Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 51 of 193
Found at i:15625885 original size:17 final size:17
Alignment explanation
Indices: 15625827--15625888 Score: 53
Period size: 17 Copynumber: 3.9 Consensus size: 17
15625817 AATGATTTTT
15625827 AAATTATTAAAATTAT-
1 AAATTATTAAAATTATA
*
15625843 ---TTTTTAAAA-TATA
1 AAATTATTAAAATTATA
* * *
15625856 AATTTTTTTAAATTATA
1 AAATTATTAAAATTATA
15625873 AAATTATTAAAATTAT
1 AAATTATTAAAATTAT
15625889 TTTTTTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
12 3 0.08
13 8 0.22
16 8 0.22
17 17 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTATTAAAATTATA
Found at i:15625891 original size:27 final size:26
Alignment explanation
Indices: 15625847--15625922 Score: 75
Period size: 30 Copynumber: 2.8 Consensus size: 26
15625837 AATTATTTTT
* *
15625847 TAAAA-TA-TAAATTTTTTTAAATTA
1 TAAAATTATTAAATTATTTTAAATAA
15625871 TAAAATTATTAAAATTATTTTTTTAAATAA
1 TAAAATTATT-AAATTA---TTTTAAATAA
*
15625901 TAAAATTATTAAATAATTTTAA
1 TAAAATTATTAAATTATTTTAA
15625923 TTTTCAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
24 5 0.12
25 2 0.05
26 7 0.16
27 5 0.12
29 5 0.12
30 19 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TAAAATTATTAAATTATTTTAAATAA
Found at i:15625913 original size:46 final size:46
Alignment explanation
Indices: 15625827--15625914 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
15625817 AATGATTTTT
* *
15625827 AAATTATTAAAATTATTTTTTAAAATATAAATTTTTTTAAATTATA
1 AAATTATTAAAATTATTTTTTAAAATATAAATATTATTAAATTATA
*
15625873 AAATTATTAAAATTATTTTTTTAAATAATAAA-ATTATTAAAT
1 AAATTATTAAAATTATTTTTTAAAAT-ATAAATATTATTAAAT
15625915 AATTTTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
46 33 0.87
47 5 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (46 bp):
AAATTATTAAAATTATTTTTTAAAATATAAATATTATTAAATTATA
Found at i:15625914 original size:16 final size:16
Alignment explanation
Indices: 15625863--15625917 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
15625853 ATAAATTTTT
*
15625863 TTAAATTATAAAATTA
1 TTAAATAATAAAATTA
* ** *
15625879 TT-AA-AATTATTTTT
1 TTAAATAATAAAATTA
15625893 TTAAATAATAAAATTA
1 TTAAATAATAAAATTA
15625909 TTAAATAAT
1 TTAAATAAT
15625918 TTTAATTTTC
Statistics
Matches: 28, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
14 7 0.25
15 4 0.14
16 17 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAATAATAAAATTA
Found at i:15625914 original size:29 final size:30
Alignment explanation
Indices: 15625856--15625920 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
15625846 TTAAAATATA
*
15625856 AATTTTTTTAAATTATAAAATTATTAAAAT
1 AATTTTTTTAAATAATAAAATTATTAAAAT
*
15625886 TATTTTTTTAAATAATAAAATTATT-AAAT
1 AATTTTTTTAAATAATAAAATTATTAAAAT
15625915 AATTTT
1 AATTTT
15625921 AATTTTCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
AATTTTTTTAAATAATAAAATTATTAAAAT
Found at i:15626851 original size:29 final size:29
Alignment explanation
Indices: 15626819--15626880 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
15626809 TAATTTTATT
15626819 ATTTAAAAAAAATTATATTTT-AAAAAATA
1 ATTT-AAAAAAATTATATTTTAAAAAAATA
**
15626848 ATTTAAAAATTTTATATTTTAAAAAAATA
1 ATTTAAAAAAATTATATTTTAAAAAAATA
15626877 ATTT
1 ATTT
15626881 TAATAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTTAAAAAAATTATATTTTAAAAAAATA
Found at i:15626853 original size:45 final size:42
Alignment explanation
Indices: 15626797--15626883 Score: 120
Period size: 45 Copynumber: 2.0 Consensus size: 42
15626787 ATTGAAAATT
* *
15626797 AAAATTATTTAATAATTTTATTATTTAAAAAAAATTATATTTTAA
1 AAAATAATTTAAAAATTTTA-TATTTAAAAAAAA-TA-ATTTTAA
*
15626842 AAAATAATTTAAAAATTTTATATTTTAAAAAAATAATTTTAA
1 AAAATAATTTAAAAATTTTATATTTAAAAAAAATAATTTTAA
15626884 TAATTTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
42 7 0.18
43 2 0.05
44 12 0.31
45 18 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (42 bp):
AAAATAATTTAAAAATTTTATATTTAAAAAAAATAATTTTAA
Found at i:15626862 original size:28 final size:30
Alignment explanation
Indices: 15626831--15626891 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
15626821 TTAAAAAAAA
15626831 TTATATTTT-AAAAAATAA-TTTAAAAATT
1 TTATATTTTAAAAAAATAATTTTAAAAATT
*
15626859 TTATATTTTAAAAAAATAATTTTAATAATT
1 TTATATTTTAAAAAAATAATTTTAAAAATT
15626889 TTA
1 TTA
15626892 AAATTATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 9 0.30
29 9 0.30
30 12 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
TTATATTTTAAAAAAATAATTTTAAAAATT
Found at i:15628809 original size:50 final size:50
Alignment explanation
Indices: 15628754--15629174 Score: 212
Period size: 50 Copynumber: 8.4 Consensus size: 50
15628744 TTCACTGTAA
* *
15628754 CTTCAGGAAGATATGATTTGATATTGTAACTTTATCTTGATCCACTGCAT
1 CTTCAGGGAGATAGGATTTGATATTGTAACTTTATCTTGATCCACTGCAT
* * * * * * *
15628804 CTTCAGGGAGATAGGACTTGCTAATGT-AGTTTCAATC-CGATCCACTACAA
1 CTTCAGGGAGATAGGATTTGATATTGTAACTTT--ATCTTGATCCACTGCAT
* * * * * *
15628854 CTTCA-GGATATAGGATTTGATGTCGTAACTTCATCTTGCTTCACTGCAT
1 CTTCAGGGAGATAGGATTTGATATTGTAACTTTATCTTGATCCACTGCAT
* * * * * * * *
15628903 CTTCAAGGAGATAAGATTTGCT-TACGTAGCTTCAATC-TGATCCACTGTAA
1 CTTCAGGGAGATAGGATTTGATAT-TGTAACTT-TATCTTGATCCACTGCAT
* * * * *
15628953 CTTTAGGGATATAGGATTTGATATTGTAGCTTTATCTTGCTCCATTGCAT
1 CTTCAGGGAGATAGGATTTGATATTGTAACTTTATCTTGATCCACTGCAT
* * * ** ** * *
15629003 CTTTAGGGAGATAAGATTTGCTACCGT-TGTTTCAATC-CGATCCACTACAT
1 CTTCAGGGAGATAGGATTTGATATTGTAACTTT--ATCTTGATCCACTGCAT
* * * * * * * *
15629053 CTTCAAGGATATAAGATTTGATGTTTTAGCTTCATCTTGCTCCACTGCAT
1 CTTCAGGGAGATAGGATTTGATATTGTAACTTTATCTTGATCCACTGCAT
* * * * ** * *
15629103 CTTTAGGGAGATAAGATTTGCTACTGT-GGTTTCAATC-TGATTCATTGCAT
1 CTTCAGGGAGATAGGATTTGATATTGTAACTTT--ATCTTGATCCACTGCAT
* *
15629153 CTTTAGGGATATAGGATTTGAT
1 CTTCAGGGAGATAGGATTTGAT
15629175 TTGCGCTAAT
Statistics
Matches: 274, Mismatches: 82, Indels: 30
0.71 0.21 0.08
Matches are distributed among these distances:
48 3 0.01
49 45 0.16
50 211 0.77
51 15 0.05
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (50 bp):
CTTCAGGGAGATAGGATTTGATATTGTAACTTTATCTTGATCCACTGCAT
Found at i:15629013 original size:100 final size:99
Alignment explanation
Indices: 15628746--15629174 Score: 482
Period size: 100 Copynumber: 4.3 Consensus size: 99
15628736 TTATCCTCTT
* * * * * *
15628746 CACTGTAACTTCAGGAAGATATGATTTGATATTGTAACTTTATCTTGATCCACTGCATCTTCAGG
1 CACTGCAACTTCAGGGATATAGGATTTGATATTGTAACTTCATCTTGCTCCACTGCATCTTCAGG
* * *
15628811 GAGATAGGACTTGCTAATGTAGTTTCAATCCGATC
66 GAGATAAGATTTGCT-ACGTAGTTTCAATCCGATC
* * * * *
15628846 CACTACAACTTCA-GGATATAGGATTTGATGTCGTAACTTCATCTTGCTTCACTGCATCTTCAAG
1 CACTGCAACTTCAGGGATATAGGATTTGATATTGTAACTTCATCTTGCTCCACTGCATCTTCAGG
* *
15628910 GAGATAAGATTTGCTTACGTAGCTTCAATCTGATC
66 GAGATAAGATTTGC-TACGTAGTTTCAATCCGATC
* * * * * *
15628945 CACTGTAACTTTAGGGATATAGGATTTGATATTGTAGCTTTATCTTGCTCCATTGCATCTTTAGG
1 CACTGCAACTTCAGGGATATAGGATTTGATATTGTAACTTCATCTTGCTCCACTGCATCTTCAGG
*
15629010 GAGATAAGATTTGCTACCGTTGTTTCAATCCGATC
66 GAGATAAGATTTGCTA-CGTAGTTTCAATCCGATC
* * * * * * * *
15629045 CACTACATCTTCAAGGATATAAGATTTGATGTTTTAGCTTCATCTTGCTCCACTGCATCTTTAGG
1 CACTGCAACTTCAGGGATATAGGATTTGATATTGTAACTTCATCTTGCTCCACTGCATCTTCAGG
* * *
15629110 GAGATAAGATTTGCTACTGTGGTTTCAATCTGATT
66 GAGATAAGATTTGCTAC-GTAGTTTCAATCCGATC
* * *
15629145 CATTGCATCTTTAGGGATATAGGATTTGAT
1 CACTGCAACTTCAGGGATATAGGATTTGAT
15629175 TTGCGCTAAT
Statistics
Matches: 277, Mismatches: 48, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
99 83 0.30
100 194 0.70
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (99 bp):
CACTGCAACTTCAGGGATATAGGATTTGATATTGTAACTTCATCTTGCTCCACTGCATCTTCAGG
GAGATAAGATTTGCTACGTAGTTTCAATCCGATC
Found at i:15629097 original size:150 final size:149
Alignment explanation
Indices: 15628895--15629172 Score: 337
Period size: 150 Copynumber: 1.9 Consensus size: 149
15628885 CATCTTGCTT
* * *
15628895 CACTGCATCTTCAAGGAGATAAGATTTGCTTACGTAGCTTCAATCTGATCCACTGTAACTTTAGG
1 CACTACATCTTCAAGGAGATAAGATTTGATTACGTAGCTTCAATCTGATCCACTGCAACTTTAGG
* * * *
15628960 GATATAGGATTTGATATTGTAGCTTT-ATCTTGCTCCATTGCATCTTTAGGGAGATAAGATTTGC
66 GAGATAAGATTTGATACTGT-GCTTTAATC-TGATCCATTGCATCTTTAGGGAGATAAGATTTGC
15629024 TACCGTTGTTTCAATCCGATC
129 TACCGTTGTTTCAATCCGATC
* ** * *
15629045 CACTACATCTTCAAGGATATAAGATTTGATGT-TTTAGCTTC-ATCTTGCTCCACTGCATCTTTA
1 CACTACATCTTCAAGGAGATAAGATTTGAT-TACGTAGCTTCAATC-TGATCCACTGCAACTTTA
* * * * *
15629108 GGGAGATAAGATTTGCTACTGTGGTTTCAATCTGATTCATTGCATCTTTAGGGATATAGGATTTG
64 GGGAGATAAGATTTGATACTGTGCTTT-AATCTGATCCATTGCATCTTTAGGGAGATAAGATTTG
15629173 ATTTGCGCTA
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
149 7 0.07
150 96 0.90
151 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (149 bp):
CACTACATCTTCAAGGAGATAAGATTTGATTACGTAGCTTCAATCTGATCCACTGCAACTTTAGG
GAGATAAGATTTGATACTGTGCTTTAATCTGATCCATTGCATCTTTAGGGAGATAAGATTTGCTA
CCGTTGTTTCAATCCGATC
Found at i:15630145 original size:127 final size:127
Alignment explanation
Indices: 15629901--15630144 Score: 323
Period size: 127 Copynumber: 1.9 Consensus size: 127
15629891 GAGAGAAAAG
* *
15629901 ACCACTACATGCCCATTCTCTGTTCCAAATTTGAATCGCCTTTTCGGGTTTTCGACTCAAAACTC
1 ACCACTACATGCCCATTCTCTGTTCCAAATTTGAACCGCCTTTTCAGGTTTTCGACTCAAAACTC
* * *
15629966 CATAAGTTTCGAGACGCCCTTTACGGGTTTTTATCTCGACCTTTCCTTTTTTTAGGGAAACA
66 CATAAGTTTCGAGACGCCCTTTACGGCTTTTCATCTCGACCTCTCCTTTTTTTAGGGAAACA
* * *
15630028 ACCATTACATGCCCATTCTTTAG-TCCAAATTTGAGCCGCTCTTTT-AGGTTTTCGACTCAAAAC
1 ACCACTACATGCCCATTCTCT-GTTCCAAATTTGAACCGC-CTTTTCAGGTTTTCGACTCAAAAC
* * * * * *
15630091 TCCTTAGGTTTTGAGATGCCC-TTATGGCTTTTCATCTCGACCTCTCTTTTTTTT
64 TCCATAAGTTTCGAGACGCCCTTTACGGCTTTTCATCTCGACCTCTCCTTTTTTT
15630145 TTAGGTGAAG
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
126 28 0.28
127 67 0.66
128 6 0.06
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.39
Consensus pattern (127 bp):
ACCACTACATGCCCATTCTCTGTTCCAAATTTGAACCGCCTTTTCAGGTTTTCGACTCAAAACTC
CATAAGTTTCGAGACGCCCTTTACGGCTTTTCATCTCGACCTCTCCTTTTTTTAGGGAAACA
Found at i:15639003 original size:15 final size:15
Alignment explanation
Indices: 15638976--15639019 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
15638966 CATAAAAAAA
15638976 ATTTCTTCTTTTTCT-
1 ATTT-TTCTTTTTCTC
*
15638991 TTTTTTCCTTTTTCTC
1 ATTTTT-CTTTTTCTC
15639007 ATTTTTCTTTTTC
1 ATTTTTCTTTTTC
15639020 AAGTGACTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 2 0.08
15 18 0.72
16 5 0.20
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (15 bp):
ATTTTTCTTTTTCTC
Found at i:15646020 original size:29 final size:29
Alignment explanation
Indices: 15645987--15646043 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
15645977 GGATTGAATT
* *
15645987 AAAAAATAAAAAATTGAAAGCCTAAATTGC
1 AAAATATAAAAAA-TAAAAGCCTAAATTGC
* *
15646017 AAAATATAGAAAATAAAAGGCTAAATT
1 AAAATATAAAAAATAAAAGCCTAAATT
15646044 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 12 0.52
30 11 0.48
ACGTcount: A:0.61, C:0.07, G:0.11, T:0.21
Consensus pattern (29 bp):
AAAATATAAAAAATAAAAGCCTAAATTGC
Found at i:15648740 original size:35 final size:35
Alignment explanation
Indices: 15648687--15648762 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
15648677 AAGTGCAAAG
*
15648687 CCCAAAGGCATCATAGTATGAACGCGAATGCATAA
1 CCCAAAGGCATCAGAGTATGAACGCGAATGCATAA
* * *
15648722 CCCAAAGGCAAT-AGAGTATGAATGTGAATGCATAG
1 CCCAAAGGC-ATCAGAGTATGAACGCGAATGCATAA
15648757 CCCAAA
1 CCCAAA
15648763 AGGTGCATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 34 0.94
36 2 0.06
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (35 bp):
CCCAAAGGCATCAGAGTATGAACGCGAATGCATAA
Found at i:15664825 original size:37 final size:37
Alignment explanation
Indices: 15664784--15664915 Score: 142
Period size: 37 Copynumber: 3.6 Consensus size: 37
15664774 GGACACGTTC
* *
15664784 ATGCAGCGACATTCTTGGGTGCAATTGAAGAATATTT
1 ATGCAGTGACAATCTTGGGTGCAATTGAAGAATATTT
* * * * *
15664821 ATGCAGTGATAGTCCTGGATGCGATTGAAGAATATTT
1 ATGCAGTGACAATCTTGGGTGCAATTGAAGAATATTT
*
15664858 ATGCAGTGACAATCTTGGGTGC-ATTCCGAA-AATATTC
1 ATGCAGTGACAATCTTGGGTGCAATT--GAAGAATATTT
* *
15664895 ATGCGGTGACAATTTTGGGTG
1 ATGCAGTGACAATCTTGGGTG
15664916 TTATAAGTGC
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
36 3 0.04
37 74 0.93
38 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (37 bp):
ATGCAGTGACAATCTTGGGTGCAATTGAAGAATATTT
Found at i:15671563 original size:28 final size:24
Alignment explanation
Indices: 15671506--15671556 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
15671496 AGAAATAATC
15671506 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
* *
15671530 TTTCAATTAAACTTTGTTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
15671554 TTT
1 TTT
15671557 GAGTCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.10, G:0.06, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTG
Found at i:15680652 original size:6 final size:6
Alignment explanation
Indices: 15680641--15680666 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15680631 AACATACACC
15680641 AAAACA AAAACA AAAACA AAAACA AA
1 AAAACA AAAACA AAAACA AAAACA AA
15680667 TAAAATAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:15701328 original size:20 final size:19
Alignment explanation
Indices: 15701292--15701333 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
15701282 TATTTATTTC
*
15701292 ATATTTTACTTAAAATAATA
1 ATATTTTACTAAAAAT-ATA
15701312 ATATTTTA-TAAATAATATA
1 ATATTTTACTAAA-AATATA
15701331 ATA
1 ATA
15701334 ATATATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATTTTACTAAAAATATA
Found at i:15709038 original size:26 final size:25
Alignment explanation
Indices: 15709009--15709059 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 25
15708999 AGTACTCTAG
15709009 AATAATATAACTTATTTCTAAATATA
1 AATAATATAACTTATTT-TAAATATA
15709035 AATAATATAACTTATTTTAAATATA
1 AATAATATAACTTATTTTAAATATA
15709060 GAGGATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (25 bp):
AATAATATAACTTATTTTAAATATA
Found at i:15711220 original size:16 final size:18
Alignment explanation
Indices: 15711194--15711230 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
15711184 AATGAAACTA
*
15711194 AAAATTAGAA-TGATATG
1 AAAATTAGAATTGAGATG
15711211 AAAA-TAGAATTGAGATG
1 AAAATTAGAATTGAGATG
15711228 AAA
1 AAA
15711231 CTGATTATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.57, C:0.00, G:0.19, T:0.24
Consensus pattern (18 bp):
AAAATTAGAATTGAGATG
Found at i:15719381 original size:3 final size:3
Alignment explanation
Indices: 15719373--15719415 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
15719363 AGGGGAAATG
15719373 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15719416 CACTATAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15719429 original size:82 final size:82
Alignment explanation
Indices: 15719334--15719497 Score: 292
Period size: 82 Copynumber: 2.0 Consensus size: 82
15719324 TTTGGTAACC
*
15719334 CACTATAAAAATATGTGGTGGATATCGATAGGGGAAATGATAATAATAATAATAATAATAATAAT
1 CACTATAAAAATATGTAGTGGATATCGATAGGGGAAATGATAATAATAATAATAATAATAATAAT
15719399 AATAATAATAATAATAA
66 AATAATAATAATAATAA
* * *
15719416 CACTATAGAAATATGTAGTGGATATCGATAGGGGAAATGATGATGATAATAATAATAATAATAAT
1 CACTATAAAAATATGTAGTGGATATCGATAGGGGAAATGATAATAATAATAATAATAATAATAAT
15719481 AATAATAATAATAATAA
66 AATAATAATAATAATAA
15719498 TAATAATAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.29
Consensus pattern (82 bp):
CACTATAAAAATATGTAGTGGATATCGATAGGGGAAATGATAATAATAATAATAATAATAATAAT
AATAATAATAATAATAA
Found at i:15719467 original size:3 final size:3
Alignment explanation
Indices: 15719461--15719509 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
15719451 AATGATGATG
15719461 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15719509 A
1 A
15719510 AAGGATTAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15726498 original size:3 final size:3
Alignment explanation
Indices: 15726490--15726525 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
15726480 CTATAAGGGA
15726490 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15726526 TATTATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15726530 original size:3 final size:3
Alignment explanation
Indices: 15726524--15726555 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15726514 AATAATAATA
15726524 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
15726556 AAAAGGATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15728726 original size:11 final size:11
Alignment explanation
Indices: 15728710--15728735 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15728700 AATATAAAAT
15728710 TTTTAAAATTA
1 TTTTAAAATTA
15728721 TTTTAAAATTA
1 TTTTAAAATTA
15728732 TTTT
1 TTTT
15728736 TTAAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATTA
Found at i:15729120 original size:24 final size:24
Alignment explanation
Indices: 15729088--15729156 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
15729078 AGATAGGTTT
15729088 AGTATTTTCCCGAGAAACAAATAA
1 AGTATTTTCCCGAGAAACAAATAA
* *
15729112 AGTATTTTCTCGAGAAACAAATAG
1 AGTATTTTCCCGAGAAACAAATAA
15729136 AGTATTTTCCCGAGAAACAAA
1 AGTATTTTCCCGAGAAACAAA
15729157 CGTAAAACTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (24 bp):
AGTATTTTCCCGAGAAACAAATAA
Found at i:15730030 original size:87 final size:87
Alignment explanation
Indices: 15729887--15730048 Score: 254
Period size: 87 Copynumber: 1.9 Consensus size: 87
15729877 TTAAGGGTGT
* * * *
15729887 AAAAAACCCTCAAACTTTTTCAAAAAAGCAATTAAGCCCCTCTTTTTTTTGCACTCATTTGGGTA
1 AAAAAACCCACAAACCTTTTAAAAAAAGCAATTAAGCCCCTCTTTTTTTTGCACTCAATTGGGTA
*
15729952 CTTGATCTTTCAAAATGCATAA
66 CTTGAACTTTCAAAATGCATAA
15729974 AAAAAACCCACAAACCTTTTAAAAAAAGCAATTAAGCCCCTACTTTTTTTT-CACTCAATTGGGT
1 AAAAAACCCACAAACCTTTTAAAAAAAGCAATTAAGCCCCT-CTTTTTTTTGCACTCAATTGGGT
*
15730038 ATTTGAACTTT
65 ACTTGAACTTT
15730049 TAGGACTCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
87 59 0.87
88 9 0.13
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.34
Consensus pattern (87 bp):
AAAAAACCCACAAACCTTTTAAAAAAAGCAATTAAGCCCCTCTTTTTTTTGCACTCAATTGGGTA
CTTGAACTTTCAAAATGCATAA
Found at i:15730205 original size:19 final size:19
Alignment explanation
Indices: 15730165--15730209 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
15730155 TTCAAATATT
15730165 AAAAATATTAAAAATTAGAA
1 AAAAATATT-AAAATTAGAA
*
15730185 AAAAATATT-AAATTTGTAA
1 AAAAATATTAAAATTAG-AA
15730204 AAAAAT
1 AAAAAT
15730210 TATAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 8 0.35
20 9 0.39
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAATATTAAAATTAGAA
Found at i:15730217 original size:20 final size:20
Alignment explanation
Indices: 15730164--15730217 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 20
15730154 ATTCAAATAT
*
15730164 TAAAAATATTA-AAAATTAG
1 TAAAAAAATTATAAAATTAG
* *
15730183 -AAAAAAA-TATTAAATTTG
1 TAAAAAAATTATAAAATTAG
15730201 TAAAAAAATTATAAAAT
1 TAAAAAAATTATAAAAT
15730218 ATATAGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 2 0.07
18 12 0.43
19 7 0.25
20 7 0.25
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
TAAAAAAATTATAAAATTAG
Found at i:15730506 original size:20 final size:20
Alignment explanation
Indices: 15730481--15730519 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15730471 GTTAAAGGAA
15730481 TTTTTTATGCATTT-TATAAT
1 TTTTTTATG-ATTTCTATAAT
15730501 TTTTTTATGATTTCTATAA
1 TTTTTTATGATTTCTATAA
15730520 AATTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTTTATGATTTCTATAAT
Found at i:15730525 original size:20 final size:20
Alignment explanation
Indices: 15730482--15730525 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15730472 TTAAAGGAAT
**
15730482 TTTTTATGCATTTTATAATT
1 TTTTTATGCATTTTATAAAA
15730502 TTTTTATG-ATTTCTATAAAA
1 TTTTTATGCATTT-TATAAAA
15730522 TTTT
1 TTTT
15730526 ACAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTTATGCATTTTATAAAA
Found at i:15730585 original size:19 final size:20
Alignment explanation
Indices: 15730546--15730586 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
15730536 TTCTTTTATG
15730546 AATTTTATAAAAAAGTTTCT
1 AATTTTATAAAAAAGTTTCT
* *
15730566 AATTTT-TAATAAATTTTCT
1 AATTTTATAAAAAAGTTTCT
15730585 AA
1 AA
15730587 AATTTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
AATTTTATAAAAAAGTTTCT
Found at i:15730618 original size:18 final size:19
Alignment explanation
Indices: 15730570--15730624 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 19
15730560 GTTTCTAATT
* * *
15730570 TTTAATAAATTTTCTAAAA
1 TTTATTAAATTTTTTATAA
*
15730589 TTTATT-ATTTTTTTATAA
1 TTTATTAAATTTTTTATAA
*
15730607 TTT-TTAAATTTTTAATAA
1 TTTATTAAATTTTTTATAA
15730625 GAGCAAGGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 2 0.07
18 22 0.76
19 5 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATTAAATTTTTTATAA
Found at i:15731880 original size:2 final size:2
Alignment explanation
Indices: 15731867--15731911 Score: 81
Period size: 2 Copynumber: 22.0 Consensus size: 2
15731857 CTTCGCCTAC
15731867 CT CT CAT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT C-T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15731910 CT
1 CT
15731912 AACTTCTCTG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:15733796 original size:27 final size:27
Alignment explanation
Indices: 15733763--15733859 Score: 99
Period size: 27 Copynumber: 3.6 Consensus size: 27
15733753 CTTTGCCGAT
15733763 CCATGGTGATCAACAATCAGTACCAAG
1 CCATGGTGATCAACAATCAGTACCAAG
* * *
15733790 CCTTGGTGATCAACAACCTATGT--CAAA
1 CCATGGTGATCAACAATC-A-GTACCAAG
** *
15733817 CCACAGTGATCAACAATCTGTACCAAG
1 CCATGGTGATCAACAATCAGTACCAAG
*
15733844 CCATGTTGATCAACAA
1 CCATGGTGATCAACAA
15733860 CCTGGACGAC
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
25 2 0.04
27 49 0.91
28 1 0.02
29 2 0.04
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (27 bp):
CCATGGTGATCAACAATCAGTACCAAG
Found at i:15733826 original size:54 final size:54
Alignment explanation
Indices: 15733732--15733862 Score: 172
Period size: 54 Copynumber: 2.4 Consensus size: 54
15733722 CGTTTAAGAT
* * * * **
15733732 CAAGCCATGGTCATCAACAACCTTTGCCGATCCATGGTGATCAACAATCAGTAC
1 CAAGCCATGGTGATCAACAACCTATGCCAAACCACAGTGATCAACAATCAGTAC
* * *
15733786 CAAGCCTTGGTGATCAACAACCTATGTCAAACCACAGTGATCAACAATCTGTAC
1 CAAGCCATGGTGATCAACAACCTATGCCAAACCACAGTGATCAACAATCAGTAC
*
15733840 CAAGCCATGTTGATCAACAACCT
1 CAAGCCATGGTGATCAACAACCT
15733863 GGACGACGTC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (54 bp):
CAAGCCATGGTGATCAACAACCTATGCCAAACCACAGTGATCAACAATCAGTAC
Found at i:15734141 original size:171 final size:171
Alignment explanation
Indices: 15733856--15734200 Score: 593
Period size: 171 Copynumber: 2.0 Consensus size: 171
15733846 ATGTTGATCA
* * * *
15733856 ACAACCTGGACGACGTCATTATGAACGTGTAAGTTCCGAGTCAATAAGCACTTTGCCTGACATCA
1 ACAACCTGGACCACATCATTATGAACGTGTAAATGCCGAGTCAATAAGCACTTTGCCTGACATCA
*
15733921 ACCAAACTGATTTATCTTTTGTGGAATATCATATGCCTGTCACTCAGCAGGAAAATGATGCAAGA
66 ACCAAACTGATTTATCTTTTATGGAATATCATATGCCTGTCACTCAGCAGGAAAATGATGCAAGA
*
15733986 ACAGGA-TTAAGACATGTGAAGGACGGTTTAGATGTTCAGCC
131 ACA-GATTTAAGACATGTGAAGGACGGTTTAGATGTTCAACC
*
15734027 ACAACCTGGACCACATCATTATGAACGTGTAAATGCTGAGTCAATAAGCACTTTGCCTGACATCA
1 ACAACCTGGACCACATCATTATGAACGTGTAAATGCCGAGTCAATAAGCACTTTGCCTGACATCA
*
15734092 ACCAAACTGATTTATCTTTTATGGAATATCATATGCCTGTCACTCAGCAGGAAAATGATGCAAGC
66 ACCAAACTGATTTATCTTTTATGGAATATCATATGCCTGTCACTCAGCAGGAAAATGATGCAAGA
*
15734157 ACAGATTTAAGACATGTGGAGGACGGTTTAGATGTTCAACC
131 ACAGATTTAAGACATGTGAAGGACGGTTTAGATGTTCAACC
15734198 ACA
1 ACA
15734201 TCTACCTGCG
Statistics
Matches: 164, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
170 2 0.01
171 162 0.99
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (171 bp):
ACAACCTGGACCACATCATTATGAACGTGTAAATGCCGAGTCAATAAGCACTTTGCCTGACATCA
ACCAAACTGATTTATCTTTTATGGAATATCATATGCCTGTCACTCAGCAGGAAAATGATGCAAGA
ACAGATTTAAGACATGTGAAGGACGGTTTAGATGTTCAACC
Found at i:15737130 original size:18 final size:18
Alignment explanation
Indices: 15737109--15737145 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
15737099 TGAATTTTCG
*
15737109 AATTCGAATAACTCAAAT
1 AATTCGAATAAATCAAAT
15737127 AATTCGAATAAATCAAAT
1 AATTCGAATAAATCAAAT
15737145 A
1 A
15737146 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCAAAT
Found at i:15739183 original size:17 final size:17
Alignment explanation
Indices: 15739163--15739207 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
15739153 TAAAATAAAC
*
15739163 TTAAATTTATATT-AATT
1 TTAAATTTAT-TTGAAAT
*
15739180 TTAAATTCATTTGAAAT
1 TTAAATTTATTTGAAAT
15739197 TTAAATTTATT
1 TTAAATTTATT
15739208 AATGTCCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTAAATTTATTTGAAAT
Found at i:15741118 original size:30 final size:30
Alignment explanation
Indices: 15741049--15741119 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
15741039 CCCTGAATTG
* *
15741049 TCAAAAATCATATTTTAACCCCTAAACTTT
1 TCAAAAATTATATTTTAACCCCTAAACTTC
* * * * *
15741079 TCCATAATTATATTTTTACCCTTGAACTTC
1 TCAAAAATTATATTTTAACCCCTAAACTTC
15741109 TCAAAAATTAT
1 TCAAAAATTAT
15741120 GAACTTCCAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.41
Consensus pattern (30 bp):
TCAAAAATTATATTTTAACCCCTAAACTTC
Found at i:15741132 original size:17 final size:18
Alignment explanation
Indices: 15741101--15741135 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
15741091 TTTTTACCCT
15741101 TGAACTTCTCAAAAATTA
1 TGAACTTCTCAAAAATTA
15741119 TGAACTTC-CAAAAATTA
1 TGAACTTCTCAAAAATTA
15741136 CATTTTTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (18 bp):
TGAACTTCTCAAAAATTA
Found at i:15741163 original size:30 final size:30
Alignment explanation
Indices: 15741121--15741379 Score: 181
Period size: 29 Copynumber: 8.9 Consensus size: 30
15741111 AAAAATTATG
15741121 AACTTC-CAAAAATTACATTTTTACCCTCA
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* *
15741150 AATTTCTCAAAAATTACATTTTTGCCCTCA
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* *
15741180 AACTTCTCAAAAATTACA-TTTT-GCCTCCT
1 AACTTCTCAAAAATTACATTTTTACCCT-CA
* *
15741209 AACTTCT-AAAAATTACAATTTTGCCC-CTA
1 AACTTCTCAAAAATTACATTTTTACCCTC-A
* *
15741238 AACTTC-CAAAAATCACATTTTTACCCTCT
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* **
15741267 AACTT-TCTAAAACCACA-TTTTACCCT-A
1 AACTTCTCAAAAATTACATTTTTACCCTCA
* * * *
15741294 AA-TTTTCCTAAAATAACATTTTTACCCCTAA
1 AACTTCT-CAAAAATTACATTTTTA-CCCTCA
*
15741325 AACTT-TCCAAAATATT--ATTTTAACCC-CA
1 AACTTCT-CAAAA-ATTACATTTTTACCCTCA
*
15741353 AAC-TCTCTAAAACTT-CATTTTTGACCC
1 AACTTCTC-AAAAATTACATTTTT-ACCC
15741380 CATTTTTTTT
Statistics
Matches: 189, Mismatches: 22, Indels: 38
0.76 0.09 0.15
Matches are distributed among these distances:
26 2 0.01
27 7 0.04
28 46 0.24
29 69 0.37
30 52 0.28
31 9 0.05
32 4 0.02
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.36
Consensus pattern (30 bp):
AACTTCTCAAAAATTACATTTTTACCCTCA
Found at i:15741202 original size:29 final size:29
Alignment explanation
Indices: 15741121--15741258 Score: 160
Period size: 30 Copynumber: 4.8 Consensus size: 29
15741111 AAAAATTATG
*
15741121 AACTTC-CAAAAATTACATTTTTACCCTCA
1 AACTTCTCAAAAATTACA-TTTTGCCCTCA
*
15741150 AATTTCTCAAAAATTACATTTTTGCCCTCA
1 AACTTCTCAAAAATTACA-TTTTGCCCTCA
*
15741180 AACTTCTCAAAAATTACATTTTG-CCTCCT
1 AACTTCTCAAAAATTACATTTTGCCCT-CA
15741209 AACTTCT-AAAAATTACAATTTTGCCC-CTA
1 AACTTCTCAAAAATTAC-ATTTTGCCCTC-A
*
15741238 AACTTC-CAAAAATCACATTTT
1 AACTTCTCAAAAATTACATTTT
15741259 TACCCTCTAA
Statistics
Matches: 97, Mismatches: 6, Indels: 13
0.84 0.05 0.11
Matches are distributed among these distances:
28 18 0.19
29 38 0.39
30 41 0.42
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.36
Consensus pattern (29 bp):
AACTTCTCAAAAATTACATTTTGCCCTCA
Found at i:15741575 original size:19 final size:20
Alignment explanation
Indices: 15741538--15741575 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
15741528 AACTTTATCG
*
15741538 TTTGCATAGCTCGTATTTAA
1 TTTGCATAGCTCATATTTAA
*
15741558 TTTGCAT-GCTCATTTTTA
1 TTTGCATAGCTCATATTTA
15741576 TCTCTATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTGCATAGCTCATATTTAA
Found at i:15741740 original size:98 final size:97
Alignment explanation
Indices: 15741629--15741817 Score: 299
Period size: 98 Copynumber: 1.9 Consensus size: 97
15741619 TTTAAAATCG
* *
15741629 AGGCAATATTTCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAAGCACGA-TTTTTT
1 AGGCAATATTTCTTTATCTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAAGCACGACTTTTCT
*
15741693 TTCCAAACCGGGATAATTGAATACCCTTATATCA
66 TT--AAACCGGGATAATCGAATACCCTTATATCA
* * *
15741727 AGGCAATGTTTCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCACGACTTTTCT
1 AGGCAATATTTCTTTATCTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAAGCACGACTTTTCT
15741792 TTAAACCGGGATAATCGAATACCCTT
66 TTAAACCGGGATAATCGAATACCCTT
15741818 TTGCAAGGTT
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
97 23 0.27
98 54 0.64
99 7 0.08
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (97 bp):
AGGCAATATTTCTTTATCTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAAGCACGACTTTTCT
TTAAACCGGGATAATCGAATACCCTTATATCA
Found at i:15743220 original size:21 final size:20
Alignment explanation
Indices: 15743191--15743243 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
15743181 TCAAAAATAA
*
15743191 TTATTTAATTAAAAAGTATTT
1 TTATATAATTAAAAA-TATTT
*
15743212 TTATATAATT-TAAATATTT
1 TTATATAATTAAAAATATTT
15743231 TTAAATATAATTA
1 TT--ATATAATTA
15743244 TTTTATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 7 0.26
20 3 0.11
21 17 0.63
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTATATAATTAAAAATATTT
Found at i:15744708 original size:26 final size:27
Alignment explanation
Indices: 15744664--15744714 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
15744654 TAGTTCGTCG
*
15744664 AAATAAAAAATGAATTGAATGTAGAACC
1 AAATAAAAAATGAAATGAATG-AGAACC
15744692 AAAT-AAAAA-GAAATGAATGAGAA
1 AAATAAAAAATGAAATGAATGAGAA
15744715 TGATGATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 9 0.41
27 5 0.23
28 4 0.18
ACGTcount: A:0.63, C:0.04, G:0.16, T:0.18
Consensus pattern (27 bp):
AAATAAAAAATGAAATGAATGAGAACC
Found at i:15748873 original size:5 final size:6
Alignment explanation
Indices: 15748855--15748880 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15748845 TATAATGCAT
15748855 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
15748881 ACTAGCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:15748963 original size:30 final size:29
Alignment explanation
Indices: 15748910--15748967 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
15748900 AAAAAGGTAC
*
15748910 ATGGCCATGTGCAAGGCTATGTGAGCCAA
1 ATGGCCATGTGCAAGGCCATGTGAGCCAA
* *
15748939 ATGGCCGTGTAGCCAGGCCATGTGAGCCA
1 ATGGCCATGT-GCAAGGCCATGTGAGCCA
15748968 CATTGCTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.19
Consensus pattern (29 bp):
ATGGCCATGTGCAAGGCCATGTGAGCCAA
Found at i:15757843 original size:20 final size:21
Alignment explanation
Indices: 15757814--15757861 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
15757804 TAATAAAATA
* *
15757814 ATATACAAATTTGTA-ACTAT
1 ATATAAAAATATGTACACTAT
*
15757834 ATATAAAAATATGTACACTAA
1 ATATAAAAATATGTACACTAT
15757855 AT-TAAAA
1 ATATAAAA
15757862 GTCACATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (21 bp):
ATATAAAAATATGTACACTAT
Found at i:15758459 original size:3 final size:3
Alignment explanation
Indices: 15758453--15758485 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15758443 ATTTAAGTTA
15758453 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15758486 GCAAACTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15758922 original size:71 final size:71
Alignment explanation
Indices: 15758759--15758956 Score: 281
Period size: 71 Copynumber: 2.8 Consensus size: 71
15758749 CCTGTATTGG
* *
15758759 CAATAATATCCATGCCAATCGAACTAAAACTCAATTAACAACTTATAATTATTTTTAAATGTTTC
1 CAATAATACCCATGCCAATCGAACTAAAACTCAATTAACAAATTATAATTA-TTTTAAATGTTTC
15758824 AATGTCA
65 AATGTCA
** * * * * * *
15758831 CAGCAATACCCACGCGAATCGAACTAAGACTCAATCACCAAGTTATAATTATTTTAAATGTTT-A
1 CAATAATACCCATGCCAATCGAACTAAAACTCAATTAACAAATTATAATTATTTTAAATGTTTCA
15758895 ATTGTCA
66 A-TGTCA
15758902 CAATAATACCCATGCCAATCGAACTAAAACTCAATTAACAAATTATAATTATTTT
1 CAATAATACCCATGCCAATCGAACTAAAACTCAATTAACAAATTATAATTATTTT
15758957 TTTAATAAAA
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
70 2 0.02
71 64 0.59
72 42 0.39
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (71 bp):
CAATAATACCCATGCCAATCGAACTAAAACTCAATTAACAAATTATAATTATTTTAAATGTTTCA
ATGTCA
Found at i:15763728 original size:16 final size:17
Alignment explanation
Indices: 15763700--15763734 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
15763690 TATTTATATA
15763700 TACAACAATAATATAGG
1 TACAACAATAATATAGG
15763717 TACAAC-ATAATATAGG
1 TACAACAATAATATAGG
15763733 TA
1 TA
15763735 AATATCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (17 bp):
TACAACAATAATATAGG
Found at i:15765073 original size:22 final size:22
Alignment explanation
Indices: 15765048--15765090 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
15765038 TGTGTGAGTG
15765048 TCTTGATCTCTCTTTGTTCGTT
1 TCTTGATCTCTCTTTGTTCGTT
15765070 TCTTGATCTCTCTTTGTTCGT
1 TCTTGATCTCTCTTTGTTCGT
15765091 GTCCTCCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.05, C:0.23, G:0.14, T:0.58
Consensus pattern (22 bp):
TCTTGATCTCTCTTTGTTCGTT
Found at i:15784797 original size:21 final size:19
Alignment explanation
Indices: 15784773--15784818 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 19
15784763 TTGGTATCAA
15784773 TAGATGCATGACTTGTATTGG
1 TAGAT-CAT-ACTTGTATTGG
15784794 TAGAAATCATACTTGTATTGG
1 TAG--ATCATACTTGTATTGG
15784815 TAGA
1 TAGA
15784819 GCTAGCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 1 0.04
21 17 0.74
22 3 0.13
23 2 0.09
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (19 bp):
TAGATCATACTTGTATTGG
Found at i:15814448 original size:17 final size:17
Alignment explanation
Indices: 15814426--15814459 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15814416 TATTAACATT
15814426 TTACTATACAGATCTGA
1 TTACTATACAGATCTGA
15814443 TTACTATACAGATCTGA
1 TTACTATACAGATCTGA
15814460 CATTATTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
TTACTATACAGATCTGA
Found at i:15817049 original size:41 final size:35
Alignment explanation
Indices: 15816939--15817039 Score: 168
Period size: 35 Copynumber: 2.9 Consensus size: 35
15816929 TTGAGGTAAG
*
15816939 TACTTAAATATTTCTATTTATTTAATTTAAATCAA
1 TACTTAAATATCTCTATTTATTTAATTTAAATCAA
15816974 TACTTAAATATCTCTATTTATTTAATTTAAATCAA
1 TACTTAAATATCTCTATTTATTTAATTTAAATCAA
15817009 TACTTAAATATCTCTATCTCTATTT-ATTTAA
1 TACTTAAATATCTCTAT-T-TATTTAATTTAA
15817040 TTTAAATCAA
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 51 0.81
36 7 0.11
37 5 0.08
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (35 bp):
TACTTAAATATCTCTATTTATTTAATTTAAATCAA
Found at i:15817603 original size:14 final size:14
Alignment explanation
Indices: 15817584--15817611 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15817574 TCATGCTGAT
15817584 GTCATAGTGATGTC
1 GTCATAGTGATGTC
15817598 GTCATAGTGATGTC
1 GTCATAGTGATGTC
15817612 ATAATCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (14 bp):
GTCATAGTGATGTC
Found at i:15817689 original size:3 final size:3
Alignment explanation
Indices: 15817681--15817719 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
15817671 TTTTCTGTCA
*
15817681 CTT CTT CTT CTT CTT CTT CTT CTT GTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
15817720 TCACACGTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:15818897 original size:14 final size:14
Alignment explanation
Indices: 15818880--15818921 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
15818870 TCTTTCCTTC
15818880 ATTTTATTTCATTT
1 ATTTTATTTCATTT
*
15818894 ATTTTATGATC-TTT
1 ATTTTAT-TTCATTT
*
15818908 ATTTTATTTTATTT
1 ATTTTATTTCATTT
15818922 TCGTACTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 1 0.04
14 20 0.87
15 2 0.09
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (14 bp):
ATTTTATTTCATTT
Found at i:15822565 original size:15 final size:16
Alignment explanation
Indices: 15822547--15822578 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
15822537 TTTTTCTTTA
15822547 TTTTATTTTTAT-CTT
1 TTTTATTTTTATGCTT
15822562 TTTTATTTTTATGCTT
1 TTTTATTTTTATGCTT
15822578 T
1 T
15822579 CAAAATACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTATGCTT
Found at i:15827301 original size:14 final size:16
Alignment explanation
Indices: 15827276--15827309 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
15827266 CTGCACGATG
15827276 CTTTTTCTTCCTCC-T
1 CTTTTTCTTCCTCCTT
15827291 CTTTTTC-TCCTCCTT
1 CTTTTTCTTCCTCCTT
15827306 CTTT
1 CTTT
15827310 CACTTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (16 bp):
CTTTTTCTTCCTCCTT
Found at i:15844351 original size:24 final size:24
Alignment explanation
Indices: 15844318--15844430 Score: 172
Period size: 24 Copynumber: 4.7 Consensus size: 24
15844308 TTATCTGATT
*
15844318 AGCTAACGAGCGTAAACGTACATC
1 AGCTGACGAGCGTAAACGTACATC
*
15844342 AGCTGGCGAGCGTAAACGTACATC
1 AGCTGACGAGCGTAAACGTACATC
* * *
15844366 AGCTGGCGAGCGTAAACGCACATT
1 AGCTGACGAGCGTAAACGTACATC
*
15844390 AGCTGACGAGCGTAAACGTACATT
1 AGCTGACGAGCGTAAACGTACATC
15844414 AGCTGACGAGCGTAAAC
1 AGCTGACGAGCGTAAAC
15844431 ATATTGAACT
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 83 1.00
ACGTcount: A:0.33, C:0.24, G:0.27, T:0.17
Consensus pattern (24 bp):
AGCTGACGAGCGTAAACGTACATC
Found at i:15846819 original size:17 final size:17
Alignment explanation
Indices: 15846779--15846854 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 17
15846769 CCGGGAGATA
*
15846779 TAAATTTAGTTTT-AAGT
1 TAAATTTA-TTTTAAATT
*
15846796 TAGATTTATTTTAAATT
1 TAAATTTATTTTAAATT
*** *
15846813 TAAATTTGCATAAAATT
1 TAAATTTATTTTAAATT
*
15846830 TAAATTTATTATAAATT
1 TAAATTTATTTTAAATT
15846847 TAAATTTA
1 TAAATTTA
15846855 AAATTAAATT
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
16 4 0.09
17 42 0.91
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (17 bp):
TAAATTTATTTTAAATT
Found at i:15846865 original size:5 final size:6
Alignment explanation
Indices: 15846805--15846864 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
15846795 TTAGATTTAT
** *
15846805 TTTAAA TTTAAA TTTGCA -TAAAA TTTAAA TTT--A TTATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
*
15846851 TTTAAA ATTAAA TT
1 TTTAAA TTTAAA TT
15846865 AGATAAGCTA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
4 3 0.07
5 3 0.07
6 33 0.79
7 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:15849028 original size:59 final size:59
Alignment explanation
Indices: 15848858--15849346 Score: 666
Period size: 59 Copynumber: 8.3 Consensus size: 59
15848848 AAACTATTCT
**
15848858 AAAATTA-CATTTTTACCCTTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCA-TTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
*
15848917 AAAATTACCATTTTACCCCCAAAC-TTCCAAAATCCCATTTTTAACCCCGATTTC-CTCA
1 AAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC-CA
*
15848975 AAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* ** * * **
15849034 AAAATTATCATTTTACCCTTGAACTTTCAAAAATCCTATTTTTAACCCTAATTTCACCA
1 AAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* *
15849093 AAAACTACCATTCTACCCTCAAA-TTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* * *
15849151 AAAACTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGGTTTCACCA
1 AAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* * * * * *
15849210 AGAATTACCATTTTACCCTCGAACTTTCTAAAACCCCATTTTTAGCACCGATTTCACCA
1 AAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* * * *
15849269 AAAATTACCATTTTATCCTCAAACTTTCCAAAATCTCATTTTTAACCTCGATTTTACC-
1 AAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
*
15849327 AAAATT-CTATTTTTACCCTC
1 AAAATTACCA-TTTTACCCTC
15849347 GAAAGTCAAA
Statistics
Matches: 382, Mismatches: 42, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
57 3 0.01
58 123 0.32
59 253 0.66
60 3 0.01
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (59 bp):
AAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
Found at i:15849065 original size:117 final size:118
Alignment explanation
Indices: 15848858--15849346 Score: 666
Period size: 117 Copynumber: 4.2 Consensus size: 118
15848848 AAACTATTCT
**
15848858 AAAATTA-CATTTTTACCCTTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAAT
1 AAAATTACCA-TTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAAT
*
15848922 TACCATTTTACCCCCAAAC-TTCCAAAATCCCATTTTTAACCCCGATTTC-CTCA
65 TACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC-CA
*
15848975 AAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
* ** * * **
15849040 ATCATTTTACCCTTGAACTTTCAAAAATCCTATTTTTAACCCTAATTTCACCA
66 ACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* * *
15849093 AAAACTACCATTCTACCCTCAAA-TTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAACT
1 AAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
* *
15849157 ACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGGTTTCACCA
66 ACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* * * * * *
15849210 AGAATTACCATTTTACCCTCGAACTTTCTAAAACCCCATTTTTAGCACCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
* * * *
15849275 ACCATTTTATCCTCAAACTTTCCAAAATCTCATTTTTAACCTCGATTTTACC-
66 ACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
*
15849327 AAAATT-CTATTTTTACCCTC
1 AAAATTACCA-TTTTACCCTC
15849347 GAAAGTCAAA
Statistics
Matches: 328, Mismatches: 39, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
116 2 0.01
117 193 0.59
118 132 0.40
119 1 0.00
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (118 bp):
AAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
ACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
Found at i:15849162 original size:176 final size:174
Alignment explanation
Indices: 15848858--15849330 Score: 687
Period size: 176 Copynumber: 2.7 Consensus size: 174
15848848 AAACTATTCT
*
15848858 AAAATTACATTTTTACCCTTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACA-TTTTACCCTTGAACTTTCAAAAATCCCATTTTTAA-CCCGATTTCACCAAAAATT
* * *
15848923 ACCATTTTACCCCCAAACTTCCAAAATCCCATTTTTAACCCCGATTTC-CTCAAAAATTACCATT
64 ACCATTTTACCCTCAAATTTCCAAAATCCCATTTTTAACCCCGATTTCAC-CAAAAACTACCATT
15848987 TTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
128 TTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* * *
15849034 AAAATTATCATTTTACCCTTGAACTTTCAAAAATCCTATTTTTAACCCTAATTTCACCAAAAACT
1 AAAATTA-CATTTTACCCTTGAACTTTCAAAAATCCCATTTTTAACCC-GATTTCACCAAAAATT
*
15849099 ACCATTCTACCCTCAAATTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAACTACCATTT
64 ACCATTTTACCCTCAAATTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAACTACCATTT
* * *
15849164 TACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGGTTTCACCA
129 TACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* * * * *
15849210 AGAATTACCATTTTACCCTCGAACTTTCTAAAACCCCATTTTTAGCACCGATTTCACCAAAAATT
1 AAAATTA-CATTTTACCCTTGAACTTTCAAAAATCCCATTTTTAAC-CCGATTTCACCAAAAATT
* * * *
15849275 ACCATTTTATCCTCAAACTTTCCAAAATCTCATTTTTAACCTCGATTTTACCAAAA
64 ACCATTTTACCCTCAAA-TTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
15849331 TTCTATTTTT
Statistics
Matches: 267, Mismatches: 25, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
175 3 0.01
176 224 0.84
177 40 0.15
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.33
Consensus pattern (174 bp):
AAAATTACATTTTACCCTTGAACTTTCAAAAATCCCATTTTTAACCCGATTTCACCAAAAATTAC
CATTTTACCCTCAAATTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAACTACCATTTTA
CCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
Found at i:15852738 original size:20 final size:20
Alignment explanation
Indices: 15852675--15852765 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
15852665 GCCTGGAGTT
* *
15852675 ATTTTGACTTGTTTGAAAAAC
1 ATTTTGACTTGGTT-AAAATC
** *
15852696 ATTTTGAAGT-GTTAAAATG
1 ATTTTGACTTGGTTAAAATC
* *
15852715 ATTTTGACTTGGTTCAAATT
1 ATTTTGACTTGGTTAAAATC
* *
15852735 ATTTTGATTTGTTTAAAATC
1 ATTTTGACTTGGTTAAAATC
*
15852755 ATTTTAACTTG
1 ATTTTGACTTG
15852766 ATTTTAAAAT
Statistics
Matches: 54, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
19 12 0.22
20 34 0.63
21 8 0.15
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (20 bp):
ATTTTGACTTGGTTAAAATC
Found at i:15857312 original size:2 final size:2
Alignment explanation
Indices: 15857305--15857353 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
15857295 ATTGTCTTGG
15857305 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15857347 TC TC TC T
1 TC TC TC T
15857354 TTGGTCCTGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:15858369 original size:22 final size:22
Alignment explanation
Indices: 15858307--15858370 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
15858297 TTAAACAGTA
*
15858307 ATTTATCTGATCTTTTCTACAT
1 ATTTATTTGATCTTTTCTACAT
**
15858329 A---ATTTGATCTTTTAAACAT
1 ATTTATTTGATCTTTTCTACAT
15858348 ATTTATTTGATCTTTTCTACAT
1 ATTTATTTGATCTTTTCTACAT
15858370 A
1 A
15858371 CTAAGTCACT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 16 0.47
22 18 0.53
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.53
Consensus pattern (22 bp):
ATTTATTTGATCTTTTCTACAT
Found at i:15862919 original size:60 final size:58
Alignment explanation
Indices: 15862848--15863013 Score: 208
Period size: 60 Copynumber: 2.8 Consensus size: 58
15862838 AATTTGATAT
* *
15862848 TTTTTTTTAATTTGGTATCTAAACTTTTTTTTGACCTAATTT-GTTCCTTGAACTTGGCAA
1 TTTTTTTTAATTTGGTA-CTAAACTTTTTTTTGACCCAATTTAG-TACTTGAACTTGGC-A
*
15862908 TTTTTTTTAATTTGGTACTTAAACTTTTTTTGGACCCAATTTAGTACTTGAACTTGGCA
1 TTTTTTTTAATTTGGTAC-TAAACTTTTTTTTGACCCAATTTAGTACTTGAACTTGGCA
* * **
15862967 TTTTTCTTAATTTGGTACCTAAGCTTTTTTTTAGATTCAATTTAGTA
1 TTTTTTTTAATTTGGTA-CTAAACTTTTTTTT-GACCCAATTTAGTA
15863014 TTTAAATTTA
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
59 29 0.31
60 64 0.68
61 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.12, T:0.52
Consensus pattern (58 bp):
TTTTTTTTAATTTGGTACTAAACTTTTTTTTGACCCAATTTAGTACTTGAACTTGGCA
Found at i:15863259 original size:32 final size:32
Alignment explanation
Indices: 15863222--15863302 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 32
15863212 GGATCCCAAA
* *
15863222 AAGTTTAAGA-ATCAATTTAAATAAAAAGTGTC
1 AAGTTTAAGATATCAAATT-AAGAAAAAGTGTC
15863254 AAGTTT-AGATATCAAATTAAGAAAAAGTGTC
1 AAGTTTAAGATATCAAATTAAGAAAAAGTGTC
*
15863285 AAGTTTAAG-TATTAAATT
1 AAGTTTAAGATATCAAATT
15863303 GGATCAAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
31 29 0.66
32 15 0.34
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (32 bp):
AAGTTTAAGATATCAAATTAAGAAAAAGTGTC
Found at i:15863694 original size:16 final size:16
Alignment explanation
Indices: 15863666--15863700 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15863656 CAAATTTTTC
15863666 TTTCATTTTTTTTCTT
1 TTTCATTTTTTTTCTT
15863682 TTTC-TTTTCTTTTCTT
1 TTTCATTTT-TTTTCTT
15863698 TTT
1 TTT
15863701 GCCATATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTCATTTTTTTTCTT
Found at i:15870340 original size:6 final size:6
Alignment explanation
Indices: 15870329--15870392 Score: 83
Period size: 6 Copynumber: 10.5 Consensus size: 6
15870319 TTTTCTGCTT
* * * *
15870329 TCCTTC TCCTTC TCCTTC CCCTTC CCCTTCC CCCTTC CCCTTC TCCTTC
1 TCCTTC TCCTTC TCCTTC TCCTTC TCCTT-C TCCTTC TCCTTC TCCTTC
15870378 TCCTTC TCCTTC TCC
1 TCCTTC TCCTTC TCC
15870393 AACCTTACGG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
6 49 0.89
7 6 0.11
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (6 bp):
TCCTTC
Found at i:15870364 original size:13 final size:13
Alignment explanation
Indices: 15870336--15870371 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
15870326 CTTTCCTTCT
*
15870336 CCTTCTCCTT-CC
1 CCTTCCCCTTCCC
15870348 CCTTCCCCTTCCC
1 CCTTCCCCTTCCC
15870361 CCTTCCCCTTC
1 CCTTCCCCTTC
15870372 TCCTTCTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (13 bp):
CCTTCCCCTTCCC
Found at i:15870370 original size:25 final size:25
Alignment explanation
Indices: 15870336--15870383 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15870326 CTTTCCTTCT
*
15870336 CCTTCTCCTTCCCCTTCCCCTTCCC
1 CCTTCCCCTTCCCCTTCCCCTTCCC
* *
15870361 CCTTCCCCTTCTCCTTCTCCTTC
1 CCTTCCCCTTCCCCTTCCCCTTC
15870384 TCCTTCTCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (25 bp):
CCTTCCCCTTCCCCTTCCCCTTCCC
Found at i:15870371 original size:31 final size:31
Alignment explanation
Indices: 15870330--15870389 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
15870320 TTTCTGCTTT
*
15870330 CCTTCTCCTTCTCCTTCCCCTTCCCCTTCCC
1 CCTTCCCCTTCTCCTTCCCCTTCCCCTTCCC
* *
15870361 CCTTCCCCTTCTCCTTCTCCTTCTCCTTC
1 CCTTCCCCTTCTCCTTCCCCTTCCCCTTC
15870390 TCCAACCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (31 bp):
CCTTCCCCTTCTCCTTCCCCTTCCCCTTCCC
Found at i:15871215 original size:10 final size:11
Alignment explanation
Indices: 15871185--15871226 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
15871175 TTATATTTAA
15871185 AAAATAATTTT
1 AAAATAATTTT
*
15871196 AAATTAATTTT
1 AAAATAATTTT
15871207 AAAAT-ATTTT
1 AAAATAATTTT
15871217 AAAAATAATT
1 -AAAATAATT
15871227 ATATTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 5 0.19
11 19 0.70
12 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:15871249 original size:16 final size:17
Alignment explanation
Indices: 15871210--15871248 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
15871200 TAATTTTAAA
15871210 ATATTTTAAAAATAATT
1 ATATTTTAAAAATAATT
15871227 ATATTTTAAAAAT-ATT
1 ATATTTTAAAAATAATT
15871243 A-ATTTT
1 ATATTTT
15871249 TGCTGACGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 5 0.23
16 4 0.18
17 13 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTTTAAAAATAATT
Found at i:15871607 original size:12 final size:12
Alignment explanation
Indices: 15871590--15871634 Score: 81
Period size: 12 Copynumber: 3.8 Consensus size: 12
15871580 CACGAACAAA
*
15871590 CTCGTTTATAGG
1 CTCGTTTATAAG
15871602 CTCGTTTATAAG
1 CTCGTTTATAAG
15871614 CTCGTTTATAAG
1 CTCGTTTATAAG
15871626 CTCGTTTAT
1 CTCGTTTAT
15871635 TGACTCGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.44
Consensus pattern (12 bp):
CTCGTTTATAAG
Found at i:15871641 original size:12 final size:12
Alignment explanation
Indices: 15871588--15871649 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
15871578 TTCACGAACA
15871588 AACTCGTTTA-T
1 AACTCGTTTATT
*
15871599 AGGCTCGTTTA-T
1 A-ACTCGTTTATT
15871611 AAGCTCGTTTA-T
1 AA-CTCGTTTATT
15871623 AAGCTCGTTTATT
1 AA-CTCGTTTATT
*
15871636 GACTCGTTTATT
1 AACTCGTTTATT
15871648 AA
1 AA
15871650 TTAATGATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
11 1 0.02
12 41 0.93
13 2 0.05
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
AACTCGTTTATT
Found at i:15871641 original size:24 final size:23
Alignment explanation
Indices: 15871588--15871646 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
15871578 TTCACGAACA
*
15871588 AACTCGTTTATAGGCTCGTTTAT
1 AACTCGTTTATAAGCTCGTTTAT
15871611 AAGCTCGTTTATAAGCTCGTTTATT
1 AA-CTCGTTTATAAGCTCGTTTA-T
*
15871636 GACTCGTTTAT
1 AACTCGTTTAT
15871647 TAATTAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 2 0.06
24 28 0.88
25 2 0.06
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (23 bp):
AACTCGTTTATAAGCTCGTTTAT
Found at i:15872055 original size:18 final size:17
Alignment explanation
Indices: 15872032--15872071 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
15872022 AAATATGACA
15872032 AAAAAGAAGGAAA-AAAGG
1 AAAAAGAA-GAAAGAAA-G
15872050 AAAAAGAAGAAAGAAAG
1 AAAAAGAAGAAAGAAAG
15872067 AAAAA
1 AAAAA
15872072 TTGCAGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAAAGAAGAAAGAAAG
Found at i:15872366 original size:11 final size:11
Alignment explanation
Indices: 15872350--15872381 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
15872340 TAACGGTATT
15872350 CAATAAACTTC
1 CAATAAACTTC
15872361 CAATAAACTTC
1 CAATAAACTTC
15872372 CAATAAACTT
1 CAATAAACTT
15872382 ACCCTTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (11 bp):
CAATAAACTTC
Found at i:15892516 original size:24 final size:24
Alignment explanation
Indices: 15892482--15892549 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
15892472 ATCTTTCAGT
* * *
15892482 TAAACTATGTTTATTTGTTTTAAT
1 TAAACTCTGTTTATTTGTTTCAAA
*
15892506 TAAGCTCTGTTTATTTGTTTCAAA
1 TAAACTCTGTTTATTTGTTTCAAA
*
15892530 TAAACTTTGTTTATTTGTTT
1 TAAACTCTGTTTATTTGTTT
15892550 GAGTCAAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.57
Consensus pattern (24 bp):
TAAACTCTGTTTATTTGTTTCAAA
Found at i:15894531 original size:24 final size:23
Alignment explanation
Indices: 15894472--15894543 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 23
15894462 AGAAATAATC
* *
15894472 TTTCAGTTAAACTTTGTTTATTTA
1 TTTCA-TTAAACTCTGTTTATTTG
15894496 TTT--TTAAACTCTGTTTATTTG
1 TTTCATTAAACTCTGTTTATTTG
*
15894517 TTTCAATTAAACTCTATTTATTTG
1 TTTC-ATTAAACTCTGTTTATTTG
15894541 TTT
1 TTT
15894544 GAGTCAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 19 0.45
24 23 0.55
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.60
Consensus pattern (23 bp):
TTTCATTAAACTCTGTTTATTTG
Found at i:15896122 original size:19 final size:18
Alignment explanation
Indices: 15896100--15896151 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
15896090 TTCAAACTTA
15896100 AATTTGAAATCTAAAATCT
1 AATTT-AAATCTAAAATCT
*
15896119 AATTAACAAT-TCAAAATCT
1 AATTTA-AATCT-AAAATCT
15896138 AATTTAAATCTAAA
1 AATTTAAATCTAAA
15896152 CTATAAATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 8 0.29
19 20 0.71
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.35
Consensus pattern (18 bp):
AATTTAAATCTAAAATCT
Found at i:15896145 original size:44 final size:43
Alignment explanation
Indices: 15896063--15896146 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 43
15896053 ATTGATTTAA
* * *
15896063 AAATCTAAATCTAATTCAAATATGAAATTCAAACTTAAATTTG
1 AAATCTAAATCTAATTAAAATATCAAAATCAAACTTAAATTTG
* *
15896106 AAATCTAAAATCTAATTAACAAT-TCAAAATCTAATTTAAAT
1 AAATCT-AAATCTAATTAA-AATATCAAAATCAAACTTAAAT
15896147 CTAAACTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
43 6 0.18
44 25 0.74
45 3 0.09
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (43 bp):
AAATCTAAATCTAATTAAAATATCAAAATCAAACTTAAATTTG
Found at i:15896587 original size:39 final size:39
Alignment explanation
Indices: 15896533--15896610 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
15896523 GTACCAAATA
*
15896533 CCAAAATGCATGACAAAATTACATTGATTTTCCTATTTC
1 CCAAAATGCATGACAAAATTACATTGAGTTTCCTATTTC
*
15896572 CCAAAATGCATGACAAAATTACATTGAGTTTCTTATTTC
1 CCAAAATGCATGACAAAATTACATTGAGTTTCCTATTTC
15896611 TCTCTTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (39 bp):
CCAAAATGCATGACAAAATTACATTGAGTTTCCTATTTC
Found at i:15900406 original size:26 final size:26
Alignment explanation
Indices: 15900377--15900440 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
15900367 TGTTGCTAGG
*
15900377 GATACTTGTACCAATTTACCTTGTGA
1 GATACTAGTACCAATTTACCTTGTGA
15900403 GATACTAGTACCAATTTACCTTGTGA
1 GATACTAGTACCAATTTACCTTGTGA
*
15900429 GAT-CTACTACCA
1 GATACTAGTACCA
15900441 TACTCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 8 0.22
26 28 0.78
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (26 bp):
GATACTAGTACCAATTTACCTTGTGA
Found at i:15905595 original size:37 final size:38
Alignment explanation
Indices: 15905554--15905649 Score: 115
Period size: 38 Copynumber: 2.6 Consensus size: 38
15905544 TCACCGTAAG
* *
15905554 AATATTTTTGAAATGCACCCAAG-ACTATCACTGCATA
1 AATATTCTTCAAATGCACCCAAGAACTATCACTGCATA
* *
15905591 AATATTCTTCAAAGTGCATCC-AGAACTATCGCTGCATA
1 AATATTCTTCAAA-TGCACCCAAGAACTATCACTGCATA
* *
15905629 AGTATTCTTCAATTGCACCCA
1 AATATTCTTCAAATGCACCCA
15905650 GGCTGCATGA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
37 19 0.39
38 30 0.61
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.30
Consensus pattern (38 bp):
AATATTCTTCAAATGCACCCAAGAACTATCACTGCATA
Found at i:15906493 original size:16 final size:16
Alignment explanation
Indices: 15906472--15906502 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15906462 TTGTGGATCC
15906472 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
15906488 CATTTTATCTTTATT
1 CATTTTACCTTTATT
15906503 TTCACATTAT
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:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:15907674 original size:20 final size:20
Alignment explanation
Indices: 15907649--15907689 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
15907639 GAAAGATTAA
15907649 GTAGATATCATACTTGATGT
1 GTAGATATCATACTTGATGT
15907669 GTAGATATCATACTTGATGT
1 GTAGATATCATACTTGATGT
15907689 G
1 G
15907690 AAATTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (20 bp):
GTAGATATCATACTTGATGT
Found at i:15923192 original size:26 final size:26
Alignment explanation
Indices: 15923148--15923215 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
15923138 ATTTTGGATG
*
15923148 CAATTCTGGACGTGCTCATGCAGTGA
1 CAATTCTGGACATGCTCATGCAGTGA
* * *
15923174 CAATTCTTGACATGTTCATGCAGTGG
1 CAATTCTGGACATGCTCATGCAGTGA
*
15923200 CAATTCTGGACTTGCT
1 CAATTCTGGACATGCT
15923216 TATACAACGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (26 bp):
CAATTCTGGACATGCTCATGCAGTGA
Found at i:15925828 original size:27 final size:26
Alignment explanation
Indices: 15925798--15925850 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
15925788 ATTAAAACCC
15925798 AAATTATTAATGAAAT-ATTTTATATTT
1 AAATTATTAA--AAATAATTTTATATTT
*
15925825 AAATTATTAAATATAATTTTATATTT
1 AAATTATTAAAAATAATTTTATATTT
15925851 TATTATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 3 0.12
26 11 0.46
27 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
AAATTATTAAAAATAATTTTATATTT
Found at i:15939450 original size:37 final size:38
Alignment explanation
Indices: 15939390--15939475 Score: 106
Period size: 37 Copynumber: 2.3 Consensus size: 38
15939380 GGACATGTTC
*
15939390 ATGCAGCGACATTCCTGGGTGCAA-TTGAAGAATACTT
1 ATGCAGCGACATTCCTGGATGCAATTTGAAGAATACTT
*
15939427 ATGCAGCGATAGTT-CTGGATGCAATTTGAAGAATA-TT
1 ATGCAGCGACA-TTCCTGGATGCAATTTGAAGAATACTT
*
15939464 AATGCGGCGACA
1 -ATGCAGCGACA
15939476 GTCTTGAGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
37 21 0.50
38 21 0.50
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (38 bp):
ATGCAGCGACATTCCTGGATGCAATTTGAAGAATACTT
Found at i:15942126 original size:16 final size:17
Alignment explanation
Indices: 15942094--15942126 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15942084 ACAAAGATTC
*
15942094 TTGTGGTCACAAATTTA
1 TTGTGCTCACAAATTTA
15942111 TTGTGCTCAC-AATTTA
1 TTGTGCTCACAAATTTA
15942127 GCCAAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (17 bp):
TTGTGCTCACAAATTTA
Found at i:15945365 original size:23 final size:24
Alignment explanation
Indices: 15945322--15945366 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
15945312 TTTCCTAAGT
15945322 GGAGAGAAAAGGAAGGTGAGAGAA
1 GGAGAGAAAAGGAAGGTGAGAGAA
15945346 GGAGA-AATAAGG-AGGTGAGAG
1 GGAGAGAA-AAGGAAGGTGAGAG
15945367 GGAATGGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.47, T:0.07
Consensus pattern (24 bp):
GGAGAGAAAAGGAAGGTGAGAGAA
Found at i:15948119 original size:14 final size:13
Alignment explanation
Indices: 15948103--15948127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15948093 TTTGCTATGT
15948103 TTTTTTGTTCTTG
1 TTTTTTGTTCTTG
15948116 TTTTTTGTTCTT
1 TTTTTTGTTCTT
15948128 TGATCAGGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.12, T:0.80
Consensus pattern (13 bp):
TTTTTTGTTCTTG
Found at i:15952529 original size:23 final size:22
Alignment explanation
Indices: 15952503--15952546 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
15952493 AAAATATTTC
*
15952503 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAAATTGGGTT-AATTA
*
15952526 ATTAATTAAATTGGGTTAATT
1 ATTAAATAAATTGGGTTAATT
15952547 TTATTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (22 bp):
ATTAAATAAATTGGGTTAATTA
Found at i:15954746 original size:38 final size:37
Alignment explanation
Indices: 15954664--15954753 Score: 90
Period size: 38 Copynumber: 2.4 Consensus size: 37
15954654 TCTGGGCATG
* * * ** *
15954664 CTCATGCAGTGATAATTTTGGGCGCAATTCTGGATAT
1 CTCATGCAGTGACAATTCTAGGCGCAATTCTAAATAA
*
15954701 CAACATGCAGTGACAATTCTAGGCGCAATTCTAAATAGA
1 C-TCATGCAGTGACAATTCTAGGCGCAATTCTAAATA-A
*
15954740 CTCATGCAGCGACA
1 CTCATGCAGTGACA
15954754 TTAGTAGTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
37 1 0.02
38 40 0.95
39 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (37 bp):
CTCATGCAGTGACAATTCTAGGCGCAATTCTAAATAA
Found at i:15957220 original size:24 final size:24
Alignment explanation
Indices: 15957180--15957226 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15957170 ATTCATCTTT
**
15957180 TATTAATTTGCTTTGAC-ATTTTG
1 TATTAATTTGCACTGACAATTTTG
15957203 TATTACATTTGCACTGACAATTTT
1 TATTA-ATTTGCACTGACAATTTT
15957227 TACTCTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.51
Consensus pattern (24 bp):
TATTAATTTGCACTGACAATTTTG
Found at i:16005623 original size:17 final size:17
Alignment explanation
Indices: 16005603--16005637 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16005593 ACTTAGCTAA
* *
16005603 GTGATAGTATTAGAAAT
1 GTGATAGCATTACAAAT
16005620 GTGATAGCATTACAAAT
1 GTGATAGCATTACAAAT
16005637 G
1 G
16005638 ACATATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (17 bp):
GTGATAGCATTACAAAT
Found at i:16021773 original size:18 final size:17
Alignment explanation
Indices: 16021748--16021781 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16021738 TATTCTTTTT
16021748 CTAACTTTTATTGATTA
1 CTAACTTTTATTGATTA
*
16021765 CTAATCTTTTGTTGATT
1 CTAA-CTTTTATTGATT
16021782 TTCTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTAACTTTTATTGATTA
Found at i:16023095 original size:18 final size:18
Alignment explanation
Indices: 16023072--16023118 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
16023062 TGCGTAGCCT
16023072 AACCAGATGC-GATCATAG
1 AACCAGATGCAG-TCATAG
*
16023090 AACCAGATGCAGTCATAT
1 AACCAGATGCAGTCATAG
*
16023108 AATCAGATGCA
1 AACCAGATGCA
16023119 ACCACGTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (18 bp):
AACCAGATGCAGTCATAG
Found at i:16027443 original size:24 final size:24
Alignment explanation
Indices: 16027414--16027461 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
16027404 TGTCATTGCA
*
16027414 ATTTTTCTATTAATTT-TTGTCTTTT
1 ATTTTACT-TTAATTTGTT-TCTTTT
16027439 ATTTTACTTTAATTTGTTTCTTT
1 ATTTTACTTTAATTTGTTTCTTT
16027462 AGTTTTTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.17, C:0.08, G:0.04, T:0.71
Consensus pattern (24 bp):
ATTTTACTTTAATTTGTTTCTTTT
Found at i:16029207 original size:27 final size:27
Alignment explanation
Indices: 16029169--16029220 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
16029159 GGTATTGAAC
16029169 AAAAGAAGAGAAAAGAA-AAGAAGAAGG
1 AAAAGAAGAG-AAAGAACAAGAAGAAGG
*
16029196 AAAAGAAGAGAAGGAACAAGAAGAA
1 AAAAGAAGAGAAAGAACAAGAAGAA
16029221 TACGTTGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (27 bp):
AAAAGAAGAGAAAGAACAAGAAGAAGG
Found at i:16029649 original size:17 final size:17
Alignment explanation
Indices: 16029627--16029664 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
16029617 TTTTCTCTAG
*
16029627 TTGTCATTACATTTTAA
1 TTGTCAATACATTTTAA
*
16029644 TTGTCAATGCATTTTAA
1 TTGTCAATACATTTTAA
16029661 TTGT
1 TTGT
16029665 TCTCACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.53
Consensus pattern (17 bp):
TTGTCAATACATTTTAA
Found at i:16036195 original size:17 final size:17
Alignment explanation
Indices: 16036143--16036203 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
16036133 CATTAATTTA
*
16036143 CAATGACACATGGAAATG
1 CAATGACA-ATGAAAATG
*
16036161 CAATGACAATGAACATG
1 CAATGACAATGAAAATG
* *
16036178 CAGTGACAATTAAAATG
1 CAATGACAATGAAAATG
*
16036195 CAAAGACAA
1 CAATGACAA
16036204 AAGGAATGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
17 28 0.78
18 8 0.22
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.16
Consensus pattern (17 bp):
CAATGACAATGAAAATG
Found at i:16036274 original size:12 final size:13
Alignment explanation
Indices: 16036248--16036280 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16036238 GATATGCATG
16036248 AAAACTAAAACTA
1 AAAACTAAAACTA
*
16036261 AAAACTGAAA-TA
1 AAAACTAAAACTA
16036273 AAAACTAA
1 AAAACTAA
16036281 CTCAATTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.70, C:0.12, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAACTAAAACTA
Found at i:16042279 original size:18 final size:18
Alignment explanation
Indices: 16042258--16042295 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16042248 AGGTTGCCTT
16042258 GACATAG-CTAGTTGTGTC
1 GACATAGAC-AGTTGTGTC
*
16042276 GACATCGACAGTTGTGTC
1 GACATAGACAGTTGTGTC
16042294 GA
1 GA
16042296 TAATTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (18 bp):
GACATAGACAGTTGTGTC
Found at i:16062112 original size:21 final size:20
Alignment explanation
Indices: 16062077--16062116 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
16062067 TACAACATAA
*
16062077 TAACAAAACAAATAAAATAG
1 TAACAAAAAAAATAAAATAG
16062097 TAACATAAAAAAATAAAATA
1 TAACA-AAAAAAATAAAATA
16062117 AAATAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.17
Consensus pattern (20 bp):
TAACAAAAAAAATAAAATAG
Found at i:16062426 original size:19 final size:19
Alignment explanation
Indices: 16062404--16062463 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
16062394 CGTAAATGAC
*
16062404 AAAAAAATAAATAAATAAT
1 AAAATAATAAATAAATAAT
*
16062423 AAAATAATAAAATGAAT-AT
1 AAAATAAT-AAATAAATAAT
16062442 AAAATAATAGAATAAA-AAT
1 AAAATAATA-AATAAATAAT
16062461 AAA
1 AAA
16062464 TACAAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 1 0.03
19 27 0.77
20 7 0.20
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (19 bp):
AAAATAATAAATAAATAAT
Found at i:16062465 original size:15 final size:16
Alignment explanation
Indices: 16062407--16062465 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 16
16062397 AAATGACAAA
16062407 AAAATAAATA-AATAAT
1 AAAATAAATAGAAT-AT
*
16062423 AAAATAATAAAATGAATAT
1 AAAAT-A-AATA-GAATAT
16062442 AAAAT-AATAGAATA-
1 AAAATAAATAGAATAT
16062456 AAAATAAATA
1 AAAATAAATA
16062466 CAAAAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
14 5 0.14
15 9 0.25
16 8 0.22
17 1 0.03
18 3 0.08
19 7 0.19
20 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAATAAATAGAATAT
Found at i:16062478 original size:8 final size:8
Alignment explanation
Indices: 16062404--16062479 Score: 53
Period size: 8 Copynumber: 8.9 Consensus size: 8
16062394 CGTAAATGAC
16062404 AAAAAAAT
1 AAAAAAAT
*
16062412 AAATAAAT
1 AAAAAAAT
*
16062420 AATAAAAT
1 AAAAAAAT
*
16062428 AATAAAAT
1 AAAAAAAT
16062436 GAATATAAAAT
1 -AA-A-AAAAT
* *
16062447 AATAGAAT
1 AAAAAAAT
16062455 AAAAATAAAT
1 -AAAA-AAAT
*
16062465 ACAAAAAT
1 AAAAAAAT
16062473 AAAAAAA
1 AAAAAAA
16062480 GGGTAGACAA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
8 35 0.66
9 8 0.15
10 5 0.09
11 5 0.09
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (8 bp):
AAAAAAAT
Found at i:16064417 original size:50 final size:50
Alignment explanation
Indices: 16064342--16064810 Score: 178
Period size: 50 Copynumber: 9.3 Consensus size: 50
16064332 ATCTTGCCCT
* * *
16064342 ACTGCATA-TTCAAAGAGATAAGATTTGCTTTTGTAGCTTCAATCTGACCC
1 ACTGCA-ACTTCAAGGAAATAAGATTTGCTTCTGTAGCTTCAATCTGACCC
* * * *
16064392 ACAGCAACTTCAGAGG-TATAAGATTTGGTTCTGTAGCTT-TATCTTG-CTCC
1 ACTGCAACTTCA-AGGAAATAAGATTTGCTTCTGTAGCTTCAATC-TGAC-CC
* * *
16064442 ATTGTAACTTTAAGGAAATAAAGATTTGCTTCTGTAGCTTCAATCTGACCC
1 ACTGCAACTTCAAGGAAAT-AAGATTTGCTTCTGTAGCTTCAATCTGACCC
* * * **
16064493 ACTGCAACTTC-TGGAATATAGGATTTGACATTTTGTAGTCTT--ATCTTG-CTTT
1 ACTGCAACTTCAAGGAA-ATAAGATTTG-C-TTCTGTAG-CTTCAATC-TGAC-CC
* * ** * ** * * ** *
16064545 ACTGCAACTTCAAAGAGATAAAGATTTGCCACCGTAATTTTAGTCCAATCC
1 ACTGCAACTTCAAGGAAAT-AAGATTTGCTTCTGTAGCTTCAATCTGACCC
* * * ** * * * *
16064596 ATTGCTACTTCAAGGATATTGGACTTGATGTC-ATAACTTC-ATCTTG-CTCC
1 ACTGCAACTTCAAGGAAATAAGATTTGCT-TCTGTAGCTTCAATC-TGAC-CC
** * * * * * *
16064646 ACTAAAACTTTAGGGAGATAAAGATTTGCTTTTGTAGC-TCTATCCGACCC
1 ACTGCAACTTCAAGGAAAT-AAGATTTGCTTCTGTAGCTTCAATCTGACCC
* ** * *
16064696 ACTACAACTTCAAGGGTATAAGATTTGGTAT-TGTAG-TCTC-ATCTTACTCC
1 ACTGCAACTTCAAGGAAATAAGATTTGCT-TCTGTAGCT-TCAATCTGAC-CC
* *
16064746 ACTGTAACTAT-AGGGAAATAAAGATTTGCTTCTGTAGCTTCAATCTGACCC
1 ACTGCAACT-TCAAGGAAAT-AAGATTTGCTTCTGTAGCTTCAATCTGACCC
16064797 ACTGCAACTTCAAG
1 ACTGCAACTTCAAG
16064811 AGTATAGGAT
Statistics
Matches: 297, Mismatches: 86, Indels: 71
0.65 0.19 0.16
Matches are distributed among these distances:
49 29 0.10
50 119 0.40
51 101 0.34
52 36 0.12
53 12 0.04
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (50 bp):
ACTGCAACTTCAAGGAAATAAGATTTGCTTCTGTAGCTTCAATCTGACCC
Found at i:16064746 original size:100 final size:100
Alignment explanation
Indices: 16064356--16065120 Score: 418
Period size: 100 Copynumber: 7.6 Consensus size: 100
16064346 CATATTCAAA
* *
16064356 GAGAT-AAGATTTGCTTTTGTAGCTTCAATCTGACCCAC-AGCAACTTC-AGAGGTATAAGATTT
1 GAGATAAAGATTTGCTTTTGTAGC-TCTATCCGACCCACTA-CAACTTCAAG-GGTATAAGATTT
* * ** *
16064418 GGT-TCTGTAG-CTTTATCTTGCTCCATTGTAACTTTAAG
63 GGTAT-TGTAGTC-TCATCTTGCTCCACTACAACTTTAGG
* * * * * * * *
16064456 GAAATAAAGATTTGCTTCTGTAGCTTCAATCTGACCCACTGCAACTTC-TGGAATATAGGATTTG
1 GAGATAAAGATTTGCTTTTGTAGC-TCTATCCGACCCACTACAACTTCAAGG-GTATAAGATTTG
* * * ** * * **
16064520 ACATTTTGTAGTCTTATCTTGCTTTACTGCAACTTCAAA
64 --GTATTGTAGTCTCATCTTGCTCCACTACAACTTTAGG
**** ** * * * * * * * ** * *
16064559 GAGATAAAGATTTGCCACCGTAATTTTAGTCCAATCCATTGCTACTTCAAGGATATTGGACTTGA
1 GAGATAAAGATTTGCTTTTGTAGCTCTA-TCCGACCCACTACAACTTCAAGGGTATAAGATTTGG
* ** * *
16064624 TGTCATA-ACTTCATCTTGCTCCACTAAAACTTTAGG
65 TATTGTAGTC-TCATCTTGCTCCACTACAACTTTAGG
16064660 GAGATAAAGATTTGCTTTTGTAGCTCTATCCGACCCACTACAACTTCAAGGGTATAAGATTTGGT
1 GAGATAAAGATTTGCTTTTGTAGCTCTATCCGACCCACTACAACTTCAAGGGTATAAGATTTGGT
* ** *
16064725 ATTGTAGTCTCATCTTACTCCACTGTAACTATAGG
66 ATTGTAGTCTCATCTTGCTCCACTACAACTTTAGG
* * * * * * *
16064760 GAAATAAAGATTTGCTTCTGTAGCTTCAATCTGACCCACTGCAACTTCAAGAGTATAGGATTTGA
1 GAGATAAAGATTTGCTTTTGTAGC-TCTATCCGACCCACTACAACTTCAAGGGTATAAGATTTG-
* * * * * *
16064825 CGTTTTGTAGTCTCATATTGTTCTACTACAACTTCAGA
64 -GTATTGTAGTCTCATCTTGCTCCACTACAACTTTAGG
* * ** * * * * *
16064863 GAGATAAAGATTTGAC-ATCGTAATTTTCAGTCCAATCCACTCCAACTT-TAGGGATATAAGATT
1 GAGATAAAGATTTG-CTTTTGTAGCTCT-A-TCCGACCCACTACAACTTCAAGGG-TATAAGATT
* * ** * * * * *
16064926 TGATGTCATA-ACTTTATCTTGCTTCATTATAACTTTAGG
62 TGGTATTGTAGTC-TCATCTTGCTCCACTACAACTTTAGG
* *
16064965 GAGATAAAGATTTGCTTTTGTAGCTCTATCCGACCCACTGCAACTTCAAGGGTATAAGATTTCGT
1 GAGATAAAGATTTGCTTTTGTAGCTCTATCCGACCCACTACAACTTCAAGGGTATAAGATTTGGT
* * * * *
16065030 ATTGTAGTCTCATCTTGCTCTATTGCAACTTCAGA
66 ATTGTAGTCTCATCTTGCTCCACTACAACTTTAGG
*** * * * *
16065065 GAGATAAAGATTTGCTAACGTAGTTTTAATCCGATCC-CTACAACTTCAAGGATATA
1 GAGATAAAGATTTGCTTTTGTAGCTCT-ATCCGACCCACTACAACTTCAAGGGTATA
16065121 GGACTTGATG
Statistics
Matches: 500, Mismatches: 142, Indels: 46
0.73 0.21 0.07
Matches are distributed among these distances:
100 167 0.33
101 145 0.29
102 44 0.09
103 115 0.23
104 29 0.06
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (100 bp):
GAGATAAAGATTTGCTTTTGTAGCTCTATCCGACCCACTACAACTTCAAGGGTATAAGATTTGGT
ATTGTAGTCTCATCTTGCTCCACTACAACTTTAGG
Done.