Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 76 of 125
Found at i:15367999 original size:18 final size:17
Alignment explanation
Indices: 15367978--15368055 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 17
15367968 ATTTCCCAAT
15367978 AATTAAAAAAATCTGAAA
1 AATTAAAAAAAT-TGAAA
15367996 AATTAAAAAAA-T-AAA
1 AATTAAAAAAATTGAAA
*
15368011 AATTGTAAAAAATATG-AA
1 AATT-AAAAAAAT-TGAAA
*
15368029 AATTAAAAAATTTTGAAA
1 AATTAAAAAA-ATTGAAA
*
15368047 AAATAAAAA
1 AATTAAAAA
15368056 TTAAAAGAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
15 7 0.14
16 7 0.14
17 7 0.14
18 29 0.58
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.24
Consensus pattern (17 bp):
AATTAAAAAAATTGAAA
Found at i:15368055 original size:25 final size:25
Alignment explanation
Indices: 15367978--15368061 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
15367968 ATTTCCCAAT
* * *
15367978 AATTAAAAAAATCTGAAAAATTAAA
1 AATTAAAAAATTTTGAAAAAATAAA
* ** * *
15368003 AA-AATAAAAATTGTAAAAAATATGAA
1 AATTA-AAAAATT-TTGAAAAAATAAA
15368029 AATTAAAAAATTTTGAAAAAATAAA
1 AATTAAAAAATTTTGAAAAAATAAA
15368054 AATTAAAA
1 AATTAAAA
15368062 GAATCTAAAA
Statistics
Matches: 43, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.58
26 16 0.37
27 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (25 bp):
AATTAAAAAATTTTGAAAAAATAAA
Found at i:15368071 original size:51 final size:50
Alignment explanation
Indices: 15367978--15368077 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 50
15367968 ATTTCCCAAT
* * *
15367978 AATTAAAAAAATCTGAAAAATTAAAAAAATAAAAATTGTAAAAAATATGAA
1 AATTAAAAAAATCTGAAAAAATAAAAAAATAAAAAATCTAAAAAA-ATGAA
* * *
15368029 AATTAAAAAATTTTGAAAAAAT-AAAAATTAAAAGAATCTAAAAAAATGA
1 AATTAAAAAAATCTGAAAAAATAAAAAAATAAAA-AATCTAAAAAAATGA
15368078 GAAAACCCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
50 14 0.33
51 28 0.67
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (50 bp):
AATTAAAAAAATCTGAAAAAATAAAAAAATAAAAAATCTAAAAAAATGAA
Found at i:15368949 original size:16 final size:15
Alignment explanation
Indices: 15368928--15368961 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
15368918 TTTCAAGATA
*
15368928 TGAGAATGATGTATAT
1 TGAGAACGATGTAT-T
15368944 TGAGAACGATGTATT
1 TGAGAACGATGTATT
15368959 TGA
1 TGA
15368962 TAGTATTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (15 bp):
TGAGAACGATGTATT
Found at i:15370024 original size:139 final size:139
Alignment explanation
Indices: 15369774--15370051 Score: 407
Period size: 139 Copynumber: 2.0 Consensus size: 139
15369764 AGAATCTTAA
* ** **
15369774 GGACAATTAAATTTTATATGAAATGGTAAATAATCAAAAATATTATTAGAAAATGTTTAATTAGT
1 GGACAATTAAATTTTATATGAAAAGACAAATAATCAAAAATATTATTAGAAAATGTTTAATTAAC
** * *
15369839 AGATTTTTAGATTTTAGGAGAAAATTTTTTTTAAGAAAAGTGATATTTAAAAGGACATATGATTC
66 AGATTTTTAGATTTTAGGAGAAAAAATATTTTAAGAAAAGTGATATTTAAAAGGACATATAATTC
15369904 ACAAAATCT
131 ACAAAATCT
15369913 GGACAATTAAATTTTATATGAAAAAGACAAATAATC-AAAATATTATTA-AAGAATGTTTAATTA
1 GGACAATTAAATTTTATATG-AAAAGACAAATAATCAAAAATATTATTAGAA-AATGTTTAATTA
** *
15369976 ACAGATTTTTAGATTTTAGGAGAAAAAATATTTTGGGAAAAGTGATATTTAAAAGGACATTTAAT
64 ACAGATTTTTAGATTTTAGGAGAAAAAATATTTTAAGAAAAGTGATATTTAAAAGGACATATAAT
*
15370041 TCGCAAAATCT
129 TCACAAAATCT
15370052 AGGATTCCCT
Statistics
Matches: 124, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
138 2 0.02
139 110 0.89
140 12 0.10
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.36
Consensus pattern (139 bp):
GGACAATTAAATTTTATATGAAAAGACAAATAATCAAAAATATTATTAGAAAATGTTTAATTAAC
AGATTTTTAGATTTTAGGAGAAAAAATATTTTAAGAAAAGTGATATTTAAAAGGACATATAATTC
ACAAAATCT
Found at i:15372477 original size:14 final size:14
Alignment explanation
Indices: 15372458--15372487 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15372448 ATGTGAATTT
15372458 AGAGAATCAAAATA
1 AGAGAATCAAAATA
*
15372472 AGAGAATGAAAATA
1 AGAGAATCAAAATA
15372486 AG
1 AG
15372488 TACAAAGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.20, T:0.13
Consensus pattern (14 bp):
AGAGAATCAAAATA
Found at i:15373886 original size:14 final size:15
Alignment explanation
Indices: 15373856--15373888 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15373846 TAAATCTCAT
*
15373856 AAAATAATATATTTA
1 AAAATAATATATATA
15373871 AAAATAATA-ATATA
1 AAAATAATATATATA
15373885 AAAA
1 AAAA
15373889 CTAAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATAATATATATA
Found at i:15382552 original size:30 final size:30
Alignment explanation
Indices: 15382516--15382573 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
15382506 CATGCATGTA
*
15382516 ATGCAAATGTGATCATTTGTGAAAGAATGC
1 ATGCAAATGTGATCATTTGCGAAAGAATGC
*
15382546 ATGCAAATGTGATCATTTGCGAATGAAT
1 ATGCAAATGTGATCATTTGCGAAAGAAT
15382574 ATGCCAACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (30 bp):
ATGCAAATGTGATCATTTGCGAAAGAATGC
Found at i:15387755 original size:10 final size:10
Alignment explanation
Indices: 15387740--15387788 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
15387730 TGTTGTTTTA
15387740 TAATAATAAT
1 TAATAATAAT
*
15387750 TAATAATAAA
1 TAATAATAAT
15387760 TAATAATAA-
1 TAATAATAAT
*
15387769 TAATAACAAAT
1 TAATAA-TAAT
*
15387780 TGATAATAA
1 TAATAATAA
15387789 CAACAATAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 6 0.18
10 22 0.67
11 5 0.15
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
TAATAATAAT
Found at i:15387788 original size:3 final size:3
Alignment explanation
Indices: 15387739--15387774 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
15387729 TTGTTGTTTT
15387739 ATA ATA ATA ATTA ATA ATAA ATA ATA ATA ATA ATA A
1 ATA ATA ATA A-TA ATA AT-A ATA ATA ATA ATA ATA A
15387775 CAAATTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 25 0.81
4 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15388223 original size:29 final size:29
Alignment explanation
Indices: 15388156--15388281 Score: 125
Period size: 29 Copynumber: 4.4 Consensus size: 29
15388146 AAAAAAAAAA
15388156 AAACCCTAAAATCAAAAC-CTTAAACCT-C
1 AAACCCTAAAATCAAAACTC-TAAACCTCC
15388184 AAACCCTAAAA-CAAAACTCTAAACCCTCC
1 AAACCCTAAAATCAAAACTCTAAA-CCTCC
* * * *
15388213 AAACCCTAAAATCAAAATTCCAAAGCTCA
1 AAACCCTAAAATCAAAACTCTAAACCTCC
** * *
15388242 AAACCC-AAAATTGAAACCCTAAACCCTCT
1 AAACCCTAAAATCAAAACTCTAAA-CCTCC
15388271 AAACCCTAAAA
1 AAACCCTAAAA
15388282 CTAAAACCCA
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
27 10 0.12
28 27 0.33
29 30 0.37
30 14 0.17
ACGTcount: A:0.50, C:0.33, G:0.02, T:0.16
Consensus pattern (29 bp):
AAACCCTAAAATCAAAACTCTAAACCTCC
Found at i:15389907 original size:2 final size:2
Alignment explanation
Indices: 15389900--15389945 Score: 51
Period size: 2 Copynumber: 23.5 Consensus size: 2
15389890 ATTTAGTATT
* *
15389900 TA TA TA TA TA TA TA TA TC TA T- TA TA TA T- TGA TA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
15389941 TA TA T
1 TA TA T
15389946 GCAAAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
1 2 0.05
2 34 0.92
3 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:15390532 original size:76 final size:76
Alignment explanation
Indices: 15390440--15390592 Score: 252
Period size: 76 Copynumber: 2.0 Consensus size: 76
15390430 AAACTATGCT
* * * *
15390440 GTGAAAGGTTTGAGGATAGTTATTTCGATGTTGGTGTTGACTAGTGATTGATATGGACAAAGTTT
1 GTGAAAGGTTTGAGGATAATTATCTCGATGTTGATGTTGACTAGTGATTGATATGGAAAAAGTTT
*
15390505 TATATTGGTTA
66 CATATTGGTTA
15390516 GTGAAAGGTTTGAGGATAATTATCTCGATGTTGATGTTGACTAGTGATTGATATGGAAAAAGTTT
1 GTGAAAGGTTTGAGGATAATTATCTCGATGTTGATGTTGACTAGTGATTGATATGGAAAAAGTTT
*
15390581 CGTATTGGTTA
66 CATATTGGTTA
15390592 G
1 G
15390593 AACTTTTTTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.27, C:0.05, G:0.29, T:0.39
Consensus pattern (76 bp):
GTGAAAGGTTTGAGGATAATTATCTCGATGTTGATGTTGACTAGTGATTGATATGGAAAAAGTTT
CATATTGGTTA
Found at i:15391391 original size:92 final size:92
Alignment explanation
Indices: 15391228--15391395 Score: 221
Period size: 92 Copynumber: 1.8 Consensus size: 92
15391218 GAAAAGTGAA
*
15391228 AAAAATTCATCCAAGTTCATGCTTAACCTTAACATAACCAGGTCAATTGACACTAAACATAACAT
1 AAAAATTCATCCAAGTTCATGCTTAACCTTAACACAACCAGGTCAATTGACACTAAACATAACAT
15391293 TCTACTCAATAGATCTTGGTAGAAAAG
66 TCTACTCAATAGATCTTGGTAGAAAAG
* * * * ** * * *
15391320 AAAAATTCATCCATGTTCATGCTTATCCTTAGCACAGCCGAGGTTGATTGATACTTAACATGAC-
1 AAAAATTCATCCAAGTTCATGCTTAACCTTAACACAACC-AGGTCAATTGACACTAAACATAACA
*
15391384 TTTTACTCAATA
65 TTCTACTCAATA
15391396 AATTGACACA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
92 45 0.70
93 19 0.30
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (92 bp):
AAAAATTCATCCAAGTTCATGCTTAACCTTAACACAACCAGGTCAATTGACACTAAACATAACAT
TCTACTCAATAGATCTTGGTAGAAAAG
Found at i:15392657 original size:17 final size:17
Alignment explanation
Indices: 15392635--15392691 Score: 105
Period size: 17 Copynumber: 3.4 Consensus size: 17
15392625 ATACTTTCAA
15392635 CTTTTTTTCAAAAAAAC
1 CTTTTTTTCAAAAAAAC
15392652 CTTTTTTTCAAAAAAAC
1 CTTTTTTTCAAAAAAAC
*
15392669 CTTTTTCTCAAAAAAAC
1 CTTTTTTTCAAAAAAAC
15392686 CTTTTT
1 CTTTTT
15392692 CTTTGAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (17 bp):
CTTTTTTTCAAAAAAAC
Found at i:15392764 original size:58 final size:58
Alignment explanation
Indices: 15392696--15392906 Score: 325
Period size: 58 Copynumber: 3.6 Consensus size: 58
15392686 CTTTTTCTTT
* * *
15392696 GAAAACTTATTTTTAAGAAAAATTGATATTTTCAATTTTTCCTCGAAAATATTTTTTA
1 GAAAACTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTA
* * *
15392754 GAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTA
1 GAAAACTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTA
15392812 GAAAAACTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTA
1 G-AAAACTTATTTTCAAGAAAAATTGATACTTTCAA-TTTTTCCTCAAAAATATTTTTTA
* *
15392871 GAAAGCTTATTTTCAAGGAAAATTGATACTTTCAAT
1 GAAAACTTATTTTCAAGAAAAATTGATACTTTCAAT
15392907 ATATTTTTTT
Statistics
Matches: 140, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
57 1 0.01
58 85 0.61
59 48 0.34
60 6 0.04
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (58 bp):
GAAAACTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTA
Found at i:15392936 original size:5 final size:5
Alignment explanation
Indices: 15392928--15392980 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
15392918 AATTTTATTT
* *
15392928 AAATA AAATA ATA-A AAATAA AAATA AAGATAA AAATA GAATA AAATA
1 AAATA AAATA AAATA AAAT-A AAATA AA-AT-A AAATA AAATA AAATA
15392975 AAATA A
1 AAATA A
15392981 GAAATACTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 3 0.08
5 25 0.62
6 9 0.22
7 3 0.08
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:15392948 original size:6 final size:6
Alignment explanation
Indices: 15392937--15392986 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
15392927 TAAATAAAAT
* *
15392937 AATAAA AATAAA AATAAA GATAAA AAT-AG AAT-AA AAT-AA AATAAGA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAA-A
15392983 AATA
1 AATA
15392987 CTAAATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
5 13 0.34
6 20 0.53
7 5 0.13
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:15393879 original size:17 final size:16
Alignment explanation
Indices: 15393853--15393900 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
15393843 TAATTGAAAG
15393853 AAAATAATTAGATAAATA
1 AAAAT-ATTA-ATAAATA
*
15393871 AAAATATTAATAGATA
1 AAAATATTAATAAATA
*
15393887 AATAATAATAATAA
1 AA-AATATTAATAA
15393901 TAATAGATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 8 0.31
17 13 0.50
18 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
AAAATATTAATAAATA
Found at i:15393886 original size:20 final size:20
Alignment explanation
Indices: 15393861--15393975 Score: 67
Period size: 20 Copynumber: 5.8 Consensus size: 20
15393851 AGAAAATAAT
15393861 TAGATAAATAAAAATATTAA
1 TAGATAAATAAAAATATTAA
* *
15393881 TAGATAAATAATAATAATAA
1 TAGATAAATAAAAATATTAA
* *
15393901 TA-ATAGATAAGTAATA--AA
1 TAGATAAATAA-AAATATTAA
* * * * * *
15393919 AAAACATATATATATATTAA
1 TAGATAAATAAAAATATTAA
* *
15393939 TAGAT-AATAACATATGTTAA
1 TAGATAAATAA-AAATATTAA
*
15393959 TAGATAAATAAATATAT
1 TAGATAAATAAAAATAT
15393976 ATGTATATTA
Statistics
Matches: 73, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
18 6 0.08
19 15 0.21
20 47 0.64
21 5 0.07
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (20 bp):
TAGATAAATAAAAATATTAA
Found at i:15393899 original size:23 final size:23
Alignment explanation
Indices: 15393867--15393920 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
15393857 TAATTAGATA
*
15393867 AATAAAAATATTAATAGATAAAT
1 AATAAAAATAATAATAGATAAAT
* *
15393890 AATAATAATAATAATAGATAAGT
1 AATAAAAATAATAATAGATAAAT
15393913 AATAAAAA
1 AATAAAAA
15393921 AACATATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (23 bp):
AATAAAAATAATAATAGATAAAT
Found at i:15393947 original size:48 final size:47
Alignment explanation
Indices: 15393889--15393989 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 47
15393879 AATAGATAAA
15393889 TAATAATAATAATAATA-GATAAGTA-ATAAAAAAACATATATATATAT
1 TAATAATAATAA-AATATGATAA-TAGATAAAAAAACATATATATATAT
* * * * *
15393936 TAATAGATAATAACATATGTTAATAGATAAATAAATATATATGTATAT
1 TAATA-ATAATAAAATATGATAATAGATAAAAAAACATATATATATAT
15393984 TAATAA
1 TAATAA
15393990 ATATATATGT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
47 11 0.24
48 35 0.76
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (47 bp):
TAATAATAATAAAATATGATAATAGATAAAAAAACATATATATATAT
Found at i:15393977 original size:24 final size:22
Alignment explanation
Indices: 15393892--15394039 Score: 76
Period size: 24 Copynumber: 6.6 Consensus size: 22
15393882 AGATAAATAA
* *
15393892 TAATAAT-AATAATAGATA-AG
1 TAATAATAAATAATATATATAT
*
15393912 TAATAA-AAA-AACATATATAT
1 TAATAATAAATAATATATATAT
* * * *
15393932 ATATTAATAGATAATAACATATGT
1 -TAATAATAAATAAT-ATATATAT
15393956 TAATAGATAAATAA-ATATATAT
1 TAATA-ATAAATAATATATATAT
*
15393978 GTATATTAATAAATATATATGTATAT
1 -TA-A-TAATAAATA-ATATATATAT
15394004 TAATAAT-AATAATAGTA-ATAAT
1 TAATAATAAATAATA-TATAT-AT
*
15394026 AAATAATTAAATAA
1 TAATAA-TAAATAA
15394040 AAATTAAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
19 6 0.06
20 9 0.09
21 10 0.10
22 20 0.21
23 13 0.13
24 27 0.28
25 5 0.05
26 7 0.07
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.36
Consensus pattern (22 bp):
TAATAATAAATAATATATATAT
Found at i:15393988 original size:20 final size:20
Alignment explanation
Indices: 15393965--15394009 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
15393955 TTAATAGATA
15393965 AATAAATATATATGTATATT
1 AATAAATATATATGTATATT
15393985 AATAAATATATATGTATATT
1 AATAAATATATATGTATATT
15394005 AATAA
1 AATAA
15394010 TAATAATAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (20 bp):
AATAAATATATATGTATATT
Found at i:15394007 original size:48 final size:47
Alignment explanation
Indices: 15393912--15394012 Score: 114
Period size: 48 Copynumber: 2.1 Consensus size: 47
15393902 AATAGATAAG
* *
15393912 TAATAAAAAAACATATATATATATTAATAGATAATAACATATGTTAA
1 TAATAAAAAAACATATATATATATTAATAAATAATAACATATATTAA
* * * **
15393959 TAGATAAATAAATATATATGTATATTAATAAAT-ATATATGTATATTAA
1 TA-ATAAAAAAACATATATATATATTAATAAATAATA-ACATATATTAA
15394007 TAATAA
1 TAATAA
15394013 TAATAGTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
47 9 0.20
48 36 0.80
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (47 bp):
TAATAAAAAAACATATATATATATTAATAAATAATAACATATATTAA
Found at i:15394052 original size:13 final size:13
Alignment explanation
Indices: 15394034--15394075 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
15394024 ATAAATAATT
15394034 AAATAAAAATTAA
1 AAATAAAAATTAA
*
15394047 AAATAAAAA-TGA
1 AAATAAAAATTAA
* *
15394059 CAATAAAAATAAA
1 AAATAAAAATTAA
15394072 AAAT
1 AAAT
15394076 GGACTTACTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (13 bp):
AAATAAAAATTAA
Found at i:15394075 original size:7 final size:6
Alignment explanation
Indices: 15394020--15394073 Score: 54
Period size: 6 Copynumber: 8.3 Consensus size: 6
15394010 TAATAATAGT
* *
15394020 AATAATA AATAATTA AATAAA AATTAAA AATAAA AATGAC AATAAA AATAAA
1 AATAA-A AATAA--A AATAAA AA-TAAA AATAAA AATAAA AATAAA AATAAA
15394072 AA
1 AA
15394074 ATGGACTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
6 23 0.56
7 11 0.27
8 7 0.17
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (6 bp):
AATAAA
Found at i:15394317 original size:45 final size:45
Alignment explanation
Indices: 15394253--15394354 Score: 168
Period size: 45 Copynumber: 2.3 Consensus size: 45
15394243 AAATTCTGAT
* *
15394253 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAACATAAA
1 CAAAGCTCCTCTAAGCAGAGACTCAACAACTTTGAAAAACATAAA
* *
15394298 CAAAGCTCCTCTAATCAGAGACTCTACAACTTTGAAAAACATAAA
1 CAAAGCTCCTCTAAGCAGAGACTCAACAACTTTGAAAAACATAAA
15394343 CAAAGCTCCTCT
1 CAAAGCTCCTCT
15394355 GCTCCTCTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (45 bp):
CAAAGCTCCTCTAAGCAGAGACTCAACAACTTTGAAAAACATAAA
Found at i:15394568 original size:42 final size:42
Alignment explanation
Indices: 15394354--15394648 Score: 245
Period size: 42 Copynumber: 7.0 Consensus size: 42
15394344 AAAGCTCCTC
* * * * *
15394354 TGCTCCTCTAATCAGAGGCTCAACAACTTTTG-AAAATAAAT
1 TGCTCCTCTAAACAGAGGCACCACGACTATTGAAAAATAAAT
* * *** *
15394395 TGCTCCTCTAAACAAAGGCATCGTAACT-TTGAAAAATAAACAA
1 TGCTCCTCTAAACAGAGGCACCACGACTATTGAAAAAT-AA-AT
* * * * * * *
15394438 AGCTCCTCTAAATAGAGGCTCAACGACTTATAGAACAATGAAT
1 TGCTCCTCTAAACAGAGGCACCACGAC-TATTGAAAAATAAAT
* * * * * *
15394481 TGCTCTTCTAAACGGAGCGAACCATGATTGTTGAAAAATAAAT
1 TGCTCCTCTAAACAGAG-GCACCACGACTATTGAAAAATAAAT
* *
15394524 TGCTCCTCTAAACAGAGGCACCACGACCATTGAAAAATGAAT
1 TGCTCCTCTAAACAGAGGCACCACGACTATTGAAAAATAAAT
* *
15394566 TGCTCCTCTAAATAGAGGCACCACGACTGTTGAAAAATAAAT
1 TGCTCCTCTAAACAGAGGCACCACGACTATTGAAAAATAAAT
* * * *
15394608 AGCTCTTCTAAACAGAGGCATCACAACT-TTGAAAAATAAAT
1 TGCTCCTCTAAACAGAGGCACCACGACTATTGAAAAATAAAT
15394649 GACCCTTGAC
Statistics
Matches: 197, Mismatches: 51, Indels: 12
0.76 0.20 0.05
Matches are distributed among these distances:
40 3 0.02
41 39 0.20
42 82 0.42
43 59 0.30
44 7 0.04
45 7 0.04
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (42 bp):
TGCTCCTCTAAACAGAGGCACCACGACTATTGAAAAATAAAT
Found at i:15395648 original size:16 final size:16
Alignment explanation
Indices: 15395629--15395698 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 16
15395619 TTTTCATTCA
15395629 CTTTTTTT-TTTCTTTT
1 CTTTTTTTCTTT-TTTT
15395645 CTTTTTTTCTTTTTTT
1 CTTTTTTTCTTTTTTT
* *
15395661 C-ATTTTTCATTTTTT
1 CTTTTTTTCTTTTTTT
* ** *
15395676 CATTTCAT-TTTTTCT
1 CTTTTTTTCTTTTTTT
15395691 CTTTTTTT
1 CTTTTTTT
15395699 TAAGCATTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
15 23 0.55
16 16 0.38
17 3 0.07
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (16 bp):
CTTTTTTTCTTTTTTT
Found at i:15395649 original size:13 final size:13
Alignment explanation
Indices: 15395630--15395699 Score: 56
Period size: 13 Copynumber: 5.3 Consensus size: 13
15395620 TTTCATTCAC
15395630 TTTTTT-TTTTCT
1 TTTTTTCTTTTCT
15395642 TTTCTTT-TTTTCT
1 TTT-TTTCTTTTCT
*
15395655 TTTTTTCATTTTTCA
1 TTTTTTC--TTTTCT
* *
15395670 TTTTTTCATTTCA
1 TTTTTTCTTTTCT
15395683 TTTTTTCTCTTT-T
1 TTTTTTCT-TTTCT
15395696 TTTT
1 TTTT
15395700 AAGCATTGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
12 6 0.12
13 28 0.57
14 3 0.06
15 12 0.24
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTCTTTTCT
Found at i:15395652 original size:8 final size:8
Alignment explanation
Indices: 15395629--15395698 Score: 56
Period size: 8 Copynumber: 9.0 Consensus size: 8
15395619 TTTTCATTCA
15395629 CTTTTTTT
1 CTTTTTTT
15395637 -TTTCTTTT
1 CTTT-TTTT
15395645 CTTTTTTT
1 CTTTTTTT
15395653 CTTTTTTT
1 CTTTTTTT
*
15395661 C-ATTTTT
1 CTTTTTTT
*
15395668 CATTTTTT
1 CTTTTTTT
* **
15395676 CATTTCAT
1 CTTTTTTT
*
15395684 -TTTTTCT
1 CTTTTTTT
15395691 CTTTTTTT
1 CTTTTTTT
15395699 TAAGCATTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
7 13 0.26
8 34 0.68
9 3 0.06
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (8 bp):
CTTTTTTT
Found at i:15395668 original size:15 final size:15
Alignment explanation
Indices: 15395635--15395680 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
15395625 TTCACTTTTT
*
15395635 TTTTTCTTTTCTT--
1 TTTTTCTTTTTTTCA
15395648 TTTTTCTTTTTTTCA
1 TTTTTCTTTTTTTCA
*
15395663 TTTTTCATTTTTTCA
1 TTTTTCTTTTTTTCA
15395678 TTT
1 TTT
15395681 CATTTTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 12 0.41
15 17 0.59
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTCTTTTTTTCA
Found at i:15406241 original size:15 final size:16
Alignment explanation
Indices: 15406214--15406251 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15406204 CTTTTCCTCT
*
15406214 AAAA-TATTTTTTAGA
1 AAAATTATTTTTAAGA
*
15406229 AAAATTATTTTTAAGG
1 AAAATTATTTTTAAGA
15406245 AAAATTA
1 AAAATTA
15406252 ATACTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (16 bp):
AAAATTATTTTTAAGA
Found at i:15406252 original size:58 final size:58
Alignment explanation
Indices: 15406120--15406430 Score: 393
Period size: 58 Copynumber: 5.4 Consensus size: 58
15406110 TGCTTTTGTA
* * *
15406120 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACATTTTTCTTTGAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTC--AAAAATA-TTTT-TTAGAAAACTTATTTT
* * * *
15406182 TAAGGAAAATTAATACTTTCAACTTTTCCTCTAAAATATTTTTTAGAAAAATTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* * * *
15406240 TAAGGAAAATTAATAC--T----TTTTCCTCAAAAATAATTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
*
15406292 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG-AAAACTTATTTT
* *
15406351 CAAAGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTAGAAAACTTATTTT
15406409 CAAGGAAAATTGATACTTTCAA
1 CAAGGAAAATTGATACTTTCAA
15406431 TATTTTTTTT
Statistics
Matches: 221, Mismatches: 20, Indels: 20
0.85 0.08 0.08
Matches are distributed among these distances:
52 44 0.20
54 1 0.00
56 1 0.00
58 85 0.38
59 57 0.26
60 5 0.02
62 28 0.13
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.41
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
Found at i:15406372 original size:169 final size:171
Alignment explanation
Indices: 15406120--15406427 Score: 480
Period size: 169 Copynumber: 1.8 Consensus size: 171
15406110 TGCTTTTGTA
* *
15406120 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACATTTTTCTTTGAAAACTTATTTTTAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAAAACATTTTTCTTAGAAAACTTATTTTCAA
* *
15406185 GGAAAATTAATACTTTCAACTTTTCCTCT-AAAATATTTTTTAGAAAAATTATTTTTAAGGAAAA
65 AGAAAATTAATACTTTCAACTTTTCC-CTAAAAATATTTTTTAGAAAAATTATTTTCAAGGAAAA
15406249 TTAATACTTTTTCCTCAAAAATAATTTTTAGAAAGCTTATTTT
129 TTAATACTTTTTCCTCAAAAATAATTTTTAGAAAGCTTATTTT
*
15406292 CAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAAATA-TTTT-TTAGAAAAACTTATTTTCAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAACATTTTTCTTAG-AAAACTTATTTTCAA
* **
15406354 AGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTAGAAAGCTTATTTTCAAGGAAAAT
65 AGAAAATTAATACTTTCAACTTTTCCCTAAAAATATTTTTTAGAAAAATTATTTTCAAGGAAAAT
*
15406419 TGATACTTT
130 TAATACTTT
15406428 CAATATTTTT
Statistics
Matches: 125, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
168 5 0.04
169 83 0.66
170 6 0.05
172 31 0.25
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.41
Consensus pattern (171 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAACATTTTTCTTAGAAAACTTATTTTCAAA
GAAAATTAATACTTTCAACTTTTCCCTAAAAATATTTTTTAGAAAAATTATTTTCAAGGAAAATT
AATACTTTTTCCTCAAAAATAATTTTTAGAAAGCTTATTTT
Found at i:15406467 original size:6 final size:6
Alignment explanation
Indices: 15406458--15406527 Score: 85
Period size: 6 Copynumber: 12.2 Consensus size: 6
15406448 ATTTAAATAA
*
15406458 AAAAAT AAAAAT -AAAAT AAAAAT AAAAAT AAAAAT AAAGAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
15406505 -AGAAT -AAAAT -AAAAT AAGAAAT A
1 AAAAAT AAAAAT AAAAAT AA-AAAT A
15406528 CTAAATAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
5 18 0.32
6 34 0.60
7 5 0.09
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:15406477 original size:23 final size:22
Alignment explanation
Indices: 15406451--15406521 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 22
15406441 TAATTTTATT
15406451 TAAATAAAAAAATAAAAATAAAA
1 TAAA-AAAAAAATAAAAATAAAA
15406474 TAAAAATAAAAATAAAAATAAAGA
1 TAAAAA-AAAAATAAAAATAAA-A
* *
15406498 TAAAAATAGAAT-AAAATAAAA
1 TAAAAAAAAAATAAAAATAAAA
15406519 TAA
1 TAA
15406522 GAAATACTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.09
22 10 0.23
23 23 0.52
24 7 0.16
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (22 bp):
TAAAAAAAAAATAAAAATAAAA
Found at i:15406583 original size:10 final size:10
Alignment explanation
Indices: 15406453--15406576 Score: 51
Period size: 9 Copynumber: 13.5 Consensus size: 10
15406443 ATTTTATTTA
15406453 AATAA-AAA-
1 AATAATAAAT
15406461 AATAA-AAAT
1 AATAATAAAT
15406470 AA-AATAAA-
1 AATAATAAAT
15406478 AATAA-AAAT
1 AATAATAAAT
*
15406487 AAAAATAAA-
1 AATAATAAAT
*
15406496 GATAA-AAAT
1 AATAATAAAT
*
15406505 -AGAATAAAAT
1 AATAAT-AAAT
15406515 AA-AATAAGA-
1 AATAATAA-AT
*
15406524 AATACTAAAT
1 AATAATAAAT
**
15406534 AATTCT-AAT
1 AATAATAAAT
* *
15406543 -CTAATCAAT
1 AATAATAAAT
15406552 GAATAAT-AAT
1 -AATAATAAAT
15406562 AATAATAAAT
1 AATAATAAAT
15406572 AATAA
1 AATAA
15406577 ATAATAAATG
Statistics
Matches: 90, Mismatches: 10, Indels: 30
0.69 0.08 0.23
Matches are distributed among these distances:
8 23 0.26
9 31 0.34
10 31 0.34
11 5 0.06
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (10 bp):
AATAATAAAT
Found at i:15406583 original size:23 final size:23
Alignment explanation
Indices: 15406453--15406583 Score: 77
Period size: 23 Copynumber: 6.0 Consensus size: 23
15406443 ATTTTATTTA
15406453 AATAA-AAA-AATAAA-AATAA-
1 AATAATAAATAATAAATAATAAT
*
15406472 AATAA-AAATAA-AAATAAAAAT
1 AATAATAAATAATAAATAATAAT
15406493 AA-AGATAAA-AATAGAATAA-AAT
1 AATA-ATAAATAATA-AATAATAAT
* * **
15406515 AAAATAAGAAATACTAAATAATTCT
1 --AATAATAAATAATAAATAATAAT
* *
15406540 AAT-CT-AATCAATGAATAATAAT
1 AATAATAAAT-AATAAATAATAAT
15406562 AATAATAAATAATAAATAATAA
1 AATAATAAATAATAAATAATAA
15406584 ATGAAAAAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
19 11 0.13
20 7 0.08
21 8 0.10
22 19 0.23
23 20 0.24
24 14 0.17
25 5 0.06
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (23 bp):
AATAATAAATAATAAATAATAAT
Found at i:15407418 original size:20 final size:20
Alignment explanation
Indices: 15407354--15407472 Score: 71
Period size: 22 Copynumber: 5.3 Consensus size: 20
15407344 AAATAAAATA
15407354 AAATAAATATATATTAATAGAT
1 AAATAAA-A-ATATTAATAGAT
* *
15407376 AATTGAAAGAA-AATAATTAGAT
1 AAAT-AAA-AATATTAA-TAGAT
15407398 AAATAAAAATATTAATAGAT
1 AAATAAAAATATTAATAGAT
15407418 AAATAATAAAATATATATATTA-AT
1 AAAT-A-AAAATAT-TA-A-TAGAT
*
15407442 AGATAATAATATATGTTAATAGAT
1 AAATAA-AA-ATA--TTAATAGAT
15407466 AAATAAA
1 AAATAAA
15407473 TTTATATGTA
Statistics
Matches: 77, Mismatches: 7, Indels: 25
0.71 0.06 0.23
Matches are distributed among these distances:
20 11 0.14
21 12 0.16
22 20 0.26
23 12 0.16
24 17 0.22
25 4 0.05
26 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
AAATAAAAATATTAATAGAT
Found at i:15407423 original size:24 final size:23
Alignment explanation
Indices: 15407399--15407471 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
15407389 TAATTAGATA
15407399 AATAAAAATATTAATAGATAAAT
1 AATAAAAATATTAATAGATAAAT
* *
15407422 AATAAAATATATATATTA-ATAGAT
1 AATAAAA-ATAT-TAATAGATAAAT
* *
15407446 AATAATATATGTTAATAGATAAAT
1 AATAA-AAATATTAATAGATAAAT
15407470 AA
1 AA
15407472 ATTTATATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
23 11 0.28
24 24 0.60
25 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (23 bp):
AATAAAAATATTAATAGATAAAT
Found at i:15407429 original size:28 final size:27
Alignment explanation
Indices: 15407398--15407452 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
15407388 ATAATTAGAT
15407398 AAATAAAAATATTAATAGATAAATAATA
1 AAATAAAAATATTAATAGAT-AATAATA
* *
15407426 AAATATATATATTAATAGATAATAATA
1 AAATAAAAATATTAATAGATAATAATA
15407453 TATGTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (27 bp):
AAATAAAAATATTAATAGATAATAATA
Found at i:15407478 original size:24 final size:23
Alignment explanation
Indices: 15407393--15407495 Score: 67
Period size: 24 Copynumber: 4.5 Consensus size: 23
15407383 AGAAAATAAT
*
15407393 TAGATAAATAAA--A-ATATTAA
1 TAGATAAATAAATTATATGTTAA
*
15407413 TAGATAAATAATAAAATATATATATTAA
1 TAGAT--A-AAT-AAAT-TATATGTTAA
15407441 TAGAT-AAT-AA-TATATGTTAA
1 TAGATAAATAAATTATATGTTAA
*
15407461 TAGATAAATAAATTTATATGTATAT
1 TAGATAAATAAA-TTATATGT-TAA
15407486 TA-ATAAATAA
1 TAGATAAATAA
15407496 TAACAGTAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 22
0.74 0.02 0.24
Matches are distributed among these distances:
20 19 0.28
21 3 0.04
22 5 0.07
23 3 0.04
24 21 0.31
25 4 0.06
27 1 0.01
28 12 0.18
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (23 bp):
TAGATAAATAAATTATATGTTAA
Found at i:15407507 original size:16 final size:14
Alignment explanation
Indices: 15407486--15407553 Score: 56
Period size: 13 Copynumber: 5.0 Consensus size: 14
15407476 ATATGTATAT
15407486 TAATAAATAATAACA
1 TAATAAATAATAA-A
*
15407501 GTAAT-AATAAATAAT
1 -TAATAAAT-AATAAA
15407516 TAA-AAATAATAAA
1 TAATAAATAATAAA
15407529 TAATAAA-AAT-AA
1 TAATAAATAATAAA
*
15407541 CAATAAA-AATAAA
1 TAATAAATAATAAA
15407554 AACTGAACTT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
12 11 0.24
13 13 0.29
14 9 0.20
15 3 0.07
16 9 0.20
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.25
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:15407522 original size:10 final size:9
Alignment explanation
Indices: 15407490--15407555 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
15407480 GTATATTAAT
15407490 AAATAATAA
1 AAATAATAA
* *
15407499 CAGTAATAA
1 AAATAATAA
15407508 TAAATAATTAA
1 -AAATAA-TAA
15407519 AAATAAT--
1 AAATAATAA
15407526 AAATAATAA
1 AAATAATAA
*
15407535 AAATAACAA
1 AAATAATAA
15407544 TAAA-AATAA
1 -AAATAATAA
15407553 AAA
1 AAA
15407556 CTGAACTTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
7 7 0.15
8 3 0.07
9 20 0.43
10 13 0.28
11 3 0.07
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.23
Consensus pattern (9 bp):
AAATAATAA
Found at i:15407525 original size:17 final size:16
Alignment explanation
Indices: 15407486--15407540 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 16
15407476 ATATGTATAT
15407486 TAATAAATAATAACAGTAA
1 TAATAAATAATAA-A--AA
15407505 TAATAAATAATTAAAAA
1 TAATAAATAA-TAAAAA
15407522 TAATAAATAATAAAAA
1 TAATAAATAATAAAAA
15407538 TAA
1 TAA
15407541 CAATAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.26
17 12 0.34
19 11 0.31
20 3 0.09
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (16 bp):
TAATAAATAATAAAAA
Found at i:15407526 original size:36 final size:34
Alignment explanation
Indices: 15407486--15407555 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 34
15407476 ATATGTATAT
* * *
15407486 TAATAAATAATAACAGTAATAATAAATAATTAAAAA
1 TAATAAATAATAAAAATAACAATAAA-AA-TAAAAA
15407522 TAATAAATAATAAAAATAACAATAAAAATAAAAA
1 TAATAAATAATAAAAATAACAATAAAAATAAAAA
15407556 CTGAACTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 6 0.19
35 2 0.06
36 23 0.74
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.24
Consensus pattern (34 bp):
TAATAAATAATAAAAATAACAATAAAAATAAAAA
Found at i:15409158 original size:18 final size:17
Alignment explanation
Indices: 15409135--15409169 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15409125 ATTCAATTTG
15409135 AAATATTATTATATTAAT
1 AAATATTATTAT-TTAAT
*
15409153 AAATATTTTTATTTAAT
1 AAATATTATTATTTAAT
15409170 TTTAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATATTATTATTTAAT
Found at i:15409553 original size:21 final size:21
Alignment explanation
Indices: 15409516--15409566 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
15409506 TAGCAGATAG
15409516 TTTTAATAAAAAAATATAAATA
1 TTTTAAT-AAAAAATATAAATA
* * *
15409538 TTTTAATAAGAAATATTACTA
1 TTTTAATAAAAAATATAAATA
15409559 TTTTAATA
1 TTTTAATA
15409567 TTAATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TTTTAATAAAAAATATAAATA
Found at i:15411355 original size:11 final size:10
Alignment explanation
Indices: 15411339--15411421 Score: 60
Period size: 11 Copynumber: 7.6 Consensus size: 10
15411329 ACATTTCATT
15411339 TTAAAACATCA
1 TTAAAACAT-A
*
15411350 TTAAAATA-A
1 TTAAAACATA
15411359 TATAAATATCATA
1 T-TAAA-A-CATA
15411372 TTAAAACATTA
1 TTAAAACA-TA
*
15411383 TTAAAATAATA
1 TTAAAA-CATA
*
15411394 TAAAAATCATA
1 TTAAAA-CATA
15411405 TTAAAACATTA
1 TTAAAACA-TA
15411416 TTAAAA
1 TTAAAA
15411422 TAATATTAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
9 2 0.03
10 8 0.14
11 41 0.69
12 6 0.10
13 2 0.03
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (10 bp):
TTAAAACATA
Found at i:15411376 original size:33 final size:33
Alignment explanation
Indices: 15411334--15411475 Score: 171
Period size: 33 Copynumber: 4.3 Consensus size: 33
15411324 ACTCGACATT
* *
15411334 TCATTTTAAAACATCATTAAAATAATATAAATA
1 TCATATTAAAACATCATTAAAATAATATAAAAA
*
15411367 TCATATTAAAACATTATTAAAATAATATAAAAA
1 TCATATTAAAACATCATTAAAATAATATAAAAA
* * *
15411400 TCATATTAAAACATTATTAAAATAATATTAAGA
1 TCATATTAAAACATCATTAAAATAATATAAAAA
* * *
15411433 -CAATATTTAAATATCATTAACATAATATAAAAA
1 TC-ATATTAAAACATCATTAAAATAATATAAAAA
15411466 T-ATTATTAAA
1 TCA-TATTAAA
15411476 TTTAGATTTA
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
32 2 0.02
33 92 0.98
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.36
Consensus pattern (33 bp):
TCATATTAAAACATCATTAAAATAATATAAAAA
Found at i:15411428 original size:11 final size:11
Alignment explanation
Indices: 15411349--15411475 Score: 105
Period size: 11 Copynumber: 11.5 Consensus size: 11
15411339 TTAAAACATC
15411349 ATTAAAATAAT
1 ATTAAAATAAT
*
15411360 A-TAAATATCAT
1 ATTAAA-ATAAT
* *
15411371 ATTAAAACATT
1 ATTAAAATAAT
15411382 ATTAAAATAAT
1 ATTAAAATAAT
* *
15411393 ATAAAAATCAT
1 ATTAAAATAAT
* *
15411404 ATTAAAACATT
1 ATTAAAATAAT
15411415 ATTAAAATAAT
1 ATTAAAATAAT
* *
15411426 ATTAAGACAAT
1 ATTAAAATAAT
*
15411437 ATTTAAAT-AT
1 ATTAAAATAAT
*
15411447 CATTAACATAAT
1 -ATTAAAATAAT
* *
15411459 ATAAAAATATT
1 ATTAAAATAAT
15411470 ATTAAA
1 ATTAAA
15411476 TTTAGATTTA
Statistics
Matches: 87, Mismatches: 25, Indels: 8
0.73 0.21 0.07
Matches are distributed among these distances:
10 6 0.07
11 75 0.86
12 6 0.07
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (11 bp):
ATTAAAATAAT
Found at i:15411490 original size:21 final size:21
Alignment explanation
Indices: 15411464--15411685 Score: 254
Period size: 21 Copynumber: 10.7 Consensus size: 21
15411454 ATAATATAAA
* *
15411464 AATATTATTAAATTTAGATTT
1 AATATTATTAAATTAATATTT
* *
15411485 AATATTATCATATTAATATTT
1 AATATTATTAAATTAATATTT
* *
15411506 AATATTATTATATCAATATTT
1 AATATTATTAAATTAATATTT
* * * *
15411527 AATATTAATATATCAATATTC
1 AATATTATTAAATTAATATTT
* *
15411548 AATATTTTTAAATTAAAATTT
1 AATATTATTAAATTAATATTT
15411569 AATA-TATTAAATTAATATTT
1 AATATTATTAAATTAATATTT
* * *
15411589 AATAATATGAAATTACTATTT
1 AATATTATTAAATTAATATTT
*
15411610 AATATTATTAAATTAATATTG
1 AATATTATTAAATTAATATTT
15411631 AATATTATTAAATTAAT-TTT
1 AATATTATTAAATTAATATTT
*
15411651 GAATATTATTAAA-TAATAGTT
1 -AATATTATTAAATTAATATTT
15411672 AATATTA-TAAATTA
1 AATATTATTAAATTA
15411686 TTTAATTATT
Statistics
Matches: 173, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.02
20 33 0.19
21 136 0.79
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AATATTATTAAATTAATATTT
Found at i:15411549 original size:28 final size:28
Alignment explanation
Indices: 15411471--15411592 Score: 84
Period size: 27 Copynumber: 4.5 Consensus size: 28
15411461 AAAAATATTA
15411471 TTAA-ATTTAGAT-TTAATATTATC-ATA-
1 TTAATATTTA-ATATTAATA-TATCAATAT
*
15411497 TTAATATTTAATATTATTATATCAATAT
1 TTAATATTTAATATTAATATATCAATAT
15411525 TTAATA-TTAATATATCAATAT-TCAATATTT
1 TTAATATTTAATAT-T-AATATATCAATA--T
* *
15411555 TTAA-A-TTAAAATTTAATATATTAA-A-
1 TTAATATTTAATA-TTAATATATCAATAT
15411580 TTAATATTTAATA
1 TTAATATTTAATA
15411593 ATATGAAATT
Statistics
Matches: 79, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
25 4 0.05
26 11 0.14
27 25 0.32
28 19 0.24
29 14 0.18
30 6 0.08
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (28 bp):
TTAATATTTAATATTAATATATCAATAT
Found at i:15411577 original size:104 final size:105
Alignment explanation
Indices: 15411464--15411685 Score: 270
Period size: 104 Copynumber: 2.1 Consensus size: 105
15411454 ATAATATAAA
* * * * *
15411464 AATATTATTAAATTTAGATTTAATATTATCATATTAATATTTAATATTATTATATCAATATTTAA
1 AATATTATTAAATTAAGATTTAATAATATCAAATTAATATTTAATATTATTAAATCAATATTGAA
* *
15411529 TATTAATATATCAATATTCAATATTTTTAAATTAAAATTT
66 TATTAATAAATCAATATTCAATATTATTAAATTAAAATTT
* * * *
15411569 AATA-TATTAAATTAATATTTAATAATATGAAATTACTATTTAATATTATTAAATTAATATTGAA
1 AATATTATTAAATTAAGATTTAATAATATCAAATTAATATTTAATATTATTAAATCAATATTGAA
* * * * * *
15411633 TATTATTAAATTAATTTTGAATATTATTAAA-TAATAGTT
66 TATTAATAAATCAATATTCAATATTATTAAATTAAAATTT
15411672 AATATTA-TAAATTA
1 AATATTATTAAATTA
15411686 TTTAATTATT
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
103 17 0.17
104 78 0.79
105 4 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (105 bp):
AATATTATTAAATTAAGATTTAATAATATCAAATTAATATTTAATATTATTAAATCAATATTGAA
TATTAATAAATCAATATTCAATATTATTAAATTAAAATTT
Found at i:15411592 original size:83 final size:83
Alignment explanation
Indices: 15411464--15411683 Score: 257
Period size: 83 Copynumber: 2.7 Consensus size: 83
15411454 ATAATATAAA
* * * * *
15411464 AATATTATTAAATTTAGATTTAATATTATCATATTAATATTTAATATTATTATATCAATATTTAA
1 AATATTATTAAA-TTAAATTTAATATTATTAAATTAATATTTAATATTATGAAATCAATATTTAA
*
15411529 TATTAATATATCAATATTC
65 TATTAATAAATCAATATTC
* * * *
15411548 AATATTTTTAAATTAAAATTTAATA-TATTAAATTAATATTTAATAATATGAAATTACTATTTAA
1 AATATTATTAAATT-AAATTTAATATTATTAAATTAATATTTAATATTATGAAATCAATATTTAA
* * *
15411612 TATTATTAAATTAATATTG
65 TATTAATAAATCAATATTC
* *
15411631 AATATTATTAAATTAATTTTGAATATTATTAAA-TAATAGTTAATATTAT-AAAT
1 AATATTATTAAATTAAATTT-AATATTATTAAATTAATATTTAATATTATGAAAT
15411684 TATTTAATTA
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
82 9 0.08
83 80 0.69
84 27 0.23
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (83 bp):
AATATTATTAAATTAAATTTAATATTATTAAATTAATATTTAATATTATGAAATCAATATTTAAT
ATTAATAAATCAATATTC
Found at i:15411713 original size:16 final size:16
Alignment explanation
Indices: 15411687--15411725 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
15411677 TATAAATTAT
15411687 TTAATTATTTTTAGTAA
1 TTAATTATTTTTA-TAA
15411704 TTAA-TATTTTTATAA
1 TTAATTATTTTTATAA
*
15411719 TAAATTA
1 TTAATTA
15411726 CAAGAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 6 0.30
16 10 0.50
17 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTAATTATTTTTATAA
Found at i:15418777 original size:14 final size:13
Alignment explanation
Indices: 15418758--15418813 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
15418748 CAATAATATC
15418758 AAATAAAAAAATAA
1 AAATAAAAAAA-AA
*
15418772 AAATAAAATAAAA
1 AAATAAAAAAAAA
**
15418785 ACTTAAAAAAAAA
1 AAATAAAAAAAAA
*
15418798 AAACAAAAAAAAA
1 AAATAAAAAAAAA
15418811 AAA
1 AAA
15418814 ACTCAAAGTC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
13 25 0.71
14 10 0.29
ACGTcount: A:0.86, C:0.04, G:0.00, T:0.11
Consensus pattern (13 bp):
AAATAAAAAAAAA
Found at i:15418791 original size:27 final size:26
Alignment explanation
Indices: 15418761--15418811 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
15418751 TAATATCAAA
* *
15418761 TAAAAAAATAAAAATAAAATAAAAACT
1 TAAAAAAA-AAAAACAAAAAAAAAACT
15418788 TAAAAAAAAAAAACAAAAAAAAAA
1 TAAAAAAAAAAAACAAAAAAAAAA
15418812 AAACTCAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.84, C:0.04, G:0.00, T:0.12
Consensus pattern (26 bp):
TAAAAAAAAAAAACAAAAAAAAAACT
Found at i:15418799 original size:15 final size:15
Alignment explanation
Indices: 15418762--15418816 Score: 60
Period size: 14 Copynumber: 3.6 Consensus size: 15
15418752 AATATCAAAT
15418762 AAAAAAA-TAAAAATAA
1 AAAAAAACT-AAAA-AA
*
15418778 AATAAAAACTTAAAAA
1 AA-AAAAACTAAAAAA
15418794 AAAAAAAC-AAAAAA
1 AAAAAAACTAAAAAA
15418808 AAAAAAACT
1 AAAAAAACT
15418817 CAAAGTCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 13 0.38
15 6 0.18
16 6 0.18
17 8 0.24
18 1 0.03
ACGTcount: A:0.84, C:0.05, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAAACTAAAAAA
Found at i:15418812 original size:27 final size:27
Alignment explanation
Indices: 15418761--15418813 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
15418751 TAATATCAAA
* *
15418761 TAAAAAAATAAAAATAAAATAAAAACT
1 TAAAAAAATAAAAAAAAAAAAAAAACT
*
15418788 TAAAAAAAAAAAACAAAAAAAAAAAA
1 TAAAAAAATAAAA-AAAAAAAAAAAA
15418814 ACTCAAAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.85, C:0.04, G:0.00, T:0.11
Consensus pattern (27 bp):
TAAAAAAATAAAAAAAAAAAAAAAACT
Found at i:15419412 original size:26 final size:26
Alignment explanation
Indices: 15419357--15419415 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
15419347 ATTTGAAGTC
**
15419357 AAAAAATAATAATCATGACAAAAAAT
1 AAAAAATAATAAAAATGACAAAAAAT
* *
15419383 AAAAAATAATAAAAATG-CAAATACT
1 AAAAAATAATAAAAATGACAAAAAAT
15419408 AAAAAATA
1 AAAAAATA
15419416 CACCAATAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.71, C:0.07, G:0.03, T:0.19
Consensus pattern (26 bp):
AAAAAATAATAAAAATGACAAAAAAT
Found at i:15424843 original size:19 final size:19
Alignment explanation
Indices: 15424821--15424857 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15424811 TTATTTTATA
15424821 AAAAGAAACTTATAATTAG
1 AAAAGAAACTTATAATTAG
**
15424840 AAAAGAATGTTATAATTA
1 AAAAGAAACTTATAATTA
15424858 ATCCTTTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.30
Consensus pattern (19 bp):
AAAAGAAACTTATAATTAG
Found at i:15424869 original size:5 final size:5
Alignment explanation
Indices: 15424859--15424884 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15424849 TTATAATTAA
15424859 TCCTT TCCTT TCCTT TCCTT TCCTT T
1 TCCTT TCCTT TCCTT TCCTT TCCTT T
15424885 TCACTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TCCTT
Found at i:15427909 original size:20 final size:20
Alignment explanation
Indices: 15427874--15427966 Score: 56
Period size: 20 Copynumber: 4.9 Consensus size: 20
15427864 GTTCCATGGT
**
15427874 TAGGGTTTTAAAGTTTTATC
1 TAGGGTTTTAGGGTTTTATC
*
15427894 TAGGGTTTTAGGGTTTCT-CC
1 TAGGGTTTTAGGGTTT-TATC
* * *
15427914 TAAGG-TTTAGGGCTTCA-C
1 TAGGGTTTTAGGGTTTTATC
*
15427932 TTAGGGTTTTAAGG--TT-T-
1 -TAGGGTTTTAGGGTTTTATC
15427949 TAGGGTTTTAGGGTTTTA
1 TAGGGTTTTAGGGTTTTA
15427967 GGATTTTAGG
Statistics
Matches: 55, Mismatches: 10, Indels: 17
0.67 0.12 0.21
Matches are distributed among these distances:
16 12 0.22
18 4 0.07
19 13 0.24
20 25 0.45
21 1 0.02
ACGTcount: A:0.18, C:0.08, G:0.28, T:0.46
Consensus pattern (20 bp):
TAGGGTTTTAGGGTTTTATC
Found at i:15427939 original size:19 final size:19
Alignment explanation
Indices: 15427893--15427940 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
15427883 AAAGTTTTAT
* *
15427893 CTAGGGTTTTAGGGTTTCTC
1 CTAGGG-TTTAGGGCTTCAC
*
15427913 CTAAGGTTTAGGGCTTCAC
1 CTAGGGTTTAGGGCTTCAC
*
15427932 TTAGGGTTT
1 CTAGGGTTT
15427941 TAAGGTTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.15, C:0.15, G:0.29, T:0.42
Consensus pattern (19 bp):
CTAGGGTTTAGGGCTTCAC
Found at i:15427949 original size:8 final size:8
Alignment explanation
Indices: 15427936--15428058 Score: 103
Period size: 8 Copynumber: 15.8 Consensus size: 8
15427926 CTTCACTTAG
15427936 GGTTTTAA
1 GGTTTTAA
*
15427944 GGTTTTAG
1 GGTTTTAA
*
15427952 GGTTTTAG
1 GGTTTTAA
15427960 GGTTTT-A
1 GGTTTTAA
15427967 GGATTTT-A
1 GG-TTTTAA
*
15427975 GGATTTCAA
1 GG-TTTTAA
*
15427984 GATTTTAA
1 GGTTTTAA
**
15427992 GGTTTCGA
1 GGTTTTAA
*
15428000 GGTTTTAG
1 GGTTTTAA
15428008 GGTTTTAA
1 GGTTTTAA
*
15428016 GGTGTTAA
1 GGTTTTAA
15428024 GGTTTT-A
1 GGTTTTAA
*
15428031 GGTTTCAA
1 GGTTTTAA
*
15428039 -GTTTT-G
1 GGTTTTAA
15428045 GGTTTTAA
1 GGTTTTAA
15428053 GGTTTT
1 GGTTTT
15428059 TTCTATTTGT
Statistics
Matches: 92, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
7 17 0.18
8 73 0.79
9 2 0.02
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.49
Consensus pattern (8 bp):
GGTTTTAA
Found at i:15427963 original size:24 final size:24
Alignment explanation
Indices: 15427932--15428058 Score: 120
Period size: 24 Copynumber: 5.4 Consensus size: 24
15427922 AGGGCTTCAC
15427932 TTAGGGTTTTAAGGTTTTAGGGTT
1 TTAGGGTTTTAAGGTTTTAGGGTT
*
15427956 TTAGGGTTTT-AGGATTTTAGGATT
1 TTAGGGTTTTAAGG-TTTTAGGGTT
* * * *
15427980 TCAAGATTTTAAGG-TTTCGAGGTT
1 TTAGGGTTTTAAGGTTTTAG-GGTT
* *
15428004 TTAGGGTTTTAAGGTGTTAAGGTT
1 TTAGGGTTTTAAGGTTTTAGGGTT
*
15428028 TTA-GGTTTCAA-GTTTT-GGGTT
1 TTAGGGTTTTAAGGTTTTAGGGTT
*
15428049 TTAAGGTTTT
1 TTAGGGTTTT
15428059 TTCTATTTGT
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
21 7 0.09
22 9 0.11
23 14 0.17
24 47 0.57
25 5 0.06
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.49
Consensus pattern (24 bp):
TTAGGGTTTTAAGGTTTTAGGGTT
Found at i:15432541 original size:115 final size:115
Alignment explanation
Indices: 15432337--15432552 Score: 337
Period size: 115 Copynumber: 1.9 Consensus size: 115
15432327 GAAAACAAAT
*
15432337 ATTTATTCACTACAAAATTCTATCTACAAAAAAGTTGTCAAGATCTATTTCTTTTAAGATAAACT
1 ATTTATTCACTAAAAAATTCTATCTACAAAAAAGTTGTCAAGATCTATTTCTTTTAAGATAAACT
* * *
15432402 AAAGAAAACCAATGATATGTCCTCCGCATTGGTTTTTAATGTTTAAAACA
66 AAAGAAAACCAAGGATATGGCCTCCACATTGGTTTTTAATGTTTAAAACA
* *
15432452 ATTTATTCACTAAAAAATTCTATGC-AC-AAAAAGATTGTTAGGATCTATTTCTTTTAAGATAAA
1 ATTTATTCACTAAAAAATTCTAT-CTACAAAAAAG-TTGTCAAGATCTATTTCTTTTAAGATAAA
*
15432515 TTAAAGAAAACCAAGGATATGGCCTCCACATTGGTTTT
64 CTAAAGAAAACCAAGGATATGGCCTCCACATTGGTTTT
15432553 CATGCATGCT
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
114 6 0.07
115 85 0.92
116 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (115 bp):
ATTTATTCACTAAAAAATTCTATCTACAAAAAAGTTGTCAAGATCTATTTCTTTTAAGATAAACT
AAAGAAAACCAAGGATATGGCCTCCACATTGGTTTTTAATGTTTAAAACA
Found at i:15433997 original size:28 final size:29
Alignment explanation
Indices: 15433954--15434021 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
15433944 ATTCCTTCCC
*
15433954 TTTTTCTTTTTGGTTTT-TGTTTGTTTCTA
1 TTTTTATTTTTGGTTTTGT-TTTGTTTCTA
* *
15433983 TTTTTATTTTT-GTTTTGTTTTGTTTGTC
1 TTTTTATTTTTGGTTTTGTTTTGTTTCTA
*
15434011 TTTTTTTTTTT
1 TTTTTATTTTT
15434022 AATTTTTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.03, C:0.04, G:0.12, T:0.81
Consensus pattern (29 bp):
TTTTTATTTTTGGTTTTGTTTTGTTTCTA
Found at i:15434014 original size:22 final size:23
Alignment explanation
Indices: 15433967--15434020 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
15433957 TTCTTTTTGG
*
15433967 TTTTTG-TTTGTTTCTATTTTTA
1 TTTTTGTTTTGTTTCTATTTGTA
* *
15433989 TTTTTGTTTTGTTT-TGTTTGTC
1 TTTTTGTTTTGTTTCTATTTGTA
*
15434011 TTTTTTTTTT
1 TTTTTGTTTT
15434021 TAATTTTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.04, C:0.04, G:0.11, T:0.81
Consensus pattern (23 bp):
TTTTTGTTTTGTTTCTATTTGTA
Found at i:15434105 original size:36 final size:36
Alignment explanation
Indices: 15434041--15434233 Score: 146
Period size: 35 Copynumber: 5.4 Consensus size: 36
15434031 AATATAAAAA
* ** *
15434041 ATGACTAGGACATCACTACAAGTT-AAAAAATAAAT
1 ATGACTAGGACAACACTGTAAGTTAAAAAAATAAAG
*
15434076 ATGACTAGGACAACACTGTAGGTTAAAAAAATAAAG
1 ATGACTAGGACAACACTGTAAGTTAAAAAAATAAAG
* ** * * *
15434112 ATGA-TTGAGACAACACCAATAA-TTGAAAAAACAAAT
1 ATGACTAG-GACAACA-CTGTAAGTTAAAAAAATAAAG
* * * *
15434148 ATGACCAGGATAACACTGCAAG-TCAAAAAATAAAG
1 ATGACTAGGACAACACTGTAAGTTAAAAAAATAAAG
* * * *
15434183 ATGACTGGGA-AACACTGTAGGTCAAAAAAATAAAA
1 ATGACTAGGACAACACTGTAAGTTAAAAAAATAAAG
15434218 ATGA-TCAGGACAACAC
1 ATGACT-AGGACAACAC
15434234 CAACGGTCGA
Statistics
Matches: 121, Mismatches: 29, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
34 10 0.08
35 60 0.50
36 47 0.39
37 4 0.03
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.18
Consensus pattern (36 bp):
ATGACTAGGACAACACTGTAAGTTAAAAAAATAAAG
Found at i:15434230 original size:106 final size:107
Alignment explanation
Indices: 15434054--15434304 Score: 310
Period size: 106 Copynumber: 2.4 Consensus size: 107
15434044 ACTAGGACAT
* * * * * * *
15434054 CACTACAAGTTAAAAAATAAATATGACTAGGACAACACTGTAGGTTAAAAAAATAAAGATGATTG
1 CACTGCAAGTCAAAAAATAAAGATGACTGGGACAACACTGTAGGTCAAAAAAATAAAAATGATAG
* *
15434119 AGACAACACCAATAATTGAAAAAACAAATATGACCAG-GATAA
66 AGACAACACCAACAATCGAAAAAACAAATATGA-CAGAGATAA
15434161 CACTGCAAGTCAAAAAATAAAGATGACTGGGA-AACACTGTAGGTCAAAAAAATAAAAATGATCA
1 CACTGCAAGTCAAAAAATAAAGATGACTGGGACAACACTGTAGGTCAAAAAAATAAAAATGAT-A
** * **
15434225 G-GACAACACCAACGGTCGAAAAAATAAATATGATTGAGATAA
65 GAGACAACACCAACAATCGAAAAAACAAATATGACAGAGATAA
* * *
15434267 CATTGTAAGTCAAAAAATAAAGATGATTGGGACAACAC
1 CACTGCAAGTCAAAAAATAAAGATGACTGGGACAACAC
15434305 CAACGATCGT
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
105 1 0.01
106 89 0.72
107 34 0.27
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (107 bp):
CACTGCAAGTCAAAAAATAAAGATGACTGGGACAACACTGTAGGTCAAAAAAATAAAAATGATAG
AGACAACACCAACAATCGAAAAAACAAATATGACAGAGATAA
Found at i:15434247 original size:71 final size:72
Alignment explanation
Indices: 15434172--15434359 Score: 213
Period size: 71 Copynumber: 2.7 Consensus size: 72
15434162 ACTGCAAGTC
*
15434172 AAAAAATAAAGATGACTGGGA-AACACTGTAGGTCAAAAAAATAAAAATGATCAGGACAACACCA
1 AAAAAATAAATATGACTGGGATAACACTGTAGGTCAAAAAAATAAAAATGATCAGGACAACACCA
*
15434236 ACGGTCG
66 ACGATCG
* * * * * **
15434243 AAAAAATAAATATGATTGAGATAACATTGTAAGTC-AAAAAATAAAGATGATTGGGACAACACCA
1 AAAAAATAAATATGACTGGGATAACACTGTAGGTCAAAAAAATAAAAATGATCAGGACAACACCA
15434307 ACGATCG
66 ACGATCG
** * * * *
15434314 TGAAAATAGATATAACTGGAATAACACCGTAGGT-AAAAAAA-AAAAA
1 AAAAAATAAATATGACTGGGATAACACTGTAGGTCAAAAAAATAAAAA
15434360 GATGACTGGA
Statistics
Matches: 95, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
70 4 0.04
71 80 0.84
72 11 0.12
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (72 bp):
AAAAAATAAATATGACTGGGATAACACTGTAGGTCAAAAAAATAAAAATGATCAGGACAACACCA
ACGATCG
Found at i:15434293 original size:35 final size:36
Alignment explanation
Indices: 15434156--15434304 Score: 112
Period size: 35 Copynumber: 4.2 Consensus size: 36
15434146 ATATGACCAG
* *
15434156 GATAACACTGCAAGTC-AAAAAATAAAGATGACTGG
1 GATAACACTGCAAGTCAAAAAAATAAAGATGATTGA
* * * *
15434191 GA-AACACTGTAGGTCAAAAAAATAAAAATGA-TCA
1 GATAACACTGCAAGTCAAAAAAATAAAGATGATTGA
* * *
15434225 GGACAACAC--CAACGGTCGAAAAAATAAATATGATTGA
1 -GATAACACTGCAA--GTCAAAAAAATAAAGATGATTGA
* * *
15434262 GATAACATTGTAAGTC-AAAAAATAAAGATGATTGG
1 GATAACACTGCAAGTCAAAAAAATAAAGATGATTGA
*
15434297 GACAACAC
1 GATAACAC
15434305 CAACGATCGT
Statistics
Matches: 89, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
34 13 0.15
35 41 0.46
36 31 0.35
37 2 0.02
38 2 0.02
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.18
Consensus pattern (36 bp):
GATAACACTGCAAGTCAAAAAAATAAAGATGATTGA
Found at i:15434661 original size:35 final size:35
Alignment explanation
Indices: 15434595--15434771 Score: 165
Period size: 35 Copynumber: 5.0 Consensus size: 35
15434585 TAACATCGTA
* * *
15434595 GGTCGAAAAAATAAAGATGACCAAGATAACACCAAT
1 GGTC-AAAAGATAAAGATGACCGAGACAACACCAAT
* * *
15434631 GGTCAAAAGATAAATATGATCGAGACAACACCAAC
1 GGTCAAAAGATAAAGATGACCGAGACAACACCAAT
* *
15434666 GGTCAAAAGATAAAGATGACCGGGACAATACCAAT
1 GGTCAAAAGATAAAGATGACCGAGACAACACCAAT
* * * *
15434701 GGTCAGAAAGATAAAAATGATCGGGACAACACCATT
1 GGTCA-AAAGATAAAGATGACCGAGACAACACCAAT
* * * ** *
15434737 AGTTAGGAAGATAAAGATGACTAAGCCAACACCAA
1 GGTCA-AAAGATAAAGATGACCGAGACAACACCAA
15434772 CGATTAGAAA
Statistics
Matches: 115, Mismatches: 25, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
35 60 0.52
36 55 0.48
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.15
Consensus pattern (35 bp):
GGTCAAAAGATAAAGATGACCGAGACAACACCAAT
Found at i:15434684 original size:70 final size:72
Alignment explanation
Indices: 15434595--15434734 Score: 203
Period size: 70 Copynumber: 2.0 Consensus size: 72
15434585 TAACATCGTA
* *
15434595 GGTCGAAAAAATAAAGATGACCAAGATAACACCAATGGTCA-AAAGATAAATATGATCGAGACAA
1 GGTCGAAAAAATAAAGATGACCAAGACAACACCAATGGTCAGAAAGATAAAAATGATCGAGACAA
15434659 CACCAAC
66 CACCAAC
* ** * *
15434666 GGTC-AAAAGATAAAGATGACCGGGACAATACCAATGGTCAGAAAGATAAAAATGATCGGGACAA
1 GGTCGAAAAAATAAAGATGACCAAGACAACACCAATGGTCAGAAAGATAAAAATGATCGAGACAA
15434730 CACCA
66 CACCA
15434735 TTAGTTAGGA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 31 0.51
71 30 0.49
ACGTcount: A:0.49, C:0.18, G:0.20, T:0.14
Consensus pattern (72 bp):
GGTCGAAAAAATAAAGATGACCAAGACAACACCAATGGTCAGAAAGATAAAAATGATCGAGACAA
CACCAAC
Found at i:15434748 original size:36 final size:36
Alignment explanation
Indices: 15434543--15434756 Score: 168
Period size: 36 Copynumber: 6.0 Consensus size: 36
15434533 TAAATATAAC
* * *
15434543 TCGGGACAACACC-ATAGGTAAAAAAAATAAAGATGA
1 TCGGGACAACACCAAT-GGTCAGAAAGATAAAGATGA
* * * * *
15434579 TTGGGATAACATC-GTAGGTC-GAAAAAATAAAGATGA
1 TCGGGACAACACCAAT-GGTCAG-AAAGATAAAGATGA
* ** * *
15434615 CCAAGATAACACCAATGGTCA-AAAGATAAATATGA
1 TCGGGACAACACCAATGGTCAGAAAGATAAAGATGA
* *
15434650 TCGAGACAACACCAACGGTCA-AAAGATAAAGATGA
1 TCGGGACAACACCAATGGTCAGAAAGATAAAGATGA
* * *
15434685 CCGGGACAATACCAATGGTCAGAAAGATAAAAATGA
1 TCGGGACAACACCAATGGTCAGAAAGATAAAGATGA
* * * *
15434721 TCGGGACAACACCATTAGTTAGGAAGATAAAGATGA
1 TCGGGACAACACCAATGGTCAGAAAGATAAAGATGA
15434757 CTAAGCCAAC
Statistics
Matches: 143, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
35 59 0.41
36 83 0.58
37 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.16
Consensus pattern (36 bp):
TCGGGACAACACCAATGGTCAGAAAGATAAAGATGA
Found at i:15434767 original size:36 final size:34
Alignment explanation
Indices: 15434672--15434826 Score: 109
Period size: 36 Copynumber: 4.4 Consensus size: 34
15434662 CAACGGTCAA
** * * *
15434672 AAGATAAAGATGACCGGGACAATACCAATGGTCAGA
1 AAGATAAAGATGACAAGGACAACACCAA--GTTAGG
* *
15434708 AAGATAAAAATGATC-GGGACAACACCATTAGTTAGG
1 AAGATAAAGATGA-CAAGGACAACACCA--AGTTAGG
* *
15434744 AAGATAAAGATGACTAA-GCCAACACCAACGATTAGA
1 AAGATAAAGATGAC-AAGGACAACACCAA-G-TTAGG
**
15434780 AAGAT-AAGATGACAAGGACAACACCCGCGTTAGG
1 AAGATAAAGATGACAAGGACAACA-CCAAGTTAGG
15434814 AAGATAAAGATGA
1 AAGATAAAGATGA
15434827 TCGAGATAAT
Statistics
Matches: 97, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
34 12 0.12
35 24 0.25
36 59 0.61
37 1 0.01
38 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.23, T:0.15
Consensus pattern (34 bp):
AAGATAAAGATGACAAGGACAACACCAAGTTAGG
Found at i:15434802 original size:35 final size:35
Alignment explanation
Indices: 15434605--15434826 Score: 136
Period size: 35 Copynumber: 6.3 Consensus size: 35
15434595 GGTCGAAAAA
* * *
15434605 ATAAAGATGACCAA-GATAACACCAATGGTCA-AAAG
1 ATAAAGATGA-CAAGGACAACACCAA-CGTTAGAAAG
* * *
15434640 ATAAATATGATCGA-GACAACACCAACGGTCA-AAAG
1 ATAAAGATGA-CAAGGACAACACCAAC-GTTAGAAAG
** * * *
15434675 ATAAAGATGACCGGGACAATACCAATGGTCAGAAAG
1 ATAAAGATGACAAGGACAACACCAA-CGTTAGAAAG
* * *
15434711 ATAAAAATGATC-GGGACAACACCATTA-GTTAGGAAG
1 ATAAAGATGA-CAAGGACAACACCA--ACGTTAGAAAG
*
15434747 ATAAAGATGACTAA-GCCAACACCAACGATTAGAAAG
1 ATAAAGATGAC-AAGGACAACACCAACG-TTAGAAAG
** *
15434783 AT-AAGATGACAAGGACAACACCCGCGTTAGGAAG
1 ATAAAGATGACAAGGACAACACCAACGTTAGAAAG
15434817 ATAAAGATGA
1 ATAAAGATGA
15434827 TCGAGATAAT
Statistics
Matches: 152, Mismatches: 22, Indels: 26
0.76 0.11 0.13
Matches are distributed among these distances:
34 13 0.09
35 79 0.52
36 58 0.38
37 1 0.01
38 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (35 bp):
ATAAAGATGACAAGGACAACACCAACGTTAGAAAG
Found at i:15435523 original size:21 final size:21
Alignment explanation
Indices: 15435497--15435537 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15435487 CTTTCTTATG
* *
15435497 ATGTAAATGTAATTGATGCAC
1 ATGTAAATGCAAGTGATGCAC
*
15435518 ATGTAAGTGCAAGTGATGCA
1 ATGTAAATGCAAGTGATGCA
15435538 AATGCGAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (21 bp):
ATGTAAATGCAAGTGATGCAC
Found at i:15435589 original size:97 final size:95
Alignment explanation
Indices: 15435417--15435613 Score: 261
Period size: 97 Copynumber: 2.1 Consensus size: 95
15435407 TTTTTTTGAT
* * * *
15435417 ATGCATATGTAATTACAAGTGATGCGAATGCAAAGACTCCTTTTATTTTTGCAACATGCAAATTA
1 ATGCACATGTAAGTACAAGTGATGCAAATGCAAAGACTCCTTTTATTTTTGCAACATGCAAATCA
*
15435482 AATGTCTTTCTTATGATGTAAATGTAATTG
66 AATGTCTTTCTTATGATGTAAATATAATTG
* * * * *
15435512 ATGCACATGTAAGTGCAAGTGATGCAAATGCGAAGAATTTCTTTT-TGTTGTTGCAACATGTAAA
1 ATGCACATGTAAGTACAAGTGATGCAAATGCAAAG-ACTCCTTTTAT-TT-TTGCAACATGCAAA
*
15435576 TCAAATGTTTTTCTTATGATGTAAATATAATTG
63 TCAAATGTCTTTCTTATGATGTAAATATAATTG
15435609 ATGCA
1 ATGCA
15435614 AATACGATTT
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
95 31 0.35
96 9 0.10
97 48 0.55
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.38
Consensus pattern (95 bp):
ATGCACATGTAAGTACAAGTGATGCAAATGCAAAGACTCCTTTTATTTTTGCAACATGCAAATCA
AATGTCTTTCTTATGATGTAAATATAATTG
Found at i:15445420 original size:29 final size:30
Alignment explanation
Indices: 15445361--15445423 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
15445351 ATATACAAAC
*
15445361 CTTTCTAAAAGTCTCCAACATCTTGACAGA
1 CTTTCTAAAAGTCTCCAACATCTAGACAGA
* **
15445391 CTTTC-AAAAGTCTTCAACATCTAGGTAGA
1 CTTTCTAAAAGTCTCCAACATCTAGACAGA
15445420 CTTT
1 CTTT
15445424 TAGAGCAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (30 bp):
CTTTCTAAAAGTCTCCAACATCTAGACAGA
Found at i:15450553 original size:9 final size:10
Alignment explanation
Indices: 15450527--15450555 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
15450517 ATCGAGCTTT
15450527 TATATTTTAA
1 TATATTTTAA
15450537 TATATTTTAA
1 TATATTTTAA
15450547 T-TATTTTAA
1 TATATTTTAA
15450556 AAATAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATATTTTAA
Found at i:15453223 original size:17 final size:17
Alignment explanation
Indices: 15453203--15453235 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15453193 GTTCTTTACT
*
15453203 TTAGTTTTTAGTTTAGA
1 TTAGTTATTAGTTTAGA
15453220 TTAGTTATTAGTTTAG
1 TTAGTTATTAGTTTAG
15453236 GTGATAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (17 bp):
TTAGTTATTAGTTTAGA
Found at i:15454902 original size:19 final size:19
Alignment explanation
Indices: 15454879--15454916 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
15454869 TAATAAGTAT
15454879 AAAAATATATAAAAAAATAG
1 AAAAATA-ATAAAAAAATAG
*
15454899 AAAAATAATAAAATAATA
1 AAAAATAATAAAAAAATA
15454917 AGAATGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (19 bp):
AAAAATAATAAAAAAATAG
Found at i:15454920 original size:20 final size:21
Alignment explanation
Indices: 15454864--15454920 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
15454854 GATTAACAAC
15454864 TAAAATAATAAGTATAAAAATATA
1 TAAAATAATAAG---AAAAATATA
*
15454888 TAAAAAAAT-AGAAAAATA-A
1 TAAAATAATAAGAAAAATATA
15454907 TAAAATAATAAGAA
1 TAAAATAATAAGAA
15454921 TGAAAATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 9 0.30
20 11 0.37
23 2 0.07
24 8 0.27
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
TAAAATAATAAGAAAAATATA
Found at i:15455944 original size:6 final size:6
Alignment explanation
Indices: 15455935--15455987 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
15455925 TGAAATCAAC
* * * *
15455935 ATTAAA ATTAAA ATTAAA GTT-AA ACTAAA TGTTAAA ATTAAA ATTAAT
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA -ATTAAA ATTAAA ATTAAA
15455983 ATTAA
1 ATTAA
15455988 CCTAGTCCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
5 3 0.08
6 31 0.82
7 4 0.11
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (6 bp):
ATTAAA
Found at i:15456408 original size:96 final size:96
Alignment explanation
Indices: 15456307--15456497 Score: 346
Period size: 96 Copynumber: 2.0 Consensus size: 96
15456297 TAAAAACTTC
*
15456307 AAATAACAACTTTAAAAACTTCAAATATCTTTTCTAAATAGAGGTTTGAAAACTTAAAAAATTTT
1 AAATAACAACTTTAAAAACTTCAAATATCTTTTCTAAATAAAGGTTTGAAAACTTAAAAAATTTT
* *
15456372 AAATGGTTCTTTAAAACATAGGCTCAAAAAG
66 AAATAGTTCTTCAAAACATAGGCTCAAAAAG
*
15456403 AAATAACAACTTTAAAAACTTCAAATATCTTTTCTAAATAAAGGTTTGAAAACTTTAAAAATTTT
1 AAATAACAACTTTAAAAACTTCAAATATCTTTTCTAAATAAAGGTTTGAAAACTTAAAAAATTTT
15456468 AAATAGTTCTTCAAAACATAGGCTCAAAAA
66 AAATAGTTCTTCAAAACATAGGCTCAAAAA
15456498 CTTTAAAAAT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (96 bp):
AAATAACAACTTTAAAAACTTCAAATATCTTTTCTAAATAAAGGTTTGAAAACTTAAAAAATTTT
AAATAGTTCTTCAAAACATAGGCTCAAAAAG
Found at i:15456627 original size:43 final size:43
Alignment explanation
Indices: 15456558--15456822 Score: 305
Period size: 43 Copynumber: 6.2 Consensus size: 43
15456548 ATTTTAAAAG
*
15456558 CTTTAAATTAAGAAATGGGCTCCTTTATATAGAGGCTCAACAA
1 CTTTAAATTAAGAAATGGGCTCCTTTATACAGAGGCTCAACAA
** * * * **
15456601 CTTTAAATTAAGAAATAAGTTTCTTTATACAGAGGCTTATGAA
1 CTTTAAATTAAGAAATGGGCTCCTTTATACAGAGGCTCAACAA
* ** *
15456644 CTTTAAATTAGGAAATGATCTCTTTTATACAGAGGCTCAACAA
1 CTTTAAATTAAGAAATGGGCTCCTTTATACAGAGGCTCAACAA
* * * * * *
15456687 CTTTAAATTAAGAAATAGGCTCCTATATATAAAAGTTCAACAA
1 CTTTAAATTAAGAAATGGGCTCCTTTATACAGAGGCTCAACAA
* * * *
15456730 CTTTAAATTAAGTAATGGGTTCCTCTATACAGAGGCTCATCAA
1 CTTTAAATTAAGAAATGGGCTCCTTTATACAGAGGCTCAACAA
* * *
15456773 CTTTAAATTAGGAAATGGGCTTCTTTATACAAAGGCTCAACAA
1 CTTTAAATTAAGAAATGGGCTCCTTTATACAGAGGCTCAACAA
15456816 CTTTAAA
1 CTTTAAA
15456823 AATTTAAGCT
Statistics
Matches: 179, Mismatches: 43, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 179 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (43 bp):
CTTTAAATTAAGAAATGGGCTCCTTTATACAGAGGCTCAACAA
Found at i:15456727 original size:129 final size:129
Alignment explanation
Indices: 15456558--15456822 Score: 379
Period size: 129 Copynumber: 2.1 Consensus size: 129
15456548 ATTTTAAAAG
* * * * *
15456558 CTTTAAATTAAGAAATGGGCTCCTTTATATAGAGGCTCAACAACTTTAAATTAAGAAATAAGTTT
1 CTTTAAATTAAGAAATAGGCTCCTATATATAAAAGCTCAACAACTTTAAATTAAGAAATAAGTTC
* * * * *
15456623 CTTTATACAGAGGCTTATGAACTTTAAATTAGGAAATGATC-TCTTTTATACAGAGGCTCAACAA
66 CTCTATACAGAGGCTCATCAACTTTAAATTAGGAAATGAGCTTC-TTTATACAAAGGCTCAACAA
* * **
15456687 CTTTAAATTAAGAAATAGGCTCCTATATATAAAAGTTCAACAACTTTAAATTAAGTAATGGGTTC
1 CTTTAAATTAAGAAATAGGCTCCTATATATAAAAGCTCAACAACTTTAAATTAAGAAATAAGTTC
*
15456752 CTCTATACAGAGGCTCATCAACTTTAAATTAGGAAATGGGCTTCTTTATACAAAGGCTCAACAA
66 CTCTATACAGAGGCTCATCAACTTTAAATTAGGAAATGAGCTTCTTTATACAAAGGCTCAACAA
15456816 CTTTAAA
1 CTTTAAA
15456823 AATTTAAGCT
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
129 118 0.98
130 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (129 bp):
CTTTAAATTAAGAAATAGGCTCCTATATATAAAAGCTCAACAACTTTAAATTAAGAAATAAGTTC
CTCTATACAGAGGCTCATCAACTTTAAATTAGGAAATGAGCTTCTTTATACAAAGGCTCAACAA
Found at i:15457169 original size:17 final size:17
Alignment explanation
Indices: 15457149--15457259 Score: 68
Period size: 17 Copynumber: 6.6 Consensus size: 17
15457139 TTAATTTTGC
*
15457149 AAGAATTTCAAATTCAT
1 AAGAATTTCATATTCAT
* *
15457166 AAGATTTTCATATTCGT
1 AAGAATTTCATATTCAT
* *
15457183 AAGAA-CTCATATTCAC
1 AAGAATTTCATATTCAT
* *
15457199 AAGAATTTTAGGT-TTGA-
1 AAGAATTTCA--TATTCAT
* * *
15457216 AAGAAATACA-ATTTCAC
1 AAGAATTTCATA-TTCAT
*
15457233 AAGAATTTTATATTCAT
1 AAGAATTTCATATTCAT
15457250 AAGAATTTCA
1 AAGAATTTCA
15457260 GTTTTGCAAG
Statistics
Matches: 68, Mismatches: 19, Indels: 14
0.67 0.19 0.14
Matches are distributed among these distances:
16 16 0.24
17 47 0.69
18 4 0.06
19 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (17 bp):
AAGAATTTCATATTCAT
Found at i:15457207 original size:34 final size:33
Alignment explanation
Indices: 15457160--15457254 Score: 86
Period size: 34 Copynumber: 2.8 Consensus size: 33
15457150 AGAATTTCAA
* *
15457160 ATTCATAAG-ATTTTCATATTCGTAAGAACTCAT
1 ATTCACAAGAATTTT-ATATTCGTAAGAAATCAT
** * *
15457193 ATTCACAAGAATTTTAGGTTTGAAAGAAATACA-
1 ATTCACAAGAATTTTATATTCGTAAGAAAT-CAT
*
15457226 ATTTCACAAGAATTTTATATTCATAAGAA
1 A-TTCACAAGAATTTTATATTCGTAAGAA
15457255 TTTCAGTTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
33 19 0.40
34 29 0.60
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.36
Consensus pattern (33 bp):
ATTCACAAGAATTTTATATTCGTAAGAAATCAT
Found at i:15457283 original size:18 final size:18
Alignment explanation
Indices: 15457232--15457293 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
15457222 TACAATTTCA
**
15457232 CAAGAATTTT-ATATTCA
1 CAAGAATTTTCATATTTG
*
15457249 TAAGAA-TTTCAGT-TTTG
1 CAAGAATTTTCA-TATTTG
15457266 CAAGAATTTTCATATTTG
1 CAAGAATTTTCATATTTG
*
15457284 CAAAAATTTT
1 CAAGAATTTT
15457294 TGGATTTGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
16 3 0.08
17 14 0.39
18 19 0.53
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (18 bp):
CAAGAATTTTCATATTTG
Found at i:15457382 original size:16 final size:17
Alignment explanation
Indices: 15457350--15457382 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15457340 AACTCAAAAT
*
15457350 TTCACAAGACTTTCAAA
1 TTCACAAGACATTCAAA
15457367 TTCACAAGA-ATTCAAA
1 TTCACAAGACATTCAAA
15457383 AATTTGTGAA
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:0.45, C:0.21, G:0.06, T:0.27
Consensus pattern (17 bp):
TTCACAAGACATTCAAA
Found at i:15457411 original size:48 final size:48
Alignment explanation
Indices: 15457357--15457453 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
15457347 AATTTCACAA
*
15457357 GACTTTCAAATTCACAAGAATTCAAAAATTTGTGAAACTTTTAGATTT
1 GACTTTCAAATTCACAAGAATTCAAAAATTTGTGAAACTTTCAGATTT
*
15457405 GACTTTCAAATTCACAAGAATTCAAAATTTTGTGAAACTTTCAGATTT
1 GACTTTCAAATTCACAAGAATTCAAAAATTTGTGAAACTTTCAGATTT
15457453 G
1 G
15457454 CTAGATTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.37
Consensus pattern (48 bp):
GACTTTCAAATTCACAAGAATTCAAAAATTTGTGAAACTTTCAGATTT
Found at i:15457533 original size:34 final size:33
Alignment explanation
Indices: 15457433--15457536 Score: 95
Period size: 34 Copynumber: 3.1 Consensus size: 33
15457423 AATTCAAAAT
* *
15457433 TTTGTGAAACTTTCAGATTTGCTAG-ATTTAAAGA
1 TTTGT-AAAATTTTAGATTTGC-AGAATTTAAAGA
*
15457467 TTTTTAAAATTTTAGATTTG-AGCAAATTTAAAGA
1 TTTGTAAAATTTTAGATTTGCAG--AATTTAAAGA
** *
15457501 TTTGTAATTTTTTAGATTTGCAAGAATCTAAAGA
1 TTTGTAAAATTTTAGATTTGC-AGAATTTAAAGA
15457535 TT
1 TT
15457537 CACAAGAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
31 2 0.03
33 13 0.22
34 41 0.71
36 2 0.03
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (33 bp):
TTTGTAAAATTTTAGATTTGCAGAATTTAAAGA
Found at i:15462567 original size:40 final size:40
Alignment explanation
Indices: 15462511--15462586 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
15462501 CCTAGTAAAA
* * * *
15462511 ATAAAGGGTTATTATGCACATTATATATACAAAAAACAAC
1 ATAAAGGGTTAGTATGCAAATAATATAAACAAAAAACAAC
15462551 ATAAAGGGTTAGTATGCAAATAATATAAACAAAAAA
1 ATAAAGGGTTAGTATGCAAATAATATAAACAAAAAA
15462587 ATATATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.25
Consensus pattern (40 bp):
ATAAAGGGTTAGTATGCAAATAATATAAACAAAAAACAAC
Found at i:15464671 original size:19 final size:20
Alignment explanation
Indices: 15464640--15464677 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
15464630 CTAAAAAATT
15464640 CAAAATCCAAAAT-TCAAAC
1 CAAAATCCAAAATATCAAAC
15464659 CAAAATACC-AAATATCAAA
1 CAAAAT-CCAAAATATCAAA
15464678 ATAAAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.61, C:0.24, G:0.00, T:0.16
Consensus pattern (20 bp):
CAAAATCCAAAATATCAAAC
Found at i:15465895 original size:38 final size:39
Alignment explanation
Indices: 15465808--15465898 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 39
15465798 CCATTAATAA
* * ***
15465808 CAGATTTGGGCTTTAAAAATTATTTTGGGCCTTCTTTAT
1 CAGATTTGGGCTTTAAAAAGTATTTTAGGCCTTCAAAAT
* *
15465847 CAAATGTGGGCTTT-AAAAGTATTTTAGGCCTTCAAAAT
1 CAGATTTGGGCTTTAAAAAGTATTTTAGGCCTTCAAAAT
15465885 CAGATTTGGGCTTT
1 CAGATTTGGGCTTT
15465899 TAAGCCTAAG
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
38 31 0.72
39 12 0.28
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (39 bp):
CAGATTTGGGCTTTAAAAAGTATTTTAGGCCTTCAAAAT
Found at i:15466708 original size:26 final size:25
Alignment explanation
Indices: 15466650--15466708 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
15466640 CAATTAAATT
*
15466650 AAAATAAAATAGAATTAAAATAAATA
1 AAAAAAAAATAGAATTAAAATAAA-A
* * *
15466676 AATAAAAGATAGAATTAAAA-AAAG
1 AAAAAAAAATAGAATTAAAATAAAA
15466700 AAAAAAAAA
1 AAAAAAAAA
15466709 CAAAAACTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
24 7 0.26
25 3 0.11
26 17 0.63
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (25 bp):
AAAAAAAAATAGAATTAAAATAAAA
Found at i:15466739 original size:20 final size:22
Alignment explanation
Indices: 15466705--15466750 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
15466695 AAAAGAAAAA
*
15466705 AAAACAAAAACTATAACAAA-T
1 AAAACAAAAACTATAAAAAATT
15466726 AAAACAAAAA-TATAAAAAATT
1 AAAACAAAAACTATAAAAAATT
15466747 AAAA
1 AAAA
15466751 TGAATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (22 bp):
AAAACAAAAACTATAAAAAATT
Found at i:15466751 original size:26 final size:26
Alignment explanation
Indices: 15466689--15466781 Score: 73
Period size: 26 Copynumber: 3.5 Consensus size: 26
15466679 AAAAGATAGA
* *
15466689 ATTAAAAAAAGAAAAAAAAACAAAAACT
1 ATTAAAATAA-AACAAAAAACAAAAA-T
* *
15466717 ATAACAAATAAAACAAAAATATAAAAA-
1 ATTA-AAATAAAACAAAAA-ACAAAAAT
* **
15466744 ATTAAAATGAATTAAAAAACAAAAAT
1 ATTAAAATAAAACAAAAAACAAAAAT
15466770 ATTAAAA-AAAAC
1 ATTAAAATAAAAC
15466782 TTGCAAAACA
Statistics
Matches: 50, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
25 8 0.16
26 18 0.36
27 3 0.06
28 10 0.20
29 11 0.22
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.16
Consensus pattern (26 bp):
ATTAAAATAAAACAAAAAACAAAAAT
Found at i:15466773 original size:16 final size:16
Alignment explanation
Indices: 15466726--15466778 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 16
15466716 TATAACAAAT
15466726 AAAACAAAAATA-TAA
1 AAAACAAAAATATTAA
**
15466741 AAAATTAAAATGAATTAA
1 AAAACAAAAAT--ATTAA
15466759 AAAACAAAAATATTAA
1 AAAACAAAAATATTAA
15466775 AAAA
1 AAAA
15466779 AACTTGCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 9 0.29
16 9 0.29
17 1 0.03
18 12 0.39
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (16 bp):
AAAACAAAAATATTAA
Found at i:15476467 original size:39 final size:38
Alignment explanation
Indices: 15476413--15476518 Score: 185
Period size: 39 Copynumber: 2.7 Consensus size: 38
15476403 ATGAAACCAA
15476413 TAAAATCTTAATTAATTAATTAATTAATGTGAACAAGT
1 TAAAATCTTAATTAATTAATTAATTAATGTGAACAAGT
*
15476451 CTAAAATCTTAATTAATTAATTAATTAATGTGAATAAGT
1 -TAAAATCTTAATTAATTAATTAATTAATGTGAACAAGT
15476490 TCAAAATCTTAATTAATTAATTAATTAAT
1 T-AAAATCTTAATTAATTAATTAATTAAT
15476519 TAATTAATGT
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
38 1 0.02
39 64 0.98
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (38 bp):
TAAAATCTTAATTAATTAATTAATTAATGTGAACAAGT
Found at i:15476468 original size:4 final size:4
Alignment explanation
Indices: 15476459--15476526 Score: 61
Period size: 4 Copynumber: 16.2 Consensus size: 4
15476449 GTCTAAAATC
15476459 TTAA TTAA TTAA TTAA TTAA TGTGAA -TAA GTTCAA --AA TCTTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA T-T-AA TTAA -TT-AA TTAA --TTAA TTAA
15476506 TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA T
15476527 GTGAACAAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
2 2 0.04
3 2 0.04
4 43 0.78
5 2 0.04
6 6 0.11
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (4 bp):
TTAA
Found at i:15480859 original size:22 final size:23
Alignment explanation
Indices: 15480818--15480860 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15480808 ATAAACTAGA
15480818 TTCTTTTTTATTTTTCCTCTATT
1 TTCTTTTTTATTTTTCCTCTATT
15480841 TTCTTTCTTT-TTTTT-CTCTA
1 TTCTTT-TTTATTTTTCCTCTA
15480861 AAATCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 11 0.58
24 3 0.16
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (23 bp):
TTCTTTTTTATTTTTCCTCTATT
Found at i:15481032 original size:24 final size:24
Alignment explanation
Indices: 15481005--15481052 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
15480995 TGTTAAAAAC
* *
15481005 TTAAATAATTATTAAATTGTAATT
1 TTAAAAAATTATTAAATTATAATT
15481029 TTAAAAAATTATTAAATTATAATT
1 TTAAAAAATTATTAAATTATAATT
15481053 CAGAGCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TTAAAAAATTATTAAATTATAATT
Found at i:15482799 original size:22 final size:23
Alignment explanation
Indices: 15482782--15482826 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
15482772 TATTATTGAT
15482782 TTTATC-A-TTAAATTTTATTAA
1 TTTATCAATTTAAATTTTATTAA
15482803 TTTATCAATTTAAATTTTTATTAA
1 TTTATCAATTTAAA-TTTTATTAA
15482827 CATTTATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 1 0.05
23 5 0.24
24 9 0.43
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTATCAATTTAAATTTTATTAA
Found at i:15483101 original size:2 final size:2
Alignment explanation
Indices: 15483094--15483127 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15483084 CCTTTATATC
15483094 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
15483128 TATATATATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15491222 original size:173 final size:173
Alignment explanation
Indices: 15490928--15491270 Score: 623
Period size: 173 Copynumber: 2.0 Consensus size: 173
15490918 AAACTCGTAT
15490928 TTAAAAGGTTAATAAACCTAAGCATAATATCATATTTCACATAATATTTAATCTTTTCCTAAAGC
1 TTAAAAGGTTAATAAACCTAAGCATAATATCATATTTCACATAATATTTAATCTTTTCCTAAAGC
*
15490993 TATATTCATTCTCAATCTCTACCTATCATTGGCTTCATAAAGAATTAATCAAAGAAAGCACACTA
66 TATATTCATTCTCAATCTCTACCTATCATTGGCTTCATAAAAAATTAATCAAAGAAAGCACACTA
*
15491058 ATGATTAAGCTACAACAAGTCAAGGTCAATTTCAAGGCAAAAC
131 ATGATTAAGCTACAACAAGTCAAGCTCAATTTCAAGGCAAAAC
*
15491101 TTAAGAGGTTAATAAACCTAAGCATAATATCATATTTCACATAATATTTAATCTTTTCCTAAAGC
1 TTAAAAGGTTAATAAACCTAAGCATAATATCATATTTCACATAATATTTAATCTTTTCCTAAAGC
* *
15491166 TATATTCATTCTCAATCTCTAGCTATCATTGGCTTCATAAAAAATTAATTAAAGAAAGCACACTA
66 TATATTCATTCTCAATCTCTACCTATCATTGGCTTCATAAAAAATTAATCAAAGAAAGCACACTA
* *
15491231 ATGATTAAGCTACAATATGTCAAGCTCAATTTCAAGGCAA
131 ATGATTAAGCTACAACAAGTCAAGCTCAATTTCAAGGCAA
15491271 TACTCAAGGA
Statistics
Matches: 163, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
173 163 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (173 bp):
TTAAAAGGTTAATAAACCTAAGCATAATATCATATTTCACATAATATTTAATCTTTTCCTAAAGC
TATATTCATTCTCAATCTCTACCTATCATTGGCTTCATAAAAAATTAATCAAAGAAAGCACACTA
ATGATTAAGCTACAACAAGTCAAGCTCAATTTCAAGGCAAAAC
Found at i:15493286 original size:10 final size:10
Alignment explanation
Indices: 15493273--15493327 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 10
15493263 TCAATTTTGA
15493273 TCAAACTTGG
1 TCAAACTTGG
*
15493283 TCAAACTTGA
1 TCAAACTTGG
***
15493293 TCAAACAAAG
1 TCAAACTTGG
* *
15493303 TCAAAATTGA
1 TCAAACTTGG
15493313 TCAAACTTGG
1 TCAAACTTGG
15493323 TCAAA
1 TCAAA
15493328 ACATATAGAA
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (10 bp):
TCAAACTTGG
Found at i:15493292 original size:20 final size:20
Alignment explanation
Indices: 15493269--15493328 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
15493259 AAAGTCAATT
*
15493269 TTGATCAAACTTGGTCAAAC
1 TTGATCAAACTTGGTCAAAA
***
15493289 TTGATCAAACAAAGTCAAAA
1 TTGATCAAACTTGGTCAAAA
15493309 TTGATCAAACTTGGTCAAAA
1 TTGATCAAACTTGGTCAAAA
15493329 CATATAGAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (20 bp):
TTGATCAAACTTGGTCAAAA
Found at i:15495495 original size:19 final size:18
Alignment explanation
Indices: 15495454--15495522 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 18
15495444 CCCAAATTTG
15495454 AAACCCTAAACCACTTTT
1 AAACCCTAAACCACTTTT
*
15495472 CAAACCCTAAACCACCTCTT
1 -AAACCCTAAACCA-CTTTT
**
15495492 AAACGTTAAACCATCTTTT
1 AAACCCTAAACCA-CTTTT
*
15495511 AAAACC-AAACCA
1 AAACCCTAAACCA
15495523 ATGGTTAAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 6 0.15
19 31 0.76
20 4 0.10
ACGTcount: A:0.42, C:0.33, G:0.01, T:0.23
Consensus pattern (18 bp):
AAACCCTAAACCACTTTT
Found at i:15497182 original size:13 final size:13
Alignment explanation
Indices: 15497152--15497187 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
15497142 ATTAATGTTT
15497152 AAAAA-AAAAGAG
1 AAAAAGAAAAGAG
15497164 AGAAAAGAAAAGAG
1 A-AAAAGAAAAGAG
15497178 AAAAAGAAAA
1 AAAAAGAAAA
15497188 AAATATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 13 0.59
14 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGAG
Found at i:15497188 original size:14 final size:15
Alignment explanation
Indices: 15497152--15497188 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
15497142 ATTAATGTTT
15497152 AAAA-AAAAAGAGAG
1 AAAAGAAAAAGAGAG
15497166 AAAAG-AAAAGAGA-
1 AAAAGAAAAAGAGAG
15497179 AAAAGAAAAA
1 AAAAGAAAAA
15497189 AATATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAGAG
Found at i:15498043 original size:20 final size:20
Alignment explanation
Indices: 15498018--15498066 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
15498008 TTCACAAGCA
15498018 ACATTTGCAATGTGAAAAGG
1 ACATTTGCAATGTGAAAAGG
15498038 ACATTTGCAATGTGAAAAGG
1 ACATTTGCAATGTGAAAAGG
15498058 ACATTTGCA
1 ACATTTGCA
15498067 TTTGCATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (20 bp):
ACATTTGCAATGTGAAAAGG
Found at i:15504276 original size:22 final size:22
Alignment explanation
Indices: 15504251--15504304 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
15504241 AAGGATCAAG
15504251 CTAAAAATAAAGAGAAATGACA
1 CTAAAAATAAAGAGAAATGACA
**
15504273 CTAAAAATAAAGAGAAATTTCA
1 CTAAAAATAAAGAGAAATGACA
15504295 CTAAAAATAA
1 CTAAAAATAA
15504305 GTAAGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.63, C:0.09, G:0.09, T:0.19
Consensus pattern (22 bp):
CTAAAAATAAAGAGAAATGACA
Found at i:15508815 original size:19 final size:19
Alignment explanation
Indices: 15508725--15508962 Score: 65
Period size: 19 Copynumber: 12.9 Consensus size: 19
15508715 AAAGGTTGAT
15508725 TTTAGGGTTTGAGGG-TT-G
1 TTTAGGGTTT-AGGGTTTAG
*
15508743 GTTAGGGTTTTAAGGGTTTAG
1 TTTAGGG-TTT-AGGGTTTAG
*** * *
15508764 GGGA-GGTTTAAGGTCTAG
1 TTTAGGGTTTAGGGTTTAG
* *
15508782 GTTAGGGTTTGGGGTTTAG
1 TTTAGGGTTTAGGGTTTAG
15508801 TTTAGGGTTTAGGG-TT-G
1 TTTAGGGTTTAGGGTTTAG
*
15508818 ----GGGTTT-TGGTTTAAAG
1 TTTAGGGTTTAGGGTTT--AG
*
15508834 TTTA-GGTTTAAGGTTT-G
1 TTTAGGGTTTAGGGTTTAG
*** *
15508851 TTTTAGGGTTTACATTTTCG
1 -TTTAGGGTTTAGGGTTTAG
* * *
15508871 CTTAGGGCTTAGGGTTTGG
1 TTTAGGGTTTAGGGTTTAG
* * *
15508890 TTTAAGGTTTAGGGGTTGG
1 TTTAGGGTTTAGGGTTTAG
* *
15508909 TTTAAGG-CTA-GGTGTTAG
1 TTTAGGGTTTAGGGT-TTAG
* * *
15508927 TTT-GAGATTTAGGGGTTGG
1 TTTAG-GGTTTAGGGTTTAG
*
15508946 TTTAGGGTTTAAGGTTT
1 TTTAGGGTTTAGGGTTT
15508963 GGATGGTAGT
Statistics
Matches: 160, Mismatches: 39, Indels: 41
0.67 0.16 0.17
Matches are distributed among these distances:
12 2 0.01
13 8 0.05
16 1 0.01
17 4 0.03
18 30 0.19
19 99 0.62
20 13 0.08
21 3 0.02
ACGTcount: A:0.16, C:0.03, G:0.38, T:0.44
Consensus pattern (19 bp):
TTTAGGGTTTAGGGTTTAG
Done.