Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, 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: 13963513
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 99179 characters in sequence are not A, C, G, or T
File 18 of 29
Found at i:6678064 original size:38 final size:38
Alignment explanation
Indices: 6678017--6678123 Score: 109
Period size: 33 Copynumber: 2.9 Consensus size: 38
6678007 TAGGTAAAAC
*
6678017 AAATTAAAATAAAATATATAATATAAAAAATATATTAA-
1 AAATAAAAATAAAATATAT-ATATAAAAAATATATTAAT
* *
6678055 AAATAAAAAT--AA-A-ATATA-AAAAATTATAATAAT
1 AAATAAAAATAAAATATATATATAAAAAATATATTAAT
* *
6678088 AAATAAAAATAAAATATATGACATTAAAAATATATT
1 AAATAAAAATAAAATATAT-ATATAAAAAATATATT
6678124 TAAGAGATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
32 12 0.22
33 13 0.24
34 2 0.04
35 3 0.05
36 3 0.05
37 2 0.04
38 11 0.20
39 9 0.16
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (38 bp):
AAATAAAAATAAAATATATATATAAAAAATATATTAAT
Found at i:6678066 original size:29 final size:31
Alignment explanation
Indices: 6678034--6678099 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 31
6678024 AATAAAATAT
*
6678034 ATAATATAAAAAA-TATATTAA-AAATAAAA
1 ATAATATAAAAAATTATAATAATAAATAAAA
6678063 ATAAAATATAAAAAATTATAATAATAAATAAAA
1 AT--AATATAAAAAATTATAATAATAAATAAAA
6678096 ATAA
1 ATAA
6678100 AATATATGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 2 0.06
31 13 0.41
32 7 0.22
33 10 0.31
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (31 bp):
ATAATATAAAAAATTATAATAATAAATAAAA
Found at i:6678345 original size:15 final size:15
Alignment explanation
Indices: 6678322--6678378 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
6678312 TTATGTTCCC
* *
6678322 TGTAGTCACATTGCT
1 TGTAATCACATTACT
6678337 TGTAATCACATTACT
1 TGTAATCACATTACT
* *
6678352 TGCAATCACATTACC
1 TGTAATCACATTACT
6678367 TGTAATCACATT
1 TGTAATCACATT
6678379 GCATTGTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.37
Consensus pattern (15 bp):
TGTAATCACATTACT
Found at i:6678772 original size:13 final size:13
Alignment explanation
Indices: 6678751--6678786 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
6678741 AAAAATAAGA
*
6678751 AAAAATAAATTAT
1 AAAATTAAATTAT
6678764 AAAATTAAATTAT
1 AAAATTAAATTAT
6678777 AAAATTAAAT
1 AAAATTAAAT
6678787 AAATAAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATTAAATTAT
Found at i:6678891 original size:202 final size:200
Alignment explanation
Indices: 6678615--6679127 Score: 615
Period size: 200 Copynumber: 2.5 Consensus size: 200
6678605 TTTTTTAAAA
* * * * * **
6678615 AAAATCAAAAGTGGCTTT-TTGAGAATATCTAGGTAAGAGAAGTTTTCAAAATTTTACCATGAGC
1 AAAACCAAAAGTGG-TTTCTTGAGAATTTCTAGATGAGAGAATTTTTCAAAATTTTACCATGAAA
* *
6678679 GTTTGGGAGATTTTGAAAAATTTGT-AATATCAAGAATTTTTATTTCCAAAAACCAATAAAATAA
65 GTTAGGGAGATTTTGAAAAATTT-TCAATATCAAGAATTTTTATTTCAAAAAACCAATAAAAT--
* *
6678743 AAATAAG-AAAAAATAAATTATAAA-ATTAAATTATAAAATTAAATAAATAAGTTTTCCAATTAT
127 AAA-AAGCAAAAAATAAATTA-AAAGATAAAATTATAAAATTAAATAAATAAGTTTTCCAATGAT
6678806 GAAATCTCAAG
190 GAAATCTCAAG
* * * *
6678817 AAAGCCAAAAGTTGTTTCTTGAGAATTTCTAGATGAGAGAATTTTTCAAATTTTTTCCATGAAAG
1 AAAACCAAAAGTGGTTTCTTGAGAATTTCTAGATGAGAGAATTTTTCAAAATTTTACCATGAAAG
* *
6678882 TTAGGGAGATTTTGAAAAATTTTCAATATCAAGAGTTTTTATTTCAAAAAACCAATAAAATATAA
66 TTAGGGAGATTTTGAAAAATTTTCAATATCAAGAATTTTTATTTCAAAAAACCAATAAAATAAAA
* *
6678947 AGCAAAAAATAAATTAAAAGATAAAATTATATAATTAAATAAGTAAGTTTTCCAATGATGAAATC
131 AGCAAAAAATAAATTAAAAGATAAAATTATAAAATTAAATAAATAAGTTTTCCAATGATGAAATC
6679012 TCAAG
196 TCAAG
* * * * * *
6679017 AAAACCAAAAGTGGCTTCTTGTGAATTTTTA-AGTGAGAGAA-TTTTCTAAAATATTACCCTGAG
1 AAAACCAAAAGTGGTTTCTTGAGAATTTCTAGA-TGAGAGAATTTTTC-AAAATTTTACCATGAA
* *** * *
6679080 TGTTTCAGAGATTTTGGAAATTTTTCAATATCAAGAAATATTTTATTT
64 AGTTAGGGAGATTTTGAAAAATTTTCAATATCAAG-AAT-TTTTATTT
6679128 ATTTCAAAAA
Statistics
Matches: 267, Mismatches: 36, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
199 12 0.04
200 135 0.51
201 6 0.02
202 114 0.43
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.35
Consensus pattern (200 bp):
AAAACCAAAAGTGGTTTCTTGAGAATTTCTAGATGAGAGAATTTTTCAAAATTTTACCATGAAAG
TTAGGGAGATTTTGAAAAATTTTCAATATCAAGAATTTTTATTTCAAAAAACCAATAAAATAAAA
AGCAAAAAATAAATTAAAAGATAAAATTATAAAATTAAATAAATAAGTTTTCCAATGATGAAATC
TCAAG
Found at i:6683491 original size:3 final size:3
Alignment explanation
Indices: 6683483--6683532 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
6683473 TCCCTCATCT
6683483 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6683531 TT
1 TT
6683533 TGCTCTTGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:6697022 original size:2 final size:2
Alignment explanation
Indices: 6697015--6697039 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6697005 TCCAAAAAGA
6697015 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
6697040 AATAATCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:6699243 original size:28 final size:29
Alignment explanation
Indices: 6699174--6699245 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 29
6699164 CTTCATCCAC
6699174 TAGAAGTGGGTGAAT-CTTTTTAACCCAT
1 TAGAAGTGGGTGAATACTTTTTAACCCAT
* * * * * *
6699202 CAAAAATAGATGAATAC-TTTTAACTCAT
1 TAGAAGTGGGTGAATACTTTTTAACCCAT
6699230 TAGAAGTGGGTGAATA
1 TAGAAGTGGGTGAATA
6699246 ATGAAGAGAT
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (29 bp):
TAGAAGTGGGTGAATACTTTTTAACCCAT
Found at i:6717049 original size:2 final size:2
Alignment explanation
Indices: 6717042--6717070 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6717032 CAGCATTCAT
6717042 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6717071 TATTCTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6721997 original size:17 final size:18
Alignment explanation
Indices: 6721965--6722001 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6721955 AATTTTAAAA
6721965 ATTTTCTAACAAAATTTT
1 ATTTTCTAACAAAATTTT
*
6721983 ATTTTTTAA-AAAATTTT
1 ATTTTCTAACAAAATTTT
6722000 AT
1 AT
6722002 AATTTTTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTCTAACAAAATTTT
Found at i:6730348 original size:5 final size:5
Alignment explanation
Indices: 6730338--6730362 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6730328 ATGAAACCCT
6730338 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
6730363 CAGAAGTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:6742078 original size:19 final size:19
Alignment explanation
Indices: 6742054--6742091 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6742044 TTGGCTGTGT
6742054 AGAATATGACAAAGTTTCA
1 AGAATATGACAAAGTTTCA
6742073 AGAATATGACAAAGTTTCA
1 AGAATATGACAAAGTTTCA
6742092 GGAAGAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (19 bp):
AGAATATGACAAAGTTTCA
Found at i:6751327 original size:13 final size:13
Alignment explanation
Indices: 6751296--6751328 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6751286 ATTTTGAAAT
*
6751296 TATTTTTCTTTTC
1 TATTTTTCTTTTA
6751309 TATTTTTCTTTTA
1 TATTTTTCTTTTA
6751322 T-TTTTTC
1 TATTTTTC
6751329 AGCTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (13 bp):
TATTTTTCTTTTA
Found at i:6751694 original size:25 final size:26
Alignment explanation
Indices: 6751668--6751715 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
6751658 GATAAATTTA
6751668 AAAAT-TTATATT-TAAATTATTAAT
1 AAAATGTTATATTATAAATTATTAAT
*
6751692 AAAATGTTATATTATAATTTATTA
1 AAAATGTTATATTATAAATTATTA
6751716 TAATTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 7 0.33
26 9 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
AAAATGTTATATTATAAATTATTAAT
Found at i:6758921 original size:17 final size:18
Alignment explanation
Indices: 6758889--6758922 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6758879 CATTACTCCT
*
6758889 TATTTGATAGAATATCTG
1 TATTTAATAGAATATCTG
6758907 TATTTAATA-AATATCT
1 TATTTAATAGAATATCT
6758923 AATTAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (18 bp):
TATTTAATAGAATATCTG
Found at i:6764980 original size:2 final size:2
Alignment explanation
Indices: 6764973--6765003 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6764963 ATGTAATTCT
*
6764973 TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6765004 TTTTTGCAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:6767014 original size:3 final size:3
Alignment explanation
Indices: 6767006--6767031 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6766996 GAAAGAAAAG
6767006 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
6767032 ATCCAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6778552 original size:25 final size:25
Alignment explanation
Indices: 6778524--6778575 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
6778514 AGACAACGTT
* * *
6778524 ACAAACAAATTTATTGAACAAAGTG
1 ACAAACAAATTTACTAAACAAAATG
*
6778549 ACAAACGAATTTACTAAACAAAATG
1 ACAAACAAATTTACTAAACAAAATG
6778574 AC
1 AC
6778576 CCAATATACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (25 bp):
ACAAACAAATTTACTAAACAAAATG
Found at i:6779968 original size:87 final size:87
Alignment explanation
Indices: 6779877--6780052 Score: 334
Period size: 87 Copynumber: 2.0 Consensus size: 87
6779867 ACGCTCCAAA
*
6779877 CACATAAACAATGTAAATAGACAATGTGAAATGTTAAAAATACCCTTTTTCATGCTACCTCTTTT
1 CACATAAACAATGTAAATAGACAATGTGAAATGCTAAAAATACCCTTTTTCATGCTACCTCTTTT
6779942 CACCATTTTCTTTTCATTTTTT
66 CACCATTTTCTTTTCATTTTTT
6779964 CACATAAACAATGTAAATAGACAATGTGAAATGCTAAAAATACCCTTTTTCATGCTACCTCTTTT
1 CACATAAACAATGTAAATAGACAATGTGAAATGCTAAAAATACCCTTTTTCATGCTACCTCTTTT
*
6780029 CACTATTTTCTTTTCATTTTTT
66 CACCATTTTCTTTTCATTTTTT
6780051 CA
1 CA
6780053 AGTCAACTGG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (87 bp):
CACATAAACAATGTAAATAGACAATGTGAAATGCTAAAAATACCCTTTTTCATGCTACCTCTTTT
CACCATTTTCTTTTCATTTTTT
Found at i:6780362 original size:15 final size:15
Alignment explanation
Indices: 6780313--6780364 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
6780303 TGGAATAGTG
6780313 TAATAATTTTTAAAAT
1 TAATAA-TTTTAAAAT
* *
6780329 TTATAA-TTTATAAT
1 TAATAATTTTAAAAT
6780343 GTAATAATTTTAAAAT
1 -TAATAATTTTAAAAT
6780359 TAATAA
1 TAATAA
6780365 AAAGTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 7 0.23
15 11 0.37
16 12 0.40
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
TAATAATTTTAAAAT
Found at i:6784610 original size:3 final size:3
Alignment explanation
Indices: 6784604--6784654 Score: 93
Period size: 3 Copynumber: 16.7 Consensus size: 3
6784594 CTCTTCTTCT
6784604 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
6784653 TT
1 TT
6784655 GTTGGCCTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6800004 original size:2 final size:2
Alignment explanation
Indices: 6799997--6800023 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6799987 GTTGACCAAG
6799997 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6800024 AGTAGAGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6805814 original size:76 final size:76
Alignment explanation
Indices: 6805643--6805817 Score: 178
Period size: 76 Copynumber: 2.3 Consensus size: 76
6805633 GTAAAAGATG
* *
6805643 TGTGACATTCTAATTATACATTAAGGTATAATGATGCCAATATGTAAATACCATCAAGGCTCATA
1 TGTGACATTCT-ATTATACATTAAGATATAATAATGCCAATA-GTAAATACCATCAAGGCTCATA
*
6805708 TGACAGGTGAGCA
64 TGACAGCTGAGCA
* ** *
6805721 TGTAGTA-TTTCTATTATACATTAAGATATAATAATGTTAATA-TAAATACCATTAAGG-TCTAT
1 TGT-G-ACATTCTATTATACATTAAGATATAATAATGCCAATAGTAAATACCATCAAGGCTC-AT
* *
6805783 ATGATAGCT-AGGTA
63 ATGACAGCTGA-GCA
6805797 TGTGACATTCCTATTATACAT
1 TGTGACATT-CTATTATACAT
6805818 GAAGGTACAA
Statistics
Matches: 81, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
74 1 0.01
75 6 0.07
76 39 0.48
78 29 0.36
79 5 0.06
80 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (76 bp):
TGTGACATTCTATTATACATTAAGATATAATAATGCCAATAGTAAATACCATCAAGGCTCATATG
ACAGCTGAGCA
Found at i:6807197 original size:23 final size:23
Alignment explanation
Indices: 6807170--6807256 Score: 93
Period size: 23 Copynumber: 3.8 Consensus size: 23
6807160 ACACGTCTGG
* *
6807170 TAAAACACAACAGACACATCTAT
1 TAAAACACAACAGACACATTTGT
* * *
6807193 AAAAACATAATAGACACATTTGT
1 TAAAACACAACAGACACATTTGT
* * *
6807216 TGAAACATAATAGACACATTTGT
1 TAAAACACAACAGACACATTTGT
*
6807239 TAAAACACAACAAACACA
1 TAAAACACAACAGACACA
6807257 GCTTTTCAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.21
Consensus pattern (23 bp):
TAAAACACAACAGACACATTTGT
Found at i:6809720 original size:34 final size:34
Alignment explanation
Indices: 6809677--6809775 Score: 148
Period size: 34 Copynumber: 3.0 Consensus size: 34
6809667 CTTGTTTGAT
6809677 AAAAGTTGTTGTAAATTGTTGAAATATTGAATGC
1 AAAAGTTGTTGTAAATTGTTGAAATATTGAATGC
* *
6809711 AAAAGTTGTTGTAAGTTGTTGAAATATTGAATGT
1 AAAAGTTGTTGTAAATTGTTGAAATATTGAATGC
* *
6809745 AAAAGTTGTTG-AAA-TATTAAAATATTGAATG
1 AAAAGTTGTTGTAAATTGTTGAAATATTGAATG
6809776 GACATAAAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 15 0.25
33 2 0.03
34 43 0.72
ACGTcount: A:0.40, C:0.01, G:0.20, T:0.38
Consensus pattern (34 bp):
AAAAGTTGTTGTAAATTGTTGAAATATTGAATGC
Found at i:6814801 original size:5 final size:5
Alignment explanation
Indices: 6814786--6814863 Score: 63
Period size: 5 Copynumber: 16.0 Consensus size: 5
6814776 ATTAAAATAA
* * * *
6814786 AAAAT TAAAT AAAAT -ATAT AATAT AAAAAT TAAA- -AAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
* * *
6814834 AAAAC AAAAT AAAAT AAAAG AAATT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
6814864 TTATATAATA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
3 3 0.05
4 3 0.05
5 48 0.83
6 4 0.07
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:6814811 original size:26 final size:26
Alignment explanation
Indices: 6814782--6814852 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
6814772 TATAATTAAA
* *
6814782 ATAAAAAATTAAATAAAATATATAAT
1 ATAAAAAATTAAATAAAAAATAAAAT
*
6814808 AT-AAAAATTAAAAAATAAAATAAAAT
1 ATAAAAAATTAAATAA-AAAATAAAAT
* *
6814834 AAAACAAAATAAAATAAAA
1 ATAA-AAAATTAAATAAAA
6814853 GAAATTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
25 12 0.33
26 11 0.31
27 3 0.08
28 10 0.28
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (26 bp):
ATAAAAAATTAAATAAAAAATAAAAT
Found at i:6814829 original size:33 final size:30
Alignment explanation
Indices: 6814772--6814834 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 30
6814762 TTTATCATAT
*
6814772 TATAATTAAAATAAAAAATTAAATAAAATA
1 TATAATTAAAATAAAAAATAAAATAAAATA
6814802 TATAATATAAAAATTAAAAAATAAAATAAAATA
1 TATAAT-T-AAAA-TAAAAAATAAAATAAAATA
6814835 AAACAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 6 0.21
31 1 0.03
32 4 0.14
33 18 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (30 bp):
TATAATTAAAATAAAAAATAAAATAAAATA
Found at i:6814848 original size:33 final size:32
Alignment explanation
Indices: 6814778--6814863 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 32
6814768 ATATTATAAT
* * * *
6814778 TAAAA-TAAAAAATTAAATAAAATATATAATA
1 TAAAATTAAAAAATAAAATAAAATAAACAAAA
6814809 TAAAAATTAAAAAATAAAATAAAATAAAACAAAA
1 T-AAAATTAAAAAATAAAATAAAAT-AAACAAAA
*
6814843 TAAAATAAAAGAAATTAAAAT
1 TAAAATTAAA-AAA-TAAAAT
6814864 TTATATAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
31 1 0.02
32 4 0.09
33 25 0.56
34 9 0.20
35 6 0.13
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (32 bp):
TAAAATTAAAAAATAAAATAAAATAAACAAAA
Found at i:6821412 original size:31 final size:30
Alignment explanation
Indices: 6821377--6821436 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
6821367 TTTAACTATT
*
6821377 TATTTGACAACCAAATAAAAATATAAAAATA
1 TATTTGAC-ACAAAATAAAAATATAAAAATA
* *
6821408 TATTTGACTCAAAATAAAAGTATAAAAAT
1 TATTTGACACAAAATAAAAATATAAAAAT
6821437 TTGATTGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.28
Consensus pattern (30 bp):
TATTTGACACAAAATAAAAATATAAAAATA
Found at i:6832459 original size:20 final size:20
Alignment explanation
Indices: 6832417--6832459 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
6832407 AACACTATAT
*
6832417 AAATTTTTATTTTTCATTTA
1 AAATTTTTATTTTTCATTAA
*
6832437 AAATTTTTTTTCTTTC-TTAA
1 AAATTTTTATT-TTTCATTAA
6832457 AAA
1 AAA
6832460 AAAATCTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (20 bp):
AAATTTTTATTTTTCATTAA
Found at i:6841019 original size:17 final size:17
Alignment explanation
Indices: 6840997--6841058 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
6840987 ATAATGTAAA
6840997 TAATTTTTAAATTTATT
1 TAATTTTTAAATTTATT
*
6841014 TAATTTATTTAAAAATTATT
1 TAA-TT-TTT-AAATTTATT
* *
6841034 TAAGTTTTAATTTTATTT
1 TAATTTTTAAATTTA-TT
6841052 TAATTTT
1 TAATTTT
6841059 AATTTTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
17 8 0.22
18 13 0.36
19 4 0.11
20 11 0.31
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TAATTTTTAAATTTATT
Found at i:6841052 original size:11 final size:12
Alignment explanation
Indices: 6841032--6841066 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
6841022 TTAAAAATTA
6841032 TTTAAGTTTTAAT
1 TTTAA-TTTTAAT
6841045 TTT-ATTTTAAT
1 TTTAATTTTAAT
6841056 TTTAATTTTAA
1 TTTAATTTTAA
6841067 ATTATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.48
12 8 0.38
13 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (12 bp):
TTTAATTTTAAT
Found at i:6841057 original size:6 final size:6
Alignment explanation
Indices: 6841032--6841066 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
6841022 TTAAAAATTA
6841032 TTTAAGT TTTAAT TTT-AT TTTAAT TTTAAT TTTAA
1 TTTAA-T TTTAAT TTTAAT TTTAAT TTTAAT TTTAA
6841067 ATTATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (6 bp):
TTTAAT
Found at i:6841059 original size:17 final size:18
Alignment explanation
Indices: 6841032--6841065 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6841022 TTAAAAATTA
6841032 TTTAAGTTTTAATTTTAT
1 TTTAAGTTTTAATTTTAT
6841050 TTTAA-TTTTAATTTTA
1 TTTAAGTTTTAATTTTA
6841066 AATTATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTAAGTTTTAATTTTAT
Found at i:6841993 original size:30 final size:30
Alignment explanation
Indices: 6841941--6841998 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
6841931 AAAAATATTT
6841941 TTAAAATTTTATTAATATTAAATAATTAAAA
1 TTAAAATTTTATTAATATTAAAT-ATTAAAA
*
6841972 TTAAAATTTTTTTAA-ATTAAATATTAA
1 TTAAAATTTTATTAATATTAAATATTAA
6841999 TATTCACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 7 0.27
31 14 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
TTAAAATTTTATTAATATTAAATATTAAAA
Found at i:6855265 original size:17 final size:17
Alignment explanation
Indices: 6855245--6855277 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6855235 ATATTTTCAA
6855245 GTTT-CAAATATTTAATG
1 GTTTACAAAT-TTTAATG
6855262 GTTTACAAATTTTAAT
1 GTTTACAAATTTTAAT
6855278 TTATTAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (17 bp):
GTTTACAAATTTTAATG
Found at i:6855771 original size:502 final size:495
Alignment explanation
Indices: 6854792--6856184 Score: 1422
Period size: 502 Copynumber: 2.8 Consensus size: 495
6854782 NNNNNNNAAT
* * *
6854792 AGTAATGAT-AAAATAATTATAATAAAAAATAATAGTT-ATAAAACTTTTACGTAAAGC-AGTAA
1 AGTAAGGATAAAAATAATTATAAT-AAAAATAGTAGTTGA-AAAAC-TTTACATAAA-CTAGTAA
* * * * * * *
6854854 GAATTAACGTAAAATATTATCAATGTGAAACAAGTTTTGTCAAAATATTGATTTAAATGTAT-TG
62 GAATTAATGTAAAAAATTAT-AAAGTG-AACAAATATTGTAAAAATATTGATATAAA--TATGTG
* * *
6854918 -GATTTAATGTAACAAATGAATTATGTTAAATAAAAATAATTTTTTTAAAAA-AAACATTTAAAT
123 AGATTTAATGTAAAAAATCAATTATGTT-AATAAATATAATTTTTTTAAAAATAAAC-TTTAAAT
* * * *
6854981 TTATATTCTCAAGTTTAAAGTATTTAATAGTTTATAAATTTTAATTTATAAAGGAAAAATAGTAA
186 TTATATTCT-TAGTTTAAAGTATTTAA-AGTTTACAAATTTTAATTTATAAATGAATAATAGTAA
* * * *
6855046 GGATAAAAATAATT-TTTGTGAAAATTAGTAGTTGAAAAACTTTGATAG-AAAGCAATAAGAATT
249 GGATAAAAATAATTATAT-TGAAAATTAGTAGTTGAAAAACCTTAAT-GTAAAGCAGTAAGAATT
* * * *** * *
6855109 AATGTAAAACATTATGAAGGTAGAACAA-CCCCGATCAAAATATTGATGTAAACGTTTAAGATTG
312 AATGTAAAAAATTATAAAAGTAGAACAAGCATTGATC-AAATATTGATGTAAACGTGTAAGATTT
* * * * *
6855173 AACT-TAGCAAGTGAATTATATAAAATAAATATAATTTGTTTAAAAAATAAATATTTAAATTTAT
376 AA-TATAACAAGTCAATTATATAAAATAAAAATAATTTGTTTAAAAAATAAACATCTAAATTTAT
* * * *
6855237 ATTTTCAAGTTTCAAATATTTAATGGTTTACAAATTTTAATTTATTAATGAATAGC
440 ATTTTCAAGTTTCAAATATTGAACGGTTTACAAATTTTAATTTATAAATGAATAAC
* * *
6855293 AGTAAGGATAAAAATAATTATAGTAAAAATTAGTAGTTGAAAAACTTTGGCATAAATTAGTAAGA
1 AGTAAGGATAAAAATAATTATAATAAAAA-TAGTAGTTGAAAAACTTT-ACATAAACTAGTAAGA
*
6855358 ATTAATGTAAAAAATTATATAAGTAGAACAAATATTGTTAAAATATTGATATAAATATGTGAGAT
64 ATTAATGTAAAAAATTATA-AAGT-GAACAAATATTGTAAAAATATTGATATAAATATGTGAGAT
* ** * *
6855423 TTAACGTAGTAAGTCAATTATGTTATATAAATATAATTTTTTGAAAACATAAACTTCTAAATTTA
127 TTAATGTAAAAAATCAATTATGTTA-ATAAATATAATTTTTTTAAAA-ATAAACTT-TAAATTTA
* * *
6855488 TATTCTTGAGTTTAAAGTATTGAACAGTTAACAAATTTTAATTTATAAATGAATAATAATAAGGA
189 TATTCTT-AGTTTAAAGTATTTAA-AGTTTACAAATTTTAATTTATAAATGAATAATAGTAAGGA
* * * **
6855553 TAAAAATAATTATATTAAAAATTAGTGGTTGAAAAACCTTAATGTAAAGTAGTAAGAATTAACAT
252 TAAAAATAATTATATTGAAAATTAGTAGTTGAAAAACCTTAATGTAAAGCAGTAAGAATTAATGT
* * *
6855618 AAAAAATTATAAAAGTAGAACAAGAATTG-TCAAATATTAACGTAAACGTGTAAGATTTAATATA
317 AAAAAATTATAAAAGTAGAACAAGCATTGATCAAATATTGATGTAAACGTGTAAGATTTAATATA
* * *
6855682 ACAAGTCAATTATGTCAAATAAAAATAATTT-TTTAAAAATTAAACATCTAAATTTATATTCTT-
382 ACAAGTCAATTATATAAAATAAAAATAATTTGTTTAAAAAATAAACATCTAAATTTATATT-TTC
* *
6855745 GAGTTT-AAAGTATTGAACGGTTTACAAATTTTAATTTATAAATGAATAAT
446 AAGTTTCAAA-TATTGAACGGTTTACAAATTTTAATTTATAAATGAATAAC
* * * * *
6855795 AGTAAGGATAAAAATAGTTTTAATGAAAAATAGCAATTGAAAAACCTTTATATAAACCT-GTAAG
1 AGTAAGGATAAAAATAATTATAAT-AAAAATAGTAGTTGAAAAA-CTTTACATAAA-CTAGTAAG
* * * ** *
6855859 AATTAATGTACAAAATGGTA-AAAGGGGAACAATTATTGTAAAAATATTGACGTAAACATGTGAG
63 AATTAATGTAAAAAAT--TATAAA-GTGAACAAATATTGTAAAAATATTGATATAAATATGTGAG
* * * * * * *
6855923 ATTTAATATAAAAAATTAATTAAGTCGAATAAATATATTTTTTTTTAAAATTAGACTTTTAAATT
125 ATTTAATGTAAAAAATCAATTATGT-TAATAAATATA-ATTTTTTTAAAAATAAAC-TTTAAATT
* * * *
6855988 TTTATTCTATAGTTTAAATTATTTAATGATTTACAAATTTTAATCTAT-AATGAATAATAGTAAG
187 TATATTCT-TAGTTTAAAGTATTTAAAG-TTTACAAATTTTAATTTATAAATGAATAATAGTAAG
* * *
6856052 GAT-AAAATAAGTATAGTGAAAATTAGTTA-TTGAAAAACCTTAATATAAA-CATGTAAGAATTA
250 GATAAAAATAATTATATTGAAAATTAG-TAGTTGAAAAACCTTAATGTAAAGCA-GTAAGAATTA
* * * * * * *
6856114 ATGTAATAAATTATAAAAGTAGAAGAGGCATTGTTAAAATATTGATGTAAATGTGTCAGATTTAA
313 ATGTAAAAAATTATAAAAGTAGAACAAGCATTGATCAAATATTGATGTAAACGTGTAAGATTTAA
*
6856179 CATAAC
378 TATAAC
6856185 TACTCATAAT
Statistics
Matches: 744, Mismatches: 114, Indels: 68
0.80 0.12 0.07
Matches are distributed among these distances:
499 1 0.00
500 79 0.11
501 74 0.10
502 357 0.48
503 87 0.12
504 143 0.19
505 3 0.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (495 bp):
AGTAAGGATAAAAATAATTATAATAAAAATAGTAGTTGAAAAACTTTACATAAACTAGTAAGAAT
TAATGTAAAAAATTATAAAGTGAACAAATATTGTAAAAATATTGATATAAATATGTGAGATTTAA
TGTAAAAAATCAATTATGTTAATAAATATAATTTTTTTAAAAATAAACTTTAAATTTATATTCTT
AGTTTAAAGTATTTAAAGTTTACAAATTTTAATTTATAAATGAATAATAGTAAGGATAAAAATAA
TTATATTGAAAATTAGTAGTTGAAAAACCTTAATGTAAAGCAGTAAGAATTAATGTAAAAAATTA
TAAAAGTAGAACAAGCATTGATCAAATATTGATGTAAACGTGTAAGATTTAATATAACAAGTCAA
TTATATAAAATAAAAATAATTTGTTTAAAAAATAAACATCTAAATTTATATTTTCAAGTTTCAAA
TATTGAACGGTTTACAAATTTTAATTTATAAATGAATAAC
Found at i:6855810 original size:250 final size:250
Alignment explanation
Indices: 6854789--6856184 Score: 1280
Period size: 252 Copynumber: 5.6 Consensus size: 250
6854779 NNNNNNNNNN
* * * * * * **
6854789 AATAGTAATGAT-AAAATAATTATAATAAAAAATAATAGTT-ATAAAACTTTTACGTAAAGCAGT
1 AATAGTAAGGATAAAAATAATTATATTAAAAATTAGTAGTTGA-AAAACCTTAATATAAAGCAGT
* * * * ** * * * *
6854852 AAGAATTAACGTAAAATATTATCAATGT-GAAACAAGTTTTGTCAAAATATTGATTTAAATGTAT
65 AAGAATTAATGTAAAAAATTATAAAAGTAG-AACAAGAATTGTTAAAATATTGATGTAAACGTGT
** * * * * *
6854916 TGGATTTAATGTAACAAATGAATTATGTTAAATAAAAATAATTTTTTTAAAAA-AAACATTTAAA
129 AAGATTTAATATAACAAGTCAATTATGTCAAATAAATATAA-TTTTTTAAAAATAAACATTTAAA
* * * * *
6854980 TTTATATTCTCAAGTTTAAAGTATTTAATAGTTTATAAATTTTAATTTATAAAGGAAA
193 TTTATATTCTTAAGTTTAAAGTATTTAATGGTTTACAAATTTTAATTTATAAATGAAT
* * * * * *
6855038 AATAGTAAGGATAAAAATAATT-TTTGTGAAAATTAGTAGTTGAAAAACTTTGATAGAAAGCAAT
1 AATAGTAAGGATAAAAATAATTATAT-TAAAAATTAGTAGTTGAAAAACCTTAATATAAAGCAGT
* * * **** * *
6855102 AAGAATTAATGTAAAACATTATGAAGGTAGAACAA-CCCCGATCAAAATATTGATGTAAACGTTT
65 AAGAATTAATGTAAAAAATTATAAAAGTAGAACAAGAATTG-TTAAAATATTGATGTAAACGTGT
* * * * * *
6855166 AAGATTGAACT-TAGCAAGTGAATTATATAAAATAAATATAATTTGTTTAAAAAATAAATATTTA
129 AAGATTTAA-TATAACAAGTCAATTATGTCAAATAAATATAATTT-TTT-AAAAATAAACATTTA
*
6855230 AATTTATATT-TTCAAGTTTCAAA-TATTTAATGGTTTACAAATTTTAATTTATTAATGAAT
191 AATTTATATTCTT-AAGTTT-AAAGTATTTAATGGTTTACAAATTTTAATTTATAAATGAAT
** * * *** **
6855290 AGCAGTAAGGATAAAAATAATTATAGTAAAAATTAGTAGTTGAAAAACTTTGGCATAAATTAGTA
1 AATAGTAAGGATAAAAATAATTATATTAAAAATTAGTAGTTGAAAAACCTTAATATAAAGCAGTA
* * ** *
6855355 AGAATTAATGTAAAAAATTATATAAGTAGAACAA-ATATTGTTAAAATATTGATATAAATATGTG
66 AGAATTAATGTAAAAAATTATAAAAGTAGAACAAGA-ATTGTTAAAATATTGATGTAAACGTGTA
** ** * *
6855419 AGATTTAACGTAGTAAGTCAATTATGTTATATAAATATAATTTTTTGAAAACATAAAC-TTCTAA
130 AGATTTAATATAACAAGTCAATTATGTCAAATAAATATAATTTTTT-AAAA-ATAAACATT-TAA
* * ** *
6855483 ATTTATATTCTTGAGTTTAAAGTATTGAACAGTTAACAAATTTTAATTTATAAATGAAT
192 ATTTATATTCTTAAGTTTAAAGTATTTAATGGTTTACAAATTTTAATTTATAAATGAAT
* * * *
6855542 AATAATAAGGATAAAAATAATTATATTAAAAATTAGTGGTTGAAAAACCTTAATGTAAAGTAGTA
1 AATAGTAAGGATAAAAATAATTATATTAAAAATTAGTAGTTGAAAAACCTTAATATAAAGCAGTA
** * * *
6855607 AGAATTAACATAAAAAATTATAAAAGTAGAACAAGAATTG-TCAAATATTAACGTAAACGTGTAA
66 AGAATTAATGTAAAAAATTATAAAAGTAGAACAAGAATTGTTAAAATATTGATGTAAACGTGTAA
* *
6855671 GATTTAATATAACAAGTCAATTATGTCAAATAAAAATAATTTTTTAAAAATTAAACATCTAAATT
131 GATTTAATATAACAAGTCAATTATGTCAAATAAATATAATTTTTTAAAAA-TAAACATTTAAATT
* * *
6855736 TATATTCTTGAGTTTAAAGTATTGAACGGTTTACAAATTTTAATTTATAAATGAAT
195 TATATTCTTAAGTTTAAAGTATTTAATGGTTTACAAATTTTAATTTATAAATGAAT
* * * * * * * *
6855792 AATAGTAAGGATAAAAATAGTTTTAATGAAAAA-TAGCAATTGAAAAACCTTTATATAAACCTGT
1 AATAGTAAGGATAAAAATAATTAT-ATTAAAAATTAGTAGTTGAAAAACCTTAATATAAAGCAGT
* ** ** ** * * * *
6855856 AAGAATTAATGTACAAAATGGTAAAAGGGGAACAATTATTGTAAAAATATTGACGTAAACATGTG
65 AAGAATTAATGTAAAAAATTATAAAAGTAGAACAAGAATTGTTAAAATATTGATGTAAACGTGTA
* * * * * * * * *
6855921 AGATTTAATATAAAAAATTAATTAAGTCGAATAAATATATTTTTTTTTAAAATTAGACTTTTAAA
130 AGATTTAATATAACAAGTCAATTATGTCAAATAAATATA--ATTTTTTAAAAATAAACATTTAAA
* * * *
6855986 TTTTTATTC-TATAGTTTAAATTATTTAATGATTTACAAATTTTAATCTAT-AATGAAT
193 TTTATATTCTTA-AGTTTAAAGTATTTAATGGTTTACAAATTTTAATTTATAAATGAAT
* * *
6856043 AATAGTAAGGAT-AAAATAAGTATAGTGAAAATTAGTTA-TTGAAAAACCTTAATATAAA-CATG
1 AATAGTAAGGATAAAAATAATTATATTAAAAATTAG-TAGTTGAAAAACCTTAATATAAAGCA-G
* * * * *
6856105 TAAGAATTAATGTAATAAATTATAAAAGTAGAAGAGGCATTGTTAAAATATTGATGTAAATGTGT
64 TAAGAATTAATGTAAAAAATTATAAAAGTAGAACAAGAATTGTTAAAATATTGATGTAAACGTGT
* *
6856170 CAGATTTAACATAAC
129 AAGATTTAATATAAC
6856185 TACTCATAAT
Statistics
Matches: 940, Mismatches: 178, Indels: 57
0.80 0.15 0.05
Matches are distributed among these distances:
249 23 0.02
250 359 0.38
251 156 0.17
252 384 0.41
253 18 0.02
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (250 bp):
AATAGTAAGGATAAAAATAATTATATTAAAAATTAGTAGTTGAAAAACCTTAATATAAAGCAGTA
AGAATTAATGTAAAAAATTATAAAAGTAGAACAAGAATTGTTAAAATATTGATGTAAACGTGTAA
GATTTAATATAACAAGTCAATTATGTCAAATAAATATAATTTTTTAAAAATAAACATTTAAATTT
ATATTCTTAAGTTTAAAGTATTTAATGGTTTACAAATTTTAATTTATAAATGAAT
Found at i:6858875 original size:2 final size:2
Alignment explanation
Indices: 6858868--6858896 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6858858 CAAATTAGGG
6858868 GA GA GA GA G- GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6858897 AGGGGGAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6863908 original size:15 final size:15
Alignment explanation
Indices: 6863890--6863936 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
6863880 TTCAAAACTT
6863890 TTATTTTTTTAATAA
1 TTATTTTTTTAATAA
**
6863905 TTA-TTTTAAAATAA
1 TTATTTTTTTAATAA
6863919 TT-TTTTATTTAATAA
1 TTATTTT-TTTAATAA
6863934 TTA
1 TTA
6863937 ATAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTTTTTTAATAA
Found at i:6865394 original size:21 final size:22
Alignment explanation
Indices: 6865368--6865408 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6865358 TCAACTACTA
6865368 ATTTTTGCTATAATT-ATTTTT
1 ATTTTTGCTATAATTCATTTTT
*
6865389 ATTTTTGCTATTATTCATTT
1 ATTTTTGCTATAATTCATTT
6865409 AAAAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (22 bp):
ATTTTTGCTATAATTCATTTTT
Found at i:6865737 original size:251 final size:250
Alignment explanation
Indices: 6865277--6866022 Score: 684
Period size: 254 Copynumber: 2.9 Consensus size: 250
6865267 AATTTCACAC
* * * ** * ** * *
6865277 GTTTACATTAATATTTTGACATTACTTAATCCGCCTTTATAATTTTTCACATTAATTTTTACAAC
1 GTTTACATCAATATTTTGATAATACTTGTTCCACCTACATAATTTTTAACATTAATTCTT--AA-
* * * * *
6865342 TTTACGTTAATGTTTT-TCAACTACTAATTTTTGCTATAATTATTTTTATTTTTGCTATTATTCA
63 GTTACGTCAA-GTTTTCTCAACTACTAATTTTTACTATAATTATTTTTATCTTTACTATTATTCA
* * ** * * *
6865406 TTTAAAA-GAAAAATTTTCTAATTGTTAAATATTTTAAACTCGAGAATATAAAATTAAATATTTA
127 TTTAAAATTAAAAATTGT-TAACCGTTAAATACTTTAAACTCAAGAATATAAATTTAAATATTTA
* *
6865470 ATTTTTCAAAAAATTATATTTCTTTGATCTAATTGAGTTATTACATTAATTAAATCTCATTG
191 ATTTTT-AAAAAATTATATTTATTT-ATCTAATTGACTTATTACATTAATTAAATCTCATTG
* * *
6865532 GTTTACATCAATATTTTGATATTGCTTGTTCCACCTACATAATTTTTAACGTTAATTCTT-A-TT
1 GTTTACATCAATATTTTGATAATACTTGTTCCACCTACATAATTTTTAACATTAATTCTTAAGTT
* **
6865595 ATGTCAA-TATTTCTCAACTACTAATTTTTACTATAATTATTTTTATCCATACTATTATTCATTT
66 ACGTCAAGT-TTTCTCAACTACTAATTTTTACTATAATTATTTTTATCTTTACTATTATTCATTT
* * *
6865659 ATAAATTAAAAATTGTAAACCATTAAATACTTTAAACTCAAAAATATAAATTTAAATATTTAAGT
130 A-AAATTAAAAATTGTTAACCGTTAAATACTTTAAACTCAAGAATATAAATTTAAATATTTAA-T
* * *
6865724 TTTTAAAAAATTATATTTATTTAACATTATTGACTTATTAC----ATTAAATCTCATTT
193 TTTTAAAAAATTATATTTATTTATC-TAATTGACTTATTACATTAATTAAATCTCATTG
* * * ** * * *
6865779 GTTTACGTCAATATTTTGATAATACTTGTTCTACTTTTATAATTTTTTATATTAATTTTTAAAGG
1 GTTTACATCAATATTTTGATAATACTTGTTCCACCTACATAATTTTTAACATTAATTCTT-AA-G
* * *** * *
6865844 TTTACGTCAAGGGTTTTTTCAGCGGTTACTTTTTACTGTAATTATTTTTATCTTTACTATTATTC
64 -TTACGTCAA--GTTTTCTCAACTACTAATTTTTACTATAATTATTTTTATCTTTACTATTATTC
* * * * * * * *
6865909 CTTAAAAAATTGAAATTTGTTAACCGTTAATTACTTTAAACTCAAGAATATGAATTTAAATGTAT
126 ATT-TAAAATTAAAAATTGTTAACCGTTAAATACTTTAAACTCAAGAATATAAATTTAAATATTT
* * * *
6865974 AATTTTTAAAAGAA-TATGTTTATTTCATATAATTAATTTATTACATTAA
190 AATTTTTAAAA-AATTATATTTATTT-ATCTAATTGACTTATTACATTAA
6866023 ATCTCAAATG
Statistics
Matches: 399, Mismatches: 71, Indels: 40
0.78 0.14 0.08
Matches are distributed among these distances:
247 62 0.16
248 1 0.00
249 4 0.01
250 56 0.14
251 72 0.18
252 22 0.06
253 31 0.08
254 99 0.25
255 51 0.13
257 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (250 bp):
GTTTACATCAATATTTTGATAATACTTGTTCCACCTACATAATTTTTAACATTAATTCTTAAGTT
ACGTCAAGTTTTCTCAACTACTAATTTTTACTATAATTATTTTTATCTTTACTATTATTCATTTA
AAATTAAAAATTGTTAACCGTTAAATACTTTAAACTCAAGAATATAAATTTAAATATTTAATTTT
TAAAAAATTATATTTATTTATCTAATTGACTTATTACATTAATTAAATCTCATTG
Found at i:6866058 original size:19 final size:19
Alignment explanation
Indices: 6866030--6866066 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6866020 TAAATCTCAA
6866030 ATGTTCATGTCAATATTTG
1 ATGTTCATGTCAATATTTG
*
6866049 ATGTTTATGTCAATATTT
1 ATGTTCATGTCAATATTT
6866067 TGACAATACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (19 bp):
ATGTTCATGTCAATATTTG
Found at i:6868027 original size:252 final size:253
Alignment explanation
Indices: 6867523--6869357 Score: 1818
Period size: 252 Copynumber: 7.3 Consensus size: 253
6867513 AAATAAACAT
* * * * *
6867523 AACATAATTTCTTG-AAAAATTAAACATTTAAATTTATATTTTTGAGTTTAAAGCATTTAA-TGA
1 AACATAATTTTTTGTAAAAAATAAACATTTAAATTTATATTCTTGAGTTTAAAGTATTTAACAG-
* * * * * *
6867586 TTTATAAATTTTAATTTCTAAAAGAACAATAGCAAGGATAAAAATAATTATGGTGAAAATTAATA
65 TTTATAAATTTTAATTTATAAAGGAATAATAGTAAGGATAAAAATAATTATAGTGAAAATTAGTA
* * * * * **
6867651 ATTGAAAAAGC-TTGACGTAAACTTTTAAGAATTAATGCAAAAAGTTATAAAGGTGGAGTAAGAG
130 ATTGAAAAA-CTTTGACATAAACTTGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAA-A-
* * * * **
6867715 TA--GTCAAAATATTAACGTAAATGTATGAGATTTAATTTAAAAAGTCAATTATCCCAAATA
192 TATTGTCAAAATATTAACATAAATGTATGAGATTTAATGTAACAAGTAAATTATGTCAAATA
* * *
6867775 AACATAATTTTTTGTAAAAAATAAATATTTAAATTTATATT-TTCAAGTTTAAAGTATTTAGCAG
1 AACATAATTTTTTGTAAAAAATAAACATTTAAATTTATATTCTT-GAGTTTAAAGTATTTAACAG
* * **
6867839 TTTGA-AAATTTTAAGTTT-GAAAGGAACAATAACAAGGATAAAAATAA-TATAGTGAAAATTAG
65 TTT-ATAAATTTTAA-TTTATAAAGGAATAATAGTAAGGATAAAAATAATTATAGTGAAAATTAG
** * * ** *
6867901 TAATTGAAAAACTTTGATGTCAACTTGTAAGCATTAACGTAAAAAATTATAAAAATGGAACAAAC
128 TAATTGAAAAACTTTGACATAAACTTGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAAT
* * * * * *
6867966 ATTATTAAAATATTAACATAAATATGTTAGATTTAACT-TAACAAGTTAATTATGTCAAATA
193 ATTGTCAAAATATTAACATAAATGTATGAGATTTAA-TGTAACAAGTAAATTATGTCAAATA
* * * *
6868027 AGCATAATTTTTTG-AAAAAGTAAAAATTTAGATTTATATTCTTGAGTTTAAAGTATTTAAC-GA
1 AACATAATTTTTTGTAAAAAATAAACATTTAAATTTATATTCTTGAGTTTAAAGTATTTAACAG-
* ** * *
6868090 TTTATAAATTTTATTTTATAAAAAAATAATAGCAAGGATAAAAATAATAATAGTGAAAATTAGTA
65 TTTATAAATTTTAATTTATAAAGGAATAATAGTAAGGATAAAAATAATTATAGTGAAAATTAGTA
* * * * *
6868155 ATTGAAAAATTTTGACATAAACCTGTGAGAATTAACGTAAAAAATTATAAAGGTGGAATAAGTAT
130 ATTGAAAAACTTTGACATAAACTTGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAATAT
* * * * * *
6868220 TGTTAAAATACTAACGTAAATGTATGAGATTTAATGTAATAAGTGAATTATGTTAAATA
195 TGTCAAAATATTAACATAAATGTATGAGATTTAATGTAACAAGTAAATTATGTCAAATA
* * * * * * *
6868279 AATATAATTTTTT-TAAAAATTATACATTTAAATTTTTAGTGTCGAGTTTAAAGTATTTAA-AGT
1 AACATAATTTTTTGTAAAAAATAAACATTTAAATTTATATTCTTGAGTTTAAAGTATTTAACAGT
* *
6868342 GTTACAAATTTTAATTTATAAATGAATAATAGTAA-GAT-AAAATAATTATAGTGAAAATTAGTA
66 -TTATAAATTTTAATTTATAAAGGAATAATAGTAAGGATAAAAATAATTATAGTGAAAATTAGTA
* * * * * * * * * *
6868405 TTTAAAAAACCTTGACCTAAACCTATAAGAATTAACGTGAAAAATTATAAAGGTAGAATAAGTAT
130 ATTGAAAAACTTTGACATAAACTTGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAATAT
* * *
6868470 TGTCAAAATATTAACATAAATATTTGAGATTTAACGTAACAAGTAAATTATGTCAAAATA
195 TGTCAAAATATTAACATAAATGTATGAGATTTAATGTAACAAGTAAATTATGTC-AAATA
* * * *
6868530 AACATAATGTTTCTG-AAAAAATAAAC------ATTTATATTCTTGAGTTTAAACTATTTAATAA
1 AACATAAT-TTTTTGTAAAAAATAAACATTTAAATTTATATTCTTGAGTTTAAAGTATTTAACAG
* * * *
6868588 TTTACAAATTTTAATTTATAAAGGAATAATAATAAAGATAAAAATAATTATAGTGAAAATTAATA
65 TTTATAAATTTTAATTTATAAAGGAATAATAGTAAGGATAAAAATAATTATAGTGAAAATTAGTA
* * * * * * *
6868653 GTTGAAAAACTTTGACGTAAA-TCTATAAGAATTAATGTAAAAATTTATAAAGGTTGAACAAACA
130 ATTGAAAAACTTTGACATAAACT-TGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAATA
* ** * * * * *
6868717 TTATCAAAATATTAGTATAAATGTGTGAGATTTAATGTAATAAGTGAATTATGTTAAAAAA
194 TTGTCAAAATATTAACATAAATGTATGAGATTTAATGTAACAAGTAAATTATG-TCAAATA
** * * * * *
6868778 AACATAA-CGTTTGGAAAAAATAAATATTTAAATTTGTATTATTGAGTTTAAAGTATTTAACAAT
1 AACATAATTTTTTGTAAAAAATAAACATTTAAATTTATATTCTTGAGTTTAAAGTATTTAACAGT
** * * * *
6868842 TTATAAATTAAAATTTATAAAGGAATAATAATATGGATAAAAATAATTATAATGAAAATTAGTAG
66 TTATAAATTTTAATTTATAAAGGAATAATAGTAAGGATAAAAATAATTATAGTGAAAATTAGTAA
* * * * *
6868907 TTGAAAAACCTTAACAAAAACCTGTAA-AATTAA--TAAAAATAGTTATAAAGGTGGAATAAGA-
131 TTGAAAAACTTTGACATAAACTTGTAAGAATTAACGTAAAAA-A-TTATAAAGGTGGAACAA-AT
* ** *
6868968 ATTGTCAAAATATTGACATAAATGTACAAGATTTAATGTAATAAGTAAATTATGTCAAATA
193 ATTGTCAAAATATTAACATAAATGTATGAGATTTAATGTAACAAGTAAATTATGTCAAATA
* * * *
6869029 AACAT-AGTTTTT-T-AAAAA-AAACATTTAAATTTATATTCTTGAGTTTAATGTATTTAGCAAT
1 AACATAATTTTTTGTAAAAAATAAACATTTAAATTTATATTCTTGAGTTTAAAGTATTTAACAGT
* * * *
6869090 TTACAAATTTTAATTTATAAGGGAATAATAGTAAGGATAAAAATAATTATAGTGAAAATTAATAG
66 TTATAAATTTTAATTTATAAAGGAATAATAGTAAGGATAAAAATAATTATAGTGAAAATTAGTAA
* * * * * * * *
6869155 TTAAAAAACTTTGATATAAAGTAGTAAGAATTAATGTAAAACATTATAGAGGTAGAACAAATATT
131 TTGAAAAACTTTGACATAAACTTGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAATATT
* * ** * * *
6869220 GTCAACATA-TAGACATTAACATATGAGATTTAATGTAACAAGTCAATTACGTTAAATA
196 GTCAAAATATTA-ACATAAATGTATGAGATTTAATGTAACAAGTAAATTATGTCAAATA
* * * *
6869278 AATA-AATTTTTT-TAAAAAATAAACATTTAAATTAATATTCTTTAGTTTAAAGTATTTAGC-GA
1 AACATAATTTTTTGTAAAAAATAAACATTTAAATTTATATTCTTGAGTTTAAAGTATTTAACAG-
6869340 TTTATAAATTTTAATTTA
65 TTTATAAATTTTAATTTA
6869358 NNNNNNNNNN
Statistics
Matches: 1319, Mismatches: 217, Indels: 95
0.81 0.13 0.06
Matches are distributed among these distances:
246 59 0.04
247 15 0.01
248 247 0.19
249 84 0.06
250 144 0.11
251 165 0.13
252 415 0.31
253 185 0.14
254 5 0.00
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.35
Consensus pattern (253 bp):
AACATAATTTTTTGTAAAAAATAAACATTTAAATTTATATTCTTGAGTTTAAAGTATTTAACAGT
TTATAAATTTTAATTTATAAAGGAATAATAGTAAGGATAAAAATAATTATAGTGAAAATTAGTAA
TTGAAAAACTTTGACATAAACTTGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAATATT
GTCAAAATATTAACATAAATGTATGAGATTTAATGTAACAAGTAAATTATGTCAAATA
Found at i:6868549 original size:504 final size:497
Alignment explanation
Indices: 6867523--6869357 Score: 1940
Period size: 501 Copynumber: 3.7 Consensus size: 497
6867513 AAATAAACAT
* * * **
6867523 AACATAATTTCTTGAAAAATTAAACATTTAAATTTATATTTTTGAGTTTAAAGCATTTAATGATT
1 AACATAATTTC-TGAAAAA--AAAAATTTAAATTTATATTCTTGAGTTTAAAGTATTTAACAATT
* * * *
6867588 TATAAATTTTAATTTCTAAAAGAACAATAGCAAGGATAAAAATAATTATGGTGAAAATTAATAAT
63 TACAAATTTTAATTTATAAAAGAATAATAGCAAGGATAAAAATAATTATAGTGAAAATTAATAAT
* * * * * **
6867653 TGAAAAAGC-TTGACGTAAACTTTTAAGAATTAATGCAAAAAGTTATAAAGGTGGAGTAAGAGTA
128 TGAAAAA-CTTTGACATAAACCTGTAAGAATTAATGTAAAAAATTATAAAGGTGGAACAA-A-TA
* * * ***
6867717 --GTCAAAATATTAACGTAAATGTATGAGATTTAATTTAAAAAGTCAATTATCCCAAATAAACAT
190 TTGTCAAAATATTAACATAAATGTATGAGATTTAATGTAATAAGTCAATTATGTTAAATAAACAT
* * * *
6867780 AATTTTTTGTAAAAAATAAATATTTAAATTTATATTTTCAAGTTTAAAGTATTTAGCAGTTTGAA
255 AATTTTTT-TAAAAAATAAACATTTAAATTTATATTATCGAGTTTAAAGTATTTA-AAGTTT-AA
* * *
6867845 AATTTTAAGTTT-GAAAGGAACAATAACAAGGATAAAAATAA-TATAGTGAAAATTAGTAATTGA
317 AATTTTAA-TTTATAAAGGAATAATAATAA-GATAAAAATAATTATAGTGAAAATTAGTAATTGA
* ** * * * ** * * *
6867908 AAAACTTTGATGTCAACTTGTAAGCATTAACGTAAAAAATTATAAAAATGGAACAA-ACATTATT
380 AAAACCTTGACATAAACCTGTAAGAATTAACGTAAAAAATTATAAAGGTGGAATAAGA-ATTGTC
* *
6867972 AAAATATTAACATAAATATGTTAGATTTAACTTAACAAGTTAATTATGTCAAATA
444 AAAATATTAACATAAATAT-TTAGATTTAACGTAACAAGTAAATTATGTCAAATA
* * * *
6868027 AGCATAATTTTTTGAAAAAGTAAAAATTTAGATTTATATTCTTGAGTTTAAAGTATTTAACGATT
1 AACATAA-TTTCTGAAAAA--AAAAATTTAAATTTATATTCTTGAGTTTAAAGTATTTAACAATT
* * * * *
6868092 TATAAATTTTATTTTATAAAAAAATAATAGCAAGGATAAAAATAATAATAGTGAAAATTAGTAAT
63 TACAAATTTTAATTTATAAAAGAATAATAGCAAGGATAAAAATAATTATAGTGAAAATTAATAAT
* * * * *
6868157 TGAAAAATTTTGACATAAACCTGTGAGAATTAACGTAAAAAATTATAAAGGTGGAATAAGTATTG
128 TGAAAAACTTTGACATAAACCTGTAAGAATTAATGTAAAAAATTATAAAGGTGGAACAAATATTG
* * * * *
6868222 TTAAAATACTAACGTAAATGTATGAGATTTAATGTAATAAGTGAATTATGTTAAATAAATATAAT
193 TCAAAATATTAACATAAATGTATGAGATTTAATGTAATAAGTCAATTATGTTAAATAAACATAAT
* * * * *
6868287 TTTTTTAAAAATTATACATTTAAATTTTTAGTGTCGAGTTTAAAGTATTTAAAGTGTTACAAATT
258 TTTTTTAAAAAATAAACATTTAAATTTATATTATCGAGTTTAAAGTATTTAAAGT-TTA-AAATT
* * * *
6868352 TTAATTTATAAATGAATAATAGTAAGAT-AAAATAATTATAGTGAAAATTAGTATTTAAAAAACC
321 TTAATTTATAAAGGAATAATAATAAGATAAAAATAATTATAGTGAAAATTAGTAATTGAAAAACC
* * * * *
6868416 TTGACCTAAACCTATAAGAATTAACGTGAAAAATTATAAAGGTAGAATAAGTATTGTCAAAATAT
386 TTGACATAAACCTGTAAGAATTAACGTAAAAAATTATAAAGGTGGAATAAGAATTGTCAAAATAT
6868481 TAACATAAATATTTGAGATTTAACGTAACAAGTAAATTATGTCAAAATA
451 TAACATAAATATTT-AGATTTAACGTAACAAGTAAATTATGTC-AAATA
* * * *
6868530 AACATAATGTTTCTG-AAAAAATAA---ACATTTATATTCTTGAGTTTAAACTATTTAATAATTT
1 AACATAA--TTTCTGAAAAAAAAAATTTAAATTTATATTCTTGAGTTTAAAGTATTTAACAATTT
* ** * *
6868591 ACAAATTTTAATTTATAAAGGAATAATAATAAAGATAAAAATAATTATAGTGAAAATTAATAGTT
64 ACAAATTTTAATTTATAAAAGAATAATAGCAAGGATAAAAATAATTATAGTGAAAATTAATAATT
* * * * * * *
6868656 GAAAAACTTTGACGTAAATCTATAAGAATTAATGTAAAAATTTATAAAGGTTGAACAAACATTAT
129 GAAAAACTTTGACATAAACCTGTAAGAATTAATGTAAAAAATTATAAAGGTGGAACAAATATTGT
** * * * *
6868721 CAAAATATTAGTATAAATGTGTGAGATTTAATGTAATAAGTGAATTATGTTAAAAAAAACATAAC
194 CAAAATATTAACATAAATGTATGAGATTTAATGTAATAAGTCAATTATGTT-AAATAAACATAAT
* ** * * * *
6868786 GTTTGGAAAAAATAAATATTTAAATTTGTATTATTGAGTTTAAAGTATTTAACAATTTATAAATT
258 TTTTTTAAAAAATAAACATTTAAATTTATATTATCGAGTTTAAAGTATTTAA-AGTTTA-AAATT
** * * *
6868851 AAAATTTATAAAGGAATAATAATATGGATAAAAATAATTATAATGAAAATTAGTAGTTGAAAAAC
321 TTAATTTATAAAGGAATAATAATA-AGATAAAAATAATTATAGTGAAAATTAGTAATTGAAAAAC
* *
6868916 CTTAACAAAAACCTGTAA-AATTAA--TAAAAATAGTTATAAAGGTGGAATAAGAATTGTCAAAA
385 CTTGACATAAACCTGTAAGAATTAACGTAAAAA-A-TTATAAAGGTGGAATAAGAATTGTCAAAA
* * ** * *
6868978 TATTGACATAAATGTACAAGATTTAATGTAATAAGTAAATTATGTCAAATA
448 TATTAACATAAATAT-TTAGATTTAACGTAACAAGTAAATTATGTCAAATA
* * * * * *
6869029 AACATAGTTTTTTAAAAAAAACATTTAAATTTATATTCTTGAGTTTAATGTATTTAGCAATTTAC
1 AACATAATTTCTGAAAAAAAAAATTTAAATTTATATTCTTGAGTTTAAAGTATTTAACAATTTAC
** * * *
6869094 AAATTTTAATTTATAAGGGAATAATAGTAAGGATAAAAATAATTATAGTGAAAATTAATAGTTAA
66 AAATTTTAATTTATAAAAGAATAATAGCAAGGATAAAAATAATTATAGTGAAAATTAATAATTGA
* * * * *
6869159 AAAACTTTGATATAAA-GTAGTAAGAATTAATGTAAAACATTATAGAGGTAGAACAAATATTGTC
131 AAAACTTTGACATAAACCT-GTAAGAATTAATGTAAAAAATTATAAAGGTGGAACAAATATTGTC
* * ** * * *
6869223 AACATA-TAGACATTAACATATGAGATTTAATGTAACAAGTCAATTACGTTAAATAAATA-AATT
195 AAAATATTA-ACATAAATGTATGAGATTTAATGTAATAAGTCAATTATGTTAAATAAACATAATT
* * ** **
6869286 TTTTTAAAAAATAAACATTTAAATTAATATTCTTTAGTTTAAAGTATTTAGCGATTTATAAATTT
259 TTTTTAAAAAATAAACATTTAAATTTATATTATCGAGTTTAAAGTATTTAAAG-TTTA-AAATTT
6869351 TAATTTA
322 TAATTTA
6869358 NNNNNNNNNN
Statistics
Matches: 1117, Mismatches: 188, Indels: 57
0.82 0.14 0.04
Matches are distributed among these distances:
497 4 0.00
498 198 0.18
499 153 0.14
500 87 0.08
501 243 0.22
502 125 0.11
503 77 0.07
504 227 0.20
505 3 0.00
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.35
Consensus pattern (497 bp):
AACATAATTTCTGAAAAAAAAAATTTAAATTTATATTCTTGAGTTTAAAGTATTTAACAATTTAC
AAATTTTAATTTATAAAAGAATAATAGCAAGGATAAAAATAATTATAGTGAAAATTAATAATTGA
AAAACTTTGACATAAACCTGTAAGAATTAATGTAAAAAATTATAAAGGTGGAACAAATATTGTCA
AAATATTAACATAAATGTATGAGATTTAATGTAATAAGTCAATTATGTTAAATAAACATAATTTT
TTTAAAAAATAAACATTTAAATTTATATTATCGAGTTTAAAGTATTTAAAGTTTAAAATTTTAAT
TTATAAAGGAATAATAATAAGATAAAAATAATTATAGTGAAAATTAGTAATTGAAAAACCTTGAC
ATAAACCTGTAAGAATTAACGTAAAAAATTATAAAGGTGGAATAAGAATTGTCAAAATATTAACA
TAAATATTTAGATTTAACGTAACAAGTAAATTATGTCAAATA
Found at i:6868858 original size:14 final size:15
Alignment explanation
Indices: 6868834--6868862 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6868824 TTTAAAGTAT
6868834 TTAACAATTTATAAA
1 TTAACAATTTATAAA
6868849 TTAA-AATTTATAAA
1 TTAACAATTTATAAA
6868863 GGAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAACAATTTATAAA
Found at i:6870793 original size:20 final size:20
Alignment explanation
Indices: 6870768--6870809 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6870758 TGAAGTGTGG
*
6870768 CAATAACACATAGACAAGGT
1 CAATAACACATACACAAGGT
*
6870788 CAATAACATATACACAAGGT
1 CAATAACACATACACAAGGT
6870808 CA
1 CA
6870810 TTGCTGTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.21, G:0.12, T:0.17
Consensus pattern (20 bp):
CAATAACACATACACAAGGT
Found at i:6876358 original size:28 final size:27
Alignment explanation
Indices: 6876313--6876372 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
6876303 TGTTTCTTTT
* * * *
6876313 TTTTTTACATTTATGTGATTTTTTAAA
1 TTTTTCACATTTAAGTGACTTTTCAAA
6876340 TCTTTTCACATTTAAGTGACTTTTCAAA
1 T-TTTTCACATTTAAGTGACTTTTCAAA
6876368 TTTTT
1 TTTTT
6876373 ACTGTTTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTTTCACATTTAAGTGACTTTTCAAA
Found at i:6881935 original size:15 final size:15
Alignment explanation
Indices: 6881915--6881954 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
6881905 TCTTATAATG
*
6881915 TAATATAATTATAAA
1 TAATATAATTACAAA
6881930 TAATATAATTACAAA
1 TAATATAATTACAAA
*
6881945 TAATGTAATT
1 TAATATAATT
6881955 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (15 bp):
TAATATAATTACAAA
Found at i:6882029 original size:20 final size:24
Alignment explanation
Indices: 6881980--6882029 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 24
6881970 TGACTGTATG
6881980 ATATATAAATAAATAATAATTAAA
1 ATATATAAATAAATAATAATTAAA
*
6882004 ATATATAAA-AAATAAT-ATTATA
1 ATATATAAATAAATAATAATTAAA
6882026 ATAT
1 ATAT
6882030 TTAAGTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.36
23 7 0.28
24 9 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
ATATATAAATAAATAATAATTAAA
Found at i:6882190 original size:28 final size:28
Alignment explanation
Indices: 6882159--6882229 Score: 79
Period size: 33 Copynumber: 2.4 Consensus size: 28
6882149 TTTAAATATA
*
6882159 TTTTTAATATCATATATTTTATTTTTAT
1 TTTTTAATATCATATACTTTATTTTTAT
*
6882187 TTTTTATTATAATTTTATATACTTTATTTTTAT
1 TTTTTA--AT-A--TCATATACTTTATTTTTAT
6882220 TTTTTAATAT
1 TTTTTAATAT
6882230 AATTTTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
28 7 0.19
30 3 0.08
31 3 0.08
33 23 0.64
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTTTAATATCATATACTTTATTTTTAT
Found at i:6882207 original size:33 final size:33
Alignment explanation
Indices: 6882170--6882259 Score: 119
Period size: 33 Copynumber: 2.7 Consensus size: 33
6882160 TTTTAATATC
*
6882170 ATATATTTTATTTTTATTTTTTATTATAATTTT
1 ATATATTTTATTTTTATTTTTTAATATAATTTT
*
6882203 ATATACTTTATTTTTATTTTTTAATATAATTTT
1 ATATATTTTATTTTTATTTTTTAATATAATTTT
* **
6882236 TTATATTCAATTTTT-TTTCTTTAA
1 ATATATTTTATTTTTATTT-TTTAA
6882260 AAGATCATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
32 3 0.06
33 47 0.94
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTTTTAATATAATTTT
Found at i:6883748 original size:20 final size:20
Alignment explanation
Indices: 6883723--6883761 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6883713 TCACCTCCCA
6883723 CTTGTATACCCATTTCTTCT
1 CTTGTATACCCATTTCTTCT
6883743 CTTGTATACCCATTTCTTC
1 CTTGTATACCCATTTCTTC
6883762 ATGTTATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.31, G:0.05, T:0.49
Consensus pattern (20 bp):
CTTGTATACCCATTTCTTCT
Found at i:6893874 original size:3 final size:3
Alignment explanation
Indices: 6893866--6893896 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6893856 AGATATGAAT
6893866 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
6893897 GGAGGAGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6911412 original size:32 final size:32
Alignment explanation
Indices: 6911376--6911448 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
6911366 TAACCGAATT
6911376 AATTCGATTTTGATTAGTTCGGTTATTTATAA
1 AATTCGATTTTGATTAGTTCGGTTATTTATAA
6911408 AATTCGATTTTGATTAGTTCGGTTATTTATAA
1 AATTCGATTTTGATTAGTTCGGTTATTTATAA
6911440 AATTCGATT
1 AATTCGATT
6911449 CTGTTTCGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (32 bp):
AATTCGATTTTGATTAGTTCGGTTATTTATAA
Found at i:6911456 original size:28 final size:30
Alignment explanation
Indices: 6911376--6911468 Score: 100
Period size: 32 Copynumber: 3.0 Consensus size: 30
6911366 TAACCGAATT
*
6911376 AATTCGATTTTGATTAGTTCGGTTATTTATAA
1 AATTCGATTCTGA-TA-TTCGGTTATTTATAA
*
6911408 AATTCGATTTTGATTAGTTCGGTTATTTATAA
1 AATTCGATTCTGA-TA-TTCGGTTATTTATAA
* *
6911440 AATTCGATTCTG-T-TTCGTTTATTTTTAA
1 AATTCGATTCTGATATTCGGTTATTTATAA
6911468 A
1 A
6911469 CATGAATTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
28 14 0.24
30 1 0.02
32 43 0.74
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.52
Consensus pattern (30 bp):
AATTCGATTCTGATATTCGGTTATTTATAA
Found at i:6921281 original size:22 final size:22
Alignment explanation
Indices: 6921251--6921299 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
6921241 TGTAGGTTAT
* *
6921251 TTTGA-ATTTGAATAATTTAGA
1 TTTGACATTTAAATAATTTAAA
*
6921272 TTTGACATTTAAATTATTTAAA
1 TTTGACATTTAAATAATTTAAA
6921294 TTTGAC
1 TTTGAC
6921300 GAATTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (22 bp):
TTTGACATTTAAATAATTTAAA
Found at i:6921423 original size:60 final size:60
Alignment explanation
Indices: 6921354--6921466 Score: 176
Period size: 61 Copynumber: 1.9 Consensus size: 60
6921344 AAAAGTTTTG
*
6921354 TTTAAGTA-TTTTAAATATTTTG-AGATGGTTTTTGATATACGAAAAAAAACTTTTGAACGT
1 TTTAAGTATTTTTAAATATTTTGAAG-TGATTTTTGATATA-GAAAAAAAACTTTTGAACGT
*
6921414 TTTAAGTATTTTTAAATATTTTGAAGTGATTTTTGATATATAAAAAAAACTTT
1 TTTAAGTATTTTTAAATATTTTGAAGTGATTTTTGATATAGAAAAAAAACTTT
6921467 AAATATTTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
60 20 0.41
61 27 0.55
62 2 0.04
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (60 bp):
TTTAAGTATTTTTAAATATTTTGAAGTGATTTTTGATATAGAAAAAAAACTTTTGAACGT
Found at i:6921632 original size:22 final size:22
Alignment explanation
Indices: 6921607--6921662 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
6921597 CCTAATTAGT
*
6921607 TTTTAAGTATTGCATTACTAAC
1 TTTTAAGTATTGCATAACTAAC
* *
6921629 TTTTGAAG-ATTGTATAACTAAT
1 TTTT-AAGTATTGCATAACTAAC
*
6921651 TTTTACGTATTG
1 TTTTAAGTATTG
6921663 AGTGACTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 23 0.82
23 3 0.11
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (22 bp):
TTTTAAGTATTGCATAACTAAC
Found at i:6922917 original size:251 final size:248
Alignment explanation
Indices: 6922565--6923592 Score: 922
Period size: 251 Copynumber: 4.1 Consensus size: 248
6922555 ATACTTTTAG
* * ** * * * *
6922565 CTCAATAATAAAAAAATTAAATGTTTAATTTTAACAAGAATTAAATTTATTTTGACATAATTGAT
1 CTCAAGAAT-AAAAATTTAAATGTTTAATTTTTTCAAAAATT--ATTT-TATTG-TATAATTGAC
* * * *
6922630 TTATTATGTTACATC-T-CATACATTTACGTTAATATTTTGACAATACTTGTTTCACTTTTATAA
61 TTGTTACGTTAAATCTTACATAC--TTACATTAATATTTTGACAATACTTGTTTCACTTTTATAA
* * * * * * * *
6922693 TATTTTATATTAATTTTTACTACTTTACATCATGACTTTTGAACTATTTACTTTCACCATAATTT
124 TATTTTACATTAATTCTTACTACTTTACATCAAGACTTTTCAACTACTAAATTTCACCATAATTC
* *
6922758 TTTTTATCCTTACTATTATTCCTGCATAGATTAAAATTTGTAAGTAGTAAAACACTTTAAA
189 TTTTTATCCTTACTATTATTCATGCATAGATTAAAATTTGTAAGCA-TAAAACACTTTAAA
** *
6922819 CTTGAGAATAAAAATTTAAATGTTTAATTTTTTTAAAAATTATTTTATATGATATAATTGACTTG
1 CTCAAGAATAAAAATTTAAATGTTTAATTTTTTCAAAAATTATTTTAT-TG-TATAATTGACTTG
* * * *
6922884 TTACGTTAAATCTTACATACTTACATTAATATTTTAACAATACTT-TATTGACCTTTATAATGTT
64 TTACGTTAAATCTTACATACTTACATTAATATTTTGACAATACTTGT-TTCACTTTTATAATATT
* * * * * * *
6922948 TTACATTAATTCTTA-TCATTTTACGTTAAGATTTTTCAACTACTAAATTTCACTATTATTTTTT
128 TTACATTAATTCTTACT-ACTTTACATCAAGACTTTTCAACTACTAAATTTCACCATAATTCTTT
* * *
6923012 TTATCCTCACTATTATTAACAT--ATAGATTAAAATTTGTACGCCATAAAACACTATAAA
192 TTATCCTTACTATTATT--CATGCATAGATTAAAATTTGTAAG-CATAAAACACTTTAAA
* * ** * * *
6923070 CTCAAGAATAGAAATTTGAATGCATAATTTTTTGAAAAATTATATTTATTTGCATAATTGATTTG
1 CTCAAGAATAAAAATTTAAATGTTTAATTTTTTCAAAAATTAT-TTTA-TTGTATAATTGACTTG
** * * *
6923135 TTATATTAAATC-T-CATACATTTATATCAATATTTTGACAATACTTGTTCCA-TTTTAATAATA
64 TTACGTTAAATCTTACATAC--TTACATTAATATTTTGACAATACTTGTTTCACTTTT-ATAATA
* * ** * * * **
6923197 TTTTACGTTAATTCTTACT-GTTATATGTCATA-ACTTTTCAACTATTTATTTTCATTATAATTC
126 TTTTACATTAATTCTTACTACTT-TACATCA-AGACTTTTCAACTACTAAATTTCACCATAATTC
* * *
6923260 TTTTTATCCTTACTATTATTCTTGCATAGATTAAAATTTTTAGGCAATAAAACACTTTAAA
189 TTTTTATCCTTACTATTATTCATGCATAGATTAAAATTTGTAAGC-ATAAAACACTTTAAA
* * * * * *
6923321 CTCAAGGATAAAAATTTAAATGTTTAATTTTCTCGAGAATTA---TATT-TAT-ATTAACTCGTT
1 CTCAAGAATAAAAATTTAAATGTTTAATTTTTTCAAAAATTATTTTATTGTATAATTGACTTGTT
* * * *
6923381 ACGTTAAAT-TTCACATATTTACATTAATATTTTGACAATATTTGTTTCACTTTTAAAATGTTTT
66 ACGTTAAATCTT-ACATACTTACATTAATATTTTGACAATACTTGTTTCACTTTTATAATATTTT
* * ** * *
6923445 ACGTTAATTCTTACTACTTTA-AGTTAAGGTTTTTTAACTACTAAATTTCATCATAATTCTTTTT
130 ACATTAATTCTTACTACTTTACA-TCAAGACTTTTCAACTACTAAATTTCACCATAATTCTTTTT
* * * *
6923509 ATCGTTACTATTATTCATGTATAGATTAAAATTTTTAAGTCATAAAAGACTTTAAA
194 ATCCTTACTATTATTCATGCATAGATTAAAATTTGTAAG-CATAAAACACTTTAAA
* * *
6923565 CTAAAAAATAAAAATTTAAATATTTAAT
1 CTCAAGAATAAAAATTTAAATGTTTAAT
6923593 CTTAAGTTAA
Statistics
Matches: 634, Mismatches: 112, Indels: 66
0.78 0.14 0.08
Matches are distributed among these distances:
243 1 0.00
244 172 0.27
245 9 0.01
246 6 0.01
247 2 0.00
249 7 0.01
250 11 0.02
251 374 0.59
252 11 0.02
253 35 0.06
254 6 0.01
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.46
Consensus pattern (248 bp):
CTCAAGAATAAAAATTTAAATGTTTAATTTTTTCAAAAATTATTTTATTGTATAATTGACTTGTT
ACGTTAAATCTTACATACTTACATTAATATTTTGACAATACTTGTTTCACTTTTATAATATTTTA
CATTAATTCTTACTACTTTACATCAAGACTTTTCAACTACTAAATTTCACCATAATTCTTTTTAT
CCTTACTATTATTCATGCATAGATTAAAATTTGTAAGCATAAAACACTTTAAA
Found at i:6926579 original size:2 final size:2
Alignment explanation
Indices: 6926572--6926614 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
6926562 AGAGGGAATA
6926572 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6926614 A
1 A
6926615 AAATGGCCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6938598 original size:6 final size:6
Alignment explanation
Indices: 6938587--6938621 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
6938577 TCAATGAAGA
6938587 AATGCT AATGCT AATGCT AATGCT AATGCT AATGC
1 AATGCT AATGCT AATGCT AATGCT AATGCT AATGC
6938622 AAGGGTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (6 bp):
AATGCT
Found at i:6946699 original size:2 final size:2
Alignment explanation
Indices: 6946692--6946719 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6946682 GTATCTCCCC
6946692 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6946720 GGGAATCTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6950775 original size:21 final size:21
Alignment explanation
Indices: 6950751--6950793 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
6950741 ATAATTATAT
6950751 ATAAAT-TTATTAATTTTTAAA
1 ATAAATATT-TTAATTTTTAAA
*
6950772 ATAAATATTTTATTTTTTAAA
1 ATAAATATTTTAATTTTTAAA
6950793 A
1 A
6950794 AATCATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAAATATTTTAATTTTTAAA
Found at i:6951144 original size:21 final size:22
Alignment explanation
Indices: 6951096--6951167 Score: 69
Period size: 21 Copynumber: 3.3 Consensus size: 22
6951086 TTTTAAATAT
* * *
6951096 TTTATATTTAAATATTAATACCA
1 TTTATATTTAAAAATAAATA-AA
6951119 TTTATACTTT-AAAATAAA-AAA
1 TTTATA-TTTAAAAATAAATAAA
*
6951140 TTTAT-TTTAAAAATAAATAGA
1 TTTATATTTAAAAATAAATAAA
6951161 TTTATAT
1 TTTATAT
6951168 GTAATTATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.07
20 8 0.20
21 13 0.32
22 2 0.05
23 12 0.29
24 3 0.07
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (22 bp):
TTTATATTTAAAAATAAATAAA
Found at i:6951230 original size:16 final size:17
Alignment explanation
Indices: 6951211--6951253 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
6951201 ATTTTTTTAT
6951211 TATATATAATTT-TAAA
1 TATATATAATTTATAAA
*
6951227 TATATA-AATTTATAAT
1 TATATATAATTTATAAA
*
6951243 TTTATATAATT
1 TATATATAATT
6951254 ACTTTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.22
16 14 0.61
17 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATATAATTTATAAA
Found at i:6953614 original size:15 final size:16
Alignment explanation
Indices: 6953589--6953618 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6953579 TATATAATAA
6953589 AAATAATTAATTTATC
1 AAATAATTAATTTATC
6953605 AAAT-ATTAATTTAT
1 AAATAATTAATTTAT
6953619 AAAGATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATAATTAATTTATC
Found at i:6955262 original size:10 final size:10
Alignment explanation
Indices: 6955239--6955278 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
6955229 TTTTGACGAA
6955239 AAACCGACCCG
1 AAACCGA-CCG
6955250 AAACCGACCG
1 AAACCGACCG
*
6955260 AAACCGACTG
1 AAACCGACCG
6955270 AAACCGACC
1 AAACCGACC
6955279 CATGCACACC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 20 0.74
11 7 0.26
ACGTcount: A:0.40, C:0.40, G:0.17, T:0.03
Consensus pattern (10 bp):
AAACCGACCG
Found at i:6960592 original size:20 final size:20
Alignment explanation
Indices: 6960555--6960592 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6960545 ATCTCTTACA
*
6960555 AATAAGTTTATGATATAAAT
1 AATAAGTTTACGATATAAAT
6960575 AATATAGTTTACGA-ATAA
1 AATA-AGTTTACGATATAA
6960593 TTATTTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.37
Consensus pattern (20 bp):
AATAAGTTTACGATATAAAT
Found at i:6960819 original size:13 final size:13
Alignment explanation
Indices: 6960803--6960837 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
6960793 TATTAAATAT
6960803 TTATTATTTTTTA
1 TTATTATTTTTTA
6960816 TTATTATTTTTTA
1 TTATTATTTTTTA
6960829 -TA-TATTTTT
1 TTATTATTTTT
6960838 AAATTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 2 0.09
13 13 0.59
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:6960853 original size:29 final size:30
Alignment explanation
Indices: 6960821--6960885 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
6960811 TTTTATTATT
* *
6960821 ATTTTTTAT-ATATTTTTAAATTTAAAATG
1 ATTTTTTATAATATTATTAAATGTAAAATG
* *
6960850 ATTTTTTATAATATTATTCAATGTAAAATT
1 ATTTTTTATAATATTATTAAATGTAAAATG
6960880 ATTTTT
1 ATTTTT
6960886 ATCATAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (30 bp):
ATTTTTTATAATATTATTAAATGTAAAATG
Found at i:6966634 original size:2 final size:2
Alignment explanation
Indices: 6966616--6966649 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
6966606 GAACTCAAAC
* *
6966616 AT AT AT AA AT AT GT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6966650 TATGCATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6981910 original size:30 final size:30
Alignment explanation
Indices: 6981856--6981912 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
6981846 GGGGTGGGTA
*
6981856 TTAAAGTTAAAATTGAAGAGATTTCTTCCT
1 TTAAAGTTAAAATTGAAGACATTTCTTCCT
* *
6981886 TTAAAGTTAAAATTGGATACATTTCTT
1 TTAAAGTTAAAATTGAAGACATTTCTT
6981913 TATATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (30 bp):
TTAAAGTTAAAATTGAAGACATTTCTTCCT
Found at i:6990569 original size:22 final size:22
Alignment explanation
Indices: 6990522--6990571 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
6990512 TTGATTATAA
*
6990522 ATATTTTTTTACTTGAAAAATT
1 ATATTTTTTTACTTGAAAAATG
* *
6990544 ATATTTTTTT-TTTGATAAAGTG
1 ATATTTTTTTACTTGA-AAAATG
6990566 ATATTT
1 ATATTT
6990572 GAAAAAACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
ATATTTTTTTACTTGAAAAATG
Found at i:6998265 original size:30 final size:30
Alignment explanation
Indices: 6998229--6998314 Score: 127
Period size: 30 Copynumber: 2.9 Consensus size: 30
6998219 CGACCACCAC
* *
6998229 GGACCTCCAGCAGGTGGTCCGGGTCAGCAT
1 GGACCTCCTGCAGGTGGTCCGGGTCAACAT
*
6998259 GGACCTCCTCCAGGTGGTCCGGGTCAACAT
1 GGACCTCCTGCAGGTGGTCCGGGTCAACAT
* *
6998289 GGACCTCCTGCAGGCGGTCCTGGTCA
1 GGACCTCCTGCAGGTGGTCCGGGTCA
6998315 TGGTTGTGGC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.15, C:0.33, G:0.34, T:0.19
Consensus pattern (30 bp):
GGACCTCCTGCAGGTGGTCCGGGTCAACAT
Found at i:6998365 original size:51 final size:51
Alignment explanation
Indices: 6998286--6998416 Score: 217
Period size: 51 Copynumber: 2.6 Consensus size: 51
6998276 TCCGGGTCAA
* * *
6998286 CATGGACCTCCTGCAGGCGGTCCTGGTCATGGTTGTGGCCCGGAGGGAGGC
1 CATGGACCTCCAGCAGGTGGTCCAGGTCATGGTTGTGGCCCGGAGGGAGGC
*
6998337 CATGGACCTCCAGCAGGTGGTCCAGGTCATGGTTGTGGCCCGGAGGGCGGC
1 CATGGACCTCCAGCAGGTGGTCCAGGTCATGGTTGTGGCCCGGAGGGAGGC
*
6998388 CATGGACCTCCAGCAGGTGGTCCGGGTCA
1 CATGGACCTCCAGCAGGTGGTCCAGGTCA
6998417 CCATGGACCT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.14, C:0.28, G:0.40, T:0.18
Consensus pattern (51 bp):
CATGGACCTCCAGCAGGTGGTCCAGGTCATGGTTGTGGCCCGGAGGGAGGC
Found at i:6998423 original size:30 final size:30
Alignment explanation
Indices: 6998387--6998452 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
6998377 CGGAGGGCGG
*
6998387 CCATGGACCTCCAGCAGGTGGTCCGGGTCA
1 CCATGGACCTCCAGCAGGCGGTCCGGGTCA
*
6998417 CCATGGACCTCCAGCAGGCGGTCCTGGTCA
1 CCATGGACCTCCAGCAGGCGGTCCGGGTCA
6998447 CCATGG
1 CCATGG
6998453 TGGTGGCTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.17, C:0.35, G:0.32, T:0.17
Consensus pattern (30 bp):
CCATGGACCTCCAGCAGGCGGTCCGGGTCA
Found at i:7005542 original size:16 final size:17
Alignment explanation
Indices: 7005521--7005552 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7005511 TTATGTCTTC
7005521 GAATCCTAAAT-CAATT
1 GAATCCTAAATGCAATT
7005537 GAATCCTAAATGCAAT
1 GAATCCTAAATGCAAT
7005553 GAGCAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (17 bp):
GAATCCTAAATGCAATT
Found at i:7006831 original size:21 final size:23
Alignment explanation
Indices: 7006783--7006831 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
7006773 TTGGTAGATT
*
7006783 GATTTTAAGGTTTTCACTAAATC
1 GATTTTAAAGTTTTCACTAAATC
* *
7006806 CATTTTAAAG-TTTGAC-AAATC
1 GATTTTAAAGTTTTCACTAAATC
7006827 GATTT
1 GATTT
7006832 AAGGGTTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 9 0.41
22 5 0.23
23 8 0.36
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (23 bp):
GATTTTAAAGTTTTCACTAAATC
Found at i:7006953 original size:20 final size:21
Alignment explanation
Indices: 7006925--7006975 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
7006915 AGGGTTTATT
* *
7006925 AGATCGATTTTAAAGTTTGA-
1 AGATTGATTTTAAAGTCTGAC
7006945 AGATTGATTTTAAAGTCTGAC
1 AGATTGATTTTAAAGTCTGAC
*
7006966 ATATTGATTT
1 AGATTGATTT
7006976 ACGAGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (21 bp):
AGATTGATTTTAAAGTCTGAC
Found at i:7019139 original size:17 final size:18
Alignment explanation
Indices: 7019093--7019139 Score: 51
Period size: 21 Copynumber: 2.5 Consensus size: 18
7019083 ATTTAACAGT
7019093 AAAAAAATTAAATATTTTAA
1 AAAAAAATTAAATA--TTAA
*
7019113 AAAATTAATTAAATA-TAA
1 AAAA-AAATTAAATATTAA
7019131 AAAAAAATT
1 AAAAAAATT
7019140 GAATTGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 4 0.17
18 7 0.29
20 4 0.17
21 9 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAAAATTAAATATTAA
Found at i:7022966 original size:78 final size:77
Alignment explanation
Indices: 7022870--7023125 Score: 370
Period size: 76 Copynumber: 3.3 Consensus size: 77
7022860 GCAATCACAA
* * *
7022870 ATTTCACAACCACGGGAAGCTTAGTTAAATCCTCCATCTCTTGATAAGCTACTTTGTCTTGCAAC
1 ATTTCATAACCATGGGAAGCTTAGTTAAATCCTCCATCTCTTGATAAGCTACTCTGTC-TGCAAC
* *
7022935 AAGACGCCATTTC
65 AAAAAGCCATTTC
* * *
7022948 ATTTCATAACCATGGGAAGCTTAGGTAAATCCTCCCTCTATTGATAAGCTACTCTGTCTGCAACA
1 ATTTCATAACCATGGGAAGCTTAGTTAAATCCTCCATCTCTTGATAAGCTACTCTGTCTGCAACA
7023013 AAAAGCCATTTC
66 AAAAGCCATTTC
* * * *
7023025 CTTTCATAACCATGGGAAAC-TAGTCAAATCCTCCATCTCTTGACAAGCTACTCTGTCTGCAACA
1 ATTTCATAACCATGGGAAGCTTAGTTAAATCCTCCATCTCTTGATAAGCTACTCTGTCTGCAACA
7023089 AAAAGCCATTTC
66 AAAAGCCATTTC
**
7023101 ATTTCATAACCATGCAAAGCTTAGT
1 ATTTCATAACCATGGGAAGCTTAGT
7023126 CCAATACTAC
Statistics
Matches: 158, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
76 67 0.42
77 39 0.25
78 52 0.33
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (77 bp):
ATTTCATAACCATGGGAAGCTTAGTTAAATCCTCCATCTCTTGATAAGCTACTCTGTCTGCAACA
AAAAGCCATTTC
Found at i:7024386 original size:107 final size:106
Alignment explanation
Indices: 7024218--7024430 Score: 318
Period size: 107 Copynumber: 2.0 Consensus size: 106
7024208 GACCTCAATC
* ** * **
7024218 AAACAAGCAACCCATGGTTCAAACCTGGTGGGTATATGCCACTACAAAAATAACCAAGAATGGGA
1 AAACAAGCAACCCATGGTTCAAACCTGATGCATATATGCCACTACAAAAAGAACCAAGAATGACA
7024283 AGCATGCTTACCTAGGTGGAAGTATTTGCTTCCTCTGTAGG
66 AGCATGCTTACCTAGGTGGAAGTATTTGCTTCCTCTGTAGG
* * * *
7024324 AAACAATCAACCCATGGTTCAGACCTGATGCATATTTGGCCACTACAAAAAGAACTAAGAATGAC
1 AAACAAGCAACCCATGGTTCAAACCTGATGCATATAT-GCCACTACAAAAAGAACCAAGAATGAC
*
7024389 AAGCATGCTTACCTGGGTGGAAGTATTTGCTTCCTCTGTAGG
65 AAGCATGCTTACCTAGGTGGAAGTATTTGCTTCCTCTGTAGG
7024431 CACAATACTT
Statistics
Matches: 95, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
106 31 0.33
107 64 0.67
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (106 bp):
AAACAAGCAACCCATGGTTCAAACCTGATGCATATATGCCACTACAAAAAGAACCAAGAATGACA
AGCATGCTTACCTAGGTGGAAGTATTTGCTTCCTCTGTAGG
Found at i:7038535 original size:237 final size:238
Alignment explanation
Indices: 7037990--7038585 Score: 736
Period size: 237 Copynumber: 2.5 Consensus size: 238
7037980 TAGGAGCCGT
* * *
7037990 GTGTCACAAAGAGTGTCTCTATCCCACATCAAACAAGAACGGAAGGTCTTGGGCTCTTTATAAGC
1 GTGTCACAAAGGGTGCCTCTATCCCACATCAGACAAGAACGGAAGGTCTTGGGCTCTTTATAAGC
* * * * * * * *
7038055 GAGTGCGATGTACACCTCAATAAACGCATTTTCTAGGAGAGA--GTAATGATCCCGTGACAAGTG
66 GGGTGTGCTGCACACCCCAGTAAGCGCATTTTCT-GGAGAGAGGGTAATGACCCCGTGACAAGTG
*
7038118 GTATCAGAGCAGATCAAACCTCATCAGACTTACGCCAAGCGCCCAAACAGACCGGGGTAGGCAAG
130 GTATCAGAGCAGATCAAACCTCATCAGACTCACGCCAAGCGCCCAAACAGACCGGGGTAGGCAAG
** * *
7038183 GTGGCTAACTACAATGAGGGCGTTGCTAAAATCGGGTGGGAAAGA
195 GTGGCTAACTACAACAAGAGCGTTGCCAAAA-CGGGTGGGAAAGA
* * *
7038228 GTGTCACAAAGGATGCCTCTATCCCACATC-GAACAAGAACGGAAGGTCCTAGGCTCTTTATAAG
1 GTGTCACAAAGGGTGCCTCTATCCCACATCAG-ACAAGAACGGAAGGTCTTGGGCTCTTTATAAG
*
7038292 CGGGTGTGCTGCACACCCCAGTAAGCGCGTTTTCTGGAGAGAGGGTAATGACCCCGTGACAAGTG
65 CGGGTGTGCTGCACACCCCAGTAAGCGCATTTTCTGGAGAGAGGGTAATGACCCCGTGACAAGTG
** * * * * *** * * **
7038357 GTATCAGAGCAGATCGCACTTTATCCGACTCACGCCAAGTGCGTTACCGGATTGGGGTAGGCAAG
130 GTATCAGAGCAGATCAAACCTCATCAGACTCACGCCAAGCGCCCAAACAGACCGGGGTAGGCAAG
* **
7038422 GTGG-TCAACTGCAACAAGAGCGTTGCCCGAA-GGGTGGGAAAGA
195 GTGGCT-AACTACAACAAGAGCGTTGCCAAAACGGGTGGGAAAGA
* * *
7038465 GTGTCACAAAGGGTGCCTCTATCCCACATCAGACAAGAATGGAAGGTCTTGGG-TTTCTTATAAA
1 GTGTCACAAAGGGTGCCTCTATCCCACATCAGACAAGAACGGAAGGTCTTGGGCTCT-TTATAAG
* *
7038529 CGGGTGTGCTGCACACCCCAGTAAGTGCATTTTCTGGGGAGAGGGTAATGACCCCGT
65 CGGGTGTGCTGCACACCCCAGTAAGCGCATTTTCTGGAGAGAGGGTAATGACCCCGT
7038586 AACACATGCA
Statistics
Matches: 307, Mismatches: 45, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
236 2 0.01
237 126 0.41
238 86 0.28
239 93 0.30
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (238 bp):
GTGTCACAAAGGGTGCCTCTATCCCACATCAGACAAGAACGGAAGGTCTTGGGCTCTTTATAAGC
GGGTGTGCTGCACACCCCAGTAAGCGCATTTTCTGGAGAGAGGGTAATGACCCCGTGACAAGTGG
TATCAGAGCAGATCAAACCTCATCAGACTCACGCCAAGCGCCCAAACAGACCGGGGTAGGCAAGG
TGGCTAACTACAACAAGAGCGTTGCCAAAACGGGTGGGAAAGA
Found at i:7044336 original size:21 final size:20
Alignment explanation
Indices: 7044294--7044340 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
7044284 TCCTTGAAGG
7044294 TTTTTTTTT-AAAAAAAAAA
1 TTTTTTTTTGAAAAAAAAAA
**
7044313 TTTGTTTTTTGAAAAAAACTA
1 TTT-TTTTTTGAAAAAAAAAA
7044334 TTTTTTT
1 TTTTTTT
7044341 AAGAACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTTTTTTTGAAAAAAAAAA
Found at i:7045210 original size:14 final size:16
Alignment explanation
Indices: 7045176--7045221 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
7045166 AAGTTATTAA
*
7045176 TTATGATATATATAACT
1 TTATAATATATA-AACT
*
7045193 TTAT-TTATATAAAC-
1 TTATAATATATAAACT
7045207 TTATAATATATAAAC
1 TTATAATATATAAAC
7045222 CTAAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 4 0.15
15 12 0.46
16 6 0.23
17 4 0.15
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (16 bp):
TTATAATATATAAACT
Found at i:7045277 original size:341 final size:339
Alignment explanation
Indices: 7044755--7045869 Score: 1316
Period size: 341 Copynumber: 3.2 Consensus size: 339
7044745 CTATTATATT
* * * *
7044755 TATATACTTTTAAA-ATAAATATATTTACTTTCTATTTTTGGTCTTAACATTACAAAAATTATGA
1 TATATAC-TTTAAATATAAACATATTTACTTTCTA-TTTTAGTGTTAACATTACAAAAATTATAA
* * * * * * * * *
7044819 TTTATAAAATTACTAATTATAATATATGTACCATTATTTATACAAACTTATAACATATATACTTA
64 CTTATAAAATTATTAATTATAATATATATAACTTTATTTATATAAACTTATAATATATAAACCT-
** * * * *
7044884 AAAGAGAGCTTTTGAGATTAGAATAGTTTTGAAACCTAATTATTTTTTTAATTTCATGAAATTAA
128 AAAGAGAAATTGTGAGATTAGAATAG-TTTGAAACATAATTATTTTTTTAATTTCTTGTAATTAA
*
7044949 GGATAAATACATATAGCTAATTAAATTAATTCATGAAACTATTGTTATTAATTAACTTGTAATGT
192 GGATAAATACATATAGTTAATTAAATTAATTCATGAAACTATTGTTATTAATTAACTTGTAATGT
* * * * *
7045014 CTTTCAATATATATAGTTTATATATTGTGTTAATTTATAAGAAATATAATTACTGTTATATATAT
257 CTTTTAATATATATACTTTATATATTGAGTTCATTTATAAGAAATATAATTACTATTATATATAT
*
7045079 ACTAAAATATATTTAGTACA
322 A-TAAAATAT-TTTAGTATA
* *
7045099 TATATACTTTAAATATAAACATATTTACTTTTTA-TTTAGCGTTAACATTAC-AAAATTATAACT
1 TATATACTTTAAATATAAACATATTTACTTTCTATTTTAGTGTTAACATTACAAAAATTATAACT
* *
7045162 TATAAAGTTATTAATTATGATATATATAACTTTATTTATATAAACTTATAATATATAAACCTAAA
66 TATAAAATTATTAATTATAATATATATAACTTTATTTATATAAACTTATAATATATAAACCTAAA
7045227 GAGAAATTGTGAGATTCA-AATAGTTCTGAAACATAATTATTTTGTTTAATTTCTTGTAATTAAG
131 GAGAAATTGTGAGATT-AGAATAGTT-TGAAACATAATTATTTT-TTTAATTTCTTGTAATTAAG
* * * ** *
7045291 AATAAA-ATCGTATAGTTAATTAAACTAATTCATGAAACTATAATTATTAATTAACTTATAATGT
193 GATAAATA-CATATAGTTAATTAAATTAATTCATGAAACTATTGTTATTAATTAACTTGTAATGT
* * *
7045355 CTTTTAGTATATATACTTTTTATATATTAAGTTCATTTATAAGGAATATAATTACTATTATATAT
257 CTTTTAATATATATAC--TTTATATATTGAGTTCATTTATAAGAAATATAATTACTATTATATAT
* * *
7045420 ATATATGAGTATGTGTGTGTGTGTATA
320 ATATA--A-AATAT-T-T-T-AGTATA
* * *
7045447 TATGTACTTTAAATATAAACATATTTACTTTCTATTTT-GTATTAATATTACAAAAATTATAACT
1 TATATACTTTAAATATAAACATATTTACTTTCTATTTTAGTGTTAACATTACAAAAATTATAACT
* * * *
7045511 CATAAAATTATTAATTACAATATATAT-ACTTTTGTTTATATAAACTTATAATATATAAATCTAA
66 TATAAAATTATTAATTATAATATATATAAC-TTTATTTATATAAACTTATAATATATAAACCTAA
* * ** *
7045575 AGGGAAGTTGTGAGATTAGAATAGTTTAGAAATGTAGTTATTTTTTTAATTTCTTGTAATTAAGG
130 AGAGAAATTGTGAGATTAGAATAGTTT-GAAACATAATTATTTTTTTAATTTCTTGTAATTAAGG
* *
7045640 ATAAACTA-ATATAGTTAATTAAATTAATTAATGAAACTA-TGATTATTAATTGACTTGTAATGT
194 ATAAA-TACATATAGTTAATTAAATTAATTCATGAAACTATTG-TTATTAATTAACTTGTAATGT
*
7045703 CTTTTAATATATATACTTTATATACATTGAGTTCATATATAAGAAATATAATTACTATTATATAT
257 CTTTTAATATATATACTTTATAT--ATTGAGTTCATTTATAAGAAATATAATTACTATTATATAT
*
7045768 AT-TAAAATACTTTTAATATA
320 ATATAAAATA-TTTTAGTATA
** * * * * *
7045788 TATACGCTTTAAATATAAATATATTTACTTTTTATTTTA-TGTTAACATTACAACAGTTATAACG
1 TATATACTTTAAATATAAACATATTTACTTTCTATTTTAGTGTTAACATTACAAAAATTATAACT
* *
7045852 AATAAATTTATTAATTAT
66 TATAAAATTATTAATTAT
7045870 GTTTGAGATA
Statistics
Matches: 658, Mismatches: 88, Indels: 53
0.82 0.11 0.07
Matches are distributed among these distances:
339 2 0.00
340 38 0.06
341 221 0.34
342 17 0.03
343 52 0.08
344 29 0.04
345 6 0.01
346 8 0.01
347 3 0.00
348 176 0.27
349 105 0.16
350 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (339 bp):
TATATACTTTAAATATAAACATATTTACTTTCTATTTTAGTGTTAACATTACAAAAATTATAACT
TATAAAATTATTAATTATAATATATATAACTTTATTTATATAAACTTATAATATATAAACCTAAA
GAGAAATTGTGAGATTAGAATAGTTTGAAACATAATTATTTTTTTAATTTCTTGTAATTAAGGAT
AAATACATATAGTTAATTAAATTAATTCATGAAACTATTGTTATTAATTAACTTGTAATGTCTTT
TAATATATATACTTTATATATTGAGTTCATTTATAAGAAATATAATTACTATTATATATATATAA
AATATTTTAGTATA
Found at i:7058091 original size:39 final size:40
Alignment explanation
Indices: 7058029--7058109 Score: 139
Period size: 39 Copynumber: 2.0 Consensus size: 40
7058019 AGTTACCCAA
7058029 AACACAAAAATAAGAAACTATCCTAGAATTA-GAGGATTAC
1 AACACAAAAATAAGAAACTATCCTAGAATTACG-GGATTAC
7058069 AACACAAAAAT-AGAAACTATCCTAGAATTACGGGATTAC
1 AACACAAAAATAAGAAACTATCCTAGAATTACGGGATTAC
7058108 AA
1 AA
7058110 TTAATTGCAG
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
39 28 0.70
40 12 0.30
ACGTcount: A:0.52, C:0.16, G:0.12, T:0.20
Consensus pattern (40 bp):
AACACAAAAATAAGAAACTATCCTAGAATTACGGGATTAC
Found at i:7061178 original size:2 final size:2
Alignment explanation
Indices: 7061171--7061196 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7061161 TGTAGTTTGG
7061171 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7061197 TTTAATGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7061469 original size:39 final size:40
Alignment explanation
Indices: 7061392--7061471 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 40
7061382 TGAGTTACCC
* *
7061392 AAAACACAAAAATAGGAAACTATCCTAGAATTAAGGGATT
1 AAAACACAAAAATAAGAAACCATCCTAGAATTAAGGGATT
* * *
7061432 AAAACACAAAAA-AAGAAACCATCTTAGAGTTACGGGATT
1 AAAACACAAAAATAAGAAACCATCCTAGAATTAAGGGATT
7061471 A
1 A
7061472 CAACTAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 23 0.66
40 12 0.34
ACGTcount: A:0.53, C:0.14, G:0.15, T:0.19
Consensus pattern (40 bp):
AAAACACAAAAATAAGAAACCATCCTAGAATTAAGGGATT
Found at i:7061598 original size:22 final size:23
Alignment explanation
Indices: 7061570--7061612 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7061560 GTTACTTGGA
7061570 ATATCTT-GTTGATTAGAATTCT
1 ATATCTTAGTTGATTAGAATTCT
*
7061592 ATATCTTATTTGATTAGAATT
1 ATATCTTAGTTGATTAGAATT
7061613 TTAGTTTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (23 bp):
ATATCTTAGTTGATTAGAATTCT
Found at i:7063633 original size:2 final size:2
Alignment explanation
Indices: 7063626--7063677 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
7063616 TGAAATGGCC
7063626 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
7063668 AT AC AT AT AT
1 AT AT AT AT AT
7063678 GGAGAGACAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7070188 original size:14 final size:14
Alignment explanation
Indices: 7070169--7070197 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7070159 AAGATCTTTC
7070169 AATTTATAAATTTA
1 AATTTATAAATTTA
7070183 AATTTATAAATTTA
1 AATTTATAAATTTA
7070197 A
1 A
7070198 TTTTTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTTATAAATTTA
Found at i:7081027 original size:15 final size:17
Alignment explanation
Indices: 7080996--7081030 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
7080986 AACTATAAAT
7080996 AAAATATTAATATTTTA
1 AAAATATTAATATTTTA
7081013 AAAATA-TAA-ATTTTA
1 AAAATATTAATATTTTA
7081028 AAA
1 AAA
7081031 TACAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 3 0.17
17 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATATTAATATTTTA
Found at i:7081131 original size:5 final size:6
Alignment explanation
Indices: 7081075--7081128 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
7081065 CTAATACTTA
** *
7081075 AAAATT AATAATT AAATTATT AAAATT TTAATA AAAATT AAAATT AAAATT
1 AAAATT AA-AATT AAA--ATT AAAATT AAAATT AAAATT AAAATT AAAATT
7081126 AAA
1 AAA
7081129 TTATTAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 27 0.69
7 6 0.15
8 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
AAAATT
Found at i:7081401 original size:26 final size:26
Alignment explanation
Indices: 7081348--7081495 Score: 76
Period size: 26 Copynumber: 5.7 Consensus size: 26
7081338 ATTAATATTT
*
7081348 TAAAAT-TTCAATGTTTAAATGATAAA
1 TAAAATATT-AATATTTAAATGATAAA
* *
7081374 TAAAATATTAATATTTAAATTATCAA
1 TAAAATATTAATATTTAAATGATAAA
*
7081400 T---ATATTAATATTTTAAA-CA-AATTA
1 TAAAATATTAATA-TTTAAATGATAA--A
* **
7081424 TAAATTATTAATATTTAAAAAATAAA
1 TAAAATATTAATATTTAAATGATAAA
* *
7081450 -AATAATCATAATAGTATTTAAATTATAAA
1 TAA-AAT-AT--TAATATTTAAATGATAAA
* *
7081479 TCATATATTAATATTTA
1 TAAAATATTAATATTTA
7081496 TAATATTAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
22 1 0.01
23 10 0.11
24 8 0.09
25 2 0.02
26 38 0.40
27 13 0.14
28 4 0.04
29 17 0.18
30 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (26 bp):
TAAAATATTAATATTTAAATGATAAA
Found at i:7081438 original size:27 final size:26
Alignment explanation
Indices: 7081373--7081446 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 26
7081363 TAAATGATAA
7081373 ATAAA-ATATTAATATTT---AAATT
1 ATAAATATATTAATATTTAAAAAATT
*
7081395 ATCAATATATTAATATTTTAAACAAATT
1 ATAAATATATTAATA-TTTAAA-AAATT
7081423 ATAAAT-TATTAATATTTAAAAAAT
1 ATAAATATATTAATATTTAAAAAAT
7081447 AAAAATAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
22 4 0.09
23 9 0.20
24 3 0.07
25 4 0.09
26 6 0.14
27 8 0.18
28 10 0.23
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
ATAAATATATTAATATTTAAAAAATT
Found at i:7082449 original size:2 final size:2
Alignment explanation
Indices: 7082442--7082471 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7082432 TAAAATGTTA
*
7082442 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7082472 GTTATACCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7095051 original size:45 final size:44
Alignment explanation
Indices: 7094913--7095080 Score: 160
Period size: 45 Copynumber: 3.7 Consensus size: 44
7094903 TTTAACATAG
*
7094913 CGTGTAACATATTGTTGTACATAGTGTGTAACAA-CTAAACCATGA
1 CGTGTAACATATT-TTGTACATAGCGTGTAACAACCT-AACCATGA
* ** *
7094958 CGTATCTCATATTTTTATACAT-GACGTGTAACAACCTAACCATGA
1 CGTGTAACATA-TTTTGTACATAG-CGTGTAACAACCTAACCATGA
**
7095003 CGTGTAACATATTTCTGTACATAGCGTGTAACAACCTAACCAAAA
1 CGTGTAACATATTT-TGTACATAGCGTGTAACAACCTAACCATGA
* * * * *
7095048 CGTGTCATATGTCTTTGTACATGGAGTGTAACA
1 CGTGTAACATAT-TTTGTACATAGCGTGTAACA
7095081 TGTTTTTATA
Statistics
Matches: 101, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
44 4 0.04
45 90 0.89
46 7 0.07
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (44 bp):
CGTGTAACATATTTTGTACATAGCGTGTAACAACCTAACCATGA
Found at i:7095069 original size:90 final size:89
Alignment explanation
Indices: 7094913--7095080 Score: 209
Period size: 90 Copynumber: 1.9 Consensus size: 89
7094903 TTTAACATAG
* **
7094913 CGTGTAACATATTGTTGTACATAGTGTGTAACAACTAAACCATGACGTATCTCATATTTTTATAC
1 CGTGTAACATATTGTTGTACATAGCGTGTAACAACTAAACCAAAACG-ATCTCATATTTTTATAC
7094978 AT-GACGTGTAACAACCTAACCATGA
65 ATGGA-GTGTAACAACCTAACCATGA
* *
7095003 CGTGTAACATATT-TCTGTACATAGCGTGTAACAACCT-AACCAAAACG-TGTCATATGTCTTTG
1 CGTGTAACATATTGT-TGTACATAGCGTGTAACAA-CTAAACCAAAACGATCTCATAT-T-TTTA
7095065 TACATGGAGTGTAACA
62 TACATGGAGTGTAACA
7095081 TGTTTTTATA
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
88 7 0.10
89 2 0.03
90 55 0.81
91 4 0.06
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (89 bp):
CGTGTAACATATTGTTGTACATAGCGTGTAACAACTAAACCAAAACGATCTCATATTTTTATACA
TGGAGTGTAACAACCTAACCATGA
Found at i:7095083 original size:24 final size:24
Alignment explanation
Indices: 7095056--7095102 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
7095046 AACGTGTCAT
* *
7095056 ATGTCTTTGTACATGGAGTGTAAC
1 ATGTCTTTATACATAGAGTGTAAC
* *
7095080 ATGTTTTTATACATAGTGTGTAA
1 ATGTCTTTATACATAGAGTGTAA
7095103 TTTCATTAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (24 bp):
ATGTCTTTATACATAGAGTGTAAC
Found at i:7110296 original size:2 final size:2
Alignment explanation
Indices: 7110289--7110319 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7110279 GAAGAATTGG
7110289 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7110320 ATCATCCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7122033 original size:21 final size:20
Alignment explanation
Indices: 7122001--7122039 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
7121991 TCTTAGAAAA
7122001 AAAACTAATCTAATCTAATC
1 AAAACTAATCTAATCTAATC
7122021 AAAACTAACTCTAATCTAA
1 AAAACTAA-TCTAATCTAA
7122040 AAATCTCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAACTAATCTAATCTAATC
Found at i:7122254 original size:18 final size:18
Alignment explanation
Indices: 7122233--7122268 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7122223 TATGTCCCGT
* *
7122233 ATTTTTTATTTTCTTTTC
1 ATTTTTCATCTTCTTTTC
7122251 ATTTTTCATCTTCTTTTC
1 ATTTTTCATCTTCTTTTC
7122269 CTCTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTTCATCTTCTTTTC
Found at i:7124449 original size:23 final size:22
Alignment explanation
Indices: 7124396--7124453 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
7124386 TATATAACGA
*
7124396 TAGTATTTAATATTTAATCATT
1 TAGTATTTTATATTTAATCATT
* *
7124418 TA-AATTTTTATATTTATATTATT
1 TAGTA-TTTTATATTTA-ATCATT
7124441 TAGTATTTTATAT
1 TAGTATTTTATAT
7124454 GATTATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 1 0.03
22 12 0.41
23 15 0.52
24 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (22 bp):
TAGTATTTTATATTTAATCATT
Found at i:7129786 original size:1 final size:1
Alignment explanation
Indices: 7129782--7129806 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
7129772 GAAAAAGGTC
7129782 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
7129807 GACCGAAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7147596 original size:28 final size:29
Alignment explanation
Indices: 7147562--7147618 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
7147552 TTATTAAAAA
*
7147562 ATATTTAAATAATTTTTTAT-TTTTTATT
1 ATATTTAAATAAATTTTTATATTTTTATT
*
7147590 ATATTTAATTAAATTTTTATATTTTTATT
1 ATATTTAAATAAATTTTTATATTTTTATT
7147619 TTAGATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (29 bp):
ATATTTAAATAAATTTTTATATTTTTATT
Found at i:7147797 original size:33 final size:33
Alignment explanation
Indices: 7147760--7147825 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
7147750 ATTTTTTTAA
7147760 ATCAATATGTCATATCATCATCGATTATGATAT
1 ATCAATATGTCATATCATCATCGATTATGATAT
* * *
7147793 ATCAATATGTCATGTTATTATCGATTATGATAT
1 ATCAATATGTCATATCATCATCGATTATGATAT
7147826 TTTAACATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (33 bp):
ATCAATATGTCATATCATCATCGATTATGATAT
Found at i:7148625 original size:4 final size:4
Alignment explanation
Indices: 7148611--7148659 Score: 71
Period size: 4 Copynumber: 12.2 Consensus size: 4
7148601 CGTTGAAGAA
* * *
7148611 ATAT GTAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATTT ATTT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
7148659 A
1 A
7148660 AAATTTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (4 bp):
ATAT
Found at i:7148625 original size:6 final size:6
Alignment explanation
Indices: 7148611--7148659 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
7148601 CGTTGAAGAA
* * *
7148611 ATATGT ATATAT ATATAT ATATAT ATATAT ATATAT ATTTAT TTATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
7148659 A
1 A
7148660 AAATTTTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (6 bp):
ATATAT
Found at i:7150733 original size:18 final size:18
Alignment explanation
Indices: 7150707--7150745 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
7150697 CGTTAAAAAG
*
7150707 AATTGATAATAAACTTAA
1 AATTAATAATAAACTTAA
*
7150725 AATTAATAATATACTTAA
1 AATTAATAATAAACTTAA
7150743 AAT
1 AAT
7150746 ATATTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (18 bp):
AATTAATAATAAACTTAA
Found at i:7162723 original size:23 final size:23
Alignment explanation
Indices: 7162692--7162745 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
7162682 GTGGTTGGAT
* *
7162692 AAATTGTAATATTCTATTAAAAG
1 AAATTGTAATATTCTAGTAAAAA
* *
7162715 GAATTGTAATATTGTAGTAAAAA
1 AAATTGTAATATTCTAGTAAAAA
7162738 AAATTGTA
1 AAATTGTA
7162746 GCGAAATTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.48, C:0.02, G:0.13, T:0.37
Consensus pattern (23 bp):
AAATTGTAATATTCTAGTAAAAA
Found at i:7164385 original size:101 final size:98
Alignment explanation
Indices: 7164275--7164470 Score: 295
Period size: 101 Copynumber: 2.0 Consensus size: 98
7164265 AAAAACTATT
* * *
7164275 AAAAAAACAGAAGACTCAACAACAGAATATCAAA-TTCTAGAATTTTTTTGTTCTTACAAAGATT
1 AAAAAAACAGAAAACCCAACAACAGAATATCAAACTT-TAG-ATTTTTTTGTTCTTACAAAAATT
*
7164339 AAGAGAAAAAAAATCTAAAATTTAAAAATGCATTTAG
64 -A-AGAAAAAAAATCTAAAATTCAAAAATGCATTTAG
*
7164376 AAAAAAACAGAAAACCCAACAACAGAATATCAAACTTTAGATTTTTTTGTTTTTACAAAAATTAA
1 AAAAAAACAGAAAACCCAACAACAGAATATCAAACTTTAGATTTTTTTGTTCTTACAAAAATTAA
*
7164441 GAAAAAAAATCTAAAATTCAAAATTGCATT
66 GAAAAAAAATCTAAAATTCAAAAATGCATT
7164471 AAGATACTAT
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
98 29 0.33
99 1 0.01
100 21 0.24
101 35 0.40
102 2 0.02
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.28
Consensus pattern (98 bp):
AAAAAAACAGAAAACCCAACAACAGAATATCAAACTTTAGATTTTTTTGTTCTTACAAAAATTAA
GAAAAAAAATCTAAAATTCAAAAATGCATTTAG
Found at i:7166207 original size:19 final size:19
Alignment explanation
Indices: 7166185--7166221 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7166175 GTAATACTTA
7166185 TATATAAATTAAATATATG
1 TATATAAATTAAATATATG
* *
7166204 TATATATATTATATATAT
1 TATATAAATTAAATATAT
7166222 TACTTAATTA
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:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TATATAAATTAAATATATG
Found at i:7166522 original size:22 final size:20
Alignment explanation
Indices: 7166497--7166567 Score: 54
Period size: 20 Copynumber: 3.4 Consensus size: 20
7166487 AATATGTAAG
*
7166497 ATATTTACGATCATATATTATA
1 ATATTTAC-AT-ATAAATTATA
*
7166519 ATATTAACATATAAATTATA
1 ATATTTACATATAAATTATA
* *
7166539 TTATTTAAAATATATAACTTATA
1 ATATTT-ACATATA-AA-TTATA
7166562 AT-TTTA
1 ATATTTA
7166568 TATTAATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
20 13 0.32
21 9 0.22
22 12 0.30
23 6 0.15
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (20 bp):
ATATTTACATATAAATTATA
Found at i:7166565 original size:21 final size:19
Alignment explanation
Indices: 7166513--7166565 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 19
7166503 ACGATCATAT
*
7166513 ATTATAATATTAACATATAA
1 ATTATAAT-TTAAAATATAA
7166533 ATTATATTATTTAAAATATATA
1 ATTATA--ATTTAAAATATA-A
7166555 ACTTATAATTT
1 A-TTATAATTT
7166566 TATATTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 6 0.21
21 13 0.46
22 4 0.14
23 5 0.18
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTATAATTTAAAATATAA
Found at i:7166678 original size:32 final size:32
Alignment explanation
Indices: 7166642--7166702 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
7166632 TAATTAAAAG
*
7166642 TAATAA-AAAATAAAAATTATTTTAATATTTTT
1 TAATAATAAAA-AAAAATTATTTAAATATTTTT
**
7166674 TAATAATTTAAAAAAATTATTTAAATATT
1 TAATAATAAAAAAAAATTATTTAAATATT
7166703 ATACCTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 23 0.92
33 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
TAATAATAAAAAAAAATTATTTAAATATTTTT
Found at i:7171692 original size:59 final size:59
Alignment explanation
Indices: 7171616--7171771 Score: 169
Period size: 59 Copynumber: 2.7 Consensus size: 59
7171606 GGCATGTAAT
* **
7171616 AAAT-TTTTTAAATATGGCATGGTATGCAACAACATTTGTTTTCAAAATAGTGTATAGC-A
1 AAATGTTTTTAAACATGGCATGACATGCAACAACATTT-TTTTCAAAATAGTGTATA-CTA
* * *
7171675 AAA-GTTTTTAAACATGGCATGACGTGTAATAACATTTTTTTCAAAATAGTGTATACTA
1 AAATGTTTTTAAACATGGCATGACATGCAACAACATTTTTTTCAAAATAGTGTATACTA
* * * *
7171733 AAATTTTTTTAAACATAGCATG-CA-ACAACAATATTTTTT
1 AAATGTTTTTAAACATGGCATGACATGCAACAACATTTTTT
7171772 AAACATAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
57 12 0.15
58 23 0.28
59 46 0.57
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (59 bp):
AAATGTTTTTAAACATGGCATGACATGCAACAACATTTTTTTCAAAATAGTGTATACTA
Found at i:7171741 original size:58 final size:59
Alignment explanation
Indices: 7171616--7171754 Score: 174
Period size: 59 Copynumber: 2.4 Consensus size: 59
7171606 GGCATGTAAT
* **
7171616 AAATTTTTTAAATATGGCATGGTATGCAACAACATTTGTTTTCAAAATAGTGTATAGCA
1 AAATTTTTTAAACATGGCATGACATGCAACAACATTTGTTTTCAAAATAGTGTATAGCA
* * * *
7171675 AAAGTTTTTAAACATGGCATGACGTGTAATAACATTT-TTTTCAAAATAGTGTATA-CTA
1 AAATTTTTTAAACATGGCATGACATGCAACAACATTTGTTTTCAAAATAGTGTATAGC-A
*
7171733 AAATTTTTTTAAACATAGCATG
1 AAA-TTTTTTAAACATGGCATG
7171755 CAACAACAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 1 0.01
58 22 0.32
59 46 0.67
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (59 bp):
AAATTTTTTAAACATGGCATGACATGCAACAACATTTGTTTTCAAAATAGTGTATAGCA
Done.