTATATTA-A-
1 TTAATTATATTAGAG
5343547 TTAATTAT
1 TTAATTAT
5343555 TATTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 1 0.05
15 6 0.29
16 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
TTAATTATATTAGAG
Found at i:5346577 original size:18 final size:17
Alignment explanation
Indices: 5346554--5346593 Score: 71
Period size: 18 Copynumber: 2.3 Consensus size: 17
5346544 TGCTTAGGTT
5346554 CAAATCATAGTTATCTC
1 CAAATCATAGTTATCTC
5346571 ACAAATCATAGTTATCTC
1 -CAAATCATAGTTATCTC
5346589 CAAAT
1 CAAAT
5346594 GTGATGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (17 bp):
CAAATCATAGTTATCTC
Found at i:5354665 original size:19 final size:21
Alignment explanation
Indices: 5354628--5354666 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
5354618 TTAATGCATA
5354628 ATTTATATAAAAAATAATAAT
1 ATTTATATAAAAAATAATAAT
*
5354649 ATTTA-ATAAATAA-AATAA
1 ATTTATATAAAAAATAATAA
5354667 AATCTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTTATATAAAAAATAATAAT
Found at i:5357559 original size:88 final size:88
Alignment explanation
Indices: 5357410--5357586 Score: 275
Period size: 88 Copynumber: 2.0 Consensus size: 88
5357400 TGAGAGAAAA
**
5357410 GTAAAAATAACTGTAAAGCAAAATCACAAATGCTATTTTGACAAAGCTTTCTCTTTCCTGTTTGC
1 GTAAAAATAACTACAAAGCAAAATCACAAATGCTATTTTGACAAAGCTTTCTCTTTCCTGTTTGC
* * *
5357475 TGCCGAGCCTACCTAGGTAACCC
66 TGACGACCCTACCCAGGTAACCC
* *
5357498 GTAAAAATAACTACAAGGCAAAATCACAAATGCTATTTT-AGCAAAGGTTTCTCTTTCCTGTTTG
1 GTAAAAATAACTACAAAGCAAAATCACAAATGCTATTTTGA-CAAAGCTTTCTCTTTCCTGTTTG
5357562 CTGACGACCCTACCCAGGTAACCC
65 CTGACGACCCTACCCAGGTAACCC
5357586 G
1 G
5357587 ATATATAATT
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
87 1 0.01
88 80 0.99
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (88 bp):
GTAAAAATAACTACAAAGCAAAATCACAAATGCTATTTTGACAAAGCTTTCTCTTTCCTGTTTGC
TGACGACCCTACCCAGGTAACCC
Found at i:5358727 original size:132 final size:132
Alignment explanation
Indices: 5358488--5358781 Score: 453
Period size: 132 Copynumber: 2.2 Consensus size: 132
5358478 GTTGATTTGG
* * *
5358488 AAGCCTTCCTCCATTGATATCGAGCCTTCATTGGTTTACCCAACCAGCAAAATCTTTCCAGGTTC
1 AAGCCTTCCTCCATTGATATCCAGCCTCCATTGGTTTACCCAACCAGCAAAATCTTTCCACGTTC
* * *
5358553 ATGTCTGGGGTTTACATAGGAGAACTTAACCAGTGAAGCTCATCTCTGGATGTTGCTCTTGTTGT
66 ATGCCTAGGGTTTACATAGGAGAACTTAACCAGTGAAACTCATCTCTGGATGTTGCTCTTGTTGT
5358618 GA
131 GA
* * * * *
5358620 AAGCCTTCCTTCATTGATATCCAACCTCCATTGGTTTGCCCAACCTGCAAAATCTTTCCACGTTT
1 AAGCCTTCCTCCATTGATATCCAGCCTCCATTGGTTTACCCAACCAGCAAAATCTTTCCACGTTC
* *
5358685 ATGCCTAGGGTTTACATAGGAGAACTTAACCAGTGAAACTCATCTCTGGATGTTTCTTTTGTTGT
66 ATGCCTAGGGTTTACATAGGAGAACTTAACCAGTGAAACTCATCTCTGGATGTTGCTCTTGTTGT
5358750 GA
131 GA
* *
5358752 AAGCCTTCCGCCATTGATATCTAGCCTCCA
1 AAGCCTTCCTCCATTGATATCCAGCCTCCA
5358782 ACGTTTATGC
Statistics
Matches: 145, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 145 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (132 bp):
AAGCCTTCCTCCATTGATATCCAGCCTCCATTGGTTTACCCAACCAGCAAAATCTTTCCACGTTC
ATGCCTAGGGTTTACATAGGAGAACTTAACCAGTGAAACTCATCTCTGGATGTTGCTCTTGTTGT
GA
Found at i:5363907 original size:19 final size:19
Alignment explanation
Indices: 5363885--5363925 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
5363875 ACCAAGATCT
5363885 TAGGCGACTGATACCATGA
1 TAGGCGACTGATACCATGA
*
5363904 TAGGCGATTGATACCATGA
1 TAGGCGACTGATACCATGA
5363923 TAG
1 TAG
5363926 AAGGTAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (19 bp):
TAGGCGACTGATACCATGA
Found at i:5364852 original size:46 final size:46
Alignment explanation
Indices: 5364799--5364890 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
5364789 TTTGGTTTAA
5364799 GCAATATCTGATGCTTGTATTAAATACTCATGTTTTAAAAAATTTT
1 GCAATATCTGATGCTTGTATTAAATACTCATGTTTTAAAAAATTTT
5364845 GCAATATCTGATGCTTGTATTAAATACTCATGTTTTAAAAAATTTT
1 GCAATATCTGATGCTTGTATTAAATACTCATGTTTTAAAAAATTTT
5364891 TTTAGCAGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (46 bp):
GCAATATCTGATGCTTGTATTAAATACTCATGTTTTAAAAAATTTT
Found at i:5365103 original size:75 final size:76
Alignment explanation
Indices: 5365024--5365174 Score: 268
Period size: 76 Copynumber: 2.0 Consensus size: 76
5365014 CCAAAGTATA
* *
5365024 ATTTTA-TTTTTATTAATTTAAAATTTTATAAAATTTATAAAATTTAAATAAAAATTTTCTATTT
1 ATTTTATTTTTTACTAATTTAAAATTTTATAAAATTTATAAAATTTAAATAAAAATTTTCTACTT
*
5365088 TGAAAAGGAAG
66 TAAAAAGGAAG
5365099 ATTTTATTTTTTACTAATTTAAAATTTTATAAAATTTATAAAATTTAAATAAAAATTTTCTACTT
1 ATTTTATTTTTTACTAATTTAAAATTTTATAAAATTTATAAAATTTAAATAAAAATTTTCTACTT
5365164 TAAAAAGGAAG
66 TAAAAAGGAAG
5365175 GTTCCTAAAC
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
75 6 0.08
76 66 0.92
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (76 bp):
ATTTTATTTTTTACTAATTTAAAATTTTATAAAATTTATAAAATTTAAATAAAAATTTTCTACTT
TAAAAAGGAAG
Found at i:5365385 original size:36 final size:36
Alignment explanation
Indices: 5365343--5365413 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
5365333 ATTATTAATG
*
5365343 TTCCCTACTTCAACTTCTAAAGAAAAATTGTTTATT
1 TTCCCTACTTCAACTACTAAAGAAAAATTGTTTATT
5365379 TTCCCTACTTCAACTACTAAAGAAAAATTGTTTAT
1 TTCCCTACTTCAACTACTAAAGAAAAATTGTTTAT
5365414 AACACTTGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (36 bp):
TTCCCTACTTCAACTACTAAAGAAAAATTGTTTATT
Found at i:5367719 original size:8 final size:8
Alignment explanation
Indices: 5367706--5367751 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
5367696 AAGTATAATT
5367706 AATTTTAA
1 AATTTTAA
5367714 AATTTTAAA
1 AATTTT-AA
5367723 ATATTTTAA
1 A-ATTTTAA
* *
5367732 TATATTAA
1 AATTTTAA
5367740 AATTTTAA
1 AATTTTAA
5367748 AATT
1 AATT
5367752 AATTATACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 22 0.69
9 5 0.16
10 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AATTTTAA
Found at i:5367730 original size:18 final size:16
Alignment explanation
Indices: 5367706--5367751 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
5367696 AAGTATAATT
5367706 AATTTTAAAATTTTAAA
1 AATTTTAAAATTTT-AA
* *
5367723 ATATTTTAATATATTAA
1 A-ATTTTAAAATTTTAA
5367740 AATTTTAAAATT
1 AATTTTAAAATT
5367752 AATTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 9 0.38
17 4 0.17
18 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTTAAAATTTTAA
Found at i:5367744 original size:34 final size:36
Alignment explanation
Indices: 5367668--5367751 Score: 104
Period size: 34 Copynumber: 2.4 Consensus size: 36
5367658 CTAAGTTTTC
*
5367668 TAAAATTTTAAATATATTAAAAAATATTAAGTATAAT
1 TAAAATTTTAAA-ATTTTAAAAAATATTAAGTATAAT
* *
5367705 T--AATTTTAAAATTTTAAAATATTTTAA-TAT-AT
1 TAAAATTTTAAAATTTTAAAAAATATTAAGTATAAT
5367737 TAAAATTTTAAAATT
1 TAAAATTTTAAAATT
5367752 AATTATACTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 3 0.07
33 3 0.07
34 26 0.62
35 9 0.21
37 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (36 bp):
TAAAATTTTAAAATTTTAAAAAATATTAAGTATAAT
Found at i:5367826 original size:17 final size:18
Alignment explanation
Indices: 5367792--5367847 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
5367782 GAGAAAAAAT
* *
5367792 AATTTTTAATATATTTAA
1 AATTTTAAATATACTTAA
5367810 AATTTTAAATA-ACTTAAAA
1 AATTTTAAATATACTT--AA
*
5367829 AAATTTAAATATA-TTAA
1 AATTTTAAATATACTTAA
5367846 AA
1 AA
5367848 AATGTTAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 7 0.22
18 10 0.31
19 14 0.44
20 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTTTAAATATACTTAA
Found at i:5367855 original size:19 final size:18
Alignment explanation
Indices: 5367799--5367860 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
5367789 AATAATTTTT
* *
5367799 AATATATTTAAAATTTTA
1 AATATATTAAAAAATTTA
5367817 AATA-ACTTAAAAAAATTTA
1 AATATA-TT-AAAAAATTTA
5367836 AATATATTAAAAAATGTTA
1 AATATATTAAAAAAT-TTA
*
5367855 AGTATA
1 AATATA
5367861 ACTTTAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.03
18 13 0.35
19 22 0.59
20 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (18 bp):
AATATATTAAAAAATTTA
Found at i:5370871 original size:26 final size:24
Alignment explanation
Indices: 5370827--5370875 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
5370817 ATTTGTTTTA
*
5370827 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
5370851 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
5370876 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Done.