Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 168 of 362
Found at i:55319840 original size:40 final size:39
Alignment explanation
Indices: 55319785--55319929 Score: 224
Period size: 40 Copynumber: 3.7 Consensus size: 39
55319775 TCGATGATAA
55319785 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-ACTAATT
55319825 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTACTAA-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTACTAATT
*
55319863 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TACTAAT-T
*
55319902 CCGGGCTAAGTCCCAAAGGCATTTGTGC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC
55319930 CGGGCTAAGT
Statistics
Matches: 99, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
37 19 0.19
38 16 0.16
39 17 0.17
40 47 0.47
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTACTAATT
Found at i:55319913 original size:77 final size:78
Alignment explanation
Indices: 55319785--55319929 Score: 240
Period size: 77 Copynumber: 1.9 Consensus size: 78
55319775 TCGATGATAA
* *
55319785 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCAAAGGCATTTG
55319850 TGCTAGTACTAAT
66 TGCTAGTACTAAT
*
55319863 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCAAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCCCAAAGGCATTT
55319926 GTGC
65 GTGC
55319930 CGGGCTAAGT
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
76 2 0.03
77 50 0.79
78 11 0.17
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCAAAGGCATTTG
TGCTAGTACTAAT
Found at i:55319940 original size:27 final size:27
Alignment explanation
Indices: 55319902--55319953 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
55319892 GTTACTATAT
55319902 CCGGGCTAAGTCCCAAAGGCATTTGTG
1 CCGGGCTAAGTCCCAAAGGCATTTGTG
*
55319929 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCAAAGGCATTTG
55319954 AGCGAGTAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.27, G:0.31, T:0.21
Consensus pattern (27 bp):
CCGGGCTAAGTCCCAAAGGCATTTGTG
Found at i:55319972 original size:67 final size:65
Alignment explanation
Indices: 55319863--55319986 Score: 178
Period size: 66 Copynumber: 1.9 Consensus size: 65
55319853 TAGTACTAAT
* *
55319863 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCAAAGGCATTTGT
1 CCGGGCTAAGTCCGAAGGCATTTGAGCGAGTTACTATATCC-GGCTAAATCCCAAAGGCATTTGT
55319928 G
65 G
* *
55319929 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATGTCCGGCTAAATCCCGAAGG
1 CCGGGCTAAGT-CCGAAGGCATTTGAGCGAGTTA-CTATATCCGGCTAAATCCCAAAGG
55319987 TACTTGGTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
66 27 0.52
67 25 0.48
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (65 bp):
CCGGGCTAAGTCCGAAGGCATTTGAGCGAGTTACTATATCCGGCTAAATCCCAAAGGCATTTGTG
Found at i:55327859 original size:40 final size:40
Alignment explanation
Indices: 55327803--55328020 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
55327793 CGGATGATAA
* *
55327803 CCGGGCTAAGTACCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATT
*
55327843 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATT
* *
55327883 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-ATT
* *
55327924 -CGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT-ATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-T
*
55327963 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCT-ATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTAAT-T
*
55328003 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
55328021 TACTTGGTTG
Statistics
Matches: 165, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
38 2 0.01
39 17 0.10
40 143 0.87
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATT
Found at i:55331049 original size:44 final size:43
Alignment explanation
Indices: 55330999--55331149 Score: 141
Period size: 43 Copynumber: 3.5 Consensus size: 43
55330989 TTTTCGTGGT
55330999 AGACCATGTCTGGGACGTTGGCATCGACTTATGATTTACGTGTA
1 AGACCATGTCTGGGACGTTGGCATCGA-TTATGATTTACGTGTA
* *
55331043 AGACCATGTCTGAGAAGTTGGCATCGTATT-TGATTT-CGTGTA
1 AGACCATGTCTGGGACGTTGGCATCG-ATTATGATTTACGTGTA
* * * *
55331085 ATACCGTGTCTAGGACAG-TGGCATCGA-TAGTTGA-TTACATGTA
1 AGACCATGTCTGGGAC-GTTGGCATCGATTA--TGATTTACGTGTA
** *
55331128 AGACCACATCTGGGATGTTGGC
1 AGACCATGTCTGGGACGTTGGC
55331150 GTAGTACTAG
Statistics
Matches: 86, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 28 0.33
43 29 0.34
44 26 0.30
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
AGACCATGTCTGGGACGTTGGCATCGATTATGATTTACGTGTA
Found at i:55331107 original size:42 final size:42
Alignment explanation
Indices: 55330982--55331133 Score: 143
Period size: 43 Copynumber: 3.5 Consensus size: 42
55330972 ATATGATCTG
*
55330982 GTATTTGTTTTCGTGGT-AGACCATGTCTGGGAC-GTTGGCATC
1 GTATTTGATTTCGT-GTAAGACCATGTCT-GGACAGTTGGCATC
55331024 G-ACTTATGATTTACGTGTAAGACCATGTCTGAGA-AGTTGGCATC
1 GTA-TT-TGATTT-CGTGTAAGACCATGTCTG-GACAGTTGGCATC
* *
55331068 GTATTTGATTTCGTGTAATACCGTGTCTAGGACAG-TGGCATC
1 GTATTTGATTTCGTGTAAGACCATGTCT-GGACAGTTGGCATC
* * *
55331110 GATAGTTGATTACATGTAAGACCA
1 G-TATTTGATTTCGTGTAAGACCA
55331134 CATCTGGGAT
Statistics
Matches: 92, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
41 1 0.01
42 28 0.30
43 34 0.37
44 28 0.30
45 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (42 bp):
GTATTTGATTTCGTGTAAGACCATGTCTGGACAGTTGGCATC
Found at i:55331119 original size:43 final size:43
Alignment explanation
Indices: 55330999--55331133 Score: 127
Period size: 42 Copynumber: 3.1 Consensus size: 43
55330989 TTTTCGTGGT
* * *
55330999 AGACCATGTCTGGGACGTTGGCATCG-ACTTATGATTTACGTGTA
1 AGACCATGTCTGAGAAGTTGGCATCGTA-GT-TGATTTACGTGTA
*
55331043 AGACCATGTCTGAGAAGTTGGCATCGTATTTGATTT-CGTGTA
1 AGACCATGTCTGAGAAGTTGGCATCGTAGTTGATTTACGTGTA
* * *
55331085 ATACCGTGTCT-AGGACAG-TGGCATCGATAGTTGA-TTACATGTA
1 AGACCATGTCTGA-GA-AGTTGGCATCG-TAGTTGATTTACGTGTA
55331128 AGACCA
1 AGACCA
55331134 CATCTGGGAT
Statistics
Matches: 78, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.35
43 23 0.29
44 26 0.33
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
AGACCATGTCTGAGAAGTTGGCATCGTAGTTGATTTACGTGTA
Found at i:55335142 original size:13 final size:13
Alignment explanation
Indices: 55335110--55335134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55335100 ATCGAACACG
55335110 GGCGTGTGCCACA
1 GGCGTGTGCCACA
55335123 GGCGTGTGCCAC
1 GGCGTGTGCCAC
55335135 GAGTGTGTCC
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:0.32, G:0.40, T:0.16
Consensus pattern (13 bp):
GGCGTGTGCCACA
Found at i:55345669 original size:38 final size:38
Alignment explanation
Indices: 55345626--55346004 Score: 218
Period size: 38 Copynumber: 9.0 Consensus size: 38
55345616 TTTCAAATTA
*
55345626 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
55345664 ACATGTTTAACCGTGGTATATCCAGTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* * * * *
55345705 GGATCAATATATGTAACTGAGGCATATCCATTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* * *
55345749 ACATGTTTAACTGTGGTATATCCACTTAGCACCAAGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* * *
55345790 GAATCAATATATGTAACCGTGGCATATCCACTTGGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
55345834 ACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCAC-GT--T
* * *
55345875 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACATT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
55345919 ACATGTATCAATATGTGTAATCATGGTATATCCACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
* *
55345967 ACACGTATAACAGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
55346005 TTTTTTATTC
Statistics
Matches: 267, Mismatches: 39, Indels: 70
0.71 0.10 0.19
Matches are distributed among these distances:
38 112 0.42
39 3 0.01
40 8 0.03
41 6 0.02
42 5 0.02
43 3 0.01
44 6 0.02
45 9 0.03
46 5 0.02
47 77 0.29
48 33 0.12
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:55345788 original size:85 final size:85
Alignment explanation
Indices: 55345633--55345924 Score: 487
Period size: 85 Copynumber: 3.4 Consensus size: 85
55345623 TTAACATGTA
*
55345633 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCAGTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
* *
55345698 CGTTAATGGATCAATATATG
66 AGTTAATGAATCAATATATG
* * * *
55345718 TAACTGAGGCATATCCATTTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
55345783 AGTTAATGAATCAATATATG
66 AGTTAATGAATCAATATATG
*
55345803 TAACCGTGGCATATCCACTTGGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
55345868 CA-TTAATGAATCAATATATG
66 -AGTTAATGAATCAATATATG
*
55345888 TAACCGTGGCATATCCACTTAGCACCACATTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
55345925 ATCAATATGT
Statistics
Matches: 192, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
85 191 0.99
86 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
AGTTAATGAATCAATATATG
Found at i:55345910 original size:47 final size:48
Alignment explanation
Indices: 55345841--55345969 Score: 197
Period size: 48 Copynumber: 2.7 Consensus size: 48
55345831 GTTACATGTT
55345841 TAACCGTGGTATATCCACTTAGCACCACATTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACATTACATGAATCAATATATG
* * *
55345888 TAACCGTGGCATATCCACTTAGCACCACATTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACATTACATGAATCAATATATG
* * *
55345936 TAATCATGGTATATCCACTTAGCACCACGTTACA
1 TAACCGTGGTATATCCACTTAGCACCACATTACA
55345970 CGTATAACAG
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 31 0.42
48 43 0.58
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACATTACATGAATCAATATATG
Found at i:55345961 original size:133 final size:132
Alignment explanation
Indices: 55345756--55346001 Score: 368
Period size: 133 Copynumber: 1.9 Consensus size: 132
55345746 GTTACATGTT
* * *
55345756 TAACTGTGGTATATCCACTTAGCACCAAGTTAATGAATCAATATATGTAACCGTGGCATATCCAC
1 TAACCGTGGCATATCCACTTAGCACCAAGTTAATGAATCAATATATGTAACCATGGCATATCCAC
* * * *
55345821 TTGGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAATGAATCAATATA
66 TTAGCACCACGTTACACGTATAACAGTGGTATATCCACTTAGCACCACATTAATGAATCAATATA
55345886 TG
131 TG
* * * *
55345888 TAACCGTGGCATATCCACTTAGCACCACA-TTACATGTATCAATATGTGTAATCATGGTATATCC
1 TAACCGTGGCATATCCACTTAGCACCA-AGTTA-ATGAATCAATATATGTAACCATGGCATATCC
55345952 ACTTAGCACCACGTTACACGTATAACAGTGGTATATCCACTTAGCACCAC
64 ACTTAGCACCACGTTACACGTATAACAGTGGTATATCCACTTAGCACCAC
55346002 GTTTTTTTTA
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
132 28 0.28
133 73 0.72
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (132 bp):
TAACCGTGGCATATCCACTTAGCACCAAGTTAATGAATCAATATATGTAACCATGGCATATCCAC
TTAGCACCACGTTACACGTATAACAGTGGTATATCCACTTAGCACCACATTAATGAATCAATATA
TG
Found at i:55346732 original size:27 final size:27
Alignment explanation
Indices: 55346702--55347004 Score: 306
Period size: 27 Copynumber: 11.3 Consensus size: 27
55346692 AGGATAAAAC
* * *
55346702 GGTAATTCTATAAATCAAGGGTGTTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
* * *
55346729 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCAAGGGTATTTT
** ** *
55346756 AATAATTTTACAGGTCGAGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
* * * *
55346783 AGTAATTTCACAAATTAGGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
*
55346810 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATC-AAGGGTATTTT
* * *
55346837 GATAATATTACAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
*
55346864 GGTAATTTTACAAA-CTAGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
*
55346890 GGTAATTTTACAAA-CCAGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
* * * *
55346916 AGTAATTATACAAACCAGGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
** *
55346943 GGTAATTTTGTAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
*
55346970 GGTAATTTTACAAATCAGGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
*
55346997 AGTAATTT
1 GGTAATTT
55347005 GGTAAACTAA
Statistics
Matches: 232, Mismatches: 41, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
26 48 0.21
27 183 0.79
28 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACAAATCAAGGGTATTTT
Found at i:55347020 original size:133 final size:133
Alignment explanation
Indices: 55346773--55347020 Score: 336
Period size: 133 Copynumber: 1.9 Consensus size: 133
55346763 TTACAGGTCG
** * *
55346773 AGGGTATTTTAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 AGGGTATTTTAGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTG
* * **
55346838 ATAATATTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAA
66 ATAATATTACAAACCAAGGGTATTTTAGTAATTTGACAAACTAAAGTATTTTGGTAATTTTACAA
55346903 ACC
131 ACC
**
55346906 AGGGTATTTTAGTAATTAT-ACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
1 AGGGTATTTTAGTAATT-TCACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
* * * * **
55346970 GGTAATTTTACAAATCAGGGGTATTTTAGTAATTTGGTAAACTAAAGTATT
65 GATAATATTACAAACCAAGGGTATTTTAGTAATTTGACAAACTAAAGTATT
55347021 CTAAACAGGG
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
133 97 0.99
134 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (133 bp):
AGGGTATTTTAGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTG
ATAATATTACAAACCAAGGGTATTTTAGTAATTTGACAAACTAAAGTATTTTGGTAATTTTACAA
ACC
Found at i:55354191 original size:24 final size:24
Alignment explanation
Indices: 55354146--55354212 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 24
55354136 GAGAAAATAG
* *
55354146 AAAGAAAAAGGGAGAGAAAGGAAGA
1 AAAGAAAAAGAGAAAGAAAGG-AGA
*
55354171 AAAG-AAAAGAGAAAGAGAGGAGA
1 AAAGAAAAAGAGAAAGAAAGGAGA
* **
55354194 AAGGGGAAAGA-AAAGAAAG
1 AAAGAAAAAGAGAAAGAAAG
55354213 AAAAATAGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 13 0.37
24 18 0.51
25 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (24 bp):
AAAGAAAAAGAGAAAGAAAGGAGA
Found at i:55354213 original size:33 final size:30
Alignment explanation
Indices: 55354130--55354228 Score: 94
Period size: 30 Copynumber: 3.2 Consensus size: 30
55354120 GAGAAAAGGA
*
55354130 AGAAAGG-AGAAAATAGAAAGAAAAAGGGA-G
1 AGAAAGGAAG-AAA-AGAAAGAAAAAGAGAGG
*
55354160 AGAAAGGAAGAAAAGAAAAGAGAAAGAGAGG
1 AGAAAGGAAGAAAAG-AAAGAAAAAGAGAGG
* *
55354191 AGAAAGGGGAAAGAAAAGAAAGAAAAATAGAGA
1 AGAAA--GG-AAGAAAAGAAAGAAAAAGAGAGG
55354224 AGAAA
1 AGAAA
55354229 ATGGTGGCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
29 2 0.03
30 21 0.36
31 8 0.14
33 19 0.33
34 8 0.14
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (30 bp):
AGAAAGGAAGAAAAGAAAGAAAAAGAGAGG
Found at i:55359564 original size:11 final size:11
Alignment explanation
Indices: 55359548--55359574 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
55359538 ATTACTAGAT
55359548 GAACCTGTGAA
1 GAACCTGTGAA
55359559 GAACCTGTGAA
1 GAACCTGTGAA
55359570 GAACC
1 GAACC
55359575 AAGTAAACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (11 bp):
GAACCTGTGAA
Found at i:55365780 original size:15 final size:15
Alignment explanation
Indices: 55365741--55365785 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
55365731 CAAGAAAACT
*
55365741 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
*
55365756 -AGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
55365771 GAATAAAGAAACCCA
1 GAATAAAGAAACCCA
55365786 AGATATGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.58, C:0.18, G:0.16, T:0.09
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:55378862 original size:33 final size:33
Alignment explanation
Indices: 55378820--55378887 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
55378810 CTCACATCAT
55378820 ATGTCGGGATTACTAGTCCAGGCTAAATCCCCC
1 ATGTCGGGATTACTAGTCCAGGCTAAATCCCCC
55378853 ATGTCGGGATTACTAGTCCAGGCTAAATCCCCC
1 ATGTCGGGATTACTAGTCCAGGCTAAATCCCCC
55378886 AT
1 AT
55378888 TATATGAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (33 bp):
ATGTCGGGATTACTAGTCCAGGCTAAATCCCCC
Found at i:55382562 original size:28 final size:27
Alignment explanation
Indices: 55382505--55382656 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
55382495 TAAATTGTGC
*
55382505 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
55382532 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
55382560 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
55382587 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
55382615 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
55382642 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55382657 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:55382569 original size:55 final size:55
Alignment explanation
Indices: 55382505--55382656 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
55382495 TAAATTGTGC
*
55382505 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
55382560 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
55382615 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
55382657 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:55390394 original size:28 final size:27
Alignment explanation
Indices: 55390337--55390488 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
55390327 TAAATTGTGC
*
55390337 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
55390364 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
55390392 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
55390419 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
55390447 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
55390474 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55390489 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:55390401 original size:55 final size:55
Alignment explanation
Indices: 55390337--55390488 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
55390327 TAAATTGTGC
*
55390337 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
55390392 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
55390447 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
55390489 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:55397506 original size:27 final size:27
Alignment explanation
Indices: 55397473--55397641 Score: 207
Period size: 27 Copynumber: 6.3 Consensus size: 27
55397463 CATAAGTCAA
55397473 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
55397500 AGA-TACCGAAATACCCCTGTAGGGTAG
1 A-ATTACCGAAATACCCTTGTAGGGTAG
**
55397527 AATTACTTAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
55397554 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
55397581 AATTACTGAAATACTCC-TGTAAGGTAG
1 AATTACCGAAATAC-CCTTGTAGGGTAG
* * *
55397608 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
55397635 AATTACC
1 AATTACC
55397642 ATTTTACCCT
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.02
27 115 0.95
28 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:55397622 original size:81 final size:81
Alignment explanation
Indices: 55397471--55397642 Score: 231
Period size: 81 Copynumber: 2.1 Consensus size: 81
55397461 TTCATAAGTC
* * * **
55397471 AAAATTACCGAAATACCCTTGTAGGGTAGAGATACCGAAATACCCCTGTAGGGTAGAATTACTTA
1 AAAATTACCAAAATACCCCTGTAGGGTAGAGATACCGAAATACCCCTGTAAGGTAGAATTACCGA
55397536 AATACCCTTGTAGGGT
66 AATACCCTTGTAGGGT
* *
55397552 AGAAA-TACCAAAATACCCCTGTAGGGTAGA-ATTACTGAAATACTCCTGTAAGGTAGAATTACC
1 A-AAATTACCAAAATACCCCTGTAGGGTAGAGA-TACCGAAATACCCCTGTAAGGTAGAATTACC
* *
55397615 GAGATACCCTTGTGGGGT
64 GAAATACCCTTGTAGGGT
55397633 AAAATTACCA
1 AAAATTACCA
55397643 TTTTACCCTT
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
80 4 0.05
81 72 0.91
82 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTGTAGGGTAGAGATACCGAAATACCCCTGTAAGGTAGAATTACCGA
AATACCCTTGTAGGGT
Found at i:55398142 original size:98 final size:99
Alignment explanation
Indices: 55397886--55398151 Score: 437
Period size: 100 Copynumber: 2.7 Consensus size: 99
55397876 CTCGCTGCAA
55397886 TCTGGTGGCCTCGCTACATATATCTGTTCTGGTGACTTCGTCACAATATCTGGCAGCCTCGTTGC
1 TCTGGTGGCCTCGCTACATATATCTGTTCTGGTGACTTCGTCACAATATCTGGCAGCCTCGTTGC
55397951 AATCTGGTGGCTTCGCCACATATATATATATCTGT
66 AATCTGGTGGCTTCGCCACA-ATATATATATCTGT
*
55397986 TCTGGTGGCCTCGCTACATATATCTGTTCTGGTGACTTCGTCATAATATCTGGCAGCCTCGTTGC
1 TCTGGTGGCCTCGCTACATATATCTGTTCTGGTGACTTCGTCACAATATCTGGCAGCCTCGTTGC
55398051 AATCTGGTGGCTTCGCCAC-ATATATATATCTGT
66 AATCTGGTGGCTTCGCCACAATATATATATCTGT
* * * * * *
55398084 TCTGGTGGCCTAGCCACA-ATATCTGTATCTGATGACTTCTTCACAATATCTGGTAGCCTCGCTG
1 TCTGGTGGCCTCGCTACATATATCTGT-TCTGGTGACTTCGTCACAATATCTGGCAGCCTCGTTG
55398148 CAAT
65 CAAT
55398152 TTCTGTGGTG
Statistics
Matches: 157, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
97 8 0.05
98 66 0.42
100 83 0.53
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (99 bp):
TCTGGTGGCCTCGCTACATATATCTGTTCTGGTGACTTCGTCACAATATCTGGCAGCCTCGTTGC
AATCTGGTGGCTTCGCCACAATATATATATCTGT
Found at i:55398263 original size:6 final size:6
Alignment explanation
Indices: 55398254--55398363 Score: 73
Period size: 6 Copynumber: 17.8 Consensus size: 6
55398244 TTGCATTCAC
* * *
55398254 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * * *
55398304 ATTCTG GTTCTG ATTCTA ATTTTG ATTCTG -TCACCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
55398353 ATTCTG ATTCT
1 ATTCTG ATTCT
55398364 CATTTTTATT
Statistics
Matches: 79, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
5 5 0.06
6 63 0.80
7 7 0.09
8 4 0.05
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:55398285 original size:25 final size:25
Alignment explanation
Indices: 55398257--55398320 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
55398247 CATTCACATT
*
55398257 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
* *
55398282 CTGATTCTGATTTTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
55398307 CTGGTTCTGATTCT
1 CTGATTCTGATTCT
55398321 AATTTTGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:55398289 original size:31 final size:31
Alignment explanation
Indices: 55398254--55398363 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 31
55398244 TTGCATTCAC
*
55398254 ATTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
* * *
55398285 ATTCTGATTTTG-TTACCTAATT--CTGGTTCTG
1 ATTCTGATTCTGATT--CT-GTTACCTGATTCTG
* * * *
55398316 ATTCTAATTTTGATTCTGTCACCTGATTTTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
55398347 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
55398364 CATTTTTATT
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
29 1 0.02
30 4 0.06
31 51 0.82
32 4 0.06
33 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATTCTG
Found at i:55412375 original size:14 final size:15
Alignment explanation
Indices: 55412346--55412375 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
55412336 CAAAATTTAG
55412346 ACATGATACTTTCAC
1 ACATGATACTTTCAC
55412361 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
55412375 A
1 A
55412376 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:55429253 original size:14 final size:15
Alignment explanation
Indices: 55429224--55429253 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
55429214 CAAAATTTAG
55429224 ACATGATACTTTCAC
1 ACATGATACTTTCAC
55429239 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
55429253 A
1 A
55429254 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:55433010 original size:24 final size:25
Alignment explanation
Indices: 55432965--55433011 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
55432955 ATTTTTTATT
*
55432965 TTGATGAATATTTTGAGTTATGTCA
1 TTGATGAATATTTTGAGCTATGTCA
*
55432990 TTGATGATTA-TTTGAGCTATGT
1 TTGATGAATATTTTGAGCTATGT
55433012 GATGTTAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.26, C:0.04, G:0.21, T:0.49
Consensus pattern (25 bp):
TTGATGAATATTTTGAGCTATGTCA
Found at i:55433670 original size:45 final size:45
Alignment explanation
Indices: 55433607--55433731 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 45
55433597 TAGGATTCCG
* * * *
55433607 ATATGTATTTTCGAGTAAGACCACGTTTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
*
55433652 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* * *
55433697 ATATGTGGTTAT-GTGTAAGACCATGTCTAGGACAT
1 ATATGT-GTTTTCGTGTAAGACCACGTCTGGGACAT
55433732 CAGCATCATA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 68 0.94
46 4 0.06
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
Found at i:55433738 original size:45 final size:45
Alignment explanation
Indices: 55433644--55433742 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
55433634 TGGGACGTTG
* * **
55433644 GCATCGATATATGTGTTTTCGTGTAAGACCATGTCTGGGACATTG
1 GCATCGATATATGTGTTATCGTGTAAGACCATGTCTAGGACATCA
55433689 GCATCGATATATGTGGTTAT-GTGTAAGACCATGTCTAGGACATCA
1 GCATCGATATATGT-GTTATCGTGTAAGACCATGTCTAGGACATCA
55433734 GCATC-ATAT
1 GCATCGATAT
55433743 TCAATTCGTG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
44 4 0.08
45 41 0.84
46 4 0.08
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (45 bp):
GCATCGATATATGTGTTATCGTGTAAGACCATGTCTAGGACATCA
Found at i:55436060 original size:30 final size:30
Alignment explanation
Indices: 55436026--55436085 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
55436016 ACTTAACAAG
* *
55436026 CAAATACCTCTAAAATACTAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
55436056 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
55436086 TTATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:55449341 original size:46 final size:45
Alignment explanation
Indices: 55449288--55449463 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 45
55449278 TATTTGGGCA
55449288 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAA-G
* *** * *
55449334 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGCCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * * *
55449381 TCCGAGCTCGTTGAGTTTAGCCTGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAA-G
* *
55449427 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGCCCGAGTTCACTTATGG
55449464 GTGGGTTACA
Statistics
Matches: 101, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
44 3 0.03
45 4 0.04
46 60 0.59
47 29 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAAG
Found at i:55449443 original size:93 final size:93
Alignment explanation
Indices: 55449284--55449455 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
55449274 AGGATATTTG
* * *
55449284 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACGTCCCAACTCGTTGAG
55449349 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
55449377 GGCATCCGAGCTCGTTGAGTTTAGCCTGAGTTCACTTATGGATACGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACGTCCCAA-CTCGTTGA
55449441 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
55449456 ACTTATGGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACGTCCCAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:55452196 original size:46 final size:46
Alignment explanation
Indices: 55452143--55452278 Score: 200
Period size: 46 Copynumber: 3.0 Consensus size: 46
55452133 ATATATACAC
* * *
55452143 ATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCT
1 ATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATCT
* *
55452189 ATCTCATACACATTTCGCATTAGCCATTTGGCTTTATCTCATATCT
1 ATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATCT
* * *
55452235 AACTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 ATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATAT
55452279 ATACATGTTC
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.27, C:0.29, G:0.08, T:0.36
Consensus pattern (46 bp):
ATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATCT
Found at i:55452309 original size:47 final size:47
Alignment explanation
Indices: 55452252--55452584 Score: 558
Period size: 47 Copynumber: 7.1 Consensus size: 47
55452242 ACACATTTCG
* * * **
55452252 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
55452299 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
55452346 CATTGGCCATTCGGCCATATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
55452393 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
55452440 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
55452487 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
55452534 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
55452581 CATT
1 CATT
55452585 AAAATCCTAA
Statistics
Matches: 273, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 273 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:55452581 original size:25 final size:25
Alignment explanation
Indices: 55452505--55452582 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 25
55452495 ATTCGGCCTT
*
55452505 ATCACATATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
** ** *
55452530 AT--CACATTGGCCAT-TTGGCCTT-
1 ATCACACATACG-CATGTTCACATTC
55452552 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
55452577 ATCACA
1 ATCACA
55452583 TTAAAATCCT
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 2 0.05
23 13 0.35
24 14 0.38
25 8 0.22
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:55456623 original size:40 final size:40
Alignment explanation
Indices: 55456590--55456942 Score: 499
Period size: 40 Copynumber: 8.8 Consensus size: 40
55456580 CCAGCATGAT
** * *
55456590 TGCTCTTCGGGACCGAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** *
55456630 TGCTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
55456670 TGCTCTTCGGAACTTAGCCCGGATATGTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
55456710 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
55456750 TGCTCTTCGGGACTTAGCACGGATTTATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * **
55456790 TGCTCCTCGGAACTTAGCCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
55456830 TGCTCTTCGGAACTTAGCCCGGATATGTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
55456870 TGCTCTTCGGGACTTAGCCCGGATACATCACTTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCAC-TAGCACGAA
*
55456911 TGCTCTTCGGGACTTAGCCCGGGTATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
55456943 CTCAATTCTC
Statistics
Matches: 277, Mismatches: 35, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 239 0.86
41 38 0.14
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:55458500 original size:46 final size:46
Alignment explanation
Indices: 55458432--55458568 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
55458422 TATATATACA
* * * *
55458432 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
55458478 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
55458524 TAACTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
55458569 ATACATGTTC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:55458602 original size:47 final size:47
Alignment explanation
Indices: 55458542--55458733 Score: 294
Period size: 47 Copynumber: 4.1 Consensus size: 47
55458532 ACACATTTCG
* * * **
55458542 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
55458589 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
55458636 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
55458683 CAATGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
55458730 CATT
1 CATT
55458734 AAAATCCTAA
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:55458683 original size:25 final size:25
Alignment explanation
Indices: 55458654--55458731 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 25
55458644 ATTCGGCCTT
55458654 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
* *
55458679 ATCACA-AT-GGCCA--TTCAGCCTT-
1 ATCACACATACG-CATGTTCA-CATTC
55458701 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
55458726 ATCACA
1 ATCACA
55458732 TTAAAATCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
22 10 0.24
23 8 0.19
24 8 0.19
25 16 0.38
ACGTcount: A:0.32, C:0.32, G:0.09, T:0.27
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:55462100 original size:15 final size:15
Alignment explanation
Indices: 55462082--55462148 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 15
55462072 ATCTTAGGTT
55462082 TCTTTATCCTGGATC
1 TCTTTATCCTGGATC
*
55462097 TCTTTATTCTGGATC
1 TCTTTATCCTGGATC
* * *
55462112 TCTTTATTCTGGGTT
1 TCTTTATCCTGGATC
* * *
55462127 TCTCTATCTTGGATT
1 TCTTTATCCTGGATC
55462142 TCTTTAT
1 TCTTTAT
55462149 TCGGTTTTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.12, C:0.19, G:0.13, T:0.55
Consensus pattern (15 bp):
TCTTTATCCTGGATC
Found at i:55464591 original size:46 final size:45
Alignment explanation
Indices: 55464538--55464713 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
55464528 TATTTGGGCA
*
55464538 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
55464584 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * * *
55464631 TCCGAGCTCGTTGAGTTGAGTACGAGTTCACTTATGGATACGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA-AG
* * *
55464677 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55464714 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 66 0.63
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:55464693 original size:93 final size:93
Alignment explanation
Indices: 55464534--55464705 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
55464524 AGGATATTTG
* * * *
55464534 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCACGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
*
55464599 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* * * *
55464627 GGCATCCGAGCTCGTTGAGTTGAGTACGAGTTCACTTATGGATACGAGCGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCACGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
55464692 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
55464706 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGCACGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:55467660 original size:15 final size:15
Alignment explanation
Indices: 55467642--55467708 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 15
55467632 ATCTTGGGTT
55467642 TCTTTATCCTGGATC
1 TCTTTATCCTGGATC
*
55467657 TCTTTATTCTGGATC
1 TCTTTATCCTGGATC
* * *
55467672 TCTTTATTCTGGGTT
1 TCTTTATCCTGGATC
* * *
55467687 TCTCTATCTTGGATT
1 TCTTTATCCTGGATC
55467702 TCTTTAT
1 TCTTTAT
55467709 TCGGTTTTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.12, C:0.19, G:0.13, T:0.55
Consensus pattern (15 bp):
TCTTTATCCTGGATC
Found at i:55467700 original size:30 final size:30
Alignment explanation
Indices: 55467631--55467718 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
55467621 CATAGTATCA
* * * *
55467631 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
55467661 TAT-TCTGGATCTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
55467691 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
55467719 TGTTATCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:55471377 original size:18 final size:19
Alignment explanation
Indices: 55471346--55471386 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
55471336 AGTTTTGTAA
*
55471346 CTTA-TTCAATTTGGTC-C
1 CTTATTTCAAATTGGTCAC
55471363 CTTATTTCAAATTGGTCAC
1 CTTATTTCAAATTGGTCAC
55471382 CTTAT
1 CTTAT
55471387 ACTTAGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 11 0.52
19 6 0.29
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (19 bp):
CTTATTTCAAATTGGTCAC
Found at i:55484484 original size:53 final size:53
Alignment explanation
Indices: 55484301--55484530 Score: 240
Period size: 55 Copynumber: 4.3 Consensus size: 53
55484291 ATTAGGGTTT
** *
55484301 AAGGATACCATGTAAGACCATGAAAATG-CATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAA-GACATGG-CATTGGTAA-GTTTCTAAGGC
* * *
55484356 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC--TAAGG-C
* * * *
55484412 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* *
55484464 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGC
55484513 AAGGATACCATGTAAGAC
1 AAGGATACCATGTAAGAC
55484531 AGTGAGAAGT
Statistics
Matches: 150, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
49 18 0.12
52 6 0.04
53 43 0.29
54 14 0.09
55 65 0.43
56 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:55484507 original size:108 final size:110
Alignment explanation
Indices: 55484308--55484510 Score: 295
Period size: 108 Copynumber: 1.9 Consensus size: 110
55484298 TTTAAGGATA
* *
55484308 CCATGTAAGACCATGAAAATGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGAAAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
55484373 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGAAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGAAAAGGTC
** * *
55484418 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGAAAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
55484480 ACCATGTCGAGACATGGCAATGGTAAGTTTC
65 ACCATGTCAAGACATGGCAATGATAAGTTTC
55484511 AAAAGGATAC
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 50 0.60
109 7 0.08
110 23 0.28
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGAAAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGAAAAGGTC
Found at i:55484769 original size:16 final size:16
Alignment explanation
Indices: 55484748--55484778 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55484738 ATAAATTTGA
55484748 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
55484764 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
55484779 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:55490976 original size:43 final size:42
Alignment explanation
Indices: 55490911--55491066 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 42
55490901 AGCTCATACA
* * * * ** **
55490911 ATGCCATATCCCAGATATGGTCTTATATGTTATCACATATTG
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATAACG
* *
55490953 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATAACG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGAAATCACATAACG
* *
55490996 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATACA
1 ATGCC-ATGTCCCAGACATGGTCTTACACGAAATCACATA-ACG
** *
55491039 ATGCCAATGTCTTAGACATGGTTTTACA
1 ATGCC-ATGTCCCAGACATGGTCTTACA
55491067 TGTAACCATA
Statistics
Matches: 94, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 7 0.07
43 86 0.91
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATAACG
Found at i:55491266 original size:35 final size:35
Alignment explanation
Indices: 55491197--55491266 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
55491187 ACATTCATAG
**
55491197 CAATTCAATGATAATGAAACATATATAATTCAATT
1 CAATTCAATGATAATGAAACATATATAACACAATT
* *
55491232 CAATTCAATGATAAAT-AAGCATTTATAACACAATT
1 CAATTCAATGAT-AATGAAACATATATAACACAATT
55491267 TGAATACGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 27 0.90
36 3 0.10
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.33
Consensus pattern (35 bp):
CAATTCAATGATAATGAAACATATATAACACAATT
Found at i:55493813 original size:25 final size:24
Alignment explanation
Indices: 55493785--55493868 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
55493775 CTGGTGGCCT
55493785 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGC-AA
* *
55493810 AGCCCTTTTTGATAAATTGGGGCAA
1 AGCCC-TTTTAATAAACTGGGGCAA
** *
55493835 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
55493860 AGCCCTTTT
1 AGCCCTTTT
55493869 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 5 0.10
25 38 0.75
26 8 0.16
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:55494026 original size:25 final size:25
Alignment explanation
Indices: 55493998--55494046 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
55493988 ATACTTAAAC
* *
55493998 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
55494023 CCTAGGGGCAAAATAGTCATTTTT
1 CCTAGGGGCAAAATAGTCATTTTT
55494047 CATAATATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:55501578 original size:31 final size:31
Alignment explanation
Indices: 55501527--55501734 Score: 310
Period size: 31 Copynumber: 6.7 Consensus size: 31
55501517 TCAATCTCAG
** *
55501527 CATAT-ACTGGGCCGCGGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
* * *
55501557 CATATCACTAGGCTGAAGCCTTTTCATTTTT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
*
55501588 CATATCACTGGGCTGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
* **
55501619 CATATCACTTGGCTAAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
*
55501650 CATATCACTAGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
55501681 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
55501712 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
55501735 ACTATAACAA
Statistics
Matches: 163, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
30 5 0.03
31 158 0.97
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATTATT
Found at i:55501969 original size:25 final size:24
Alignment explanation
Indices: 55501941--55502024 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
55501931 CTGGAAGCCT
55501941 AGCCTCTTTTAAT-AACTGGGGGAAA
1 AGCC-CTTTTAATAAACT-GGGGAAA
* *
55501966 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTAATAAACTGGGGAAA
** * *
55501991 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGAAA
55502016 AGCCCTTTT
1 AGCCCTTTT
55502025 CGGTAAACTA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.10
25 43 0.83
26 4 0.08
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGAAA
Found at i:55502025 original size:25 final size:25
Alignment explanation
Indices: 55501966--55502049 Score: 123
Period size: 25 Copynumber: 3.4 Consensus size: 25
55501956 CTGGGGGAAA
* * *
55501966 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCCTTTTCGGTAAACTGGGGCAT
55501991 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTTCGGTAAACTGGGGCAT
*
55502016 AGCCCTTTTCGGTAAACTAGGGCAT
1 AGCCCTTTTCGGTAAACTGGGGCAT
*
55502041 AACCCTTTT
1 AGCCCTTTT
55502050 GCACTTCTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTCGGTAAACTGGGGCAT
Found at i:55502129 original size:11 final size:11
Alignment explanation
Indices: 55502099--55502143 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
55502089 TAAATACATT
55502099 ATGTGCATATC
1 ATGTGCATATC
*
55502110 A--TACATATC
1 ATGTGCATATC
55502119 ATGTGCATATC
1 ATGTGCATATC
*
55502130 ATGT-CAAATC
1 ATGTGCATATC
55502140 ATGT
1 ATGT
55502144 ATATCAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
9 8 0.28
10 9 0.31
11 12 0.41
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (11 bp):
ATGTGCATATC
Found at i:55502208 original size:25 final size:25
Alignment explanation
Indices: 55502180--55502228 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
55502170 ATACCTAAAC
* **
55502180 CCTAGCGGTAAAATGGTCATTTTTA
1 CCTAGCGGCAAAACAGTCATTTTTA
*
55502205 CCTAGGGGCAAAACAGTCATTTTT
1 CCTAGCGGCAAAACAGTCATTTTT
55502229 CATAATATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (25 bp):
CCTAGCGGCAAAACAGTCATTTTTA
Found at i:55503887 original size:20 final size:19
Alignment explanation
Indices: 55503858--55503901 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
55503848 TCCAATTTTG
*
55503858 AATTTCAAAACAAATACCAA
1 AATTTAAAAAC-AATACCAA
**
55503878 AATTTAAAAACTTTACCAA
1 AATTTAAAAACAATACCAA
55503897 AATTT
1 AATTT
55503902 CAAGAATCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTTAAAAACAATACCAA
Found at i:55514294 original size:54 final size:54
Alignment explanation
Indices: 55514212--55514319 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
55514202 GGTCTTATCC
* *
55514212 ATCAATTCATCATCAAACGATCGTGCTCATTTCCTACGTTCTACTCAATTTGAT
1 ATCAATTCATCATCAAACAATCGTGCTCATTCCCTACGTTCTACTCAATTTGAT
55514266 ATCAATTCATCATCAAACAATCGTGCTCATTCCCTACGTTCTACTCAATTTGAT
1 ATCAATTCATCATCAAACAATCGTGCTCATTCCCTACGTTCTACTCAATTTGAT
55514320 CTTTCAATTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (54 bp):
ATCAATTCATCATCAAACAATCGTGCTCATTCCCTACGTTCTACTCAATTTGAT
Found at i:55524385 original size:46 final size:46
Alignment explanation
Indices: 55524333--55524508 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 46
55524323 TATTTGGGCA
55524333 TCCGAACTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCGAATG
* *
55524379 TCCGAACTCGTTGAGTTGAGTCTGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA-T--G
55524424 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
** * * * *
55524472 -CCTGGCCTCATTGAGTAGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
55524509 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 56 0.51
47 31 0.28
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
Found at i:55524493 original size:93 final size:93
Alignment explanation
Indices: 55524329--55524500 Score: 267
Period size: 93 Copynumber: 1.8 Consensus size: 93
55524319 GGGATATTTG
*
55524329 GGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
* *
55524394 TTGAGTCTGAGTTCATGAGATGTAACTA
66 TAGAGTCCGAGTTCATGAGATGTAACTA
**
55524422 GGCATCCGAACTCGTTGAGTTGAG-TCTGAGTTCACTTATGGATGCGAATG-CCTGGCCTCATTG
1 GGCATCCGAACTCGTTGAGTTGAGTTC-GAGTTCACTTATGGATGCGAATGTCC-GAACTCATTG
55524485 AGTAGAGTCCGAGTTC
64 AGTAGAGTCCGAGTTC
55524501 GCTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
TAGAGTCCGAGTTCATGAGATGTAACTA
Found at i:55530584 original size:30 final size:30
Alignment explanation
Indices: 55530550--55530608 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
55530540 TTTACAAGCC
*
55530550 TAGGGACAAAAATATAATTTTGGCAAAATT
1 TAGGGACAAAAATATAAATTTGGCAAAATT
* * * *
55530580 TAGGGGCAAAATTGTAAATTTGTCAAAAT
1 TAGGGACAAAAATATAAATTTGGCAAAAT
55530609 ATGAGTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.31
Consensus pattern (30 bp):
TAGGGACAAAAATATAAATTTGGCAAAATT
Found at i:55532856 original size:40 final size:40
Alignment explanation
Indices: 55532796--55532891 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
55532786 TATTTCGGTG
*
55532796 TCGCACACTTAGTGCCTTATATAGCAAAAGCTAGTTTAAA
1 TCGCACACTTACTGCCTTATATAGCAAAAGCTAGTTTAAA
* **
55532836 TCGCACACTTACTGCTTTATATAGCCGAAGCTAGTTTAAA
1 TCGCACACTTACTGCCTTATATAGCAAAAGCTAGTTTAAA
* *
55532876 TCGTACACTTAGTGCC
1 TCGCACACTTACTGCC
55532892 AAATACCCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (40 bp):
TCGCACACTTACTGCCTTATATAGCAAAAGCTAGTTTAAA
Found at i:55539493 original size:47 final size:47
Alignment explanation
Indices: 55539371--55540529 Score: 1962
Period size: 47 Copynumber: 25.1 Consensus size: 47
55539361 GAAATGATAG
55539371 TAAGGCCTAATGGCCGATGTGATG-ATGTGAAAGTGTATA--TGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55539415 TAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55539461 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55539508 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55539555 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55539602 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA--TGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55539647 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55539694 TAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55539740 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55539787 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA--TGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55539832 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55539879 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
55539926 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55539973 TAA-GCCTAAT-GCCGATGTGATGAATGTGAAA-TGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55540017 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55540064 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55540111 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55540158 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55540205 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
55540252 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
55540299 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
55540346 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA--TATG-
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55540390 TAA----TAA-GGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55540432 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * * * * * * * **
55540479 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55540526 TAAG
1 TAAG
55540530 TCCCGAAGGG
Statistics
Matches: 1071, Mismatches: 24, Indels: 37
0.95 0.02 0.03
Matches are distributed among these distances:
39 28 0.03
40 3 0.00
41 3 0.00
42 3 0.00
43 10 0.01
44 47 0.04
45 120 0.11
46 94 0.09
47 763 0.71
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:55539776 original size:232 final size:232
Alignment explanation
Indices: 55539371--55540529 Score: 1923
Period size: 232 Copynumber: 5.0 Consensus size: 232
55539361 GAAATGATAG
55539371 TAAGGCCTAATGGCCGATGTGATG-ATGTGAAAGTGTATATGTGATAAGGCCTAATGG-CGATGT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGATAAGGCCTAATGGCCGATGT
55539434 GATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
66 GATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTA
55539499 TATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTA
130 TATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTA
*
55539564 ATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
195 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55539602 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGATAAGGCCTAATGGCCGATGT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGATAAGGCCTAATGGCCGATGT
*
55539667 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCGATGTGATGAATGTGAAAGTGTAT
66 GATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCGATGTGATGAATGTGAAAGTGTAT
55539732 ATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAA
131 ATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAA
55539797 TGGCCGATGTGATGAATGTGAAAGTG--TATATGTGA
196 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55539832 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCAAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA--TGTGATAAGGCCTAATGGCCGAT
*
55539897 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
64 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAAT-GGCGATGTGATGAATGTGAAAGTG
* *
55539962 TATATATGTGATAA-GCCTAAT-GCCGATGTGATGAATGTGAAA-TGTATATATGTGATAAGGCC
128 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
*
55540024 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
193 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55540064 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA--TGTGATAAGGCCTAATGGCCGAT
55540129 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
64 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTG
55540194 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
128 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
*
55540259 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
193 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
55540299 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGATAAGGCCTAATGGCCGAT
* *
55540364 GTGATGAATGTGAAAGTGTATATATGTAATAAGG-C------CGATGTGATGAATGTGAAAGTGT
64 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCGATGTGATGAATGTGAAAGTGT
* * * * *
55540422 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCG
129 ATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCT
* * * * * *
55540487 AGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
194 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55540526 TAAG
1 TAAG
55540530 TCCCGAAGGG
Statistics
Matches: 883, Mismatches: 32, Indels: 30
0.93 0.03 0.03
Matches are distributed among these distances:
227 119 0.13
230 95 0.11
231 45 0.05
232 364 0.41
233 88 0.10
234 22 0.02
235 146 0.17
237 4 0.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (232 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGATAAGGCCTAATGGCCGATGT
GATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCGATGTGATGAATGTGAAAGTGTAT
ATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:55539809 original size:22 final size:22
Alignment explanation
Indices: 55539782--55539854 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
55539772 AGTGTATATG
55539782 TGTGATAAGGCCTAATGGCCGA
1 TGTGATAAGGCCTAATGGCCGA
* * ***
55539804 TGTGATGAATG--TGAAAGTGTATA
1 TGTGAT-AAGGCCT-AATG-GCCGA
55539827 TGTGATAAGGCCTAATGGCCGA
1 TGTGATAAGGCCTAATGGCCGA
55539849 TGTGAT
1 TGTGAT
55539855 GAATGTGAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 20 0.56
23 14 0.39
24 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
TGTGATAAGGCCTAATGGCCGA
Found at i:55540486 original size:86 final size:86
Alignment explanation
Indices: 55540216--55540487 Score: 418
Period size: 86 Copynumber: 3.1 Consensus size: 86
55540206 AAGGCCTAAT
*
55540216 GGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
55540281 GAAAGTGTATATATGTGATAAGGCCTAA
66 GAAAGTGTATATA--TG-TAA---C-AA
*
55540309 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 -GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
*
55540374 TGAAAGTGTATATATGTAATAA
65 TGAAAGTGTATATATGTAACAA
*
55540396 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
55540461 GAAAGTGTATATATGTGACAG
66 GAAAGTGTATATATGTAACAA
55540482 GGCCGA
1 GGCCGA
55540488 GTGGCCAACG
Statistics
Matches: 170, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
86 87 0.51
87 2 0.01
91 3 0.02
92 2 0.01
94 76 0.45
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (86 bp):
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
GAAAGTGTATATATGTAACAA
Found at i:55540704 original size:37 final size:37
Alignment explanation
Indices: 55540648--55540726 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55540638 CCGAGCTCTA
* * *
55540648 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
55540685 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
55540722 AAGAC
1 AAGAC
55540727 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55542624 original size:43 final size:43
Alignment explanation
Indices: 55542576--55542678 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
55542566 TTGGTTTTCA
55542576 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
55542619 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
55542662 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
55542679 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:55542695 original size:29 final size:29
Alignment explanation
Indices: 55542660--55542733 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
55542650 GTTGTGAGAT
* *
55542660 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
55542689 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
55542718 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55542734 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:55543166 original size:40 final size:40
Alignment explanation
Indices: 55543043--55543199 Score: 140
Period size: 40 Copynumber: 3.9 Consensus size: 40
55543033 TCGAATGATG
* *
55543043 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCT-AGTGACTATA
* * * * *
55543083 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCTAGTGACTATA
*
55543123 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TATA
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGACTATA
* * * * *
55543163 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGAC
55543200 GTGTATTCGG
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 74 0.78
41 20 0.21
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGACTATA
Found at i:55546659 original size:47 final size:47
Alignment explanation
Indices: 55546593--55547379 Score: 1351
Period size: 47 Copynumber: 16.8 Consensus size: 47
55546583 GAAATGATAG
*
55546593 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55546640 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55546687 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55546734 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55546781 TAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55546828 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55546875 TAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55546922 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55546969 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55547016 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55547063 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
55547110 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
55547157 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * * *
55547204 TAAGGCCTAATAGACGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55547251 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
55547298 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * * * * * *
55547344 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
55547380 CATAAATGCG
Statistics
Matches: 714, Mismatches: 25, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
46 40 0.06
47 674 0.94
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:55547582 original size:37 final size:37
Alignment explanation
Indices: 55547517--55547587 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
55547507 GCTCTAAAGA
* * * *
55547517 CCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAGG
1 CCCGATAACTACGAGTGGAGATTATGTCCGGGTAAGG
*
55547554 CCCGATAACTTCGAGTGGAGATTATGTCCGGGTA
1 CCCGATAACTACGAGTGGAGATTATGTCCGGGTA
55547588 GGACTTCGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.27
Consensus pattern (37 bp):
CCCGATAACTACGAGTGGAGATTATGTCCGGGTAAGG
Found at i:55554119 original size:20 final size:20
Alignment explanation
Indices: 55554091--55554154 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
55554081 GTTACATCTC
*
55554091 ACGAACTCGGACTCAACTCA
1 ACGATCTCGGACTCAACTCA
55554111 ACGATCTCGGACTCAACTCA
1 ACGATCTCGGACTCAACTCA
*
55554131 ACGATCTCGAACTCAACTCA
1 ACGATCTCGGACTCAACTCA
55554151 ACGA
1 ACGA
55554155 GTTAAGAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.17
Consensus pattern (20 bp):
ACGATCTCGGACTCAACTCA
Found at i:55565066 original size:30 final size:30
Alignment explanation
Indices: 55565030--55565088 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
55565020 TTTACGAGCC
* *
55565030 TAGGGGCCAAAGTGTAAATATGTGAAAGTT
1 TAGGGGCCAAAATGTAAATATGTAAAAGTT
*
55565060 TAGGGGCCAAAATGTAAATTTGTAAAAGT
1 TAGGGGCCAAAATGTAAATATGTAAAAGT
55565089 ATGGTTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (30 bp):
TAGGGGCCAAAATGTAAATATGTAAAAGTT
Found at i:55566091 original size:50 final size:50
Alignment explanation
Indices: 55565846--55566082 Score: 208
Period size: 50 Copynumber: 4.7 Consensus size: 50
55565836 ATCAGAGGGT
* * *
55565846 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATATGTACCGGATTGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA
* * * * *
55565896 TAGGTCGCATGTGTAGTACTAACTGCA-GCTACTATGCGTACCCG-TTAA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA
* * * * * * * * * * *
55565944 CTTCGATCACGTGCGTAGTACTAAGTACAAGCTACTACGTATATCAGATGGG
1 --TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA
* * * * *
55565996 TAAGCCACATGTGTAGTACTAAGTGGAGGGTACTACGTGTACCAGATTGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA
* *
55566046 TAGGTCGCATGAGTAGTACTAAGTGCAGGCTACTATG
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
55566083 CATCCCAGAG
Statistics
Matches: 140, Mismatches: 43, Indels: 8
0.73 0.23 0.04
Matches are distributed among these distances:
48 3 0.02
49 14 0.10
50 110 0.79
51 12 0.09
52 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA
Found at i:55566124 original size:150 final size:150
Alignment explanation
Indices: 55565825--55566125 Score: 347
Period size: 150 Copynumber: 2.0 Consensus size: 150
55565815 TGTAGTACTA
* * * * * *
55565825 CTACTACGTGTATCAGAGGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATATGTACCG
1 CTACTACGTATATCAGAGGGTTAAGCCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCA
* * ** * *
55565890 GATTGATAGGTCGCATGTGTAGTACTAACTGCAGCTACTATGCGTACCCGTTAACTTCGATCACG
66 GATTGATAGGTCGCATGAGTAGTACTAACTGCAGCTACTATGCATACCCGAGAACTTCAATCACA
* *
55565955 TGCGTAGTACTAAGTACAAG
131 AGCGTAGTACTAAGCACAAG
* * *
55565975 CTACTACGTATATCAGATGGG-TAAGCCACATGTGTAGTACTAAGTGGAGGGTACTACGTGTACC
1 CTACTACGTATATCAGA-GGGTTAAGCCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACC
* * *
55566039 AGATTGATAGGTCGCATGAGTAGTACTAAGTGCAGGCTACTATGCAT-CCCAGAGAGCTTCAATT
65 AGATTGATAGGTCGCATGAGTAGTACTAACTGCA-GCTACTATGCATACCC-GAGAACTTCAATC
* * *
55566103 ACAAGGGTGGTA-TATGCACAAG
128 ACAAGCGTAGTACTAAGCACAAG
55566125 C
1 C
55566126 CACTGGGTAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
150 95 0.76
151 30 0.24
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (150 bp):
CTACTACGTATATCAGAGGGTTAAGCCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCA
GATTGATAGGTCGCATGAGTAGTACTAACTGCAGCTACTATGCATACCCGAGAACTTCAATCACA
AGCGTAGTACTAAGCACAAG
Found at i:55575787 original size:56 final size:56
Alignment explanation
Indices: 55575622--55575834 Score: 318
Period size: 56 Copynumber: 3.8 Consensus size: 56
55575612 GAAGGATATA
* *
55575622 TGGCATCGATATGTGACTCTAATATATATGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* * *
55575678 TGGTATTGATATGTGACTCTGATATATATCTGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCTG--ATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* *
55575736 TGGCATCAATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* * *
55575792 TGGCATTGATATATGACTCTGATATATGTGTACGAGTAAGACC
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACC
55575835 CTGTCTGGGG
Statistics
Matches: 141, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
56 90 0.64
58 51 0.36
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
Found at i:55578879 original size:37 final size:37
Alignment explanation
Indices: 55578829--55578907 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55578819 TTATTACGAA
* * *
55578829 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
55578866 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
55578903 GTCTT
1 GTCTT
55578908 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:55579129 original size:46 final size:47
Alignment explanation
Indices: 55579026--55579492 Score: 750
Period size: 46 Copynumber: 10.1 Consensus size: 47
55579016 CCCTTCGGGA
* * * * * * *
55579026 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55579073 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55579119 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55579166 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55579212 CTTATCACATATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55579259 CTTATCAC--ATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55579303 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55579349 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55579396 CTTATCACACATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55579442 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55579489 CTTA
1 CTTA
55579493 CTATCATTTC
Statistics
Matches: 397, Mismatches: 16, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
44 15 0.04
45 27 0.07
46 204 0.51
47 151 0.38
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55579199 original size:93 final size:94
Alignment explanation
Indices: 55579026--55579492 Score: 750
Period size: 93 Copynumber: 5.0 Consensus size: 94
55579016 CCCTTCGGGA
* * * * * * * * *
55579026 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
55579091 TTTCACATTCA-CACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
55579119 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
55579183 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
55579212 CTTATCACATATATACACTTTCACATTCATCACATCGACTATTAGGCCTTATCAC--ATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
55579275 TTTCACATTCATCACATCGG-CATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
55579303 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATT-GGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
55579367 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
55579396 CTTATCACACATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
55579460 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
55579489 CTTA
1 CTTA
55579493 CTATCATTTC
Statistics
Matches: 351, Mismatches: 17, Indels: 12
0.92 0.04 0.03
Matches are distributed among these distances:
90 11 0.03
91 47 0.13
92 83 0.24
93 208 0.59
94 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:55582933 original size:40 final size:40
Alignment explanation
Indices: 55582876--55582981 Score: 108
Period size: 40 Copynumber: 2.6 Consensus size: 40
55582866 CCAGCATGAT
* * * *
55582876 TGCTCTTCGGGATTTAGCACGGATATA-TCACTAGCACGAA
1 TGCTCTTCGGAACTTAGC-CGGATATAGTAACTAGCACCAA
* *
55582916 TGCTCTTCGGAACTTAGCCTGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGAACTTAGCC-GGATATAGTAACTAGCACCAA
*
55582957 TGC-CTTCGGATCTTAGTCCGGATAT
1 TGCTCTTCGGAACTTAG-CCGGATAT
55582982 GGTCACTTAG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
39 1 0.02
40 39 0.71
41 15 0.27
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.30
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCGGATATAGTAACTAGCACCAA
Found at i:55583363 original size:29 final size:29
Alignment explanation
Indices: 55583324--55583402 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
55583314 CTTAATAATC
*
55583324 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
55583354 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
55583383 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
55583403 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:55583451 original size:43 final size:43
Alignment explanation
Indices: 55583384--55583529 Score: 256
Period size: 43 Copynumber: 3.4 Consensus size: 43
55583374 TGCATTTCAA
55583384 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
**
55583427 GCCCTTACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
55583470 GCCCGCACACTTAGTGCCAATCTCACAACTGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
55583513 GGCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
55583530 TGAAAACCAA
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.25
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:55585432 original size:37 final size:37
Alignment explanation
Indices: 55585382--55585460 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55585372 TTATTACGAA
* * *
55585382 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
55585419 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
55585456 GTCTT
1 GTCTT
55585461 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:55585729 original size:47 final size:47
Alignment explanation
Indices: 55585579--55585774 Score: 277
Period size: 47 Copynumber: 4.2 Consensus size: 47
55585569 CCCTTCGGGA
* * * ** * * *
55585579 CTTATCACATTTATGCACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55585626 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55585672 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55585719 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55585766 CTTATCACA
1 CTTATCACA
55585775 GGCTTTTTAT
Statistics
Matches: 133, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 39 0.29
47 94 0.71
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55585738 original size:93 final size:94
Alignment explanation
Indices: 55585579--55585774 Score: 277
Period size: 93 Copynumber: 2.1 Consensus size: 94
55585569 CCCTTCGGGA
* * ** * * *
55585579 CTTATCACATTTATGCACTTTCACATCCATCATGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
55585644 TTTCACATTCA-CACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * * *
55585672 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
55585737 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
55585766 CTTATCACA
1 CTTATCACA
55585775 GGCTTTTTAT
Statistics
Matches: 90, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
93 65 0.72
94 25 0.28
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:55590651 original size:13 final size:13
Alignment explanation
Indices: 55590633--55590660 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55590623 ACATATTATA
55590633 AATATTTTGTGTT
1 AATATTTTGTGTT
55590646 AATATTTTGTGTT
1 AATATTTTGTGTT
55590659 AA
1 AA
55590661 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:55592125 original size:40 final size:40
Alignment explanation
Indices: 55592081--55592282 Score: 293
Period size: 40 Copynumber: 5.1 Consensus size: 40
55592071 TAAGATCCGT
55592081 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
1 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
*
55592121 AGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGA
1 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
* *
55592161 AGGCATTTGTG-TGAGTTACTATATCTGGGCTAAGTCCCGA
1 AGGCATTTGTGCT-AGTGACTATATCCGGGCTAAGTCCCGA
* *
55592201 AGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCAA
1 AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
* * *
55592241 AGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATACCGA
1 AGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGA
55592280 AGG
1 AGG
55592283 TACTTGGGTT
Statistics
Matches: 146, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 14 0.10
40 129 0.88
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
AGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGA
Found at i:55594425 original size:27 final size:27
Alignment explanation
Indices: 55594361--55594427 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
55594351 GGCATAATCG
* * *
55594361 TCATTTTACCATACAGGGGTATTGCGG
1 TCATTTTACCCTACAGGGGTATTACGA
*
55594388 TCACTTTACCCTACAGGGGCT-TTACGA
1 TCATTTTACCCTACAGGGG-TATTACGA
55594415 TCATTTTACCCTA
1 TCATTTTACCCTA
55594428 AGTTCAAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACGA
Found at i:55595417 original size:27 final size:27
Alignment explanation
Indices: 55595387--55595519 Score: 158
Period size: 27 Copynumber: 4.9 Consensus size: 27
55595377 AATCTCATAT
* *
55595387 CTATAGGCTAGTATTACTGAAATACCC
1 CTATAGGGTAGAATTACTGAAATACCC
* *
55595414 CTATATGGTAGAATTACGGAAATACCC
1 CTATAGGGTAGAATTACTGAAATACCC
* * *
55595441 TTATAGGGTAAAATTACTGAAATGCCC
1 CTATAGGGTAGAATTACTGAAATACCC
* * *
55595468 CTGTAGGATAGAATTACTAAAATACCC
1 CTATAGGGTAGAATTACTGAAATACCC
* *
55595495 CTGTAGGGTAGAATTACTAAAATAC
1 CTATAGGGTAGAATTACTGAAATAC
55595520 ACTTGGTTTA
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (27 bp):
CTATAGGGTAGAATTACTGAAATACCC
Found at i:55595628 original size:27 final size:27
Alignment explanation
Indices: 55595506--55595630 Score: 142
Period size: 27 Copynumber: 4.6 Consensus size: 27
55595496 TGTAGGGTAG
* * **
55595506 AATTACTAAAATACACTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* ** * *
55595533 AATTACCAAAATACCTTTGACTAGAAA
1 AATTACCAAAATACCCTTGGTTTGTAA
*
55595560 AATTACCAAAATAACCTTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
*
55595587 AATTACCAAAATACCCTTGGTTTGTGA
1 AATTACCAAAATACCCTTGGTTTGTAA
*
55595614 AATTACCGAAATACCCT
1 AATTACCAAAATACCCT
55595631 CGACCTGTAA
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTGTAA
Found at i:55595643 original size:27 final size:27
Alignment explanation
Indices: 55595582--55595654 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
55595572 AACCTTGGTT
* * ***
55595582 TGTAAAATTACCAAAATACCCTTGGTT
1 TGTAAAATTACCGAAATACCCTCGACC
*
55595609 TGTGAAATTACCGAAATACCCTCGACC
1 TGTAAAATTACCGAAATACCCTCGACC
*
55595636 TGTAAAATTACTGAAATAC
1 TGTAAAATTACCGAAATAC
55595655 AACCAACTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTCGACC
Found at i:55595747 original size:27 final size:27
Alignment explanation
Indices: 55595717--55595808 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
55595707 ACCCCTAATA
*
55595717 GGTAAAAAGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
55595744 GGTAAAATGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * * *
55595771 GGTAAAGTGACCGTAATACCCCTATAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
55595798 GGTAAAATGAC
1 GGTAAAATGAC
55595809 GATTATGCCA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:55595983 original size:27 final size:26
Alignment explanation
Indices: 55595949--55596044 Score: 93
Period size: 27 Copynumber: 3.6 Consensus size: 26
55595939 GGAAGTTCTG
* *
55595949 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATT-ACTGT
**
55595976 TACTGGTGGCTATGCCACAATTACTAA
1 TACTGGTGGCTATGCCAC-ATTACTGT
*
55596003 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACA-TTACTGT
* **
55596030 TTCTGGCAGCTATGC
1 TACTGGTGGCTATGC
55596045 TGCATCATTA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.93
28 3 0.05
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (26 bp):
TACTGGTGGCTATGCCACATTACTGT
Found at i:55596232 original size:33 final size:33
Alignment explanation
Indices: 55596185--55596249 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
55596175 ATTCCATCGT
* *
55596185 ACTATATTGTTACTGAATAGGGCTTTGGCCCAG
1 ACTATATTGATACTGAATACGGCTTTGGCCCAG
55596218 ACTATATTGATACTGAATACGGCTTTGGCCCA
1 ACTATATTGATACTGAATACGGCTTTGGCCCA
55596250 AACGGTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (33 bp):
ACTATATTGATACTGAATACGGCTTTGGCCCAG
Found at i:55596264 original size:33 final size:33
Alignment explanation
Indices: 55596195--55596264 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
55596185 ACTATATTGT
* * * * *
55596195 TACTGAATAGGGCTTTGGCCCAGACTATATTGA
1 TACTGAATACGGCTTTGGCCCAAACGATACTAA
*
55596228 TACTGAATACGGCTTTGGCCCAAACGGTACTAA
1 TACTGAATACGGCTTTGGCCCAAACGATACTAA
55596261 TACT
1 TACT
55596265 ATGCTATTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (33 bp):
TACTGAATACGGCTTTGGCCCAAACGATACTAA
Found at i:55602342 original size:34 final size:34
Alignment explanation
Indices: 55602297--55602381 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
55602287 TTGCATATCT
* * *
55602297 ATACTGCTACTGTTACTGAAATGGGCTACGGCCC
1 ATACTGATACTGATACTGAAATGGGCTAAGGCCC
*
55602331 ATACTGATACTGATACTGTAATGGGCTAAGGCCC
1 ATACTGATACTGATACTGAAATGGGCTAAGGCCC
*
55602365 -TAACTGAAACTGA-ACTG
1 AT-ACTGATACTGATACTG
55602382 TTACTGATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.11
34 40 0.89
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (34 bp):
ATACTGATACTGATACTGAAATGGGCTAAGGCCC
Found at i:55608102 original size:27 final size:27
Alignment explanation
Indices: 55608028--55608116 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
55608018 CAAAACAGTC
* * ** * *
55608028 ATTTTACCCTATAGGGGTATGCCAGTC
1 ATTTTACACTACAGGGGTATTTCGGTA
* *
55608055 ATTTTATACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAGGGGTATTTCGGTA
* *
55608082 ATTTTACACTACAGGGGTATTTTGATA
1 ATTTTACACTACAGGGGTATTTCGGTA
55608109 ATTTTACA
1 ATTTTACA
55608117 AATCGAGGGT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAGGGGTATTTCGGTA
Found at i:55608503 original size:27 final size:27
Alignment explanation
Indices: 55608068--55608503 Score: 415
Period size: 27 Copynumber: 16.4 Consensus size: 27
55608058 TTATACTACA
* *
55608068 AGGGTATTTCGGTAATTTTAC-ACTAC-
1 AGGGTATTTCGATAATTTTACAAAT-CG
*
55608094 AGGGGTATTTTGATAATTTTACAAATCG
1 A-GGGTATTTCGATAATTTTACAAATCG
** * *
55608122 AGGGTATTTTAATAATTTTTCAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
55608149 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
55608176 AGGGTGTTTC-AGTAATTTCACAAATC-
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
55608202 AGGGGTATTTCGATAATTTTACAAATCA
1 A-GGGTATTTCGATAATTTTACAAATCG
* *
55608230 AGTGTATTTC-AGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
55608256 ATGG----T-GATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
55608278 -GAGGTATTT-TAGTAATTTTACAAATCG
1 AG-GGTATTTCGA-TAATTTTACAAATCG
*
55608305 AGGGTATTTCGATAATTTTATAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
55608332 AGGGTATTTCAATAATTTTAC-AATCG
1 AGGGTATTTCGATAATTTTACAAATCG
55608358 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
55608385 AGGGTATTTC-AGTAATTTTACAAA-CTG
1 AGGGTATTTCGA-TAATTTTACAAATC-G
*
55608412 AGGGTATTTCGGTAATTTTACAAA-CTG
1 AGGGTATTTCGATAATTTTACAAATC-G
* *
55608439 GGGGTACTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* ** *
55608466 GGGGTGCTTCGATAATTTTACAAACCG
1 AGGGTATTTCGATAATTTTACAAATCG
55608493 -GAGGTATTTCG
1 AG-GGTATTTCG
55608504 GCAATTTCTC
Statistics
Matches: 349, Mismatches: 35, Indels: 51
0.80 0.08 0.12
Matches are distributed among these distances:
21 8 0.02
22 9 0.03
26 40 0.11
27 283 0.81
28 9 0.03
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:55608510 original size:54 final size:53
Alignment explanation
Indices: 55608070--55608502 Score: 465
Period size: 54 Copynumber: 8.2 Consensus size: 53
55608060 ATACTACAAG
* * *
55608070 GGTATTTCGGTAATTTTAC-ACTAC-AGGGGTATTTTGATAATTTTACAAATCGA
1 GGTATTTCAGTAATTTTACAAAT-CGA-GGGTATTTCGATAATTTTACAAATCGA
* * * * *
55608123 GGGTATTTTAATAATTTTTCAAATTGAGGGTGTTTCGATAATTTTACAAATCGA
1 -GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGA
* * *
55608177 GGGTGTTTCAGTAATTTCACAAATC-AGGGGTATTTCGATAATTTTACAAATCAA
1 -GGTATTTCAGTAATTTTACAAATCGA-GGGTATTTCGATAATTTTACAAATCGA
* *
55608231 GTGTATTTCAGTAATTTCAC-AATCGATGG----T-GATAATTTTACAAATCGGA
1 G-GTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATC-GA
* *
55608280 GGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTATAAATCGA
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGA
*
55608333 GGGTATTTCAATAATTTTAC-AATCGAGGGTATTTCGATAATTTTACAAATCGA
1 -GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGA
* * *
55608386 GGGTATTTCAGTAATTTTACAAA-CTGAGGGTATTTCGGTAATTTTACAAACTGGG
1 -GGTATTTCAGTAATTTTACAAATC-GAGGGTATTTCGATAATTTTACAAA-TCGA
* * ** *
55608441 GGTACTTCAGTAATTTTACAAATCGGGGGTGCTTCGATAATTTTACAAACCGGA
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATC-GA
55608495 GGTATTTC
1 GGTATTTC
55608503 GGCAATTTCT
Statistics
Matches: 322, Mismatches: 39, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
48 32 0.10
49 11 0.03
53 63 0.20
54 210 0.65
55 6 0.02
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (53 bp):
GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGA
Found at i:55610616 original size:28 final size:28
Alignment explanation
Indices: 55610576--55610654 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 28
55610566 GTACGAAATG
* *
55610576 TTTGAGGAAATTTTCATGTATGTGCTTA
1 TTTGAGGACATTTTCATGTATGTGCTCA
55610604 TTTGAGGACATTTTCATAAGGATGTATGTGCTCA
1 TTTGAGGACATTTTC------ATGTATGTGCTCA
55610638 TTTGAGGACATTTTCAT
1 TTTGAGGACATTTTCAT
55610655 AAGGATGTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
28 16 0.37
34 27 0.63
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (28 bp):
TTTGAGGACATTTTCATGTATGTGCTCA
Found at i:55610634 original size:34 final size:34
Alignment explanation
Indices: 55610591--55610672 Score: 155
Period size: 34 Copynumber: 2.4 Consensus size: 34
55610581 GGAAATTTTC
*
55610591 ATGTATGTGCTTATTTGAGGACATTTTCATAAGG
1 ATGTATGTGCTCATTTGAGGACATTTTCATAAGG
55610625 ATGTATGTGCTCATTTGAGGACATTTTCATAAGG
1 ATGTATGTGCTCATTTGAGGACATTTTCATAAGG
55610659 ATGTATGTGCTCAT
1 ATGTATGTGCTCAT
55610673 GCTATAGAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (34 bp):
ATGTATGTGCTCATTTGAGGACATTTTCATAAGG
Found at i:55613718 original size:31 final size:31
Alignment explanation
Indices: 55613680--55613753 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
55613670 TTTGGAGGGT
*
55613680 CACACGCCTGTGTA-GGTAGGCCGTGTGGTCA
1 CACACGCCCGTG-AGGGTAGGCCGTGTGGTCA
55613711 CACACGCCCGTGAGGGTAGGCCGTGTGGTCA
1 CACACGCCCGTGAGGGTAGGCCGTGTGGTCA
*
55613742 CACACGCTCGTG
1 CACACGCCCGTG
55613754 TCCTTAGCCC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.16, C:0.30, G:0.35, T:0.19
Consensus pattern (31 bp):
CACACGCCCGTGAGGGTAGGCCGTGTGGTCA
Found at i:55615520 original size:68 final size:68
Alignment explanation
Indices: 55615443--55615623 Score: 160
Period size: 67 Copynumber: 2.7 Consensus size: 68
55615433 CATTATGTGT
* * *
55615443 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTAGTGAAGGAAACCA
55615506 TGTAG
64 TGTAG
* ** * * *
55615511 ACAAGAGAGCT--ATGGGATATATGTAGCTAGGTCGCATGTGTGGTTCTAGGTGAAGGAAACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGGGTGATACTA-GTGAAGGAAACCAT
55615574 GTAG
65 GTAG
* * * * *
55615578 ACAAGAGAGCTAC--GAGATAAAT-TGGCTAGGTCACATGGGTGGTACT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGGGTGATACT
55615624 GGGTGTTCAC
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
64 25 0.27
65 3 0.03
66 25 0.27
67 29 0.31
68 11 0.12
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.24
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGGGTGATACTAGTGAAGGAAACCATG
TAG
Found at i:55615548 original size:64 final size:64
Alignment explanation
Indices: 55615467--55615649 Score: 190
Period size: 67 Copynumber: 2.8 Consensus size: 64
55615457 AGACATTATG
* * * *
55615467 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
55615531 ATGTAGCTAGGTCGCATGTGTGGTTCTAGGTGAAGGAAACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
55615596 AA
63 AA
* * ** *
55615598 AT-TGGCTAGGTCACATGGGTGGTACTGGGTGTTCACCATGT-GTACAAGAGAG
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAG
55615650 TCGAACTATA
Statistics
Matches: 96, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
62 1 0.01
63 17 0.18
64 26 0.27
66 22 0.23
67 30 0.31
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55623840 original size:27 final size:26
Alignment explanation
Indices: 55623801--55623908 Score: 85
Period size: 27 Copynumber: 4.0 Consensus size: 26
55623791 AAGCGTCCTG
*
55623801 GTGGCTATGCCACAATTATCTGATCT
1 GTGGCTCTGCCACAATTATCTGATCT
*
55623827 GATGGCTCTGCCACATATT-TCTGTTCT
1 G-TGGCTCTGCCACA-ATTATCTGATCT
* **
55623854 GGTGGCTTTGCCATGATTATCTGTATCTT
1 -GTGGCTCTGCCACAATTATCTG-ATC-T
* * *
55623883 GTGACTCTGTCAC-ATTATCTGTTCT
1 GTGGCTCTGCCACAATTATCTGATCT
55623908 G
1 G
55623909 GCAGCCATGC
Statistics
Matches: 65, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
25 2 0.03
26 6 0.09
27 41 0.63
28 15 0.23
29 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (26 bp):
GTGGCTCTGCCACAATTATCTGATCT
Found at i:55623904 original size:54 final size:54
Alignment explanation
Indices: 55623798--55623909 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
55623788 AGGAAGCGTC
* *
55623798 CTGGTGGCTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGATGACTCTGCCACATATATCTGTT
* ** *
55623852 CTGGTGGCTTTGCCATGATTATCTGTATCTTG-TGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATC-TGATGACTCTGCCACATATATCTGTT
55623906 CTGG
1 CTGG
55623910 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
54 33 0.66
55 15 0.30
56 2 0.04
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.40
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGATGACTCTGCCACATATATCTGTT
Found at i:55627128 original size:15 final size:15
Alignment explanation
Indices: 55627091--55627135 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
55627081 TTATGATATG
*
55627091 GTATCTTGGATTTTT
1 GTATCTTGGATTCTT
*
55627106 GTACCTTGGATATCTT
1 GTATCTTGGAT-TCTT
55627122 -TATCTTGGATTCTT
1 GTATCTTGGATTCTT
55627136 CTTTCTTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 19 0.73
16 3 0.12
ACGTcount: A:0.16, C:0.13, G:0.18, T:0.53
Consensus pattern (15 bp):
GTATCTTGGATTCTT
Found at i:55627993 original size:3 final size:3
Alignment explanation
Indices: 55627985--55628011 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
55627975 ACTTGAAATA
55627985 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
55628012 TTTAGGCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:55634020 original size:13 final size:13
Alignment explanation
Indices: 55634002--55634029 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55633992 ACATATTATA
55634002 AATATTTTGTGTT
1 AATATTTTGTGTT
55634015 AATATTTTGTGTT
1 AATATTTTGTGTT
55634028 AA
1 AA
55634030 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:55635493 original size:40 final size:40
Alignment explanation
Indices: 55635445--55635690 Score: 352
Period size: 40 Copynumber: 6.2 Consensus size: 40
55635435 GGACTAAGAT
* *
55635445 CCGAAGGCATTTGTGCTAGTTACTATATCCGAGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
55635485 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTG
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
55635525 CCGAAGGCATTTGTGCTAGTGATTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
55635565 CCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
55635605 CCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
55635645 CCAAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
55635684 CCGAAGG
1 CCGAAGG
55635691 TACTTGGGTT
Statistics
Matches: 183, Mismatches: 22, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
39 14 0.08
40 167 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:55642215 original size:13 final size:13
Alignment explanation
Indices: 55642197--55642224 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55642187 ACATATTATA
55642197 AATATTTTGTGTT
1 AATATTTTGTGTT
55642210 AATATTTTGTGTT
1 AATATTTTGTGTT
55642223 AA
1 AA
55642225 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:55643680 original size:40 final size:40
Alignment explanation
Indices: 55643632--55643757 Score: 182
Period size: 40 Copynumber: 3.2 Consensus size: 40
55643622 GGACTAAGAT
*
55643632 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGCC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
55643672 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * *
55643712 CCAAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
55643751 CCGAAGG
1 CCGAAGG
55643758 TACTTGGGTT
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
39 14 0.18
40 62 0.82
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Done.