Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 76 of 120
Found at i:9483875 original size:18 final size:18
Alignment explanation
Indices: 9483840--9483891 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
9483830 AGTTTTTAAA
9483840 TATATTTTATA--A-ATT
1 TATATTTTATATTATATT
9483855 TATATTTTATATTATATT
1 TATATTTTATATTATATT
9483873 TATA-TTTATATTTATATT
1 TATATTTTATA-TTATATT
9483891 T
1 T
9483892 TATAAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
15 11 0.33
17 7 0.21
18 15 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATATTTTATATTATATT
Found at i:9483890 original size:45 final size:45
Alignment explanation
Indices: 9483803--9483897 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
9483793 AAAAATAAAA
*
9483803 ATAAATTTATATTTTATATTAATATAAAGTTTTTAAATATATTTT
1 ATAAATTTATATTTTATATTAATATAAAGTTTATAAATATATTTT
* * **
9483848 ATAAATTTATATTTTATATTATATTTATA-TTTATATTTATATTTT
1 ATAAATTTATATTTTATATTA-ATATAAAGTTTATAAATATATTTT
9483893 ATAAA
1 ATAAA
9483898 AATAAATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 39 0.89
46 5 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (45 bp):
ATAAATTTATATTTTATATTAATATAAAGTTTATAAATATATTTT
Found at i:9483921 original size:31 final size:33
Alignment explanation
Indices: 9483886--9483949 Score: 87
Period size: 31 Copynumber: 1.9 Consensus size: 33
9483876 ATTTATATTT
9483886 ATATTTTATA-AAAATAAATA-TATTTTATAAA
1 ATATTTTATATAAAATAAATATTATTTTATAAA
*
9483917 ATATTTTATATTAATATAAATATTTATTTTATA
1 ATATTTTATA-TAAAATAAATA-TTATTTTATA
9483950 TTTTATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 10 0.36
33 9 0.32
35 9 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
ATATTTTATATAAAATAAATATTATTTTATAAA
Found at i:9483958 original size:37 final size:36
Alignment explanation
Indices: 9483807--9483958 Score: 120
Period size: 37 Copynumber: 4.2 Consensus size: 36
9483797 ATAAAAATAA
* **
9483807 ATTTATATTTTATATTAATATAAAGTTTTTA-AATAT
1 ATTTATATTTTATATTAATATAAA-TATTTATTTTAT
* * *
9483843 ATTTTATAAATTTATATT-TTATATTATATTTATATTTAT
1 A-TTTAT-ATTTTATATTAATATA-AATATTTAT-TTTAT
*
9483882 ATTTATATTTTATA--AAAATAAATA--TATTTTAT
1 ATTTATATTTTATATTAATATAAATATTTATTTTAT
**
9483914 A-AAATATTTTATATTAATATAAATATTTATTTTAT
1 ATTTATATTTTATATTAATATAAATATTTATTTTAT
9483949 ATTTTATATT
1 A-TTTATATT
9483959 AATATAAAGT
Statistics
Matches: 89, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
31 10 0.11
32 6 0.07
33 12 0.13
35 12 0.13
36 4 0.04
37 26 0.29
38 15 0.17
39 4 0.04
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (36 bp):
ATTTATATTTTATATTAATATAAATATTTATTTTAT
Found at i:9483960 original size:30 final size:30
Alignment explanation
Indices: 9483853--9484026 Score: 126
Period size: 30 Copynumber: 5.7 Consensus size: 30
9483843 ATTTTATAAA
**
9483853 TTTATATTTTATATT-ATATTTATATTTAT
1 TTTATATTTTATATTAATATAAATATTTAT
**
9483882 ATTTATATTTTATAAAAATA-AATATATTTTAT
1 -TTTATATTTTATATTAATATAA-ATA-TTTAT
***
9483914 AAAATATTTTATATTAATATAAATATTTAT
1 TTTATATTTTATATTAATATAAATATTTAT
9483944 TTTATATTTTATATTAATATAAAGT-TTTAT
1 TTTATATTTTATATTAATATAAA-TATTTAT
* * * *
9483974 TAATATAAATATTTTATTTTTATA-AAATA-TAAA
1 T--T-T--ATATTTTATATTAATATAAATATTTAT
9484007 TTTAT-TTTTATATTAATATA
1 TTTATATTTTATATTAATATA
9484027 TCAATTTTAT
Statistics
Matches: 114, Mismatches: 18, Indels: 26
0.72 0.11 0.16
Matches are distributed among these distances:
27 11 0.10
28 3 0.03
30 45 0.39
31 25 0.22
32 8 0.07
33 5 0.04
34 3 0.03
35 14 0.12
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.57
Consensus pattern (30 bp):
TTTATATTTTATATTAATATAAATATTTAT
Found at i:9483971 original size:18 final size:17
Alignment explanation
Indices: 9483813--9483983 Score: 71
Period size: 15 Copynumber: 11.1 Consensus size: 17
9483803 ATAAATTTAT
9483813 ATTTTATATTAATATAA
1 ATTTTATATTAATATAA
9483830 AGTTTT-TA--AATAT--
1 A-TTTTATATTAATATAA
* *
9483843 ATTTTATA--AATTTAT
1 ATTTTATATTAATATAA
**
9483858 ATTTTATATT-ATATTT
1 ATTTTATATTAATATAA
9483874 ATATTTATATT--TAT--
1 AT-TTTATATTAATATAA
*
9483888 ATTTTATA--AAAATAA
1 ATTTTATATTAATATAA
* * *
9483903 A-TATAT-TTTATAAAA
1 ATTTTATATTAATATAA
9483918 TATTTTATATTAATATAA
1 -ATTTTATATTAATATAA
9483936 ATATTTAT-TT--TAT--
1 AT-TTTATATTAATATAA
9483949 ATTTTATATTAATATAA
1 ATTTTATATTAATATAA
*
9483966 AGTTT-TATTAATATAA
1 ATTTTATATTAATATAA
9483982 AT
1 AT
9483984 ATTTTATTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 45
0.67 0.07 0.25
Matches are distributed among these distances:
12 9 0.08
13 19 0.16
14 6 0.05
15 24 0.20
16 22 0.18
17 23 0.19
18 16 0.13
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (17 bp):
ATTTTATATTAATATAA
Found at i:9484002 original size:24 final size:21
Alignment explanation
Indices: 9483882--9484018 Score: 76
Period size: 19 Copynumber: 6.6 Consensus size: 21
9483872 TTATATTTAT
9483882 ATTTATATTTTATAAAA-ATAA
1 ATTTAT-TTTTATAAAATATAA
*
9483903 ATATA-TTTTATAAAATAT--
1 ATTTATTTTTATAAAATATAA
* * *
9483921 -TTTATATTAATATAAATATTTA
1 ATTTATTTTTATA-AAATA-TAA
* *
9483943 TTTTATATTTTATATTAATATAA
1 ATTTAT-TTTTATA-AAATATAA
* *
9483966 AGTTT-TATTAATATAAATAT--
1 A-TTTATTTTTATA-AAATATAA
9483986 -TTTATTTTTATAAAATATAA
1 ATTTATTTTTATAAAATATAA
9484006 ATTTATTTTTATA
1 ATTTATTTTTATA
9484019 TTAATATATC
Statistics
Matches: 89, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
17 3 0.03
18 14 0.16
19 21 0.24
20 3 0.03
21 16 0.18
22 11 0.12
23 8 0.09
24 13 0.15
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
ATTTATTTTTATAAAATATAA
Found at i:9484021 original size:46 final size:47
Alignment explanation
Indices: 9483919--9484026 Score: 123
Period size: 46 Copynumber: 2.3 Consensus size: 47
9483909 TTTATAAAAT
*** *
9483919 ATTTTATATTAATATAAATATTTATTTTATATTTTATATTAATATAA
1 ATTTTATATTAATATAAATATTTATTTTATATAAAATATAAATATAA
* *
9483966 AGTTT-TATTAATATAAATATTTTATTTT-TATAAAATATAAAT-TTA
1 ATTTTATATTAATATAAATA-TTTATTTTATATAAAATATAAATATAA
*
9484011 TTTTTATATTAATATA
1 ATTTTATATTAATATA
9484027 TCAATTTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
45 5 0.10
46 34 0.67
47 12 0.24
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (47 bp):
ATTTTATATTAATATAAATATTTATTTTATATAAAATATAAATATAA
Found at i:9484027 original size:24 final size:24
Alignment explanation
Indices: 9483920--9484033 Score: 82
Period size: 23 Copynumber: 4.9 Consensus size: 24
9483910 TTATAAAATA
9483920 TTTTATATTAATATA-AATATTTA-
1 TTTTATATTAATATATAA-ATTTAT
* * * *
9483943 TTTTATATT-TTATATTAATATAAA
1 TTTTATATTAATATATAAAT-TTAT
*
9483967 GTTT-TATTAATATA-AATATTTTAT
1 TTTTATATTAATATATAA-A-TTTAT
9483991 TTTTATA--AA-ATATAAATTTAT
1 TTTTATATTAATATATAAATTTAT
*
9484012 TTTTATATTAATATATCAATTT
1 TTTTATATTAATATATAAATTT
9484034 TATTCATCAC
Statistics
Matches: 70, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
21 12 0.17
22 10 0.14
23 23 0.33
24 22 0.31
25 3 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (24 bp):
TTTTATATTAATATATAAATTTAT
Found at i:9485506 original size:19 final size:20
Alignment explanation
Indices: 9485469--9485514 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
9485459 TTTTTAAAGA
9485469 AATTATAATTTAAAAATTAT
1 AATTATAATTTAAAAATTAT
*
9485489 AATTATAA-TTAAATATTAT
1 AATTATAATTTAAAAATTAT
*
9485508 ATTTATA
1 AATTATA
9485515 TAGAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTATAATTTAAAAATTAT
Found at i:9486443 original size:25 final size:24
Alignment explanation
Indices: 9486399--9486497 Score: 65
Period size: 24 Copynumber: 3.8 Consensus size: 24
9486389 TTAAAGTTTT
*
9486399 ATAATTTTTAATATCAAAAAATAAAA
1 ATAATTTTAAATAT--AAAAATAAAA
*
9486425 ATAATTTTAAA-ATATAAAATAATA
1 ATAATTTTAAATATA-AAAATAAAA
* * *
9486449 AGAGTTTTAGATATATAAAATAATATA
1 ATAATTTTAAATATA-AAAATAA-A-A
9486476 TATAATTTTGAAATATTAAAAA
1 -ATAATTTT-AAATA-TAAAAA
9486498 AATGAATAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
23 1 0.02
24 16 0.28
25 13 0.23
26 10 0.18
27 1 0.02
28 6 0.11
29 8 0.14
30 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (24 bp):
ATAATTTTAAATATAAAAATAAAA
Found at i:9486448 original size:27 final size:26
Alignment explanation
Indices: 9486399--9486496 Score: 69
Period size: 25 Copynumber: 3.7 Consensus size: 26
9486389 TTAAAGTTTT
*
9486399 ATAATTTT-TAATATCAAAA-AATAAAA
1 ATAATTTTAAAATAT-AAAATAAT-AAA
9486425 ATAATTTTAAAATATAAAATAAT--A
1 ATAATTTTAAAATATAAAATAATAAA
* * * *
9486449 AGAGTTTTAGATATATAAAATAATATAT
1 ATAATTTTA-AAATATAAAATAATA-AA
*
9486477 ATAATTTTGAAATATTAAAA
1 ATAATTTTAAAATA-TAAAA
9486497 AAATGAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
24 8 0.14
25 13 0.23
26 12 0.21
27 12 0.21
28 11 0.20
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (26 bp):
ATAATTTTAAAATATAAAATAATAAA
Found at i:9486691 original size:9 final size:9
Alignment explanation
Indices: 9486677--9486709 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9486667 CAGTTTTCCC
9486677 TTTTTCTTT
1 TTTTTCTTT
9486686 TTTTTCTTT
1 TTTTTCTTT
*
9486695 TTTTT-TTG
1 TTTTTCTTT
9486703 TTTTTCT
1 TTTTTCT
9486710 CTTTAAACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:9486697 original size:17 final size:17
Alignment explanation
Indices: 9486677--9486709 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9486667 CAGTTTTCCC
*
9486677 TTTTTCTTT-TTTTTCT
1 TTTTTTTTTGTTTTTCT
9486693 TTTTTTTTTGTTTTTCT
1 TTTTTTTTTGTTTTTCT
9486710 CTTTAAACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTGTTTTTCT
Found at i:9491200 original size:12 final size:12
Alignment explanation
Indices: 9491183--9491226 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
9491173 GGTGGGGGGA
9491183 AATGGGAAATGG
1 AATGGGAAATGG
9491195 AATGGGAAATGGG
1 AATGGGAAAT-GG
*
9491208 AAATGAGAAATGAG
1 -AATGGGAAATG-G
9491222 AATGG
1 AATGG
9491227 TAAGGAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 10 0.37
13 7 0.26
14 10 0.37
ACGTcount: A:0.45, C:0.00, G:0.39, T:0.16
Consensus pattern (12 bp):
AATGGGAAATGG
Found at i:9491223 original size:7 final size:7
Alignment explanation
Indices: 9491179--9491219 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
9491169 TAAAGGTGGG
9491179 GGGAAAT
1 GGGAAAT
9491186 GGGAAAT
1 GGGAAAT
9491193 -GG-AAT
1 GGGAAAT
9491198 GGGAAAT
1 GGGAAAT
9491205 GGGAAAT
1 GGGAAAT
*
9491212 GAGAAAT
1 GGGAAAT
9491219 G
1 G
9491220 AGAATGGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 3 0.10
6 4 0.13
7 24 0.77
ACGTcount: A:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (7 bp):
GGGAAAT
Found at i:9492162 original size:22 final size:22
Alignment explanation
Indices: 9492130--9492175 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
9492120 ATGATATTTT
* *
9492130 TGCTTTTAAAATATCCAGAATC
1 TGCTTTAAAAATATACAGAATC
9492152 TGCTTTAAAAATATACAGAATC
1 TGCTTTAAAAATATACAGAATC
9492174 TG
1 TG
9492176 GTCGGAATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TGCTTTAAAAATATACAGAATC
Found at i:9496884 original size:8 final size:8
Alignment explanation
Indices: 9496841--9496865 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9496831 TACTTTAAAA
9496841 TTATTTTT
1 TTATTTTT
9496849 TTATTTTT
1 TTATTTTT
9496857 TTATTTTT
1 TTATTTTT
9496865 T
1 T
9496866 CATAACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:9504391 original size:25 final size:25
Alignment explanation
Indices: 9504358--9504414 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
9504348 TATAACAAGT
* *
9504358 GAAAAAATTAAAAAGAGAACACAAA
1 GAAAGAATTAAAAAGAAAACACAAA
* *
9504383 GAAAGAATTAGAAAGAAAACGCAAA
1 GAAAGAATTAAAAAGAAAACACAAA
*
9504408 GAGAGAA
1 GAAAGAA
9504415 ACAGCCGGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.67, C:0.07, G:0.19, T:0.07
Consensus pattern (25 bp):
GAAAGAATTAAAAAGAAAACACAAA
Found at i:9507620 original size:2 final size:2
Alignment explanation
Indices: 9507613--9507644 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9507603 TATTTGGACT
*
9507613 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9507645 AAACTTGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9510570 original size:21 final size:22
Alignment explanation
Indices: 9510537--9510579 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
9510527 TTCATTTTTT
9510537 ATTTAAAAATTA-TAAAATAAA
1 ATTTAAAAATTATTAAAATAAA
* * *
9510558 ATTTTAAATTTATTATAATAAA
1 ATTTAAAAATTATTAAAATAAA
9510580 TAATTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTTAAAAATTATTAAAATAAA
Found at i:9510577 original size:22 final size:23
Alignment explanation
Indices: 9510552--9510612 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
9510542 AAAATTATAA
9510552 AATAAAATTTTAAATTTA-TTAT
1 AATAAAATTTTAAATTTATTTAT
9510574 AATAAATAATTTT--ATTTATTTTAT
1 AAT-AA-AATTTTAAATTTA-TTTAT
9510598 AAT-AAATTTATAAAT
1 AATAAAATTT-TAAAT
9510613 AAATAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
21 5 0.16
22 10 0.31
23 2 0.06
24 15 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATAAAATTTTAAATTTATTTAT
Found at i:9510604 original size:38 final size:38
Alignment explanation
Indices: 9510562--9510638 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 38
9510552 AATAAAATTT
*
9510562 TAAATTTATTATAATAAAT-AATTTT-ATTTATTTTATAA
1 TAAATTTA-TA-AATAAATAAATTTTAATTAATTTTATAA
9510600 TAAATTTATAAATAAATAAAATTTTAATTAATTTTATAA
1 TAAATTTATAAATAAAT-AAATTTTAATTAATTTTATAA
9510639 ATATTAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
36 7 0.20
37 2 0.06
38 14 0.40
39 12 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (38 bp):
TAAATTTATAAATAAATAAATTTTAATTAATTTTATAA
Found at i:9510639 original size:36 final size:38
Alignment explanation
Indices: 9510562--9510667 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 38
9510552 AATAAAATTT
* *
9510562 TAAATTTATTATAATAAAT--AATTTTATTTATTTTATAA
1 TAAATTTA-TA-AATAAATAAAATTTTAATTAATTTATAA
9510600 TAAATTTATAAATAAATAAAATTTTAATTAATTT-T-A
1 TAAATTTATAAATAAATAAAATTTTAATTAATTTATAA
* * *
9510636 TAAATAT-TAAATAATTTAAAATTTTTATTAAT
1 TAAATTTATAAATAA-ATAAAATTTTAATTAAT
9510668 ATAATTTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
35 7 0.12
36 29 0.48
37 3 0.05
38 21 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (38 bp):
TAAATTTATAAATAAATAAAATTTTAATTAATTTATAA
Found at i:9514727 original size:24 final size:24
Alignment explanation
Indices: 9514700--9514784 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
9514690 AAAATCTTTC
9514700 ATTTTATTATTTTATTTAAATAAA
1 ATTTTATTATTTTATTTAAATAAA
* *
9514724 ATTTTTTTATTTT-TTTATTGACGTAAA
1 ATTTTATTATTTTATTTA---A-ATAAA
* *
9514751 ATTTTAAT-TTTTATATAAAT-AA
1 ATTTTATTATTTTATTTAAATAAA
9514773 ATTTT-TTATTTT
1 ATTTTATTATTTT
9514785 TAATTTATAC
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
21 1 0.02
22 11 0.23
23 5 0.10
24 13 0.27
26 5 0.10
27 13 0.27
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTATTATTTTATTTAAATAAA
Found at i:9514750 original size:27 final size:27
Alignment explanation
Indices: 9514701--9514755 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
9514691 AAATCTTTCA
*
9514701 TTTTATTATTTTATTTAAATAAAATTT
1 TTTTATTATTTTATTGAAATAAAATTT
* **
9514728 TTTTATTTTTTTATTGACGTAAAATTT
1 TTTTATTATTTTATTGAAATAAAATTT
9514755 T
1 T
9514756 AATTTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTATTATTTTATTGAAATAAAATTT
Found at i:9519032 original size:23 final size:24
Alignment explanation
Indices: 9518983--9519041 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
9518973 CTTGAATATT
*
9518983 TGATATATGGTTTATATGCTTGATG
1 TGAT-TATAGTTTATATGCTTGATG
*
9519008 TGATTA-AGTTT-TATGTTTGATTG
1 TGATTATAGTTTATATGCTTGA-TG
*
9519031 TGTTTATAGTT
1 TGATTATAGTT
9519042 ATGCACAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 8 0.28
23 11 0.38
24 6 0.21
25 4 0.14
ACGTcount: A:0.22, C:0.02, G:0.22, T:0.54
Consensus pattern (24 bp):
TGATTATAGTTTATATGCTTGATG
Found at i:9521517 original size:196 final size:196
Alignment explanation
Indices: 9521183--9521763 Score: 1162
Period size: 196 Copynumber: 3.0 Consensus size: 196
9521173 TCTTAAAAGT
9521183 TTGGATTGATTAATGCACCTTGATTGATGTTCATGCCTAGTTCTTAGTTGCTTTGATAAGATTAA
1 TTGGATTGATTAATGCACCTTGATTGATGTTCATGCCTAGTTCTTAGTTGCTTTGATAAGATTAA
9521248 TGAGTTTTAATGCACGAATATTTGTTTAAGATAAAATCTGTGAACATTATTATGAGTTGAATACA
66 TGAGTTTTAATGCACGAATATTTGTTTAAGATAAAATCTGTGAACATTATTATGAGTTGAATACA
9521313 TTGATTTTTTAAACTTTAATTGCTTGACTCATAGATTATAAAGTTATGATTTGAAATTTGATAAG
131 TTGATTTTTTAAACTTTAATTGCTTGACTCATAGATTATAAAGTTATGATTTGAAATTTGATAAG
9521378 A
196 A
9521379 TTGGATTGATTAATGCACCTTGATTGATGTTCATGCCTAGTTCTTAGTTGCTTTGATAAGATTAA
1 TTGGATTGATTAATGCACCTTGATTGATGTTCATGCCTAGTTCTTAGTTGCTTTGATAAGATTAA
9521444 TGAGTTTTAATGCACGAATATTTGTTTAAGATAAAATCTGTGAACATTATTATGAGTTGAATACA
66 TGAGTTTTAATGCACGAATATTTGTTTAAGATAAAATCTGTGAACATTATTATGAGTTGAATACA
9521509 TTGATTTTTTAAACTTTAATTGCTTGACTCATAGATTATAAAGTTATGATTTGAAATTTGATAAG
131 TTGATTTTTTAAACTTTAATTGCTTGACTCATAGATTATAAAGTTATGATTTGAAATTTGATAAG
9521574 A
196 A
9521575 TTGGATTGATTAATGCACCTTGATTGATGTTCATGCCTAGTTCTTAGTTGCTTTGATAAGATTAA
1 TTGGATTGATTAATGCACCTTGATTGATGTTCATGCCTAGTTCTTAGTTGCTTTGATAAGATTAA
9521640 TGAGTTTTAATGCACGAATATTTGTTTAAGATAAAATCTGTGAACATTATTATGAGTTGAATACA
66 TGAGTTTTAATGCACGAATATTTGTTTAAGATAAAATCTGTGAACATTATTATGAGTTGAATACA
9521705 TTGATTTTTTAAACTTTAATTGCTTGACTCATAGATTATAAAGTTATGATTTGAAATTT
131 TTGATTTTTTAAACTTTAATTGCTTGACTCATAGATTATAAAGTTATGATTTGAAATTT
9521764 ATACAAGTTC
Statistics
Matches: 385, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
196 385 1.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.43
Consensus pattern (196 bp):
TTGGATTGATTAATGCACCTTGATTGATGTTCATGCCTAGTTCTTAGTTGCTTTGATAAGATTAA
TGAGTTTTAATGCACGAATATTTGTTTAAGATAAAATCTGTGAACATTATTATGAGTTGAATACA
TTGATTTTTTAAACTTTAATTGCTTGACTCATAGATTATAAAGTTATGATTTGAAATTTGATAAG
A
Found at i:9524754 original size:158 final size:157
Alignment explanation
Indices: 9524388--9524864 Score: 441
Period size: 159 Copynumber: 3.0 Consensus size: 157
9524378 ATACCATTCA
* * * *
9524388 TCCTACAATA-TTTAGGCTTTCAATTACTACACTATCTATTTCATCAATAGTCATAATACACAAC
1 TCCTACAA-AGTTTAGTCTTTCAATTACT-CACTATCTACTTCATCAACAATCATAATACACAAC
* * * * * * *
9524452 CAAAATCGCAAAAGTAAAATAT-ACTATAGTTTTCACCTTTACAA-AATCAT-TGCATCTCAATA
64 TAAAATCAC-AAAG-AAAA-ATGACAATAGTTTTCACTTTTACAACATTAATCT-CATCTTAATA
** *
9524514 AGCATAAAACACTATATTGTTCAATAC--CATT
125 AGCATAAAACACTATATAATTCAATACTGAATT
* * * * * *
9524545 CATCCTGCAATGTTTAGTTTTTCAATTACTTCATTATCTAGTTCATAAACAATCATAATACACAA
1 --TCCTACAAAGTTTAGTCTTTCAATTAC-TCACTATCTACTTCATCAACAATCATAATACACAA
* * * * *
9524610 CTAGAATCACAAAGGAAAATGCACAATAGTTTTCAACTTTTACAACATTGATCTCATTTTAATAC
63 CTAAAATCACAAAGAAAAATG-ACAATAGTTTTC-ACTTTTACAACATTAATCTCATCTTAATAA
* * *
9524675 GTATAAAACACTATCTAATTCAACACTGAATT
126 GCATAAAACACTATATAATTCAATACTGAATT
* * *
9524707 TCCTACAAAGTTTAGTCTTTCAATTACT-ACTATCTACTTCATCAACAATTACAATACACCACTA
1 TCCTACAAAGTTTAGTCTTTCAATTACTCACTATCTACTTCATCAACAATCATAATACACAACTA
* *
9524771 AAATCACAAAGCAAAAAATG-CAATAG-TATCACTTTTCATAACATTAATCTCATCTTAATAAGC
66 AAATCACAAAG--AAAAATGACAATAGTTTTCACTTTT-ACAACATTAATCTCATCTTAATAAGC
* * *
9524834 ATAAAGCACGATATAATTTAATACTGAATT
128 ATAAAACACTATATAATTCAATACTGAATT
9524864 T
1 T
9524865 TCTATAATAA
Statistics
Matches: 258, Mismatches: 48, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
156 8 0.03
157 53 0.21
158 61 0.24
159 68 0.26
160 64 0.25
161 1 0.00
162 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.33
Consensus pattern (157 bp):
TCCTACAAAGTTTAGTCTTTCAATTACTCACTATCTACTTCATCAACAATCATAATACACAACTA
AAATCACAAAGAAAAATGACAATAGTTTTCACTTTTACAACATTAATCTCATCTTAATAAGCATA
AAACACTATATAATTCAATACTGAATT
Found at i:9529022 original size:11 final size:11
Alignment explanation
Indices: 9529006--9529030 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9528996 AACTTCAACT
9529006 ACAAATGACTC
1 ACAAATGACTC
9529017 ACAAATGACTC
1 ACAAATGACTC
9529028 ACA
1 ACA
9529031 GCTATGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.08, T:0.16
Consensus pattern (11 bp):
ACAAATGACTC
Found at i:9536049 original size:15 final size:15
Alignment explanation
Indices: 9536029--9536058 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9536019 TGGATCTTAG
9536029 ACCCAAATAAATGTT
1 ACCCAAATAAATGTT
9536044 ACCCAAATAAATGTT
1 ACCCAAATAAATGTT
9536059 TTTTAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (15 bp):
ACCCAAATAAATGTT
Found at i:9536115 original size:9 final size:9
Alignment explanation
Indices: 9536101--9536141 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
9536091 TTTATTTACT
9536101 AAAAACAAA
1 AAAAACAAA
9536110 AAAAACAAA
1 AAAAACAAA
*
9536119 AAAACCAAA
1 AAAAACAAA
9536128 AAATAA-AAA
1 AAA-AACAAA
9536137 AAAAA
1 AAAAA
9536142 GTTTGGGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 2 0.07
9 26 0.90
10 1 0.03
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAACAAA
Found at i:9538566 original size:8 final size:8
Alignment explanation
Indices: 9538555--9538580 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9538545 ATATTAACAT
9538555 ATTTATAC
1 ATTTATAC
9538563 ATTTATAC
1 ATTTATAC
9538571 ATTTATAC
1 ATTTATAC
9538579 AT
1 AT
9538581 CCATGCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTATAC
Found at i:9542312 original size:43 final size:43
Alignment explanation
Indices: 9542258--9542634 Score: 253
Period size: 43 Copynumber: 8.7 Consensus size: 43
9542248 AAATCCCTTT
* ** *
9542258 TATACTTTAAAGTTGTTGAGTCTCTGATGAGATGAGCTTTTTA
1 TATATTTTAAAGTTGTTGAACCTCTGATGAGAGGAGCTTTTTA
* * * * *
9542301 TATATTTTAAAGTTGTTGAGCATTTGATGAAAGGAGCCTTTTA
1 TATATTTTAAAGTTGTTGAACCTCTGATGAGAGGAGCTTTTTA
* * * * * *
9542344 TAT-TTTTCGAAGTTATTAAATCTATGATGAGAGGAGTTTTTTA
1 TATATTTT-AAAGTTGTTGAACCTCTGATGAGAGGAGCTTTTTA
* * * *
9542387 AATTTTTTAAAGTTGTT-AATCTTTTGATGAGAGGAGCTTTTTA
1 TATATTTTAAAGTTGTTGAA-CCTCTGATGAGAGGAGCTTTTTA
* * * * * * * *
9542430 TATTATTCT-AAGTTATTGAGCTTCTGTTGAAAGAAACTTTTTA
1 TA-TATTTTAAAGTTGTTGAACCTCTGATGAGAGGAGCTTTTTA
* * * * *
9542473 -AAACTTTTAAAGTTGTTGACCCTTTGATAAGACGAGC-TTTTA
1 TATA-TTTTAAAGTTGTTGAACCTCTGATGAGAGGAGCTTTTTA
* * * *
9542515 AATTTTTTTAAAATTGTTGAACCTCTGATGAGAGTAGCTTTTTA
1 TA-TATTTTAAAGTTGTTGAACCTCTGATGAGAGGAGCTTTTTA
* * * * ** *
9542559 AATATTTTAAAGTTCTTGAGCCTCTGATGAAATAAGTTTTTTA
1 TATATTTTAAAGTTGTTGAACCTCTGATGAGAGGAGCTTTTTA
*
9542602 TAT-TTTTCAAAAGTTATTGAACCTCTGATGAGA
1 TATATTTT--AAAGTTGTTGAACCTCTGATGAGA
9542635 AATGTCTTTT
Statistics
Matches: 256, Mismatches: 66, Indels: 23
0.74 0.19 0.07
Matches are distributed among these distances:
41 1 0.00
42 19 0.07
43 199 0.78
44 37 0.14
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (43 bp):
TATATTTTAAAGTTGTTGAACCTCTGATGAGAGGAGCTTTTTA
Found at i:9542472 original size:129 final size:129
Alignment explanation
Indices: 9542263--9542634 Score: 394
Period size: 129 Copynumber: 2.9 Consensus size: 129
9542253 CCTTTTATAC
* * *
9542263 TTTAAAGTTGTTGAGTCTCTGATGAGATGAGCTTTTTATATATTTTAAAGTTGTTGAGCATT-TG
1 TTTAAAGTTGTTGAATCTCTGATGAGAGGAGCTTTTTATATATTTTAAAGTTATTGAGC-TTCTG
* * * * * * *
9542327 ATGAAAGGAGCCTTTTATATTTTTCGAAGTTATTAAATCTATGATGAGAGGAGTTTTTTAAA-TT
65 ATGAAAGAAGCTTTTTATATTTTTCAAAGTTATTGAACCTATGATGAGACGAG-CTTTTAAATTT
9542391 T
129 T
* *
9542392 TTTAAAGTTGTT-AATCTTTTGATGAGAGGAGCTTTTTATATTATTCT-AAGTTATTGAGCTTCT
1 TTTAAAGTTGTTGAATC-TCTGATGAGAGGAGCTTTTTATA-TATTTTAAAGTTATTGAGCTTCT
* * * * * * * *
9542455 GTTGAAAGAAACTTTTTAAAACTTTT-AAAGTTGTTGACCCTTTGATAAGACGAGCTTTTAAATT
64 GATGAAAGAAGCTTTTT-ATATTTTTCAAAGTTATTGAACCTATGATGAGACGAGCTTTTAAATT
9542519 TT
128 TT
* * * * * *
9542521 TTTAAAATTGTTGAACCTCTGATGAGAGTAGCTTTTTAAATATTTTAAAGTTCTTGAGCCTCTGA
1 TTTAAAGTTGTTGAATCTCTGATGAGAGGAGCTTTTTATATATTTTAAAGTTATTGAGCTTCTGA
* * *
9542586 TGAAATAAGTTTTTTATATTTTTCAAAAGTTATTGAACCTCTGATGAGA
66 TGAAAGAAGCTTTTTATATTTTTC-AAAGTTATTGAACCTATGATGAGA
9542635 AATGTCTTTT
Statistics
Matches: 196, Mismatches: 38, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
128 23 0.12
129 139 0.71
130 34 0.17
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (129 bp):
TTTAAAGTTGTTGAATCTCTGATGAGAGGAGCTTTTTATATATTTTAAAGTTATTGAGCTTCTGA
TGAAAGAAGCTTTTTATATTTTTCAAAGTTATTGAACCTATGATGAGACGAGCTTTTAAATTTT
Found at i:9542556 original size:86 final size:85
Alignment explanation
Indices: 9542263--9542634 Score: 302
Period size: 86 Copynumber: 4.3 Consensus size: 85
9542253 CCTTTTATAC
* ** * *
9542263 TTTAAAGTTGTTGAGTCTCTGATGAGA-TGAGCTTTTTATATATTTTAAAGTTGTTGAGCATTTG
1 TTTAAAGTTATTGAACCTCTGATGAGAGT-AGCTTTTTA-AAATTTTAAAGTTGTTGAGCCTTTG
9542327 ATGAAAGGAGCCTTTTATA-TTT
64 ATGAAAGGAG-CTTTTATATTTT
** * * * * * * * * *
9542349 TTCGAAGTTATTAAATCTATGATGAGAGGAGTTTTTTAAATTTTTTAAAGTTGTTAATCTTTTGA
1 TTTAAAGTTATTGAACCTCTGATGAGAGTAGCTTTTTAAA-ATTTTAAAGTTGTTGAGCCTTTGA
* *
9542414 TGAGAGGAGCTTTTTATATTAT
65 TGAAAGGAGC-TTTTATATTTT
* * * * * * * *
9542436 TCT-AAGTTATTGAGCTTCTGTTGAAAGAAACTTTTTAAAACTTTTAAAGTTGTTGACCCTTTGA
1 TTTAAAGTTATTGAACCTCTGATGAGAGTAGCTTTTTAAAA-TTTTAAAGTTGTTGAGCCTTTGA
* *
9542500 T-AAGACGAGCTTTTAAATTTT
65 TGAA-AGGAGCTTTTATATTTT
* * * *
9542521 TTTAAAATTGTTGAACCTCTGATGAGAGTAGCTTTTTAAATATTTTAAAGTTCTTGAGCCTCTGA
1 TTTAAAGTTATTGAACCTCTGATGAGAGTAGCTTTTTAAA-ATTTTAAAGTTGTTGAGCCTTTGA
** *
9542586 TGAAATAAGTTTTTTATATTTT
65 TGAAAGGAG-CTTTTATATTTT
**
9542608 TCAAAAGTTATTGAACCTCTGATGAGA
1 TTTAAAGTTATTGAACCTCTGATGAGA
9542635 AATGTCTTTT
Statistics
Matches: 221, Mismatches: 55, Indels: 19
0.75 0.19 0.06
Matches are distributed among these distances:
85 14 0.06
86 168 0.76
87 39 0.18
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (85 bp):
TTTAAAGTTATTGAACCTCTGATGAGAGTAGCTTTTTAAAATTTTAAAGTTGTTGAGCCTTTGAT
GAAAGGAGCTTTTATATTTT
Found at i:9542630 original size:44 final size:45
Alignment explanation
Indices: 9542518--9542656 Score: 137
Period size: 44 Copynumber: 3.2 Consensus size: 45
9542508 GCTTTTAAAT
* * * * *
9542518 TTTTTTAAAA-TTGTTGAACCTCTGATGAGAGT-AGCTTTTTAAA
1 TTTTTCAAAAGTTATTGAACCTCTGATGAGAATAAGTTTTTTATA
* *
9542561 TATTTT--AAAGTTCTTGAGCCTCTGATGA-AATAAGTTTTTTATA
1 T-TTTTCAAAAGTTATTGAACCTCTGATGAGAATAAGTTTTTTATA
* *
9542604 TTTTTCAAAAGTTATTGAACCTCTGATGAGAA-ATGTCTTTTATA
1 TTTTTCAAAAGTTATTGAACCTCTGATGAGAATAAGTTTTTTATA
*
9542648 TTTTACAAA
1 TTTTTCAAA
9542657 GTTGCTAAGC
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
42 9 0.11
43 27 0.34
44 42 0.52
45 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (45 bp):
TTTTTCAAAAGTTATTGAACCTCTGATGAGAATAAGTTTTTTATA
Found at i:9542770 original size:23 final size:22
Alignment explanation
Indices: 9542735--9542780 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
9542725 AATATCAATC
9542735 TTTGATGAGAATTTCTAAATTT
1 TTTGATGAGAATTTCTAAATTT
* * *
9542757 TTTGAATGTGAATTTTTGAATTT
1 TTTG-ATGAGAATTTCTAAATTT
9542780 T
1 T
9542781 ATATGTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.54
Consensus pattern (22 bp):
TTTGATGAGAATTTCTAAATTT
Found at i:9542907 original size:18 final size:19
Alignment explanation
Indices: 9542866--9542942 Score: 70
Period size: 18 Copynumber: 4.1 Consensus size: 19
9542856 AACTTTTGTG
*
9542866 AATCTTTG-AATTCAATTGCA
1 AATCTTTGAAATTC--TTACA
9542886 AATCTTTGAAA-TCTTACA
1 AATCTTTGAAATTCTTACA
*
9542904 AATCTTT-AAATTCTTACG
1 AATCTTTGAAATTCTTACA
* **
9542922 AACCTTTGATTTTCTTACA
1 AATCTTTGAAATTCTTACA
9542941 AA
1 AA
9542943 AATTTGAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
17 3 0.06
18 23 0.48
19 10 0.21
20 10 0.21
21 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (19 bp):
AATCTTTGAAATTCTTACA
Found at i:9543852 original size:42 final size:41
Alignment explanation
Indices: 9543791--9543869 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 41
9543781 TATAACTGAA
* *
9543791 TTTAATTTTTAAAATTATACATTATAAAT-ACAAATTTGTTT
1 TTTAATTTTTAAAACTATACATCATAAATGA-AAATTTGTTT
*
9543832 TTTAATTTTTTATAACTATACATCATAAATGAAAATTT
1 TTTAA-TTTTTAAAACTATACATCATAAATGAAAATTT
9543870 TACAATACCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 5 0.15
42 27 0.82
43 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (41 bp):
TTTAATTTTTAAAACTATACATCATAAATGAAAATTTGTTT
Found at i:9544151 original size:16 final size:16
Alignment explanation
Indices: 9544125--9544174 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
9544115 TAAGCATAAG
*
9544125 ATAATGCAAATTCAAA
1 ATAATTCAAATTCAAA
* *
9544141 ATAATTTAAATACAAA
1 ATAATTCAAATTCAAA
* *
9544157 ATTATTCCAATTCAAA
1 ATAATTCAAATTCAAA
9544173 AT
1 AT
9544175 TATCTGAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (16 bp):
ATAATTCAAATTCAAA
Found at i:9544175 original size:16 final size:16
Alignment explanation
Indices: 9544131--9544177 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
9544121 TAAGATAATG
*
9544131 CAAATTCAAAATAATT
1 CAAATTCAAAATTATT
* *
9544147 TAAATACAAAATTATT
1 CAAATTCAAAATTATT
*
9544163 CCAATTCAAAATTAT
1 CAAATTCAAAATTAT
9544178 CTGAAATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (16 bp):
CAAATTCAAAATTATT
Found at i:9548735 original size:17 final size:18
Alignment explanation
Indices: 9548706--9548746 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
9548696 TCATATTTAG
9548706 TTTATAGATA-TTT-GATT
1 TTTA-AGATATTTTAGATT
9548723 TTTAAGATAATTTTAGATT
1 TTTAAGAT-ATTTTAGATT
9548742 TTTAA
1 TTTAA
9548747 TAGTATCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.19
17 5 0.24
18 3 0.14
19 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (18 bp):
TTTAAGATATTTTAGATT
Found at i:9550941 original size:19 final size:19
Alignment explanation
Indices: 9550899--9550935 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9550889 TAATATACAT
* *
9550899 AAATAATATTGATACACAC
1 AAATAATATTGATATATAC
9550918 AAATAATATTGATATATA
1 AAATAATATTGATATATA
9550936 TGAATAGATA
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:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (19 bp):
AAATAATATTGATATATAC
Found at i:9551672 original size:23 final size:23
Alignment explanation
Indices: 9551646--9551689 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
9551636 AAAATAATGA
9551646 TATATTGTATTAATATTATTATT
1 TATATTGTATTAATATTATTATT
*
9551669 TATATTGTATTTATATTATTA
1 TATATTGTATTAATATTATTA
9551690 ATATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (23 bp):
TATATTGTATTAATATTATTATT
Found at i:9551679 original size:11 final size:11
Alignment explanation
Indices: 9551646--9551685 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
9551636 AAAATAATGA
9551646 TATATTGTATT
1 TATATTGTATT
* *
9551657 AATATTATTATT
1 TATATT-GTATT
9551669 TATATTGTATT
1 TATATTGTATT
9551680 TATATT
1 TATATT
9551686 ATTAATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (11 bp):
TATATTGTATT
Found at i:9552057 original size:105 final size:106
Alignment explanation
Indices: 9551886--9552094 Score: 321
Period size: 105 Copynumber: 2.0 Consensus size: 106
9551876 TTTTCATGTC
* * *
9551886 GTGTCATGTATTAAATGTATTTCCGTGTAACATGTTTTATTTAAACATATTTTTCATGTGTTATA
1 GTGTCATGTATTAAATGTATTTCCGTGTAACA-GTTTTATTTAAACATATTTTTCATATCTCATA
* *
9551951 CGTGTTTAAACATATTAATACATATAAAATATAAATTGTATG
65 CGTGTTTAAACATATCAATACATATAAAATAAAAATTGTATG
* ** *
9551993 GTGTTATGTATTAAATGTATTTTTGTGTAACA-TTTTATTTAAGCATATTTTTCATATCTCATAC
1 GTGTCATGTATTAAATGTATTTCCGTGTAACAGTTTTATTTAAACATATTTTTCATATCTCATAC
9552057 GTGTTTAAACATATCAATACATATAAAATAAAAATTGT
66 GTGTTTAAACATATCAATACATATAAAATAAAAATTGT
9552095 GTCGTATCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
105 64 0.69
107 29 0.31
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (106 bp):
GTGTCATGTATTAAATGTATTTCCGTGTAACAGTTTTATTTAAACATATTTTTCATATCTCATAC
GTGTTTAAACATATCAATACATATAAAATAAAAATTGTATG
Found at i:9554584 original size:30 final size:32
Alignment explanation
Indices: 9554548--9554617 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
9554538 CGAAATTAAT
* * *
9554548 AAAATATTATTTTTTAAATATA-A-ATATTTA
1 AAAATATTATTATATAAATATATATATAATTA
*
9554578 AAAATATCATTATATAAATATATATATAATTA
1 AAAATATTATTATATAAATATATATATAATTA
9554610 AAAA-ATTA
1 AAAATATTA
9554618 AAAAATTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 19 0.58
31 4 0.12
32 10 0.30
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
AAAATATTATTATATAAATATATATATAATTA
Found at i:9558087 original size:34 final size:33
Alignment explanation
Indices: 9558048--9558125 Score: 79
Period size: 34 Copynumber: 2.3 Consensus size: 33
9558038 ATTATATTAT
*
9558048 ATTTTTAAAAGTAAAT-TT-ATGAGAATGCAATATA
1 ATTTTTAAAA-TAAATCTTCA-GA-AATACAATATA
**
9558082 ATTTTTTAAAATCTATCTTCAGAAATACAATATA
1 A-TTTTTAAAATAAATCTTCAGAAATACAATATA
9558116 ATTTTTAAAA
1 ATTTTTAAAA
9558126 ATTTATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
33 9 0.24
34 15 0.39
35 13 0.34
36 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.41
Consensus pattern (33 bp):
ATTTTTAAAATAAATCTTCAGAAATACAATATA
Found at i:9558203 original size:14 final size:15
Alignment explanation
Indices: 9558179--9558209 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
9558169 CTAAATTTAT
9558179 ATTATATTTTTAAAA
1 ATTATATTTTTAAAA
9558194 ATTA-ATTTTTAAAA
1 ATTATATTTTTAAAA
9558208 AT
1 AT
9558210 AATAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTATATTTTTAAAA
Found at i:9558253 original size:24 final size:24
Alignment explanation
Indices: 9558210--9558267 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
9558200 TTTTAAAAAT
*
9558210 AATAAATAAATACATTTAATTTTAA
1 AATAAAT-AATACATGTAATTTTAA
9558235 AATAAATAATACATGTAATTTTAA
1 AATAAATAATACATGTAATTTTAA
**
9558259 TTTAAATAA
1 AATAAATAA
9558268 AATAAATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (24 bp):
AATAAATAATACATGTAATTTTAA
Found at i:9558255 original size:54 final size:52
Alignment explanation
Indices: 9558200--9558301 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 52
9558190 AAAAATTAAT
* *
9558200 TTTTAA-AAATAATAAATAAATACATTTAATTTTAAAATAAATAATACATGTAA
1 TTTTAATAAAT-A-AAATAAATAAATTTAATCTTAAAATAAATAATACATGTAA
*
9558253 TTTTAATTTAAATAAAATAAATAAATTTAATCTTAAAGTAAATAATACA
1 TTTTAA--TAAATAAAATAAATAAATTTAATCTTAAAATAAATAATACA
9558302 AATATAGGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
53 6 0.14
54 32 0.74
55 1 0.02
56 4 0.09
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (52 bp):
TTTTAATAAATAAAATAAATAAATTTAATCTTAAAATAAATAATACATGTAA
Found at i:9558281 original size:24 final size:24
Alignment explanation
Indices: 9558213--9558294 Score: 65
Period size: 24 Copynumber: 3.1 Consensus size: 24
9558203 TAAAAATAAT
*
9558213 AAATAAATACATTTAATTTTAAAATAA
1 AAATAAATAAATTTAA-TTT-AAAT-A
* *
9558240 ATAATACATGTAATTTTAATTTAAATA
1 A-AATA-A-ATAAATTTAATTTAAATA
9558267 AAATAAATAAATTTAATCTTAAAGTA
1 AAATAAATAAATTTAAT-TTAAA-TA
9558293 AA
1 AA
9558295 TAATACAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
24 9 0.20
25 6 0.13
26 8 0.18
27 3 0.07
28 8 0.18
29 4 0.09
30 7 0.16
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATAAATAAATTTAATTTAAATA
Found at i:9558305 original size:30 final size:28
Alignment explanation
Indices: 9558217--9558305 Score: 78
Period size: 30 Copynumber: 3.2 Consensus size: 28
9558207 AATAATAAAT
*
9558217 AAATACATTTAATTTTAAAATAAATAATAC
1 AAATAAATTTAA-TTT-AAATAAATAATAC
** *
9558247 ATGTAATTTTAATTTAAAT-AA-AAT--
1 AAATAAATTTAATTTAAATAAATAATAC
9558271 AAATAAATTTAATCTTAAAGTAAATAATAC
1 AAATAAATTTAAT-TTAAA-TAAATAATAC
9558301 AAATA
1 AAATA
9558306 TAGGAATATT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
24 10 0.22
25 5 0.11
26 4 0.09
27 4 0.09
28 7 0.15
29 3 0.07
30 13 0.28
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.37
Consensus pattern (28 bp):
AAATAAATTTAATTTAAATAAATAATAC
Found at i:9567822 original size:610 final size:611
Alignment explanation
Indices: 9565562--9568618 Score: 6036
Period size: 611 Copynumber: 5.0 Consensus size: 611
9565552 ATGGTTTTAA
9565562 ATTATTTGATAACTTTTGGTGCATTAAAAACCCTAATCACACCTCGAATGATGTGAAATTACTAT
1 ATTATTTGATAACTTTTGGTGCATTAAAAACCCTAATCACACCTCGAATGATGTGAAATTACTAT
9565627 AATACCCTTACGAGATAATTTTGTAATTTAACATTTTTTAGGTCGTTTGCTATGAAAGCTTTCAG
66 AATACCCTTACGAGATAATTTTGTAATTTAACATTTTTTAGGTCGTTTGCTATGAAAGCTTTCAG
9565692 ATCATAGTTTCATTCTATTTTAGGATTTTTGGTGCTTTAAAATCATAAAAAAAGAAGCAAGGATC
131 ATCATAGTTTCATTCTATTTTAGGATTTTTGGTGCTTTAAAATCATAAAAAAAGAAGCAAGGATC
9565757 ACGATTCTCCAAGAAAATTGCATGAAAACTAAAAGCTTTCTAATTTATGGTAAAATGACCTTTTC
196 ACGATTCTCCAAGAAAATTGCATGAAAACTAAAAGCTTTCTAATTTATGGTAAAATGACCTTTTC
9565822 ACTTAGT-CCAACAACATTAAAAATTTAAACTTTAGACATGAACATTCTTAACCATAGGATCATC
261 ACTTAGTCCCAACAACATTAAAAATTTAAACTTTAGACATGAACATTCTTAACCATAGGATCATC
9565886 TTGAGAGATTAGAACCAATGGTGAATGTTTGCTCATTGTAAAGAAAACAA-GGAGAAAGGATGCT
326 TTGAGAGATTAGAACCAATGGTGAATGTTTGCTCATTGTAAAGAAAACAAGGGAGAAAGGATGCT
9565950 TATTAGATGAAAAATCAATCCAAGGGTTACATGATTTTTACATGGTTTATTTATTCATCTTTAAA
391 TATTAGATGAAAAATCAATCCAAGGGTTACATGATTTTTACATGGTTTATTTATTCATCTTTAAA
9566015 GGTAGTG--AAAAAGGGTTTTGGAGATGAGGAGTTGGGAGGTGTGAAAAACAGGGAAGAAAAAGA
456 GGTAGTGAAAAAAAGGGTTTTGGAGATGAGGAGTTGGGAGGTGTGAAAAACAGGGAAGAAAAAGA
9566078 AAGAAAATAGAAAAATTTAGAGAAACTTGGAGGAGGTATAATTTCTACTAGTGTTTCCTTTGCAT
521 AAGAAAATAGAAAAATTTAGAGAAACTTGGAGGAGGTATAATTTCTACTAGTGTTTCCTTTGCAT
9566143 TTCATAGCATTTCATTATG-TTTCAT
586 TTCATAGCATTTCATTATGTTTTCAT
9566168 ATTATTTGATAACTTTTGGTGCATTAAAAACCCTAATCACACCTCGAATGATGTGAAATTACTAT
1 ATTATTTGATAACTTTTGGTGCATTAAAAACCCTAATCACACCTCGAATGATGTGAAATTACTAT
9566233 AATACCCTTACGAGATAATTTTGTAATTTAACATTTTTTAGGTCGTTTGCTATGAAAGCTTTCAG
66 AATACCCTTACGAGATAATTTTGTAATTTAACATTTTTTAGGTCGTTTGCTATGAAAGCTTTCAG
9566298 ATCATAGTTTCATTCTATTTTAGGATTTTTGGTGCTTTAAAAATCATAAAAAAAGAAGCAAGGAT
131 ATCATAGTTTCATTCTATTTTAGGATTTTTGGTGCTTT-AAAATCATAAAAAAAGAAGCAAGGAT
9566363 CACGATTCTCCAAGAAAATTGCATGAAAACTAAAAGCTTTCTAATTTATGGTAAAATGACCTTTT
195 CACGATTCTCCAAGAAAATTGCATGAAAACTAAAAGCTTTCTAATTTATGGTAAAATGACCTTTT
9566428 CACTTAGTCCCAACAACATTAAAAATTTAAACTTTAGACATGAACATTCTTAACCATAGGATCAT
260 CACTTAGTCCCAACAACATTAAAAATTTAAACTTTAGACATGAACATTCTTAACCATAGGATCAT
9566493 CTTGAGAGATTAGAACCAATGGTGAATGTTTGCTCATTGTAAAGAAAACAAGGGAGAAAGGATGC
325 CTTGAGAGATTAGAACCAATGGTGAATGTTTGCTCATTGTAAAGAAAACAAGGGAGAAAGGATGC
9566558 TTATTAGATGAAAAATCAATCCAAGGGTTACATGATTTTTACATGGTTTATTTATTCATCTTTAA
390 TTATTAGATGAAAAATCAATCCAAGGGTTACATGATTTTTACATGGTTTATTTATTCATCTTTAA
9566623 AGGTAGTGAAAAAAAGGGTTTTGGAGATGAGGAGTTGGGAGGTGTGAAAAACAGGGAAGAAAAAG
455 AGGTAGTGAAAAAAAGGGTTTTGGAGATGAGGAGTTGGGAGGTGTGAAAAACAGGGAAGAAAAAG
9566688 AAAGAAAATAGAAAAATTTAGAGAAACTTGGAGGAGGTATAATTTCTACTAGTGTTTCCTTTGCA
520 AAAGAAAATAGAAAAATTTAGAGAAACTTGGAGGAGGTATAATTTCTACTAGTGTTTCCTTTGCA
9566753 TTTCATAGCATTTCATTATGTTTTCAT
585 TTTCATAGCATTTCATTATGTTTTCAT
*
9566780 ATTATTTGATAACTTTTGGTGCATTAAAAACCCTAATCACACATCGAATGATGTGAAATTACTAT
1 ATTATTTGATAACTTTTGGTGCATTAAAAACCCTAATCACACCTCGAATGATGTGAAATTACTAT
9566845 AATACCCTTACGAGATAATTTTGTAATTTAACATTTTTTAGGTCGTTTGCTATGAAAGCTTTCAG
66 AATACCCTTACGAGATAATTTTGTAATTTAACATTTTTTAGGTCGTTTGCTATGAAAGCTTTCAG
9566910 ATCATAGTTTCATTCTATTTTAGGATTTTTGGTGCTTTAAAATCATAAAAAAAGAAGCAAGGATC
131 ATCATAGTTTCATTCTATTTTAGGATTTTTGGTGCTTTAAAATCATAAAAAAAGAAGCAAGGATC
9566975 ACGATTCTCCAAGAAAATTGCATGAAAACTAAAAGCTTTCTAATTTATGGTAAAATGACCTTTTC
196 ACGATTCTCCAAGAAAATTGCATGAAAACTAAAAGCTTTCTAATTTATGGTAAAATGACCTTTTC
9567040 ACTTAGTCCCAACAACATTAAAAATTTAAACTTTAGACATGAACATTCTTAACCATAGGATCATC
261 ACTTAGTCCCAACAACATTAAAAATTTAAACTTTAGACATGAACATTCTTAACCATAGGATCATC
9567105 TTGAGAGATTAGAACCAATGGTGAATGTTTGCTCATTGTAAAGAAAACAAGGGAGAAAGGATGCT
326 TTGAGAGATTAGAACCAATGGTGAATGTTTGCTCATTGTAAAGAAAACAAGGGAGAAAGGATGCT
9567170 TATTAGATGAAAAATCAATCCAAGGGTTACATGATTTTTACATGGTTTATTTATTCATCTTTAAA
391 TATTAGATGAAAAATCAATCCAAGGGTTACATGATTTTTACATGGTTTATTTATTCATCTTTAAA
9567235 GGTAGTGAAAAAAAGGGTTTTGGAGATGAGGAGTTGGGAGGTGTGAAAAACAGGGAAGAAAAAGA
456 GGTAGTGAAAAAAAGGGTTTTGGAGATGAGGAGTTGGGAGGTGTGAAAAACAGGGAAGAAAAAGA
9567300 AAGAAAATAGAAAAATTTAGAGAAACTTGGAGGAGGTATAATTTCTACTAGTGTTTCCTTTGCAT
521 AAGAAAATAGAAAAATTTAGAGAAACTTGGAGGAGGTATAATTTCTACTAGTGTTTCCTTTGCAT
9567365 TTCATAGCATTTCATTATG-TTTCAT
586 TTCATAGCATTTCATTATGTTTTCAT
*
9567390 ATTATTTGATAACTTTTGGTGCATTAAAAACCCTAATCACACATCGAATGATGTGAAATTACTAT
1 ATTATTTGATAACTTTTGGTGCATTAAAAACCCTAATCACACCTCGAATGATGTGAAATTACTAT
9567455 AATACCCTTACGAGATAATTTTGTAATTTAACATTTTTTAGGTCGTTTGCTATGAAAGCTTTCAG
66 AATACCCTTACGAGATAATTTTGTAATTTAACATTTTTTAGGTCGTTTGCTATGAAAGCTTTCAG
9567520 ATCATAGTTTCATTCTATTTTAGGATTTTTGGTGCTTTAAAATCATAAAAAAAGAAGCAAGGATC
131 ATCATAGTTTCATTCTATTTTAGGATTTTTGGTGCTTTAAAATCATAAAAAAAGAAGCAAGGATC
9567585 ACGATTCTCCAAGAAAATTGCATGAAAACTAAAAGCTTTCTAATTTATGGTAAAATGACCTTTTC
196 ACGATTCTCCAAGAAAATTGCATGAAAACTAAAAGCTTTCTAATTTATGGTAAAATGACCTTTTC
9567650 ACTTAGTCCCAACAACATTAAAAATTTAAACTTTAGACATGAACATTCTTAACCATAGGATCATC
261 ACTTAGTCCCAACAACATTAAAAATTTAAACTTTAGACATGAACATTCTTAACCATAGGATCATC
9567715 TTGAGAGATTAGAACCAATGGTGAATGTTTGCTCATTGTAAAGAAAACAAGGGAGAAAGGATGCT
326 TTGAGAGATTAGAACCAATGGTGAATGTTTGCTCATTGTAAAGAAAACAAGGGAGAAAGGATGCT
9567780 TATTAGATGAAAAATCAATCCAAGGGTTACATGATTTTTACATGGTTTATTTATTCATCTTTAAA
391 TATTAGATGAAAAATCAATCCAAGGGTTACATGATTTTTACATGGTTTATTTATTCATCTTTAAA
9567845 GGTAGTGAAAAAAAGGGTTTTGGAGATGAGGAGTTGGGAGGTGTGAAAAACAGGGAAGAAAAAGA
456 GGTAGTGAAAAAAAGGGTTTTGGAGATGAGGAGTTGGGAGGTGTGAAAAACAGGGAAGAAAAAGA
9567910 AAGAAAATAGAAAAATTTAGAGAAACTTGGAGGAGGTATAATTTCTACTAGTGTTTCCTTTGCAT
521 AAGAAAATAGAAAAATTTAGAGAAACTTGGAGGAGGTATAATTTCTACTAGTGTTTCCTTTGCAT
9567975 TTCATAGCATTTCATTATGTTTTCAT
586 TTCATAGCATTTCATTATGTTTTCAT
9568001 ATTATTTGATAACTTTTGGTGCATTAAAAACCCTAATCACACCTCGAATGATGTGAAATTACTAT
1 ATTATTTGATAACTTTTGGTGCATTAAAAACCCTAATCACACCTCGAATGATGTGAAATTACTAT
9568066 AATACCCTTACGAGATAATTTTGTAATTTAACATTTTTTAGGTCGTTTGCTATGAAAGCTTTCAG
66 AATACCCTTACGAGATAATTTTGTAATTTAACATTTTTTAGGTCGTTTGCTATGAAAGCTTTCAG
9568131 ATCATAGTTTCATTCTATTTTAGGATTTTTGGTGCTTTAAAATCATAAAAAAAGAAGCAAGGATC
131 ATCATAGTTTCATTCTATTTTAGGATTTTTGGTGCTTTAAAATCATAAAAAAAGAAGCAAGGATC
9568196 ACGATTCTCCAAGAAAATTGCATGAAAACTAAAAGCTTTCTAATTTATGGTAAAATGACCTTTTC
196 ACGATTCTCCAAGAAAATTGCATGAAAACTAAAAGCTTTCTAATTTATGGTAAAATGACCTTTTC
9568261 ACTTAGTCCCAACAACATTAAAAATTTAAACTTTAGACATGAACATTCTTAACCATAGGATCATC
261 ACTTAGTCCCAACAACATTAAAAATTTAAACTTTAGACATGAACATTCTTAACCATAGGATCATC
9568326 TTGAGAGATTAGAACCAATGGTGAATGTTTGCTCATTGTAAAGAAAACAAGGGAGAAAGGATGCT
326 TTGAGAGATTAGAACCAATGGTGAATGTTTGCTCATTGTAAAGAAAACAAGGGAGAAAGGATGCT
9568391 TATTAGATGAAAAATCAATCCAAGGGTTACATGATTTTTACATGGTTTATTTATTCATCTTTAAA
391 TATTAGATGAAAAATCAATCCAAGGGTTACATGATTTTTACATGGTTTATTTATTCATCTTTAAA
9568456 GGTAGTGAAAAAAAGGGTTTTGGAGATGAGGAGTTGGGAGGTGTGAAAAACAGGGAAGAAAAAGA
456 GGTAGTGAAAAAAAGGGTTTTGGAGATGAGGAGTTGGGAGGTGTGAAAAACAGGGAAGAAAAAGA
9568521 AAGAAAATAGAAAAATTTAGAGAAACTTGGAGGAGGTATAATTTCTACTAGTGTTTCCTTTGCAT
521 AAGAAAATAGAAAAATTTAGAGAAACTTGGAGGAGGTATAATTTCTACTAGTGTTTCCTTTGCAT
9568586 TTCATAGCATTTCATTATGTTTTCAT
586 TTCATAGCATTTCATTATGTTTTCAT
*
9568612 ATCATTT
1 ATTATTT
9568619 TAATCTTGTT
Statistics
Matches: 2441, Mismatches: 3, Indels: 9
1.00 0.00 0.00
Matches are distributed among these distances:
606 168 0.07
607 99 0.04
608 107 0.04
609 86 0.04
610 610 0.25
611 1198 0.49
612 173 0.07
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (611 bp):
ATTATTTGATAACTTTTGGTGCATTAAAAACCCTAATCACACCTCGAATGATGTGAAATTACTAT
AATACCCTTACGAGATAATTTTGTAATTTAACATTTTTTAGGTCGTTTGCTATGAAAGCTTTCAG
ATCATAGTTTCATTCTATTTTAGGATTTTTGGTGCTTTAAAATCATAAAAAAAGAAGCAAGGATC
ACGATTCTCCAAGAAAATTGCATGAAAACTAAAAGCTTTCTAATTTATGGTAAAATGACCTTTTC
ACTTAGTCCCAACAACATTAAAAATTTAAACTTTAGACATGAACATTCTTAACCATAGGATCATC
TTGAGAGATTAGAACCAATGGTGAATGTTTGCTCATTGTAAAGAAAACAAGGGAGAAAGGATGCT
TATTAGATGAAAAATCAATCCAAGGGTTACATGATTTTTACATGGTTTATTTATTCATCTTTAAA
GGTAGTGAAAAAAAGGGTTTTGGAGATGAGGAGTTGGGAGGTGTGAAAAACAGGGAAGAAAAAGA
AAGAAAATAGAAAAATTTAGAGAAACTTGGAGGAGGTATAATTTCTACTAGTGTTTCCTTTGCAT
TTCATAGCATTTCATTATGTTTTCAT
Found at i:9569202 original size:28 final size:28
Alignment explanation
Indices: 9569170--9569253 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 28
9569160 TATCCCAAAT
*
9569170 CCAAACACTAAACTCTAAACCTT-AAACC
1 CCAAACTCTAAAC-CTAAACCTTAAAACC
9569198 CCAAACTCTTAAACC-AAACCTTAAAACC
1 CCAAACTC-TAAACCTAAACCTTAAAACC
* *
9569226 CTAAACTCTAAACCCTAAA-CTTCAAACC
1 CCAAACTCTAAA-CCTAAACCTTAAAACC
9569254 TTAAACCCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
27 11 0.22
28 30 0.61
29 8 0.16
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.19
Consensus pattern (28 bp):
CCAAACTCTAAACCTAAACCTTAAAACC
Found at i:9569271 original size:14 final size:14
Alignment explanation
Indices: 9569178--9569266 Score: 78
Period size: 14 Copynumber: 6.4 Consensus size: 14
9569168 ATCCAAACAC
*
9569178 TAAACTCTAAACCT
1 TAAACCCTAAACCT
*
9569192 TAAACCCCAAACTCT
1 TAAACCCTAAAC-CT
9569207 TAAA-CC-AAACCT
1 TAAACCCTAAACCT
9569219 TAAAACCCTAAA-CT
1 T-AAACCCTAAACCT
9569233 CTAAACCCTAAA-CT
1 -TAAACCCTAAACCT
* *
9569247 TCAAACCTTAAACCC
1 T-AAACCCTAAACCT
9569262 TAAAC
1 TAAAC
9569267 ATTAACCATT
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
12 3 0.05
13 8 0.12
14 41 0.64
15 12 0.19
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:9569291 original size:7 final size:7
Alignment explanation
Indices: 9569185--9569271 Score: 56
Period size: 7 Copynumber: 12.4 Consensus size: 7
9569175 CACTAAACTC
9569185 TAAACCT
1 TAAACCT
*
9569192 TAAACCC
1 TAAACCT
*
9569199 CAAACTCT
1 TAAAC-CT
9569207 TAAACC-
1 TAAACCT
9569213 -AAACCT
1 TAAACCT
*
9569219 TAAAACCC
1 T-AAACCT
9569227 TAAA-CT
1 TAAACCT
*
9569233 CTAAACCC
1 -TAAACCT
9569241 TAAA-CT
1 TAAACCT
9569247 TCAAACCT
1 T-AAACCT
*
9569255 TAAACCC
1 TAAACCT
*
9569262 TAAACAT
1 TAAACCT
9569269 TAA
1 TAA
9569272 CCATTACCAA
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
5 5 0.08
6 3 0.05
7 38 0.62
8 15 0.25
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCT
Found at i:9569323 original size:18 final size:19
Alignment explanation
Indices: 9569300--9569335 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9569290 ACCTTAAAAT
9569300 CTAAACC-TAAATCCTAAA
1 CTAAACCTTAAATCCTAAA
9569318 CTAAACCTTAAATCCTAA
1 CTAAACCTTAAATCCTAA
9569336 CTTAAACCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (19 bp):
CTAAACCTTAAATCCTAAA
Found at i:9569493 original size:34 final size:35
Alignment explanation
Indices: 9569445--9569517 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 35
9569435 ACATGCATTC
*
9569445 TTTAATTGTCATGCAT-TCATATTTTATTATTAATG
1 TTTAATTGTCATGCATATCATATATTATTATT-ATG
9569480 TTTAATT-TCATGCATACATCATATATTATTATTATG
1 TTTAATTGTCATGCAT--ATCATATATTATTATTATG
9569516 TT
1 TT
9569518 CATGCATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
34 8 0.24
35 7 0.21
36 5 0.15
37 14 0.41
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (35 bp):
TTTAATTGTCATGCATATCATATATTATTATTATG
Found at i:9570416 original size:14 final size:14
Alignment explanation
Indices: 9570380--9570419 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 14
9570370 AAAAAAAATA
*
9570380 AAAAAAAT-TTTCG
1 AAAAAAATGTTTTG
9570393 -AAAAAA-GTTTTG
1 AAAAAAATGTTTTG
9570405 AAAAAAATGTTTTG
1 AAAAAAATGTTTTG
9570419 A
1 A
9570420 TTTTTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 10 0.43
13 6 0.26
14 7 0.30
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.33
Consensus pattern (14 bp):
AAAAAAATGTTTTG
Found at i:9571186 original size:17 final size:17
Alignment explanation
Indices: 9571166--9571241 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 17
9571156 AGAAAAAAAT
9571166 AAAAAAAAGAGAAAGAA
1 AAAAAAAAGAGAAAGAA
* *
9571183 AAAAAAAAGGGGAAGAA
1 AAAAAAAAGAGAAAGAA
* *
9571200 AAACAAAAAGGGAATGAA
1 AAA-AAAAAGAGAAAGAA
* *
9571218 TAGAAAAA-A-AAAGAA
1 AAAAAAAAGAGAAAGAA
9571233 AAAAAAAAG
1 AAAAAAAAG
9571242 GGTTCTAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
15 11 0.23
17 23 0.49
18 13 0.28
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (17 bp):
AAAAAAAAGAGAAAGAA
Found at i:9576277 original size:16 final size:15
Alignment explanation
Indices: 9576246--9576289 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
9576236 GTGATAAAAC
9576246 AAGCAAAGAAAGAGA
1 AAGCAAAGAAAGAGA
*
9576261 AAGCAAAGGAAATAGA
1 AAGCAAA-GAAAGAGA
*
9576277 AAGAAAAAGAAAG
1 AAG-CAAAGAAAG
9576290 CAAAAGAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 7 0.29
16 14 0.58
17 3 0.12
ACGTcount: A:0.68, C:0.05, G:0.25, T:0.02
Consensus pattern (15 bp):
AAGCAAAGAAAGAGA
Found at i:9580812 original size:34 final size:34
Alignment explanation
Indices: 9580769--9580843 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
9580759 TTGCCAATTA
9580769 AAGTA-AAAATTCCTTCATTAAGGGTCTTGATGG
1 AAGTATAAAATTCCTTCATTAAGGGTCTTGATGG
9580802 AAGTATAAAATTCCTTCATTAAGGGTCTTGATGG
1 AAGTATAAAATTCCTTCATTAAGGGTCTTGATGG
9580836 AAGTATAA
1 AAGTATAA
9580844 TTGGAAGAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 5 0.12
34 36 0.88
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (34 bp):
AAGTATAAAATTCCTTCATTAAGGGTCTTGATGG
Found at i:9582781 original size:49 final size:48
Alignment explanation
Indices: 9582359--9582913 Score: 473
Period size: 49 Copynumber: 11.5 Consensus size: 48
9582349 GTTGAGCTTT
* * * *
9582359 TTTTCAAAATGAAAATTTTAAAGTTCCCT-CATCTATGTTTATAGGAGCC
1 TTTTCAAAATGAGATTTTTAAAGTTCCATGC--CTATGTTTATAAGAGCC
* * * ** * *
9582408 ATTTTGAAAATGATATTTTTAAAGTTCCCTTGCCTACATTTATAGGAGCAA
1 -TTTTCAAAATGAGATTTTTAAAGTT-CCATGCCTATGTTTATAAGAGC-C
* * * *
9582459 TTGTCAAAATGAGATTTTTAAAGTTCTATTGCCTATATTTATAAGAGCTA
1 TTTTCAAAATGAGATTTTTAAAGTTCCA-TGCCTATGTTTATAAGAGC-C
* * **
9582509 TTTTCAAAATGAAATTTTTAAAGTTCCTTGTTTATGTTTATAAGAGCC
1 TTTTCAAAATGAGATTTTTAAAGTTCCATGCCTATGTTTATAAGAGCC
* *
9582557 TTTTTC-AAA-GTGATTTTTAAAGTTTCATGCC-ATGTTTATAAGAGCC
1 -TTTTCAAAATGAGATTTTTAAAGTTCCATGCCTATGTTTATAAGAGCC
*
9582603 TTTTCAAAATGAGATTTTTAAAGTTCCCTGCCTATGTTTAT-AGAAGCC
1 TTTTCAAAATGAGATTTTTAAAGTTCCATGCCTATGTTTATAAG-AGCC
* * * * *
9582651 TTTTCAAAATGAAATTTTTAAAATTCCCTACCTATATTTATAAGAGCC
1 TTTTCAAAATGAGATTTTTAAAGTTCCATGCCTATGTTTATAAGAGCC
* *
9582699 TTTTTC-AAATCA-ATTTTTAAAGTTCCATGCCTATTTTTATAAGAGCCC
1 -TTTTCAAAATGAGATTTTTAAAGTTCCATGCCTATGTTTATAAGAG-CC
* * * * * *
9582747 TTTTTAAAATTAGATTTGTAAAGTTCTC-TACCTATTTTTATAGGAGCCC
1 TTTTCAAAATGAGATTTTTAAAGTTC-CATGCCTATGTTTATAAGAG-CC
* * * * *
9582796 TTTTCAAAATAAGATTGTCAAAGTTCCATACCTATGTTTATAGGAGCC
1 TTTTCAAAATGAGATTTTTAAAGTTCCATGCCTATGTTTATAAGAGCC
* * * * * ***
9582844 TTTTTCAAAGT-A-ATTTGTAAAGTTCCCTAGCTTATGTTTATAGGTTAC
1 -TTTTCAAAATGAGATTTTTAAAGTTCCAT-GCCTATGTTTATAAGAGCC
9582892 TTTTCAAAATGAGATTTTTAAA
1 TTTTCAAAATGAGATTTTTAAA
9582914 ATTTTTTAGC
Statistics
Matches: 421, Mismatches: 64, Indels: 41
0.80 0.12 0.08
Matches are distributed among these distances:
45 5 0.01
46 18 0.04
47 91 0.22
48 87 0.21
49 115 0.27
50 101 0.24
51 3 0.01
52 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (48 bp):
TTTTCAAAATGAGATTTTTAAAGTTCCATGCCTATGTTTATAAGAGCC
Found at i:9582895 original size:96 final size:95
Alignment explanation
Indices: 9582372--9582913 Score: 466
Period size: 96 Copynumber: 5.6 Consensus size: 95
9582362 TCAAAATGAA
* * * *
9582372 AATTT-TAAAGTTCCCTCATCTATGTTTATAGGAGCCATTTTGAAAATGATATTTTTAAAGTTCC
1 AATTTGTAAAGTTCCCT-ACCTATGTTTATAAGAGCC-TTTTCAAAATGAGATTTTTAAAGTT-C
* ** * ** * *
9582436 CTTGCCTACATTTATAGGAGCAATTGTCAAAAT
63 CATGCCTATGTTTATAAGAGCCTTTTTCAAAGT
* ** * * * *
9582469 GAGATTTTTAAAGTTCTATTGCCTATATTTATAAGAGCTATTTTCAAAATGAAATTTTTAAAGTT
1 -A-ATTTGTAAAGTTC-CCTACCTATGTTTATAAGAGC-CTTTTCAAAATGAGATTTTTAAAGTT
* **
9582534 CCTTGTTTATGTTTATAAGAGCCTTTTTCAAAGT
62 CCATGCCTATGTTTATAAGAGCCTTTTTCAAAGT
* * * * * *
9582568 GATTTTTAAAGTTTCATGCC-ATGTTTATAAGAGCCTTTTCAAAATGAGATTTTTAAAGTTCCCT
1 AATTTGTAAAGTTCCCTACCTATGTTTATAAGAGCCTTTTCAAAATGAGATTTTTAAAGTTCCAT
*
9582632 GCCTATGTTTAT-AGAAGCC-TTTTCAAAATGA
66 GCCTATGTTTATAAG-AGCCTTTTTC-AAA-GT
* * * *
9582663 AATTTTTAAAATTCCCTACCTATATTTATAAGAGCCTTTTTC-AAATCA-ATTTTTAAAGTTCCA
1 AATTTGTAAAGTTCCCTACCTATGTTTATAAGAGCC-TTTTCAAAATGAGATTTTTAAAGTTCCA
* * *
9582726 TGCCTATTTTTATAAGAGCCCTTTTTAAAATT
65 TGCCTATGTTTATAAGAG-CCTTTTTCAAAGT
* * * * * *
9582758 AGATTTGTAAAGTTCTCTACCTATTTTTATAGGAGCCCTTTTCAAAATAAGATTGTCAAAGTTCC
1 A-ATTTGTAAAGTTCCCTACCTATGTTTATAAGAG-CCTTTTCAAAATGAGATTTTTAAAGTTCC
* *
9582823 ATACCTATGTTTATAGGAGCCTTTTTCAAAGT
64 ATGCCTATGTTTATAAGAGCCTTTTTCAAAGT
* * ***
9582855 AATTTGTAAAGTTCCCTAGCTTATGTTTATAGGTTACTTTTCAAAATGAGATTTTTAAA
1 AATTTGTAAAGTTCCCTA-CCTATGTTTATAAGAGCCTTTTCAAAATGAGATTTTTAAA
9582914 ATTTTTTAGC
Statistics
Matches: 364, Mismatches: 63, Indels: 36
0.79 0.14 0.08
Matches are distributed among these distances:
93 7 0.02
94 44 0.12
95 58 0.16
96 99 0.27
97 52 0.14
98 29 0.08
99 29 0.08
100 45 0.12
101 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (95 bp):
AATTTGTAAAGTTCCCTACCTATGTTTATAAGAGCCTTTTCAAAATGAGATTTTTAAAGTTCCAT
GCCTATGTTTATAAGAGCCTTTTTCAAAGT
Found at i:9585201 original size:43 final size:43
Alignment explanation
Indices: 9585116--9585202 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
9585106 TATTCCCATA
* * * * *
9585116 CATCAAAGTTTGCATTTTTATCAATGGTATTTTTGTAATTTTG
1 CATCAAAATTTGCATTTTCATCAATGGCATTCTTATAATTTTG
*
9585159 CATCAAAATTTGCATTTTCATCAATGGCATTCTTATAGTTTTG
1 CATCAAAATTTGCATTTTCATCAATGGCATTCTTATAATTTTG
9585202 C
1 C
9585203 CACATACATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (43 bp):
CATCAAAATTTGCATTTTCATCAATGGCATTCTTATAATTTTG
Found at i:9585250 original size:20 final size:19
Alignment explanation
Indices: 9585227--9585290 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 19
9585217 ATAAAACCCC
9585227 AAACCTAAAATCCAAACCTT
1 AAACCT-AAATCCAAACCTT
* *
9585247 AAACCCCAAATCCAAACCCT
1 AAA-CCTAAATCCAAACCTT
9585267 AAATCCCTAAAT-CAAACCTT
1 AAA--CCTAAATCCAAACCTT
9585287 AAAC
1 AAAC
9585291 AAAACCTTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 1 0.03
20 28 0.74
21 9 0.24
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.17
Consensus pattern (19 bp):
AAACCTAAATCCAAACCTT
Found at i:9585337 original size:54 final size:52
Alignment explanation
Indices: 9585271--9585419 Score: 174
Period size: 54 Copynumber: 2.8 Consensus size: 52
9585261 AACCCTAAAT
9585271 CCCTAAATCAAACCTTAAACAAAACCTTGAAACCCTAAACCTTTAATCC-CAAA
1 CCCTAAATCAAACCTTAAACAAAACCTT-AAACCCTAAACCTTTAA-CCTCAAA
* * *
9585324 CCCCTAAATCAAACCTTAAACCAAACCTTAAAACCTTAAATCTTTAACCTCAAA
1 -CCCTAAATCAAACCTTAAACAAAACCTT-AAACCCTAAACCTTTAACCTCAAA
* * * *
9585378 CCCTAAACCCCAACCTTTAACTAAAACCCTAAACCCTAAACC
1 CCCTAAA-TCAAACCTTAAAC-AAAACCTTAAACCCTAAACC
9585420 AAACCTTTAA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
53 9 0.11
54 66 0.81
55 6 0.07
ACGTcount: A:0.44, C:0.35, G:0.01, T:0.21
Consensus pattern (52 bp):
CCCTAAATCAAACCTTAAACAAAACCTTAAACCCTAAACCTTTAACCTCAAA
Found at i:9585423 original size:19 final size:19
Alignment explanation
Indices: 9585401--9585498 Score: 76
Period size: 19 Copynumber: 5.1 Consensus size: 19
9585391 CCTTTAACTA
*
9585401 AAACCCTAAACCCTAAACC
1 AAACCTTAAACCCTAAACC
* *
9585420 AAACCTTTAA-CCTTAACC
1 AAACCTTAAACCCTAAACC
*
9585438 TAAACCTTAAACCC-AACCC
1 -AAACCTTAAACCCTAAACC
* **
9585457 AAACCCTAAAAAACTAAACC
1 AAA-CCTTAAACCCTAAACC
9585477 -AACCTTTAAACCCTAAAACC
1 AAACC-TTAAACCCT-AAACC
9585497 AA
1 AA
9585499 TATTTCATCC
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
18 12 0.20
19 35 0.59
20 11 0.19
21 1 0.02
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (19 bp):
AAACCTTAAACCCTAAACC
Found at i:9585601 original size:35 final size:35
Alignment explanation
Indices: 9585555--9585628 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
9585545 AAATGCATTA
*
9585555 TTTAATTGTCATGCAT-TCATATTTTATTATTCATG
1 TTTAATTGTCATGCATATCATATATTATTATT-ATG
9585590 TTTAATTGTCATGCATACATCATATATTATTATTATG
1 TTTAATTGTCATGCAT--ATCATATATTATTATTATG
9585627 TT
1 TT
9585629 CATGCATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
35 16 0.46
37 5 0.14
38 14 0.40
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (35 bp):
TTTAATTGTCATGCATATCATATATTATTATTATG
Found at i:9587622 original size:2 final size:2
Alignment explanation
Indices: 9587615--9587647 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9587605 AAATAAAACA
9587615 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9587648 CTTTTCTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9594337 original size:2 final size:2
Alignment explanation
Indices: 9594330--9594357 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9594320 CACAAGTCAG
9594330 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
9594358 TATTGTGAGC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9599532 original size:44 final size:43
Alignment explanation
Indices: 9599483--9599580 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 43
9599473 ATGTCAACCC
** *
9599483 AAATAATATAATAAATTAGTACACATGTAAAATCAAAATCTAAA
1 AAATAA-ATAATAAATTAGTACACATAAAAAATCAAAAGCTAAA
* * * *
9599527 AAATAAACAAATAAATTGGTACACATAAAAAATCATAAGCTATA
1 AAATAAA-TAATAAATTAGTACACATAAAAAATCAAAAGCTAAA
9599571 AAATAAATAA
1 AAATAAATAA
9599581 ATGGGTTAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
43 3 0.07
44 42 0.93
ACGTcount: A:0.61, C:0.09, G:0.05, T:0.24
Consensus pattern (43 bp):
AAATAAATAATAAATTAGTACACATAAAAAATCAAAAGCTAAA
Found at i:9600388 original size:70 final size:68
Alignment explanation
Indices: 9600225--9600389 Score: 163
Period size: 70 Copynumber: 2.4 Consensus size: 68
9600215 CTAATTAAAA
* *
9600225 CATGTAAAATAAATCATGC-AAATATCATAATAAAAATCACACCAAAATATTATAATAAAAATCA
1 CATGTAAAA-AAATCATGCAAAATATAATAATAAAAACCACACCAAAATATTATAATAAAAATCA
9600289 CAAT
65 CAAT
** * * * * *
9600293 CATCCAAAAATATCATGCAGTAAATATAATAATAAACACCATA-CAAAATATTATTCATATAAAT
1 CATGTAAAAAAATCATGCA--AAATATAATAATAAAAACCACACCAAAATATTA-TAATAAAAAT
**
9600357 CATGAT
63 CACAAT
9600363 CATGTAAATAAAATCCATGCAAAATAT
1 CATGTAAA-AAAAT-CATGCAAAATAT
9600390 TATCTAATTA
Statistics
Matches: 77, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
67 8 0.10
68 7 0.09
69 10 0.13
70 42 0.55
71 4 0.05
72 6 0.08
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.27
Consensus pattern (68 bp):
CATGTAAAAAAATCATGCAAAATATAATAATAAAAACCACACCAAAATATTATAATAAAAATCAC
AAT
Found at i:9600579 original size:11 final size:11
Alignment explanation
Indices: 9600541--9600579 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
9600531 TAAAAATAAT
* *
9600541 AAAAAATAAAT
1 AAAAAACAAAA
*
9600552 AAAAAACAGAA
1 AAAAAACAAAA
9600563 AAAAAACAAAA
1 AAAAAACAAAA
9600574 AAAAAA
1 AAAAAA
9600580 GGTCAGGTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.87, C:0.05, G:0.03, T:0.05
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:9605329 original size:21 final size:20
Alignment explanation
Indices: 9605302--9605363 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
9605292 CACAAAGATC
9605302 CAAAATATTTCACAAAATTAA
1 CAAAATATTTCACAAAA-TAA
* *
9605323 TAAAATATTTAAGCACAAA-AA
1 CAAAATATTTCA-CA-AAATAA
9605344 CAAACATATTTCACAAAATA
1 CAAA-ATATTTCACAAAATA
9605364 TCTTTCACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
20 3 0.09
21 18 0.55
22 9 0.27
23 3 0.09
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.26
Consensus pattern (20 bp):
CAAAATATTTCACAAAATAA
Found at i:9610666 original size:23 final size:23
Alignment explanation
Indices: 9610637--9610682 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
9610627 CAACCACCAC
*
9610637 TAGCCACCC-ACGCTCCTACCCTA
1 TAGCCACCCTAC-CGCCTACCCTA
9610660 TAGCCACCCTACCGCCTACCCTA
1 TAGCCACCCTACCGCCTACCCTA
9610683 ACCATCCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.22, C:0.52, G:0.09, T:0.17
Consensus pattern (23 bp):
TAGCCACCCTACCGCCTACCCTA
Found at i:9612012 original size:29 final size:28
Alignment explanation
Indices: 9611980--9612049 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
9611970 TCTAAAATTT
*
9611980 TTAAACCCCAAAACATCCAAACCCTAAGA
1 TTAAACCCC-AAACATCCAAACCCTAAAA
* * * *
9612009 TTAAATCTCAAACCTTCAAACCCTAAAA
1 TTAAACCCCAAACATCCAAACCCTAAAA
*
9612037 TTAAACCCTAAAC
1 TTAAACCCCAAAC
9612050 CCTCTGAACT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 26 0.79
29 7 0.21
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.20
Consensus pattern (28 bp):
TTAAACCCCAAACATCCAAACCCTAAAA
Found at i:9612069 original size:29 final size:29
Alignment explanation
Indices: 9612027--9612256 Score: 140
Period size: 30 Copynumber: 7.8 Consensus size: 29
9612017 CAAACCTTCA
*
9612027 AACCCTAAAATTAAACCCTAAACCCTCTG
1 AACCTTAAAATTAAACCCTAAACCCTCTG
* * * *
9612056 AACTTTAAAATTAAACTCTAGACCTTCTG
1 AACCTTAAAATTAAACCCTAAACCCTCTG
* * *
9612085 AACCTTAAAATTAAACCTTAAACCCTTTC
1 AACCTTAAAATTAAACCCTAAACCCTCTG
* ** * **
9612114 AACCCTAAAAACAAAACCTTAAACCCTCCA
1 AA-CCTTAAAATTAAACCCTAAACCCTCTG
* * * * *
9612144 AACCCTAAAATCAAATCCCTAAAACATCTA
1 AACCTTAAAATTAAA-CCCTAAACCCTCTG
*
9612174 AATCC-TAAAATCAAAACCCTAAACCCTCT-
1 AA-CCTTAAAAT-TAAACCCTAAACCCTCTG
* * * *
9612203 AATCCCTAAAAATGAAACCCTAAACCTTCTA
1 AA--CCTTAAAATTAAACCCTAAACCCTCTG
* * *
9612234 AACCCTAAACCTCAAACCCTAAA
1 AACCTTAAA-ATTAAACCCTAAA
9612257 GTCAAAACCC
Statistics
Matches: 156, Mismatches: 37, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
29 64 0.41
30 80 0.51
31 12 0.08
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.22
Consensus pattern (29 bp):
AACCTTAAAATTAAACCCTAAACCCTCTG
Found at i:9612123 original size:58 final size:57
Alignment explanation
Indices: 9611999--9612242 Score: 166
Period size: 60 Copynumber: 4.2 Consensus size: 57
9611989 AAAACATCCA
* *
9611999 AACCCTAAGATTAAATCTCAAACCTTCAAACCCTAAAATTAAACCCTAAACCCTCTG
1 AACCCTAAAATTAAATCTCAAACCTTCAAACCCTAAAATTAAACCCTAAACCCTCTC
** * * * * *
9612056 AACTTTAAAATTAAA-CTCTAGACCTTCTGAACCTTAAAATTAAACCTTAAACCCTTTC
1 AACCCTAAAATTAAATCTC-AAACCTTC-AAACCCTAAAATTAAACCCTAAACCCTCTC
** * * * * * * *
9612114 AACCCTAAAAACAAAACCTTAAACCCTCCAAACCCTAAAATCAAATCCCTAAAACATCTA
1 AACCCT-AAAATTAAATCTCAAA-CCTTCAAACCCTAAAATTAAA-CCCTAAACCCTCTC
* * * * * * * * *
9612174 AATCCTAAAATCAAAACCCTAAACCCTCTAATCCCTAAAAATGAAACCCTAAACCTTCTA
1 AACCCTAAAATTAAATCTC-AAACCTTC-AAACCCT-AAAATTAAACCCTAAACCCTCTC
9612234 AACCCTAAA
1 AACCCTAAA
9612243 CCTCAAACCC
Statistics
Matches: 141, Mismatches: 37, Indels: 15
0.73 0.19 0.08
Matches are distributed among these distances:
56 3 0.02
57 19 0.13
58 29 0.21
59 33 0.23
60 49 0.35
61 8 0.06
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (57 bp):
AACCCTAAAATTAAATCTCAAACCTTCAAACCCTAAAATTAAACCCTAAACCCTCTC
Found at i:9612165 original size:14 final size:13
Alignment explanation
Indices: 9612142--9612331 Score: 76
Period size: 14 Copynumber: 13.1 Consensus size: 13
9612132 TTAAACCCTC
9612142 CAAACCCTAAAAT
1 CAAACCCTAAAAT
9612155 CAAATCCCTAAAACAT
1 CAAA-CCCT-AAA-AT
*
9612171 CTAAATCCTAAAAT
1 C-AAACCCTAAAAT
*
9612185 CAAAACCCTAAACCCT
1 C-AAACCCTAAA--AT
*
9612201 CTAATCCCTAAAAAT
1 C-AAACCCT-AAAAT
* *
9612216 GAAACCCTAAACCTT
1 CAAACCCTAAA--AT
*
9612231 CTAAACCCTAAACCT
1 C-AAACCCTAAA-AT
*
9612246 CAAACCCTAAAGT
1 CAAACCCTAAAAT
* **
9612259 CAAAACCCCAATTCT
1 C-AAACCCTAA-AAT
9612274 CAAACCCTAAAAAT
1 CAAACCCT-AAAAT
*
9612288 CAAAATCCC-AAACCT
1 C-AAA-CCCTAAA-AT
9612303 CAAAACCCTAAAACT
1 C-AAACCCTAAAA-T
*
9612318 GAAACCCTAAAAT
1 CAAACCCTAAAAT
9612331 C
1 C
9612332 CAAAATCCTA
Statistics
Matches: 136, Mismatches: 23, Indels: 36
0.70 0.12 0.18
Matches are distributed among these distances:
13 10 0.07
14 65 0.48
15 28 0.21
16 27 0.20
17 6 0.04
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (13 bp):
CAAACCCTAAAAT
Found at i:9612251 original size:30 final size:29
Alignment explanation
Indices: 9612233--9612328 Score: 51
Period size: 29 Copynumber: 3.3 Consensus size: 29
9612223 TAAACCTTCT
*
9612233 AAACCCTAAA-CCTC-AAACCCTAAAGTC
1 AAACCCTAAACCCTCTAAACCCTAAAATC
* **
9612260 AAAACCC-CAATTCTC-AAACCCTAAAAATC
1 -AAACCCTAAACCCTCTAAACCCT-AAAATC
* *
9612289 AAAATCCC-AAA-CCTCAAAACCCTAAAACTG
1 -AAA-CCCTAAACCCTCTAAACCCTAAAA-TC
9612319 AAACCCTAAA
1 AAACCCTAAA
9612329 ATCCAAAATC
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.04
28 19 0.34
29 22 0.39
30 13 0.23
ACGTcount: A:0.49, C:0.34, G:0.02, T:0.15
Consensus pattern (29 bp):
AAACCCTAAACCCTCTAAACCCTAAAATC
Found at i:9612251 original size:60 final size:60
Alignment explanation
Indices: 9612114--9612256 Score: 173
Period size: 60 Copynumber: 2.4 Consensus size: 60
9612104 AAACCCTTTC
* *
9612114 AACCCTAAAAACAAAACCTTAAACCCTCCAAACCCTAAAATCAAATCCCTAAAACATCTA
1 AACCCTAAAATCAAAACCCTAAACCCTCCAAACCCTAAAATCAAATCCCTAAAACATCTA
* * * * * *
9612174 AATCCTAAAATCAAAACCCTAAACCCTCTAATCCCTAAAAATGAAA-CCCTAAACCTTCTA
1 AACCCTAAAATCAAAACCCTAAACCCTCCAAACCCT-AAAATCAAATCCCTAAAACATCTA
*
9612234 AACCCTAAACCTC-AAACCCTAAA
1 AACCCTAAA-ATCAAAACCCTAAA
9612257 GTCAAAACCC
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
60 61 0.86
61 10 0.14
ACGTcount: A:0.48, C:0.34, G:0.01, T:0.18
Consensus pattern (60 bp):
AACCCTAAAATCAAAACCCTAAACCCTCCAAACCCTAAAATCAAATCCCTAAAACATCTA
Found at i:9612304 original size:29 final size:29
Alignment explanation
Indices: 9612233--9612315 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 29
9612223 TAAACCTTCT
* *
9612233 AAACCCTAAACCTCAAACCCT-AAAGTCA
1 AAACCCCAAACCTCAAACCCTAAAAATCA
**
9612261 AAACCCCAATTCTCAAACCCTAAAAATCA
1 AAACCCCAAACCTCAAACCCTAAAAATCA
*
9612290 AAATCCCAAACCTCAAAACCCTAAAA
1 AAACCCCAAACCTC-AAACCCTAAAA
9612316 CTGAAACCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
28 18 0.39
29 17 0.37
30 11 0.24
ACGTcount: A:0.49, C:0.35, G:0.01, T:0.14
Consensus pattern (29 bp):
AAACCCCAAACCTCAAACCCTAAAAATCA
Found at i:9612307 original size:44 final size:44
Alignment explanation
Indices: 9612258--9612345 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
9612248 AACCCTAAAG
**
9612258 TCAAAACCCCAATTCTCAAACCCTAAAAAT-CAAAATCCCAAACC
1 TCAAAACCCCAAAACTCAAACCCT-AAAATCCAAAATCCCAAACC
* * *
9612302 TCAAAACCCTAAAACTGAAACCCTAAAATCCAAAATCCTAAACC
1 TCAAAACCCCAAAACTCAAACCCTAAAATCCAAAATCCCAAACC
9612346 ATAAAATCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 5 0.13
44 33 0.87
ACGTcount: A:0.49, C:0.34, G:0.01, T:0.16
Consensus pattern (44 bp):
TCAAAACCCCAAAACTCAAACCCTAAAATCCAAAATCCCAAACC
Found at i:9612344 original size:22 final size:23
Alignment explanation
Indices: 9612275--9612358 Score: 72
Period size: 22 Copynumber: 3.8 Consensus size: 23
9612265 CCCAATTCTC
*
9612275 AAACCCTAAAAAT-CAAAATCCC
1 AAACCCTAAAAATCCAAAATCCT
* *
9612297 AAA-CCTCAAAACCCTAAAA--CT
1 AAACCCTAAAAATCC-AAAATCCT
9612318 GAAACCCT-AAAATCCAAAATCCT
1 -AAACCCTAAAAATCCAAAATCCT
*
9612341 AAACCAT-AAAATCCAAAA
1 AAACCCTAAAAATCCAAAA
9612359 CTTTAAAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
21 12 0.24
22 30 0.59
23 9 0.18
ACGTcount: A:0.55, C:0.30, G:0.01, T:0.14
Consensus pattern (23 bp):
AAACCCTAAAAATCCAAAATCCT
Found at i:9612646 original size:17 final size:17
Alignment explanation
Indices: 9612624--9612656 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9612614 AATAATTATT
9612624 TAATAATAAAAAAGGAA
1 TAATAATAAAAAAGGAA
*
9612641 TAATAATAAAATAGGA
1 TAATAATAAAAAAGGA
9612657 TCTTAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (17 bp):
TAATAATAAAAAAGGAA
Found at i:9613871 original size:16 final size:15
Alignment explanation
Indices: 9613838--9613868 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9613828 AATAAAAATC
*
9613838 TAAAAAAGTTCACAT
1 TAAAAAAATTCACAT
9613853 TAAAAAAATTCACAT
1 TAAAAAAATTCACAT
9613868 T
1 T
9613869 TAATTTCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (15 bp):
TAAAAAAATTCACAT
Found at i:9616398 original size:20 final size:21
Alignment explanation
Indices: 9616338--9616414 Score: 111
Period size: 22 Copynumber: 3.6 Consensus size: 21
9616328 ACTGTGAAAC
*
9616338 GTGGGTTTTTAAATAAGCATTT
1 GTGGGTTTTT-AATAAACATTT
9616360 GTGGGTTTTTAATTAAACATTT
1 GTGGGTTTTTAA-TAAACATTT
9616382 GTGGGTTTTT-ATAAACATTT
1 GTGGGTTTTTAATAAACATTT
*
9616402 ATGGGTTTTTAAT
1 GTGGGTTTTTAAT
9616415 TGTTTGCTAG
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
20 18 0.35
21 5 0.10
22 28 0.55
ACGTcount: A:0.26, C:0.04, G:0.21, T:0.49
Consensus pattern (21 bp):
GTGGGTTTTTAATAAACATTT
Found at i:9620211 original size:13 final size:13
Alignment explanation
Indices: 9620195--9620221 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9620185 TTTACCATAA
9620195 TATAAAATAACTT
1 TATAAAATAACTT
9620208 TATAAAATAACTT
1 TATAAAATAACTT
9620221 T
1 T
9620222 TAATCAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (13 bp):
TATAAAATAACTT
Found at i:9621698 original size:17 final size:19
Alignment explanation
Indices: 9621673--9621707 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9621663 AATAAAAAGG
9621673 AAATAAAAAAT-TGAAAAA
1 AAATAAAAAATATGAAAAA
9621691 AAAT-AAAAATATGAAAA
1 AAATAAAAAATATGAAAA
9621708 TTTTTTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (19 bp):
AAATAAAAAATATGAAAAA
Found at i:9623207 original size:62 final size:62
Alignment explanation
Indices: 9623084--9623234 Score: 155
Period size: 62 Copynumber: 2.4 Consensus size: 62
9623074 TTTTAAAAAA
* * **
9623084 TAAAAGAG-ATTATTGAAAGCATTTCTGGACAAAAAATACCTTAAATAATCTCATTTA-TTTTT
1 TAAAAG-GCATTATTTAAAGCATTTTTGGTTAAAAAATACCTTAAATAATCT-ATTTATTTTTT
* * * *
9623146 TCAAAGGCATTATTTAAAGCGTTTTTGGTTAAAAAATGCCTTAAATAGTCT-TTTAATTTTTTT
1 TAAAAGGCATTATTTAAAGCATTTTTGGTTAAAAAATACCTTAAATAATCTATTT-A-TTTTTT
* *
9623209 TAAAAGGTATTATTTAAGGCATTTTT
1 TAAAAGGCATTATTTAAAGCATTTTT
9623235 AAACAAAAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
60 3 0.04
61 2 0.03
62 41 0.56
63 27 0.37
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (62 bp):
TAAAAGGCATTATTTAAAGCATTTTTGGTTAAAAAATACCTTAAATAATCTATTTATTTTTT
Found at i:9623470 original size:64 final size:64
Alignment explanation
Indices: 9623361--9623481 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
9623351 GTTTTTAAAT
* ***
9623361 AAAAAATGCCTTAAATAAATTTTTTTTAAAAATATCATGAGATTATTTAAAGCATTTTAGACCAA
1 AAAAAATGCATTAAATAAATGCCTTTTAAAAATATCATGAGATTATTTAAAG-ATTTTAGACCAA
* *
9623426 AAAAAATGCATTAAAT-AATGCCTTTTAACAAAT-TTATGATATTATTTAAAGATTTT
1 AAAAAATGCATTAAATAAATGCCTTTTAA-AAATATCATGAGATTATTTAAAGATTTT
9623482 TTTGTCTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 5 0.10
64 25 0.51
65 19 0.39
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (64 bp):
AAAAAATGCATTAAATAAATGCCTTTTAAAAATATCATGAGATTATTTAAAGATTTTAGACCAA
Found at i:9627777 original size:6 final size:6
Alignment explanation
Indices: 9627762--9627825 Score: 67
Period size: 6 Copynumber: 10.3 Consensus size: 6
9627752 TATTATAAAT
* * *
9627762 AATT-A AATTAA AATTAA AATTAAA AATTAA AATCAA AATCAA AATAAA
1 AATTAA AATTAA AATTAA AATT-AA AATTAA AATTAA AATTAA AATTAA
9627810 AATTGATA AATTAA AA
1 AATT-A-A AATTAA AA
9627826 AATTTTATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.08
6 35 0.67
7 8 0.15
8 5 0.10
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (6 bp):
AATTAA
Found at i:9627788 original size:19 final size:19
Alignment explanation
Indices: 9627766--9627826 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
9627756 ATAAATAATT
9627766 AAATTAAAATTAAAATTAA
1 AAATTAAAATTAAAATTAA
* *
9627785 AAATTAAAATCAAAA-TCA
1 AAATTAAAATTAAAATTAA
*
9627803 AAATAAAAATTGATAAATTAA
1 AAATTAAAATT-A-AAATTAA
9627824 AAA
1 AAA
9627827 ATTTTATTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 11 0.32
19 15 0.44
20 3 0.09
21 5 0.15
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (19 bp):
AAATTAAAATTAAAATTAA
Found at i:9629543 original size:151 final size:149
Alignment explanation
Indices: 9629269--9629544 Score: 324
Period size: 151 Copynumber: 1.8 Consensus size: 149
9629259 AATGAATTTT
* * *
9629269 AAATAAAAAATTATATGTCAAATTTCTATGAACAATGAAAAGATATTTTAATAATCTAATATATA
1 AAATAAAAAATTACATGTCAAATTTCTATAAACAATGAAAAGATATTTTAATAATCTAATATAGA
* * * * *
9629334 GTTAATTTTATATTATATTAAAATTTAATATAAAATTTAATAATGGTCTTAAAATAATTTGATAT
66 GCTAATTTTATAATATATTAAAATTTAATACAAAATTTAATAAGGGTATTAAAATAATTTGATAT
9629399 GTTAACTTTATATTATATC
131 GTTAACTTTATATTATATC
* * * *
9629418 AAATAAAATATTACATGTCAAATTTTTATAAAGTAATGATAATAG-TATTTTAATAATTTAATAT
1 AAATAAAAAATTACATGTCAAATTTCTATAAA-CAATGA-AA-AGATATTTTAATAATCTAATAT
* * * * * *
9629482 -GCGACTAATTTTATAATATGTTAAAATTTAATGCATAATTTAAT-AGGGTTATTATACTAATTT
63 AGAG-CTAATTTTATAATATATTAAAATTTAATACAAAATTTAATAAGGG-TATTAAAATAATTT
9629545 TGAAAGAAAA
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
149 28 0.27
150 9 0.09
151 65 0.62
152 2 0.02
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (149 bp):
AAATAAAAAATTACATGTCAAATTTCTATAAACAATGAAAAGATATTTTAATAATCTAATATAGA
GCTAATTTTATAATATATTAAAATTTAATACAAAATTTAATAAGGGTATTAAAATAATTTGATAT
GTTAACTTTATATTATATC
Found at i:9629773 original size:26 final size:26
Alignment explanation
Indices: 9629718--9629773 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
9629708 AATTTTACCT
* * *
9629718 AATTATGATAAAAAAGATATTTTAAT
1 AATTATAATAAAAAAGATATTTAAAA
*
9629744 AATTATAATAAAAAA-CTATTATAAAA
1 AATTATAATAAAAAAGATATT-TAAAA
9629770 AATT
1 AATT
9629774 TGAACATGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (26 bp):
AATTATAATAAAAAAGATATTTAAAA
Found at i:9630708 original size:16 final size:16
Alignment explanation
Indices: 9630689--9630718 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9630679 TTTTTAAACT
9630689 TTTTTTATT-TATTTC
1 TTTTTTATTATATTTC
9630704 TTTTTTATTATATTT
1 TTTTTTATTATATTT
9630719 AATATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTATTATATTTC
Found at i:9633194 original size:10 final size:10
Alignment explanation
Indices: 9633179--9633204 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9633169 GGGAAAGAAT
9633179 AAAAAAAATG
1 AAAAAAAATG
9633189 AAAAAAAATG
1 AAAAAAAATG
9633199 AAAAAA
1 AAAAAA
9633205 GGTAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:9633204 original size:18 final size:18
Alignment explanation
Indices: 9633181--9633215 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9633171 GAAAGAATAA
*
9633181 AAAAAATGAAAAAAAATG
1 AAAAAAGGAAAAAAAATG
*
9633199 AAAAAAGGTAAAAAAAT
1 AAAAAAGGAAAAAAAAT
9633216 TAAAGAAAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAAAAGGAAAAAAAATG
Found at i:9634366 original size:14 final size:14
Alignment explanation
Indices: 9634349--9634383 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
9634339 AGACTTTTGT
*
9634349 TAAAATATTTTTTA
1 TAAAATATATTTTA
9634363 TAAAATATATTTTA
1 TAAAATATATTTTA
*
9634377 AAAAATA
1 TAAAATA
9634384 ATAAATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAAAATATATTTTA
Found at i:9635063 original size:18 final size:20
Alignment explanation
Indices: 9635022--9635063 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
9635012 ATTTGCACTT
*
9635022 AATTATAGGGCTTTTAACAG
1 AATTATAGGGCTTTAAACAG
*
9635042 AATTTTAGGG-TTTAAACA-
1 AATTATAGGGCTTTAAACAG
9635060 AATT
1 AATT
9635064 CAATCTAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 7 0.35
20 9 0.45
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (20 bp):
AATTATAGGGCTTTAAACAG
Found at i:9638066 original size:19 final size:19
Alignment explanation
Indices: 9638042--9638085 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
9638032 TTCTCTTACA
9638042 AAAAATAATTCTTTATAAG
1 AAAAATAATTCTTTATAAG
**
9638061 AAAAATCCTTCTTTATAAG
1 AAAAATAATTCTTTATAAG
9638080 AAAAAT
1 AAAAAT
9638086 CCCATGGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (19 bp):
AAAAATAATTCTTTATAAG
Found at i:9638086 original size:19 final size:19
Alignment explanation
Indices: 9638050--9638087 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9638040 CAAAAAATAA
9638050 TTCTTTATAAGAAAAATCC
1 TTCTTTATAAGAAAAATCC
9638069 TTCTTTATAAGAAAAATCC
1 TTCTTTATAAGAAAAATCC
9638088 CATGGCCAAT
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:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (19 bp):
TTCTTTATAAGAAAAATCC
Found at i:9644587 original size:4 final size:4
Alignment explanation
Indices: 9644573--9644634 Score: 67
Period size: 4 Copynumber: 16.2 Consensus size: 4
9644563 GAAGAAAAAG
* * * *
9644573 TAAA CAAA TAAA TAAA TAAA T-AA CAAA T-AA TATA TAAA -AGA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
9644618 TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA T
9644635 CTTTGGGCCT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 7 0.15
4 40 0.85
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:9644609 original size:14 final size:15
Alignment explanation
Indices: 9644582--9644634 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 15
9644572 GTAAACAAAT
9644582 AAATAAATAAATAAC
1 AAATAAATAAATAAC
*
9644597 AAAT-AATATATAA-
1 AAATAAATAAATAAC
*
9644610 AAGATAAATAAATAAAT
1 AA-ATAAATAAAT-AAC
9644627 AAATAAAT
1 AAATAAAT
9644635 CTTTGGGCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
13 2 0.06
14 10 0.31
15 10 0.31
16 8 0.25
17 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (15 bp):
AAATAAATAAATAAC
Found at i:9644880 original size:44 final size:43
Alignment explanation
Indices: 9644811--9644980 Score: 191
Period size: 44 Copynumber: 3.9 Consensus size: 43
9644801 TTTTTTTTAT
* * * *
9644811 CAAAGCTCCTCTAAGTAAAGACTCAACAACTTTTGTAAAATAAA
1 CAAAGCTCCTCTAAATAGAGGCTCAACAAC-TTTGAAAAATAAA
* *
9644855 CAAAGTTCCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAA
1 CAAAGCTCCTCTAAATAGAGGCTCAACAACTTTGAAAAATAAA
* * *
9644898 TAAAGCTCCTCT-AATAAGAGGCTTAACGACTTTGAAAAAATAAA
1 CAAAGCTCCTCTAAAT-AGAGGCTCAACAACTTTG-AAAAATAAA
* *
9644942 CTAAGCTCATCTAAATAGAGGCTC-ACAACTTTTGAAAAA
1 CAAAGCTCCTCTAAATAGAGGCTCAACAAC-TTTGAAAAA
9644981 AATAAATTAC
Statistics
Matches: 108, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
42 3 0.03
43 48 0.44
44 54 0.50
45 3 0.03
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (43 bp):
CAAAGCTCCTCTAAATAGAGGCTCAACAACTTTGAAAAATAAA
Found at i:9644958 original size:87 final size:87
Alignment explanation
Indices: 9644812--9644980 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
9644802 TTTTTTTATC
* * *
9644812 AAAGCTCCTCTAAGTAAAGACTCAACAACTTTTGTAAAATAAACAAAGTTCCTCTAAATAGAGGC
1 AAAGCTCCTCTAAGTAAAGACTCAACAACTTTTGAAAAATAAACAAAGCTCATCTAAATAGAGGC
*
9644877 TCAACGAC-TTTGAAAAATAAAT
66 TC-ACAACTTTTGAAAAATAAAT
* * * *
9644899 AAAGCTCCTCTAA-TAAGAGGCTTAACGAC-TTTGAAAAAATAAACTAAGCTCATCTAAATAGAG
1 AAAGCTCCTCTAAGTAA-AGACTCAACAACTTTTG-AAAAATAAACAAAGCTCATCTAAATAGAG
9644962 GCTCACAACTTTTGAAAAA
64 GCTCACAACTTTTGAAAAA
9644981 AATAAATTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
86 11 0.15
87 60 0.85
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.25
Consensus pattern (87 bp):
AAAGCTCCTCTAAGTAAAGACTCAACAACTTTTGAAAAATAAACAAAGCTCATCTAAATAGAGGC
TCACAACTTTTGAAAAATAAAT
Found at i:9644994 original size:43 final size:41
Alignment explanation
Indices: 9644864--9644994 Score: 115
Period size: 43 Copynumber: 3.0 Consensus size: 41
9644854 ACAAAGTTCC
* *
9644864 TCTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAA-GCTCC
1 TCTAAATAGAGGCTC-ACGACTTTG-AAAA-AAATAAATACTCA
*
9644907 TCT-AATAAGAGGCTTAACGACTTTG-AAAAAATAAACTAAGCTCA
1 TCTAAAT-AGAGGC-TCACGACTTTGAAAAAAATAAA-T-A-CTCA
*
9644951 TCTAAATAGAGGCTCACAACTTTTGAAAAAAATAAATTACTCA
1 TCTAAATAGAGGCTCACGAC-TTTGAAAAAAATAAA-TACTCA
9644994 T
1 T
9644995 TGACAATCAT
Statistics
Matches: 73, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
40 7 0.10
41 3 0.04
42 3 0.04
43 28 0.38
44 18 0.25
45 14 0.19
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (41 bp):
TCTAAATAGAGGCTCACGACTTTGAAAAAAATAAATACTCA
Found at i:9645556 original size:20 final size:21
Alignment explanation
Indices: 9645517--9645569 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
9645507 TCACATCTCT
*
9645517 AAGATTTTCATTTGAAATTCA
1 AAGATTCTCATTTGAAATTCA
*
9645538 AAGATTCTCATTT-AAATTCG
1 AAGATTCTCATTTGAAATTCA
*
9645558 AAGATTCACATT
1 AAGATTCTCATT
9645570 CAACAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (21 bp):
AAGATTCTCATTTGAAATTCA
Found at i:9645600 original size:79 final size:79
Alignment explanation
Indices: 9645479--9645890 Score: 297
Period size: 79 Copynumber: 5.2 Consensus size: 79
9645469 AAAAATTTAG
* * * *
9645479 AGATTCACATCCAAACAAACTTTAGGTTTCACATCTCTAAGATTTTCATTTGAAATTCAAAGATT
1 AGATTCACATTC-AACAAATTTTAGGTTTCACACCTCAAAGATTTTCATTTGAAATTCAAAGATT
*
9645544 CTCATTTAAATTCGA
65 CTCATTTAAATTCAA
* * *
9645559 AGATTCACATTCAACAAATTTTGGGTTTCACGCCTCAAAGATTCTCATTT-AAATTCAAAGATTC
1 AGATTCACATTCAACAAATTTTAGGTTTCACACCTCAAAGATTTTCATTTGAAATTCAAAGATTC
*
9645623 TCATTTGAAATTAAA
66 TCATTT-AAATTCAA
* * ** * * ** * ** *
9645638 AAATTCTCATT---TGAATTTTAAGATTCACATTTGACAA-ATTTTGGGTTT-AACACCTCAAAG
1 AGATTCACATTCAACAAATTTTAGGTTTCACACCTCA-AAGATTTT-CATTTGAA-A-TTCAAAG
9645698 ATTCTCATTTGAAATTCAA
62 ATTCTCATTT-AAATTCAA
* * * * * ** * *
9645717 AGATTCTCATTTGAATTTGAAGATTCTCA--TTTGA-AATTCAAAAATTCTCATTTG-AATTCAA
1 AGATTCACA-TTCAA---CAA-ATT-TTAGGTTTCACACCTCAAAGATTTTCATTTGAAATTCAA
* *
9645778 AAATTCTCATTTGAATTCAA
60 AGATTCTCATTTAAATTCAA
* *
9645798 AGATTCACATTCGACAAATTTTGGGTTTCACACCTCAAAGATTCTT-ATTTGAAATTCAAAGATT
1 AGATTCACATTCAACAAATTTTAGGTTTCACACCTCAAAGATT-TTCATTTGAAATTCAAAGATT
* *
9645862 CTCATTTGAATTCGA
65 CTCATTTAAATTCAA
9645877 AGATTCACATTCAA
1 AGATTCACATTCAA
9645891 AATTCAAAAA
Statistics
Matches: 258, Mismatches: 53, Indels: 43
0.73 0.15 0.12
Matches are distributed among these distances:
75 1 0.00
76 21 0.08
77 13 0.05
78 35 0.14
79 118 0.46
80 16 0.06
81 15 0.06
82 15 0.06
83 1 0.00
84 6 0.02
85 8 0.03
86 4 0.02
87 3 0.01
88 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (79 bp):
AGATTCACATTCAACAAATTTTAGGTTTCACACCTCAAAGATTTTCATTTGAAATTCAAAGATTC
TCATTTAAATTCAA
Found at i:9645643 original size:21 final size:21
Alignment explanation
Indices: 9645599--9645652 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
9645589 CGCCTCAAAG
* *
9645599 ATTCTCATTT-AAATTCAAAG
1 ATTCTCATTTGAAATTAAAAA
9645619 ATTCTCATTTGAAATTAAAAA
1 ATTCTCATTTGAAATTAAAAA
9645640 ATTCTCATTTGAA
1 ATTCTCATTTGAA
9645653 TTTTAAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 10 0.32
21 21 0.68
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.41
Consensus pattern (21 bp):
ATTCTCATTTGAAATTAAAAA
Found at i:9645645 original size:41 final size:41
Alignment explanation
Indices: 9645593--9645954 Score: 221
Period size: 41 Copynumber: 9.0 Consensus size: 41
9645583 GTTTCACGCC
* *
9645593 TCAAAGATTCTCATTTAAATTCAAAGATTCTCATTTGAAAT
1 TCAAAAATTCTCATTTGAATTCAAAGATTCTCATTTGAAAT
* ** *
9645634 TAAAAAATTCTCATTTGAATTTTAAGATTCACATTTG--A-
1 TCAAAAATTCTCATTTGAATTCAAAGATTCTCATTTGAAAT
* ** * *
9645672 -C--AAATTTTGGGTTTAACACCTCAAAGATTCTCATTTGAAAT
1 TCAAAAATTCT-CATTTGA-A-TTCAAAGATTCTCATTTGAAAT
* **
9645713 TCAAAGATTCTCATTTGAATTTGAAGATTCTCATTTGAAAT
1 TCAAAAATTCTCATTTGAATTCAAAGATTCTCATTTGAAAT
*
9645754 TCAAAAATTCTCATTTGAATTCAAAAATTCTCATTTG-AAT
1 TCAAAAATTCTCATTTGAATTCAAAGATTCTCATTTGAAAT
* * * * ** * **
9645794 TCAAAGATTCACATTCG-A--C-AA-ATTTTGGGTTTCACACC
1 TCAAAAATTCTCATTTGAATTCAAAGATTCT-CATTTGA-AAT
* *
9645832 TCAAAGATTCTTATTTGAAATTCAAAGATTCTCATTTG-AAT
1 TCAAAAATTCTCATTTG-AATTCAAAGATTCTCATTTGAAAT
* * * ** *
9645873 TCGAAGATTCACATTCAAAATTCAAAAATTCTCATTTG-AAT
1 TCAAAAATTCTCATT-TGAATTCAAAGATTCTCATTTGAAAT
** * * *
9645914 TTGAAGATTCACATTTGACATTCAAAGATTCTCATTGGAAA
1 TCAAAAATTCTCATTTGA-ATTCAAAGATTCTCATTTGAAA
9645955 ACATCTTAAA
Statistics
Matches: 244, Mismatches: 56, Indels: 41
0.72 0.16 0.12
Matches are distributed among these distances:
35 10 0.04
36 9 0.04
37 2 0.01
38 29 0.12
39 2 0.01
40 20 0.08
41 149 0.61
42 5 0.02
43 9 0.04
44 9 0.04
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (41 bp):
TCAAAAATTCTCATTTGAATTCAAAGATTCTCATTTGAAAT
Found at i:9645648 original size:99 final size:100
Alignment explanation
Indices: 9645517--9645755 Score: 347
Period size: 99 Copynumber: 2.4 Consensus size: 100
9645507 TCACATCTCT
* *
9645517 AAGATTTTCATTTGAAATTCAAAGATTCTCATTTAAATTCGAAGATTCACATTCAACAAATTTTG
1 AAGATTCTCATTTGAAATTAAAAGATTCTCATTTAAATTCGAAGATTCACATTCAACAAATTTTG
* *
9645582 GGTTTCACGCCTCAAAGATTCTCATTT-AAATTCA
66 GGTTTAACACCTCAAAGATTCTCATTTGAAATTCA
* * ** **
9645616 AAGATTCTCATTTGAAATTAAAAAATTCTCATTTGAATTTTAAGATTCACATTTGACAAATTTTG
1 AAGATTCTCATTTGAAATTAAAAGATTCTCATTTAAATTCGAAGATTCACATTCAACAAATTTTG
9645681 GGTTTAACACCTCAAAGATTCTCATTTGAAATTCA
66 GGTTTAACACCTCAAAGATTCTCATTTGAAATTCA
**
9645716 AAGATTCTCATTTG-AATTTGAAGATTCTCATTTGAAATTC
1 AAGATTCTCATTTGAAATTAAAAGATTCTCATTT-AAATTC
9645756 AAAAATTCTC
Statistics
Matches: 123, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
99 98 0.80
100 25 0.20
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (100 bp):
AAGATTCTCATTTGAAATTAAAAGATTCTCATTTAAATTCGAAGATTCACATTCAACAAATTTTG
GGTTTAACACCTCAAAGATTCTCATTTGAAATTCA
Found at i:9645716 original size:21 final size:21
Alignment explanation
Indices: 9645692--9646106 Score: 240
Period size: 21 Copynumber: 19.9 Consensus size: 21
9645682 GTTTAACACC
9645692 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
9645713 TCAAAGATTCTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
**
9645733 TTGAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
9645754 TCAAAAATTCTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
*
9645774 TCAAAAATTCTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
* *
9645794 TCAAAGATTCACATTCG--A-
1 TCAAAGATTCTCATTTGAAAT
* ** * **
9645812 -C-AA-ATTTTGGGTTTCACACC
1 TCAAAGATTCT-CATTTGA-AAT
*
9645832 TCAAAGATTCTTATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
9645853 TCAAAGATTCTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
* * **
9645873 TCGAAGATTCACATTCAAAAT
1 TCAAAGATTCTCATTTGAAAT
*
9645894 TCAAAAATTCTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
** * *
9645914 TTGAAGATTCACATTTGACAT
1 TCAAAGATTCTCATTTGAAAT
*
9645935 TCAAAGATTCTCATTGGAAAACAT
1 TCAAAGATTCTCATTTG--AA-AT
* *
9645959 CTTAAAGATTTTCATTT-AAGACT
1 -TCAAAGATTCTCATTTGAA-A-T
9645982 T-AAAGATTCTCATTTGAAAAT
1 TCAAAGATTCTCATTTG-AAAT
9646003 GTCTTAAAGATTCTCA--T----T
1 -TC--AAAGATTCTCATTTGAAAT
* * * *
9646021 T-AAGGATTTCTTATTTAAAAC
1 TCAAAGA-TTCTCATTTGAAAT
*
9646042 TCAAAGATTCTCATTTGAGGATT
1 TCAAAGATTCTCATTTGA--AAT
* * *
9646065 TCTTAAATATTCTCATTTAAAAC
1 TC--AAAGATTCTCATTTGAAAT
9646088 TCAAAGATTCTCATTTGAA
1 TCAAAGATTCTCATTTGAA
9646107 GACGTCTTAA
Statistics
Matches: 300, Mismatches: 60, Indels: 68
0.70 0.14 0.16
Matches are distributed among these distances:
14 4 0.01
15 8 0.03
16 4 0.01
17 3 0.01
18 1 0.00
19 1 0.00
20 87 0.29
21 121 0.40
22 16 0.05
23 15 0.05
24 2 0.01
25 38 0.13
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:9645740 original size:140 final size:140
Alignment explanation
Indices: 9645596--9645949 Score: 532
Period size: 140 Copynumber: 2.5 Consensus size: 140
9645586 TCACGCCTCA
* **
9645596 AAGATTCTCATTTAAATTCAAAGATTCTCATTTGAAATTAAAAAATTCTCATTTGAATTTTAAGA
1 AAGATTCTCATTTAAATTCAAAAATTCTCATTTGAAATTAAAAAATTCTCATTTGAATTCAAAGA
*
9645661 TTCACATTTGACAAATTTTGGGTTTAACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCA
66 TTCACATTCGACAAATTTTGGGTTTAACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCA
*
9645726 TTTGAATTTG
131 TTTGAATTCG
*
9645736 AAGATTCTCATTTGAAATTCAAAAATTCTCATTTG-AATTCAAAAATTCTCATTTGAATTCAAAG
1 AAGATTCTCATTT-AAATTCAAAAATTCTCATTTGAAATTAAAAAATTCTCATTTGAATTCAAAG
* *
9645800 ATTCACATTCGACAAATTTTGGGTTTCACACCTCAAAGATTCTTATTTGAAATTCAAAGATTCTC
65 ATTCACATTCGACAAATTTTGGGTTTAACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTC
9645865 ATTTGAATTCG
130 ATTTGAATTCG
* * ** * *
9645876 AAGATTCACATTCAAAATTCAAAAATTCTCATTTG-AATTTGAAGATTCACATTTGACATTCAAA
1 AAGATTCTCATT-TAAATTCAAAAATTCTCATTTGAAATTAAAAAATTCTCATTTGA-ATTCAAA
*
9645940 GATTCTCATT
64 GATTCACATT
9645950 GGAAAACATC
Statistics
Matches: 196, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
140 160 0.82
141 36 0.18
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (140 bp):
AAGATTCTCATTTAAATTCAAAAATTCTCATTTGAAATTAAAAAATTCTCATTTGAATTCAAAGA
TTCACATTCGACAAATTTTGGGTTTAACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCA
TTTGAATTCG
Found at i:9645860 original size:120 final size:120
Alignment explanation
Indices: 9645524--9645933 Score: 413
Period size: 120 Copynumber: 3.4 Consensus size: 120
9645514 TCTAAGATTT
* * *
9645524 TCATTTGAAATTCAAAGATTCTCATTTAAATTCGAAGATTCACATTCAACAAATTTTGGGTTTCA
1 TCATTTG-AATTCAAAAATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTGGGTTTCA
* *
9645589 CGCCTCAAAGATTCTCATTT-AAATTCAAAGATTCTCATTTGAAATTAAAAAATTC
65 CACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAAATTCAAAAATTC
** * * * * * * * * **
9645644 TCATTTGAATTTTAAGATTCACATTTGACAAATTTTG-GGTTTAACACCTC-A-AAGATTCT-CA
1 TCATTTGAATTCAAAAATTCTCATTTG---AA-TTCGAAGATTCACA-TTCGACAA-ATTTTGGG
* ** **
9645705 TTTGA-AATTCAAAGATTCTCATTTG-AATTTGAAGATTCTCATTTGAAATTCAAAAATTC
60 TTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAAATTCAAAAATTC
*
9645764 TCATTTGAATTCAAAAATTCTCATTTGAATTCAAAGATTCACATTCGACAAATTTTGGGTTTCAC
1 TCATTTGAATTCAAAAATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTGGGTTTCAC
* * *
9645829 ACCTCAAAGATTCTTATTTGAAATTCAAAGATTCTCATTTG-AATTCGAAGATTC
66 ACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAAATTCAAAAATTC
* ** * *
9645883 ACATTCAAAATTCAAAAATTCTCATTTGAATTTGAAGATTCACATTTGACA
1 TCATT-TGAATTCAAAAATTCTCATTTGAATTCGAAGATTCACATTCGACA
9645934 TTCAAAGATT
Statistics
Matches: 230, Mismatches: 46, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
116 4 0.02
117 13 0.06
118 6 0.03
119 48 0.21
120 135 0.59
121 6 0.03
122 13 0.06
123 5 0.02
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (120 bp):
TCATTTGAATTCAAAAATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTGGGTTTCAC
ACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAAATTCAAAAATTC
Found at i:9645975 original size:46 final size:45
Alignment explanation
Indices: 9645917--9646022 Score: 133
Period size: 46 Copynumber: 2.3 Consensus size: 45
9645907 TTTGAATTTG
*
9645917 AAGATTCACATTT-GACATTCAAAGATTCTCATTGGAAAACATCTTA
1 AAGATTCTCATTTAGAC-TT-AAAGATTCTCATTGGAAAACATCTTA
* * **
9645963 AAGATTTTCATTTAAGACTTAAAGATTCTCATTTGAAAATGTCTTA
1 AAGATTCTCATTT-AGACTTAAAGATTCTCATTGGAAAACATCTTA
9646009 AAGATTCTCATTTA
1 AAGATTCTCATTTA
9646023 AGGATTTCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
45 1 0.02
46 46 0.88
47 2 0.04
48 3 0.06
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (45 bp):
AAGATTCTCATTTAGACTTAAAGATTCTCATTGGAAAACATCTTA
Found at i:9646021 original size:25 final size:24
Alignment explanation
Indices: 9645937--9646021 Score: 95
Period size: 25 Copynumber: 3.6 Consensus size: 24
9645927 TTTGACATTC
* *
9645937 AAAGATTCTCATTGGAAAACATCTT
1 AAAGATTCTCATTTGAAAA-GTCTT
* *
9645962 AAAGATTTTCATTT---AAGACTT
1 AAAGATTCTCATTTGAAAAGTCTT
9645983 AAAGATTCTCATTTGAAAATGTCTT
1 AAAGATTCTCATTTGAAAA-GTCTT
9646008 AAAGATTCTCATTT
1 AAAGATTCTCATTT
9646022 AAGGATTTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
21 16 0.32
22 2 0.04
24 2 0.04
25 30 0.60
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (24 bp):
AAAGATTCTCATTTGAAAAGTCTT
Done.