Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 77 of 109
Found at i:15465601 original size:21 final size:21
Alignment explanation
Indices: 15465577--15465638 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
15465567 AAATTTTATA
15465577 ATTTAAATATTATATTAA-AAT
1 ATTTAAATATT-TATTAATAAT
*
15465598 ATTTATATATTTA--AATAAT
1 ATTTAAATATTTATTAATAAT
15465617 ATATTAAATATTTTATT-ATAAT
1 AT-TTAAATA-TTTATTAATAAT
15465639 TTAAAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 2 0.06
19 5 0.15
20 8 0.24
21 14 0.41
22 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTAAATATTTATTAATAAT
Found at i:15465608 original size:16 final size:15
Alignment explanation
Indices: 15465567--15465629 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 15
15465557 TATTAATTAA
15465567 AAAT-TTTATA-ATTT
1 AAATATTTATATA-TT
*
15465581 AAATA-TTATAT-TA
1 AAATATTTATATATT
15465594 AAATATTTATATATTT
1 AAATATTTATATA-TT
15465610 AAATA---ATATATT
1 AAATATTTATATATT
15465622 AAATATTT
1 AAATATTT
15465630 TATTATAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 15
0.70 0.04 0.27
Matches are distributed among these distances:
12 7 0.18
13 11 0.28
14 15 0.38
16 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AAATATTTATATATT
Found at i:15465611 original size:29 final size:30
Alignment explanation
Indices: 15465556--15465649 Score: 117
Period size: 29 Copynumber: 3.2 Consensus size: 30
15465546 AATAAATATC
15465556 ATATTA-ATTAAAA-ATTT-TATAATTTAA
1 ATATTATATTAAAATATTTATATAATTTAA
15465583 ATATTATATTAAAATATTTATAT-ATTTAA
1 ATATTATATTAAAATATTTATATAATTTAA
*
15465612 ATAATATATT-AAATATTTTATTATAATTTAA
1 ATATTATATTAAAATA-TTTA-TATAATTTAA
*
15465643 AAATTAT
1 ATATTAT
15465650 TTGTGACGTT
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
27 6 0.10
28 12 0.21
29 23 0.40
30 6 0.10
31 11 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
ATATTATATTAAAATATTTATATAATTTAA
Found at i:15466121 original size:22 final size:22
Alignment explanation
Indices: 15466073--15466115 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15466063 AAATTAATAT
15466073 AATATTATTTTTAAAAATATAA
1 AATATTATTTTTAAAAATATAA
*
15466095 AATATTATTTTT-TAAATATAA
1 AATATTATTTTTAAAAATATAA
15466116 TTATATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATATTATTTTTAAAAATATAA
Found at i:15466163 original size:13 final size:13
Alignment explanation
Indices: 15466132--15466157 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15466122 ATAAATTAAA
15466132 AATTAAAAATAAT
1 AATTAAAAATAAT
15466145 AATTAAAAATAAT
1 AATTAAAAATAAT
15466158 TTTTAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTAAAAATAAT
Found at i:15466663 original size:17 final size:17
Alignment explanation
Indices: 15466618--15466666 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
15466608 AAAAACTAAT
* *
15466618 TTTAAAATTTTAATTATA
1 TTTAAAA-TTAAAATATA
**
15466636 TTTAATTTTAAAATATA
1 TTTAAAATTAAAATATA
15466653 TTTAAAATTAAAAT
1 TTTAAAATTAAAAT
15466667 TTTTTTATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTAAAATTAAAATATA
Found at i:15473046 original size:19 final size:19
Alignment explanation
Indices: 15473009--15473047 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15472999 TAAAAAGAAA
*
15473009 TTAAAAATATGAAATATTT
1 TTAAAAATATGAAAAATTT
15473028 TTAAAAATTAT-AAAAATTT
1 TTAAAAA-TATGAAAAATTT
15473047 T
1 T
15473048 AAACAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
TTAAAAATATGAAAAATTT
Found at i:15476441 original size:8 final size:8
Alignment explanation
Indices: 15476430--15476459 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
15476420 TGTTGGTATG
15476430 TGTATATA
1 TGTATATA
*
15476438 TGTATACA
1 TGTATATA
15476446 TGTATATA
1 TGTATATA
15476454 TGTATA
1 TGTATA
15476460 GGGAGAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (8 bp):
TGTATATA
Found at i:15477218 original size:26 final size:26
Alignment explanation
Indices: 15477189--15477241 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
15477179 AAATATTTTT
*
15477189 TTTCCTTTCCTACATCAAATTGGGTA
1 TTTCCTTTCCTACACCAAATTGGGTA
* *
15477215 TTTCCTTTCCTTCACCAAATTTGGTA
1 TTTCCTTTCCTACACCAAATTGGGTA
15477241 T
1 T
15477242 GAGATATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.09, T:0.45
Consensus pattern (26 bp):
TTTCCTTTCCTACACCAAATTGGGTA
Found at i:15481273 original size:2 final size:2
Alignment explanation
Indices: 15481266--15481296 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15481256 CTTTCTCATA
15481266 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15481297 ACATTAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15481916 original size:17 final size:17
Alignment explanation
Indices: 15481894--15481949 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
15481884 CGGAGACGAT
15481894 TTTTCCTGTTATTTTTG
1 TTTTCCTGTTATTTTTG
**
15481911 TTTTCC-GTCCTTTTT-
1 TTTTCCTGTTATTTTTG
*
15481926 TTTCTCCTGCTATTTTTG
1 TTT-TCCTGTTATTTTTG
*
15481944 CTTTCC
1 TTTTCC
15481950 CAATTACCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 3 0.10
16 10 0.33
17 15 0.50
18 2 0.07
ACGTcount: A:0.04, C:0.23, G:0.09, T:0.64
Consensus pattern (17 bp):
TTTTCCTGTTATTTTTG
Found at i:15490125 original size:2 final size:2
Alignment explanation
Indices: 15490118--15490144 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15490108 TAGAAATGAG
15490118 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15490145 AACTTAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15494630 original size:41 final size:40
Alignment explanation
Indices: 15494575--15494655 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 40
15494565 AATCAATATA
* *
15494575 AAAGTACATGGTAAATAGTCTAGACAATAAATATTTTTCAT
1 AAAGTACATAGTAAATAATCTAGACAATAAAT-TTTTTCAT
*
15494616 AAAGTAGATAGTAAATAATCTAGACAATAAATTTTTTCAT
1 AAAGTACATAGTAAATAATCTAGACAATAAATTTTTTCAT
15494656 CTATCATATG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 8 0.22
41 29 0.78
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.35
Consensus pattern (40 bp):
AAAGTACATAGTAAATAATCTAGACAATAAATTTTTTCAT
Found at i:15497827 original size:10 final size:10
Alignment explanation
Indices: 15497796--15497847 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
15497786 CAATTAAAAT
15497796 TTTGGTCAAA
1 TTTGGTCAAA
15497806 TTTGAGTCAAA
1 TTTG-GTCAAA
*
15497817 TTTGGTTAAA
1 TTTGGTCAAA
15497827 TTTAGGCTC--A
1 TTT-GG-TCAAA
15497837 TTTGGTCAAA
1 TTTGGTCAAA
15497847 T
1 T
15497848 GGTAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 18 0.51
11 12 0.34
12 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (10 bp):
TTTGGTCAAA
Found at i:15498816 original size:9 final size:9
Alignment explanation
Indices: 15498793--15498857 Score: 58
Period size: 10 Copynumber: 6.8 Consensus size: 9
15498783 CATCAGCATA
*
15498793 AAAAATTTCA
1 AAAAATTT-T
15498803 AAAAATTTT
1 AAAAATTTT
*
15498812 TAAAATTTT
1 AAAAATTTT
*
15498821 AAAAACATTTA
1 -AAAA-ATTTT
15498832 AAAAATTCTT
1 AAAAATT-TT
15498842 AAAAATTTT
1 AAAAATTTT
*
15498851 TAAAATT
1 AAAAATT
15498858 CAAAAAATTC
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
9 19 0.41
10 23 0.50
11 4 0.09
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAAATTTT
Found at i:15498818 original size:19 final size:19
Alignment explanation
Indices: 15498794--15498866 Score: 78
Period size: 19 Copynumber: 3.8 Consensus size: 19
15498784 ATCAGCATAA
15498794 AAAATTTCAAAAAATTTTT
1 AAAATTTCAAAAAATTTTT
* *
15498813 AAAATTTTAAAAACA-TTTA
1 AAAATTTCAAAAA-ATTTTT
* *
15498832 AAAAATTCTTAAAAATTTTT
1 AAAATTTC-AAAAAATTTTT
15498852 AAAA-TTCAAAAAATT
1 AAAATTTCAAAAAATT
15498867 CAAAACAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.16
19 25 0.57
20 12 0.27
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTTCAAAAAATTTTT
Found at i:15498883 original size:39 final size:39
Alignment explanation
Indices: 15498803--15498883 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
15498793 AAAAATTTCA
* * * *
15498803 AAAAATTTTTAAAATTTTAAAAACATTTAAAAAATTCTT
1 AAAAATTTTTAAAATTTCAAAAACATTAAAAAAAATATT
15498842 AAAAATTTTTAAAA-TTCAAAAA-ATTCAAAACAAAATATT
1 AAAAATTTTTAAAATTTCAAAAACATT-AAAA-AAAATATT
15498881 AAA
1 AAA
15498884 GATACTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 3 0.08
38 10 0.28
39 23 0.64
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (39 bp):
AAAAATTTTTAAAATTTCAAAAACATTAAAAAAAATATT
Found at i:15498989 original size:18 final size:17
Alignment explanation
Indices: 15498968--15499017 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
15498958 ATAATTCTAA
* *
15498968 AAAAAATTTAAATTTTAT
1 AAAAAATTTAAAATTT-C
15498986 AAAAAATTTTAAAATTTC
1 AAAAAA-TTTAAAATTTC
15499004 AAAAAATTCTAAAA
1 AAAAAATT-TAAAA
15499018 AAATAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 2 0.07
18 17 0.61
19 9 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAAATTTAAAATTTC
Found at i:15499000 original size:20 final size:20
Alignment explanation
Indices: 15498945--15499002 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 20
15498935 TACTAAATAC
* *
15498945 TAAATAATTTTAAATAATTCTA
1 TAAAAAATTTT-AA-AATTTTA
*
15498967 -AAAAAAATTT-AAATTTTA
1 TAAAAAATTTTAAAATTTTA
15498985 TAAAAAATTTTAAAATTT
1 TAAAAAATTTTAAAATTT
15499003 CAAAAAATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.20
19 10 0.33
20 6 0.20
21 8 0.27
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAAAAATTTTAAAATTTTA
Found at i:15499009 original size:20 final size:20
Alignment explanation
Indices: 15498950--15499009 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
15498940 AATACTAAAT
*
15498950 AATTTTAAATAATTCTAAAAAA
1 AATTTTAAA-ATTTC-AAAAAA
* *
15498972 AA-TTT-AAATTTTATAAAA
1 AATTTTAAAATTTCAAAAAA
15498990 AATTTTAAAATTTCAAAAAA
1 AATTTTAAAATTTCAAAAAA
15499010 TTCTAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 7 0.23
19 6 0.19
20 13 0.42
21 3 0.10
22 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTTAAAATTTCAAAAAA
Found at i:15499019 original size:20 final size:19
Alignment explanation
Indices: 15498986--15499095 Score: 91
Period size: 20 Copynumber: 5.7 Consensus size: 19
15498976 TAAATTTTAT
* *
15498986 AAAAAATT-TTAAAATTTC
1 AAAAAATTCTAAAAAATTC
*
15499004 AAAAAATTCTAAAAAAAT-
1 AAAAAATTCTAAAAAATTC
* *
15499022 AATAATTTCTTTAAAAAATTC
1 AAAAAATTC--TAAAAAATTC
15499043 AAAACAATTCTAAAAAATTC
1 AAAA-AATTCTAAAAAATTC
* * *
15499063 TAAAAATTCCTGAAAATTTC
1 AAAAAATT-CTAAAAAATTC
15499083 AAAAAATT-TAAAA
1 AAAAAATTCTAAAA
15499096 TTTTAAAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
18 19 0.26
19 10 0.14
20 37 0.51
21 3 0.04
22 4 0.05
ACGTcount: A:0.58, C:0.09, G:0.01, T:0.32
Consensus pattern (19 bp):
AAAAAATTCTAAAAAATTC
Found at i:15499037 original size:48 final size:48
Alignment explanation
Indices: 15498950--15499068 Score: 125
Period size: 48 Copynumber: 2.4 Consensus size: 48
15498940 AATACTAAAT
* * * **
15498950 AATTTTAAATAATTCTAAAAAAAATTTAAATTTTATAAAAAATTTTAA
1 AATTTCAAAAAATTCTAAAAAAAATATAAATTTTATAAAAAATTCAAA
*
15498998 AATTTCAAAAAATTCT-AAAAAAATA-ATAATTTCTTTAAAAAATTCAAA
1 AATTTCAAAAAATTCTAAAAAAAATATA-AATTT-TATAAAAAATTCAAA
*
15499046 ACAATTCTAAAAAATTCTAAAAA
1 A-ATTTC-AAAAAATTCTAAAAA
15499069 TTCCTGAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
46 1 0.02
47 13 0.22
48 27 0.46
49 4 0.07
50 10 0.17
51 4 0.07
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (48 bp):
AATTTCAAAAAATTCTAAAAAAAATATAAATTTTATAAAAAATTCAAA
Found at i:15499061 original size:10 final size:10
Alignment explanation
Indices: 15498985--15499095 Score: 67
Period size: 9 Copynumber: 11.5 Consensus size: 10
15498975 TTAAATTTTA
15498985 TAAAAAATT-
1 TAAAAAATTC
* *
15498994 TTAAAATTTC
1 TAAAAAATTC
15499004 -AAAAAATTC
1 TAAAAAATTC
*
15499013 TAAAAAA--A
1 TAAAAAATTC
* *
15499021 TAATAATTTC
1 TAAAAAATTC
15499031 TTTAAAAAATTC
1 --TAAAAAATTC
15499043 -AAAACAATTC
1 TAAAA-AATTC
15499053 TAAAAAATTC
1 TAAAAAATTC
15499063 T-AAAAATTCC
1 TAAAAAATT-C
* *
15499073 TGAAAATTTC
1 TAAAAAATTC
15499083 -AAAAAATT-
1 TAAAAAATTC
15499091 TAAAA
1 TAAAA
15499096 TTTTAAAAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
8 5 0.06
9 35 0.45
10 20 0.26
11 10 0.13
12 8 0.10
ACGTcount: A:0.58, C:0.09, G:0.01, T:0.32
Consensus pattern (10 bp):
TAAAAAATTC
Found at i:15499069 original size:9 final size:9
Alignment explanation
Indices: 15499035--15499163 Score: 57
Period size: 9 Copynumber: 13.8 Consensus size: 9
15499025 AATTTCTTTA
*
15499035 AAAAATTCA
1 AAAAATTCT
15499044 AAACAATTCT
1 AAA-AATTCT
15499054 AAAAAATTCT
1 -AAAAATTCT
15499064 AAAAATTCCT
1 AAAAATT-CT
* *
15499074 GAAAATTTCA
1 -AAAAATTCT
15499084 AAAAATT-T
1 AAAAATTCT
*
15499092 -AAAATTTT
1 AAAAATTCT
*
15499100 AAAAAATATGT
1 -AAAAAT-TCT
* *
15499111 CAAATATTTTT
1 -AAA-AATTCT
*
15499122 AAAAATTTT
1 AAAAATTCT
*
15499131 AAAAATTAT
1 AAAAATTCT
* * *
15499140 GATAATTTT
1 AAAAATTCT
15499149 AAAAATT-T
1 AAAAATTCT
15499157 AAAAATT
1 AAAAATT
15499164 TTAATAAAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
7 6 0.06
8 9 0.09
9 40 0.42
10 22 0.23
11 16 0.17
12 2 0.02
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (9 bp):
AAAAATTCT
Found at i:15499084 original size:40 final size:39
Alignment explanation
Indices: 15498996--15499095 Score: 107
Period size: 40 Copynumber: 2.6 Consensus size: 39
15498986 AAAAAATTTT
* *
15498996 AAAATTTCAAAAAATTCTAAAAAAATAATAATTTCTTTA
1 AAAATTTCAAAAAATTCTAAAAAAATAATAAATTCTCTA
* * *
15499035 AAAAATTCAAAACAATTCTAAAAAATTCTAA-AAATTC-CTG
1 AAAATTTCAAAA-AATTCTAAAAAA--ATAATAAATTCTCTA
15499075 AAAATTTCAAAAAATT-TAAAA
1 AAAATTTCAAAAAATTCTAAAA
15499096 TTTTAAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
38 5 0.10
39 15 0.29
40 24 0.46
41 5 0.10
42 3 0.06
ACGTcount: A:0.58, C:0.10, G:0.01, T:0.31
Consensus pattern (39 bp):
AAAATTTCAAAAAATTCTAAAAAAATAATAAATTCTCTA
Found at i:15499095 original size:8 final size:8
Alignment explanation
Indices: 15499055--15499203 Score: 52
Period size: 8 Copynumber: 17.2 Consensus size: 8
15499045 AACAATTCTA
15499055 AAAAATTCT
1 AAAAATT-T
15499064 AAAAATTCCT
1 AAAAATT--T
*
15499074 GAAAATTT
1 AAAAATTT
15499082 CAAAAAATTT
1 --AAAAATTT
*
15499092 AAAATTTT
1 AAAAATTT
15499100 AAAAAATATGT
1 -AAAAAT-T-T
*
15499111 CAAATATTTTT
1 -AAA-A-ATTT
15499122 AAAAATTTT
1 AAAAA-TTT
15499131 AAAAATTAT
1 AAAAATT-T
* *
15499140 GATAATTTT
1 -AAAAATTT
15499149 AAAAATTT
1 AAAAATTT
15499157 AAAAATTT
1 AAAAATTT
* *
15499165 --TAA-TA
1 AAAAATTT
*
15499170 AAAAATGT
1 AAAAATTT
*
15499178 AAAAAATT
1 AAAAATTT
**
15499186 AAAAAAAT
1 AAAAATTT
15499194 AAAAATTT
1 AAAAATTT
15499202 AA
1 AA
15499204 GAAAAATTAA
Statistics
Matches: 105, Mismatches: 21, Indels: 29
0.68 0.14 0.19
Matches are distributed among these distances:
5 1 0.01
6 2 0.02
7 2 0.02
8 45 0.43
9 23 0.22
10 24 0.23
11 5 0.05
12 2 0.02
13 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (8 bp):
AAAAATTT
Found at i:15499166 original size:9 final size:9
Alignment explanation
Indices: 15499055--15499167 Score: 77
Period size: 9 Copynumber: 12.2 Consensus size: 9
15499045 AACAATTCTA
*
15499055 AAAAATTCT
1 AAAAATTTT
*
15499064 AAAAATTCCT
1 AAAAATT-TT
* *
15499074 GAAAATTTC
1 AAAAATTTT
*
15499083 AAAAAATTT
1 AAAAATTTT
15499092 -AAAATTTT
1 AAAAATTTT
*
15499100 AAAAAATATGTC
1 -AAAAAT-T-TT
*
15499112 AAATATTTTT
1 AAA-AATTTT
15499122 AAAAATTTT
1 AAAAATTTT
*
15499131 AAAAATTAT
1 AAAAATTTT
* *
15499140 GATAATTTT
1 AAAAATTTT
15499149 AAAAA-TTT
1 AAAAATTTT
15499157 AAAAATTTT
1 AAAAATTTT
15499166 AA
1 AA
15499168 TAAAAAATGT
Statistics
Matches: 80, Mismatches: 17, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
8 15 0.19
9 40 0.50
10 17 0.21
11 5 0.06
12 3 0.04
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (9 bp):
AAAAATTTT
Found at i:15499170 original size:26 final size:27
Alignment explanation
Indices: 15499113--15499170 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
15499103 AAATATGTCA
*
15499113 AATATTTTTAAAAATTTTAAAAATTAT
1 AATAATTTTAAAAATTTTAAAAATTAT
* *
15499140 GATAATTTTAAAAA-TTTAAAAATTTT
1 AATAATTTTAAAAATTTTAAAAATTAT
15499166 AATAA
1 AATAA
15499171 AAAATGTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
AATAATTTTAAAAATTTTAAAAATTAT
Found at i:15499192 original size:18 final size:17
Alignment explanation
Indices: 15499169--15499214 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
15499159 AAATTTTAAT
15499169 AAAAAATGTAAAAAATTA
1 AAAAAAT-TAAAAAATTA
*
15499187 AAAAAA-TAAAAATTTA
1 AAAAAATTAAAAAATTA
15499203 AGAAAAATTAAA
1 A-AAAAATTAAA
15499215 TTTTCTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 10 0.40
17 5 0.20
18 10 0.40
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (17 bp):
AAAAAATTAAAAAATTA
Found at i:15499283 original size:18 final size:18
Alignment explanation
Indices: 15499262--15499311 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
15499252 TAAAAATTAA
15499262 AAAAAATCTAAATTTTTT
1 AAAAAATCTAAATTTTTT
15499280 AAAAAATTCTAAATTTTTTT
1 AAAAAA-TCTAAA-TTTTTT
*
15499300 TAAAAAT-TAAAT
1 AAAAAATCTAAAT
15499312 AATTTTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.03
18 10 0.34
19 7 0.24
20 11 0.38
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAAATCTAAATTTTTT
Found at i:15499285 original size:19 final size:19
Alignment explanation
Indices: 15499261--15499311 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
15499251 CTAAAAATTA
15499261 AAAAAAATCTAAATTTTTT
1 AAAAAAATCTAAATTTTTT
*
15499280 AAAAAATTCTAAATTTTTT
1 AAAAAAATCTAAATTTTTT
**
15499299 TTAAAAAT-TAAAT
1 AAAAAAATCTAAAT
15499312 AATTTTAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAAAAATCTAAATTTTTT
Found at i:15499317 original size:20 final size:22
Alignment explanation
Indices: 15499272--15499317 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
15499262 AAAAAATCTA
15499272 AATTTTTTAAAAAATTCTAAAT
1 AATTTTTTAAAAAATTCTAAAT
*
15499294 --TTTTTTTAAAAA-T-TAAAT
1 AATTTTTTAAAAAATTCTAAAT
15499312 AATTTT
1 AATTTT
15499318 AGAAGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
18 5 0.24
19 1 0.05
20 15 0.71
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTTTTTAAAAAATTCTAAAT
Found at i:15499527 original size:19 final size:19
Alignment explanation
Indices: 15499487--15499529 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
15499477 TTCTTGCAAA
* *
15499487 TTTTTAAAAAATTTTCTAT
1 TTTTTAAAAAAATTTCAAT
15499506 TTTTTAAAAAAATTT-AAGT
1 TTTTTAAAAAAATTTCAA-T
15499525 TTTTT
1 TTTTT
15499530 TTTATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTTAAAAAAATTTCAAT
Found at i:15499537 original size:27 final size:27
Alignment explanation
Indices: 15499507--15499558 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
15499497 ATTTTCTATT
15499507 TTTTAAAAAAATTTAAGTTTTTTTTTA
1 TTTTAAAAAAATTTAAGTTTTTTTTTA
** **
15499534 TTTTAACTATTTTTAAGTTTTTTTT
1 TTTTAAAAAAATTTAAGTTTTTTTT
15499559 GAAATTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (27 bp):
TTTTAAAAAAATTTAAGTTTTTTTTTA
Found at i:15499640 original size:17 final size:17
Alignment explanation
Indices: 15499620--15499652 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15499610 TTAATTTTCA
15499620 AAATTTTTAAAAAATTG
1 AAATTTTTAAAAAATTG
*
15499637 AAATTTTTTAAAAATT
1 AAATTTTTAAAAAATT
15499653 TGAGATTCTT
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:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
AAATTTTTAAAAAATTG
Found at i:15499802 original size:41 final size:42
Alignment explanation
Indices: 15499737--15499860 Score: 119
Period size: 41 Copynumber: 3.0 Consensus size: 42
15499727 TTTTTTTTAA
* * *
15499737 ATTTTAGAATTTTTTAGAATTTTGTT-AAATTTTTTAAAATT
1 ATTTTAGATTTTTTTAGAAGTTTGTTAAAAATTTTTAAAATT
15499778 ATTTTAGATTTTTTTTA-AAGTTTGTTAAAAATTTTTAAAATT
1 ATTTTAGA-TTTTTTTAGAAGTTTGTTAAAAATTTTTAAAATT
* * * * * * * *
15499820 GTTATAGAATTTTTGAAAATTTTG-CAAAAATTTTTAGAATT
1 ATTTTAGATTTTTTTAGAAGTTTGTTAAAAATTTTTAAAATT
15499861 TTTAAGAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 37 0.53
42 33 0.47
ACGTcount: A:0.36, C:0.01, G:0.09, T:0.54
Consensus pattern (42 bp):
ATTTTAGATTTTTTTAGAAGTTTGTTAAAAATTTTTAAAATT
Found at i:15499813 original size:42 final size:41
Alignment explanation
Indices: 15499737--15499860 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 41
15499727 TTTTTTTTAA
* *
15499737 ATTTTAGAATTTTTTAGAATTTTGTT-AAATTTTTTAAAATT
1 ATTTTAGATTTTTTTA-AATTTTGTTAAAAATTTTTAAAATT
*
15499778 ATTTTAGATTTTTTTTAAAGTTTGTTAAAAATTTTTAAAATT
1 ATTTTAGA-TTTTTTTAAATTTTGTTAAAAATTTTTAAAATT
* * ** * *
15499820 GTTATAGAATTTTTGAAAATTTTG-CAAAAATTTTTAGAATT
1 ATTTTAG-ATTTTTTTAAATTTTGTTAAAAATTTTTAAAATT
15499861 TTTAAGAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 31 0.44
42 38 0.54
43 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.09, T:0.54
Consensus pattern (41 bp):
ATTTTAGATTTTTTTAAATTTTGTTAAAAATTTTTAAAATT
Found at i:15499863 original size:21 final size:20
Alignment explanation
Indices: 15499845--15499889 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
15499835 AAAATTTTGC
15499845 AAAAATTTTTAGAATTTTTAAG
1 AAAAA-TTTTAGAATTTTT-AG
*
15499867 AAAAATTTTAGTATTTTTTAG
1 AAAAATTTTAG-AATTTTTAG
15499888 AA
1 AA
15499890 TTTTTAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (20 bp):
AAAAATTTTAGAATTTTTAG
Found at i:15499870 original size:22 final size:21
Alignment explanation
Indices: 15499845--15499889 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
15499835 AAAATTTTGC
15499845 AAAAATTTTTAGAATTTTTAAG
1 AAAAA-TTTTAGAATTTTTAAG
* *
15499867 AAAAATTTTAGTATTTTTTAG
1 AAAAATTTTAGAATTTTTAAG
15499888 AA
1 AA
15499890 TTTTTAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (21 bp):
AAAAATTTTAGAATTTTTAAG
Found at i:15499934 original size:11 final size:10
Alignment explanation
Indices: 15499710--15499934 Score: 120
Period size: 10 Copynumber: 22.4 Consensus size: 10
15499700 TTTAAAAAGG
15499710 TTTTAGAATT
1 TTTTAGAATT
*
15499720 TCTTA-AATT
1 TTTTAGAATT
** *
15499729 TTTTTTAA-A
1 TTTTAGAATT
15499738 TTTTAGAATT
1 TTTTAGAATT
15499748 TTTTAGAATT
1 TTTTAGAATT
15499758 TTGTTA-AATT
1 TT-TTAGAATT
*
15499768 TTTTAAAATT
1 TTTTAGAATT
*
15499778 ATTTTAGATTTT
1 -TTTTAGA-ATT
15499790 TTTTA-AAGTT
1 TTTTAGAA-TT
* * *
15499800 TGTTAAAAAT
1 TTTTAGAATT
*
15499810 TTTTAAAATT
1 TTTTAGAATT
*
15499820 GTTATAGAATT
1 -TTTTAGAATT
* *
15499831 TTTGAAAATT
1 TTTTAGAATT
** * *
15499841 TTGCAAAAAT
1 TTTTAGAATT
15499851 TTTTAGAATT
1 TTTTAGAATT
* **
15499861 TTTAAGAAAAA
1 TTTTAG-AATT
*
15499872 TTTTAGTATT
1 TTTTAGAATT
15499882 TTTTAGAA-T
1 TTTTAGAATT
*
15499891 TTTTAGAAATA
1 TTTTAG-AATT
*
15499902 TTTTGGAATT
1 TTTTAGAATT
* *
15499912 ATTT-GAACT
1 TTTTAGAATT
15499921 TTTTAGAATT
1 TTTTAGAATT
15499931 TTTT
1 TTTT
15499935 TGGAATTTTC
Statistics
Matches: 161, Mismatches: 41, Indels: 26
0.71 0.18 0.11
Matches are distributed among these distances:
9 30 0.19
10 93 0.58
11 36 0.22
12 2 0.01
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (10 bp):
TTTTAGAATT
Found at i:15499943 original size:10 final size:10
Alignment explanation
Indices: 15499879--15499943 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
15499869 AAATTTTAGT
*
15499879 ATTTTTTAGA
1 ATTTTTTGGA
* *
15499889 ATTTTTAGAA
1 ATTTTTTGGA
*
15499899 ATATTTTGGA
1 ATTTTTTGGA
*
15499909 ATTATTT-GA
1 ATTTTTTGGA
* *
15499918 ACTTTTTAGA
1 ATTTTTTGGA
15499928 ATTTTTTTGGA
1 A-TTTTTTGGA
15499939 ATTTT
1 ATTTT
15499944 CTTGTAATGG
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
9 7 0.17
10 26 0.63
11 8 0.20
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (10 bp):
ATTTTTTGGA
Found at i:15501294 original size:17 final size:18
Alignment explanation
Indices: 15501268--15501303 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
15501258 TCTCAAGCCT
15501268 TAGGTAAAAG-CTAAACC
1 TAGGTAAAAGCCTAAACC
*
15501285 TAGGTCAAAGCCTAAACC
1 TAGGTAAAAGCCTAAACC
15501303 T
1 T
15501304 TAATCGAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (18 bp):
TAGGTAAAAGCCTAAACC
Found at i:15501803 original size:14 final size:14
Alignment explanation
Indices: 15501777--15501810 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
15501767 ATCTTGTCTG
*
15501777 TTTATT-CTTTTTA
1 TTTATTACTGTTTA
15501790 TTTATTACTGTTTA
1 TTTATTACTGTTTA
15501804 TTTATTA
1 TTTATTA
15501811 ATTGTTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (14 bp):
TTTATTACTGTTTA
Found at i:15510465 original size:18 final size:18
Alignment explanation
Indices: 15510442--15510476 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15510432 ATGCCCAACT
15510442 AGATTCCCAACCAGCCCC
1 AGATTCCCAACCAGCCCC
*
15510460 AGATTCCCAACTAGCCC
1 AGATTCCCAACCAGCCC
15510477 ATTCAAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.46, G:0.11, T:0.14
Consensus pattern (18 bp):
AGATTCCCAACCAGCCCC
Found at i:15511254 original size:27 final size:27
Alignment explanation
Indices: 15511217--15511274 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
15511207 ACATTCTTAA
*
15511217 ATGG-TGACTTGAAGGAGGATGCCTAC
1 ATGGATGACTTGAAGGAAGATGCCTAC
* * *
15511243 ATGGATGACTTGGAGGAAGATGTCTAG
1 ATGGATGACTTGAAGGAAGATGCCTAC
15511270 ATGGA
1 ATGGA
15511275 AATTCCTCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.29, C:0.10, G:0.36, T:0.24
Consensus pattern (27 bp):
ATGGATGACTTGAAGGAAGATGCCTAC
Found at i:15512466 original size:25 final size:25
Alignment explanation
Indices: 15512432--15512481 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
15512422 GAGTGTAGAA
*
15512432 ATCTGATTCTTCTACATTAATGCAG
1 ATCTAATTCTTCTACATTAATGCAG
*
15512457 ATCTAATTCTTCTACATTAGTGCAG
1 ATCTAATTCTTCTACATTAATGCAG
15512482 CTTGATTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (25 bp):
ATCTAATTCTTCTACATTAATGCAG
Found at i:15516513 original size:329 final size:334
Alignment explanation
Indices: 15516027--15516660 Score: 888
Period size: 329 Copynumber: 1.9 Consensus size: 334
15516017 TATACTCATA
* * * * * * *
15516027 CTTGACTGGAGGATATACTTGATCTCGCCTTTACTAATTGAATATTGACTGAAAATTTAGCTTGA
1 CTTGACCGGAGGAGATACTTGATCTCACCTTGACTAAATGAAAATTGACTGAAAATTTAGCTGGA
* *
15516092 TCAAGTTTAAGCACAAGTTTCAAAGTTGGACTGAAATCTATATGGGTATGCAAAATTATAGATTG
66 TCAAATTTAAGCACAAGATTCAAAGTTGGACTGAAATCTATATGGGTATGCAAAATTATAGATTG
* *
15516157 AGTACAAAATAAATTAGTAAAAGTTCTTTAGCATTGATGCAACCGGTGCAGGTACTG-GTGCTTA
131 AGTACAAAATAAATTAGTAAAAGTTCTTTAGCATTGATGCAACCGATGCAGGTA-TGAGTGCTCA
* * *
15516221 AATCTCGGCAATAATTAAGAACATTTCGAGCTCCTTATCTATT-GCTTAATAAATTTGAACTTGC
195 AATCTCGGCAATAATTAAGAACATTCCAAGCTCCTTATCT-TTAGCTTAATAAATTTGAACTGGC
** * * *
15516285 CATTATTACTGCATT-T-TGG-AGT-TTGCTTGATCGAGTTGACATGACTTGATTGTGTCATTGT
259 CAGCAGTACTGCATTGTGGGGTAATCTTGCTTGATCGAGTTGACATGACTTGATTGTGTCATTGT
15516346 CTATACGCCTT
324 CTATACGCCTT
*
15516357 CTTGACCGGAGGAGATATTTGATCTCACCTTGACTAAATGAAAATTGACTGAAAATTTAGCTGGA
1 CTTGACCGGAGGAGATACTTGATCTCACCTTGACTAAATGAAAATTGACTGAAAATTTAGCTGGA
* *
15516422 TCAAATTTAAGCACAAGATT-AAATTTGGACTGAAATCTATATGGGTATGTAAAATTATAGGA-T
66 TCAAATTTAAGCACAAGATTCAAAGTTGGACTGAAATCTATATGGGTATGCAAAATTATA-GATT
* * * * * *
15516485 GAGTACAAAATAAATTGGTAATAGTTCTTTTGTATTGATGCAACTGATGCAGTTATGAGTGCTCA
130 GAGTACAAAATAAATTAGTAAAAGTTCTTTAGCATTGATGCAACCGATGCAGGTATGAGTGCTCA
** * * *
15516550 AATCTTTGCCATAATTAAGAGCATTCCAAGCTCCTTATCTTTAGCTTAATCAATTTGAACTGGCC
195 AATCTCGGCAATAATTAAGAACATTCCAAGCTCCTTATCTTTAGCTTAATAAATTTGAACTGGCC
15516615 AGCAGTACTGCATTGTGGGGTAATCTTGCTTGATCGAGTTGACATG
260 AGCAGTACTGCATTGTGGGGTAATCTTGCTTGATCGAGTTGACATG
15516661 GTGAGCTTGG
Statistics
Matches: 264, Mismatches: 33, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
328 4 0.02
329 157 0.59
330 78 0.30
331 2 0.01
332 2 0.01
333 21 0.08
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (334 bp):
CTTGACCGGAGGAGATACTTGATCTCACCTTGACTAAATGAAAATTGACTGAAAATTTAGCTGGA
TCAAATTTAAGCACAAGATTCAAAGTTGGACTGAAATCTATATGGGTATGCAAAATTATAGATTG
AGTACAAAATAAATTAGTAAAAGTTCTTTAGCATTGATGCAACCGATGCAGGTATGAGTGCTCAA
ATCTCGGCAATAATTAAGAACATTCCAAGCTCCTTATCTTTAGCTTAATAAATTTGAACTGGCCA
GCAGTACTGCATTGTGGGGTAATCTTGCTTGATCGAGTTGACATGACTTGATTGTGTCATTGTCT
ATACGCCTT
Found at i:15520840 original size:23 final size:25
Alignment explanation
Indices: 15520814--15520869 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
15520804 CAACATAAAT
* *
15520814 TAGGA-AACCAAGT-TGCACTAATG
1 TAGGAGAACCAAATCTGCACTAATA
*
15520837 TAGGAGAATCAAATCTGCACTAATA
1 TAGGAGAACCAAATCTGCACTAATA
15520862 TAGGAGAA
1 TAGGAGAA
15520870 TTAAATTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 5 0.18
24 6 0.21
25 17 0.61
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (25 bp):
TAGGAGAACCAAATCTGCACTAATA
Found at i:15520856 original size:25 final size:25
Alignment explanation
Indices: 15520827--15520875 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
15520817 GAAACCAAGT
*
15520827 TGCACTAATGTAGGAGAATCAAATC
1 TGCACTAATATAGGAGAATCAAATC
*
15520852 TGCACTAATATAGGAGAATTAAAT
1 TGCACTAATATAGGAGAATCAAAT
15520876 TTCTACAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (25 bp):
TGCACTAATATAGGAGAATCAAATC
Found at i:15530947 original size:15 final size:15
Alignment explanation
Indices: 15530918--15530964 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
15530908 AATTATTCTC
15530918 ATCTTTTTATGTTAATA
1 ATCTTTTTAT-TTAA-A
15530935 AT-TTTTTATTTAAA
1 ATCTTTTTATTTAAA
*
15530949 ATCTTTTAATTTAAA
1 ATCTTTTTATTTAAA
15530964 A
1 A
15530965 ATATTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 3 0.11
15 16 0.57
16 7 0.25
17 2 0.07
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (15 bp):
ATCTTTTTATTTAAA
Found at i:15530965 original size:16 final size:16
Alignment explanation
Indices: 15530918--15530966 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
15530908 AATTATTCTC
*
15530918 ATCTTTTTATGTTAATA
1 ATCTTTTTAT-TTAAAA
15530935 AT-TTTTTATTT-AAA
1 ATCTTTTTATTTAAAA
*
15530949 ATCTTTTAATTTAAAA
1 ATCTTTTTATTTAAAA
15530965 AT
1 AT
15530967 ATTAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 4 0.14
15 10 0.36
16 12 0.43
17 2 0.07
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (16 bp):
ATCTTTTTATTTAAAA
Found at i:15531909 original size:221 final size:216
Alignment explanation
Indices: 15531135--15531990 Score: 523
Period size: 221 Copynumber: 3.9 Consensus size: 216
15531125 TATTCTCACT
* * * * *
15531135 TTTTACATTAACACTTT-CTTTTTTGTATAGAATTACTTTTTACTTATAATAATAA--TTTTTAT
1 TTTTACATAAACA-TTTATTTTTTTGTTTAGAA-TA-TTTTTATTTATAATAATAATTTTTTTAC
* * * * * *
15531197 GTTATCAATTTAATTATTTACATTATAATAATATGTTTTTACA-CTTGTTCTTATA-TTTT-ATT
63 GTTATCAACTTAATTATTGACATTACAATAATATTTTTTTA-AGGTTATTC--ATACTTTTCATT
* * * * * * * * ** *
15531259 ACGTTTTAAAATTATCATGACTTTTATTTTAAGGT-GTAGCTACACTTCTAATACATTTTTATGC
125 ACG-TCTAGAATTATCA-CAATCTT-TCTTAAGGTATTA-CAACACTTCTAACCCA-TTTTAAGC
* ***
15531323 CAAATGATACAAATTTTATGATTATTTTTACAT-
185 TAAATGATACAAATTTTGCAATTA-TTTT-CATC
* * * *
15531356 TTTTACATAAACA--CA-TTTTTTGATT-GAATTACTTTTTATTTATAAGAATAATTTTTTTATG
1 TTTTACATAAACATTTATTTTTTTGTTTAGAA-TA-TTTTTATTTATAATAATAATTTTTTTACG
* ** * * * * * * * * *
15531417 CTGCCAACTTAATTATTTACATTA-GA-AATATATATATTATGTTTGTTCTTACATTTCA-TACG
64 TTATCAACTTAATTATTGACATTACAATAATAT-TTTTTTAAGGTTATTCATACTTTTCATTACG
* * * * * * * ** * * *
15531479 TTTAGGATTATCATAA-CTTT-TTAAAGGTGTTACCATAGTTCTAACTTATTTTATGCCAATTGA
128 TCTAGAATTATCACAATCTTTCTT-AAGGTATTACAACACTTCTAACCCATTTTAAGCTAAATGA
** ** * *
15531542 TATTAATTTTATAACTATTCTCA-C
192 TACAAATTTTGCAATTATTTTCATC
*
15531566 TTTTTAACATTAACACTCTT-TTTTTTTGTTTAGAATATTTTTATTTATAATAATAATTTTTTTA
1 -TTTT-ACATAAACA-T-TTATTTTTTTGTTTAGAATATTTTTATTTATAATAATAATTTTTTTA
* * * **
15531630 TGTTATCAACTTAATTATTGACGTTATAATAATATTTTTTTAAGGTTATTTTTACTTTT-ATTAC
62 CGTTATCAACTTAATTATTGACATTACAATAATATTTTTTTAAGGTTATTCATACTTTTCATTAC
* * *
15531694 GTCTAGAATTGTCATAACTCTTTCTTAGGGTATTACAACACTTCTAACCCATTTTAAG-TGAAAT
127 GTCTAGAATTATCACAA-TCTTTCTTAAGGTATTACAACACTTCTAACCCATTTTAAGCT-AAAT
15531758 GATACAAATTTTGCAATTATTTTCATC
190 GATACAAATTTTGCAATTATTTTCATC
15531785 TTTTACATAAACATTTATTTTTTTGTTTAGAATTATTTTGTATTTATAATAATAATAATTCTTTT
1 TTTTACATAAACATTTATTTTTTTGTTTAGAA-TATTTT-TATTTATAATAATAAT--TT-TTTT
* * * * * * *
15531850 ACGTTATCAAGTTATTTATTTACATTACAATAATTTTTTTTTATA-TTTGTTCATACTTTTCGTT
61 ACGTTATCAACTTAATTATTGACATTACAATAATATTTTTTTA-AGGTTATTCATACTTTTCATT
* * * * * * * * *
15531914 ATGTTTAGAATTATCACGATTTTTTTTAAGGTGTTACAACACTTTTAACTCATTTTATGCTAAAT
125 ACGTCTAGAATTATCACAATCTTTCTTAAGGTATTACAACACTTCTAACCCATTTTAAGCTAAAT
*
15531979 GATATAAATTTT
190 GATACAAATTTT
15531991 ACGGCTATTT
Statistics
Matches: 502, Mismatches: 98, Indels: 70
0.75 0.15 0.10
Matches are distributed among these distances:
210 2 0.00
211 7 0.01
212 37 0.07
213 16 0.03
214 4 0.01
215 51 0.10
216 75 0.15
217 58 0.12
218 90 0.18
219 31 0.06
220 2 0.00
221 111 0.22
222 18 0.04
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (216 bp):
TTTTACATAAACATTTATTTTTTTGTTTAGAATATTTTTATTTATAATAATAATTTTTTTACGTT
ATCAACTTAATTATTGACATTACAATAATATTTTTTTAAGGTTATTCATACTTTTCATTACGTCT
AGAATTATCACAATCTTTCTTAAGGTATTACAACACTTCTAACCCATTTTAAGCTAAATGATACA
AATTTTGCAATTATTTTCATC
Found at i:15532003 original size:221 final size:220
Alignment explanation
Indices: 15530951--15531991 Score: 803
Period size: 218 Copynumber: 4.8 Consensus size: 220
15530941 TATTTAAAAT
* * ** * * * * **
15530951 CTTTTAATTTA-AA-AATATTAATTTTTTACATTGTCAAGTTAATTATTTGCTTTACTTTAATTT
1 CTTTTTATTTATAATAATAATAATTTTTTATGTTATCAACTTAATTATTTACATTACAATAATTT
* * ** *
15531014 TTTGTTATACTTGTTCTTAC-TTTCTGTTTTGTTTAGAATTATCATAACTTTTTTTAAGGTGTTA
66 TTTTTTATACTTGTTCTTACTTTTC-ATTACGTTTAGAATTATCATAATTTTTTTTAAGGTGTTA
* *** * * * * * *
15531078 CGATGGTTCTAGCCCATTTT-TACATTAAATAATATCAATTTTATGATTATTCTCACTTTTTACA
130 CAACACTTCTAACTCATTTTATGC--TAAATGATATAAATTTTATGATTATTTTCACTTTTTACA
* * *
15531142 TTAACACTTTCTTTTTTGTATAGAATTA
193 TAAACACTTTTTTTTTTGTTTAGAATTA
* * * *
15531170 CTTTTTA-CT-T-ATAATAATAA-TTTTTATGTTATCAATTTAATTATTTACATTATAATAATAT
1 CTTTTTATTTATAATAATAATAATTTTTTATGTTATCAACTTAATTATTTACATTACAATAATTT
* * * * *
15531231 GTTTTTACACTTGTTCTTA-TATTTTATTACGTTTTAAAATTATCATGACTTTTATTTTAAGGTG
66 TTTTTTATACTTGTTCTTACT-TTTCATTACG-TTTAGAATTATCAT-AATTTT-TTTTAAGGTG
* * * *
15531295 -TAGCTACACTTCTAA-TACATTTTTATGCCAAATGATACAAATTTTATGATTATTTTTACATTT
127 TTA-CAACACTTCTAACT-CA-TTTTATGCTAAATGATATAAATTTTATGATTATTTTCAC-TTT
* *
15531358 TTACATAAACAC---ATTTTTTGATT-GAATTA
188 TTACATAAACACTTTTTTTTTTGTTTAGAATTA
* * ** *
15531387 CTTTTTATTTATAAGAATAAT--TTTTTTATGCTGCCAACTTAATTATTTACATTA-GA-AATAT
1 CTTTTTATTTATAATAATAATAATTTTTTATGTTATCAACTTAATTATTTACATTACAATAAT-T
* * * ** * * * *
15531448 ATATATTATGTTTGTTCTTACATTTCA-TACGTTTAGGATTATCATAA-CTTTTTAAAGGTGTTA
65 TTTTTTTATACTTGTTCTTACTTTTCATTACGTTTAGAATTATCATAATTTTTTTTAAGGTGTTA
* * * * * * * * * *
15531511 CCATAGTTCTAACTTATTTTATGCCAATTGATATTAATTTTATAACTATTCTCACTTTTTAACAT
130 CAACACTTCTAACTCATTTTATGCTAAATGATATAAATTTTATGATTATTTTCACTTTTT-ACAT
*
15531576 TAACACTCTTTTTTTTTGTTTAGAA-TA
194 AAACACT-TTTTTTTTTGTTTAGAATTA
* * * *
15531603 -TTTTTATTTATAATAATAAT--TTTTTTATGTTATCAACTTAATTATTGACGTTATAATAATAT
1 CTTTTTATTTATAATAATAATAATTTTTTATGTTATCAACTTAATTATTTACATTACAATAATTT
* * * * * * * * *
15531665 TTTTTTA-AGGTTATTTTTACTTTT-ATTACGTCTAGAATTGTCATAACTCTTTCTTAGGGTATT
66 TTTTTTATA-CTTGTTCTTACTTTTCATTACGTTTAGAATTATCATAA-TTTTTTTTAAGGTGTT
* * * ***
15531728 ACAACACTTCTAACCCATTTTAAG-TGAAATGATACAAATTTTGCAATTATTTTCA-TCTTTTAC
129 ACAACACTTCTAACTCATTTTATGCT-AAATGATATAAATTTTATGATTATTTTCACT-TTTTAC
15531791 ATAAACA-TTTATTTTTTTGTTTAGAATTA
192 ATAAACACTTT-TTTTTTTGTTTAGAATTA
* * *
15531820 -TTTTGTATTTATAATAATAATAATTCTTTTACGTTATCAAGTTATTTATTTACATTACAATAAT
1 CTTTT-TATTTATAATAATAATAATT-TTTTATGTTATCAACTTAATTATTTACATTACAATAAT
* * * * **
15531884 TTTTTTTTATATTTGTTCATACTTTTCGTTATGTTTAGAATTATCACGATTTTTTTTAAGGTGTT
64 TTTTTTTTATACTTGTTCTTACTTTTCATTACGTTTAGAATTATCATAATTTTTTTTAAGGTGTT
*
15531949 ACAACACTTTTAACTCATTTTATGCTAAATGATATAAATTTTA
129 ACAACACTTCTAACTCATTTTATGCTAAATGATATAAATTTTA
15531992 CGGCTATTTT
Statistics
Matches: 639, Mismatches: 140, Indels: 84
0.74 0.16 0.10
Matches are distributed among these distances:
211 5 0.01
212 41 0.06
213 19 0.03
214 5 0.01
215 51 0.08
216 73 0.11
217 92 0.14
218 122 0.19
219 41 0.06
220 53 0.08
221 117 0.18
222 20 0.03
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.51
Consensus pattern (220 bp):
CTTTTTATTTATAATAATAATAATTTTTTATGTTATCAACTTAATTATTTACATTACAATAATTT
TTTTTTATACTTGTTCTTACTTTTCATTACGTTTAGAATTATCATAATTTTTTTTAAGGTGTTAC
AACACTTCTAACTCATTTTATGCTAAATGATATAAATTTTATGATTATTTTCACTTTTTACATAA
ACACTTTTTTTTTTGTTTAGAATTA
Found at i:15532078 original size:67 final size:67
Alignment explanation
Indices: 15531952--15532079 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 67
15531942 AGGTGTTACA
* * *
15531952 ACACTTTTAACTCATTTTATGCTAAATGATATAAATTTTACGGCTATTTTCACCCTTTTATGTTA
1 ACACTTTTAACACATTTTATGCTAAATGATATAAATTTTACGACTATTCTCACCCTTTTATGTTA
15532017 TG
66 TG
* * * * * * *
15532019 ACACTTTTAACACATTTTATGTTAGATTATATCAATTTTACGATTATTCTCATCTTTTTAT
1 ACACTTTTAACACATTTTATGCTAAATGATATAAATTTTACGACTATTCTCACCCTTTTAT
15532080 TTTAATACTT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
67 51 1.00
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.48
Consensus pattern (67 bp):
ACACTTTTAACACATTTTATGCTAAATGATATAAATTTTACGACTATTCTCACCCTTTTATGTTA
TG
Found at i:15532541 original size:18 final size:19
Alignment explanation
Indices: 15532520--15532568 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
15532510 ACGTTAACTC
*
15532520 TTATTTTTTTATTTAA-AA
1 TTATTTTTTTATGTAATAA
15532538 TTATTTTTATT-TGTAATAA
1 TTATTTTT-TTATGTAATAA
*
15532557 TAATTTTTTTAT
1 TTATTTTTTTAT
15532569 ATTGTCAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTATTTTTTTATGTAATAA
Found at i:15532670 original size:938 final size:934
Alignment explanation
Indices: 15531541--15533293 Score: 1981
Period size: 938 Copynumber: 1.9 Consensus size: 934
15531531 ATGCCAATTG
* * *
15531541 ATATTAATTTTATAACTATTCTCACTTTTTAACATTAACACTCTTTTTTTTTGTTTAGAATATTT
1 ATATTAATTTTATAACTATTCTCACGTTTTAACATTAACACTCTTTTTTTTTATTTAAAATATTT
* *
15531606 TTATTTATAATAATAATTTTTTTATGTTATCAACTTAATTATTGACGTTATAATAATATTTTTTT
66 TTATTTATAATAATAATTTTTTTATATTATCAACTTAATTATTGACGTTATAATAATATTATTTT
* * * * *
15531671 AAGGTTATTTTTACTTTTATTACGTCTAGAATTGTCATAACTCTTTCTTAGGGTATTACAACACT
131 AAGCTTATTATTACTTTCATTACGTCTAGAATTATCATAACTCTTTCTTAAGGTATTACAACACT
* * * *
15531736 TCTAACCCATTTTAAGTGAAATGATA-CAAATTT-TGCAATT-ATTTTCATCTTTTACATA-AAC
196 TCTAA-CCATTTTAAGTCAAATAATATCAAATTTATG--ATTAATCTT-ACCTTTTACATATAAC
* *
15531797 A-T-TTATTTTTTTGTTTAGAATTATT-TTGTATTTATAATAATAATAATTCTTTTACGTTATC-
257 ACTATTATTTTTTTGTTTAGAATTATTAGT-TATTTATAATAAT--T-ATTCTTTTACG-TACCA
** * * * * *
15531858 AAGTTATTTATTTACATTACAATAATTTTTTTTTATATTTG-TTCATACTTTTCGTTATGTTTAG
317 AAAATA-ATATTTACATTACAATAA-TATTTTTTATACTTGTTTC-TACTTTTCATTACG-TTAG
* ** * * * * ** * *
15531922 AATTATCACGATTTTTTTTAAGGTGTTACAACACTTTTAA-CTCATTTTATGCTAAATGATA-TA
378 AATTACCACGACCTTTATTAAGGTATTACAACACTTCTAATCT-AATTTACACCAAATGACACT-
** * * * * * ** * *
15531985 AATTTTACGGCTATT-TTCACCCTTTTATGTTATGACACTTTTAACACATTTTATGTTAGATTAT
441 AATTTTACAACTATTCTT-ACACTTTTACGTTATGACAATTCTAACACACTTTATGACAAATGAT
* * ** * * *
15532049 ATCAATTTTACGATTATTCTCATCTTTTTATTTTAATACT-TA-TTTTTTGGTTTAGATTTTTTT
505 ATCAATTTTACAATTATTCTCATATTTTTACATTAACA-TGTATTTTTTTGGTTCAGAATTTTTT
* * *
15532112 TATTTATAATAAT-AA-TTTTTATATTGTCAAATTAATTATTTACGTTATAATAAAATTTTTTAT
569 TATTTATAATAATAAATTTTTTATATTATCAAATTAATTATTTACGTTACAATAAAATCTTTTA-
* * * *
15532175 GTTTGTTCTTACCTTTGATTATATTAAGAATCATCATAACTTTTTCTTAA-ATTTTATAATATTT
633 -CTTGTTCTTACCTTTGATTATATTAAGAATCATCATAACTTTTTCTTAATATATTATAACACTT
* * * *
15532239 CAAACATATTTTATGCCAAATTATACCAAGTTTACT-ATTATTTTCACATTTTTACATTAACACT
697 CAAACATATTTTACGCAAAATGATACAAAGTTTA-TGATTATTTTCACATTTTTACATTAACACT
* *
15532303 TATTTTTTTGTTTAGAATTATTTATTTATTCATAGTACTAATTTTTTTATGTTACAAATTTATTA
761 TATTTTTTTATTTAGAATTATTT-TTTATTCATAATACTAA-TTTTTTATGTTACAAATTTATTA
15532368 TGTTTCAATAATATTTTTTTTTTACATTTGTTGTTATTTTTCATTATGTTTAAAATTATTATAAT
824 TGTTTCAATAATATTTTTTTTTTACATTTGTTGTTATTTTTCATTATGTTTAAAATTATTATAAT
15532433 TTTTTGTTAAAGTGTAATGATACTTTTAACCATTTTACATCAAATA
889 TTTTTGTTAAAGTGTAATGATACTTTTAACCATTTTACATCAAATA
* *
15532479 ATATTAATTTTATGA-TCATTCTCACCGTTTT-ACGTT-A-ACTCTTATTTTTTTATTTAAAATT
1 ATATTAATTTTATAACT-ATTCTCA-CGTTTTAACATTAACACTCTT-TTTTTTTATTTAAAA-T
* * **
15532540 ATTTTTATTTGTAATAATAATTTTTTTATATTGTCAGTTTAATTACTT-ACGTTATAATAATA-T
62 ATTTTTATTTATAATAATAATTTTTTTATATTATCAACTTAATTA-TTGACGTTATAATAATATT
* * * * * *
15532603 ATTTTATGCTTATTATTATCTTTCA-TACGTTTAGAATTATCATAATTTTTTCTTAAATGTGTTA
126 ATTTTAAGCTTATTATTA-CTTTCATTACGTCTAGAATTATCATAACTCTTTCTT-AAGGTATTA
* * * * *
15532667 CAACATTTCTAATCATTTTACGTCAAATAATATCAATTTTATGATTAATCTTACCTTTTATATAT
189 CAACACTTCTAACCATTTTAAGTCAAATAATATCAAATTTATGATTAATCTTACCTTTTACATA-
* * * *
15532732 TAACACTTATTTTTTTTTTGTTTAGAATTATTAGTTATTTCTAATAATTATTCTTTTATGTGCCA
253 TAACAC-TATTATTTTTTTGTTTAGAATTATTAGTTATTTATAATAATTATTCTTTTACGTACCA
** * *
15532797 AAAATAATATTTATGTTACAATAATATTTTTTATGCTTGTTTCTACTTTTTATTACGTTAGAATT
317 AAAATAATATTTACATTACAATAATATTTTTTATACTTGTTTCTACTTTTCATTACGTTAGAATT
* * * *
15532862 ACCACTACCTTTATTAGGGTATTACGACACTTCTAATCTAATTTACACCGAATGACACTAATTTT
382 ACCACGACCTTTATTAAGGTATTACAACACTTCTAATCTAATTTACACCAAATGACACTAATTTT
* * * *
15532927 ATAACTATTCTTACATTTTTACGTTATGACAATTCTAACATACTTTATGACAAATGATTTCAATT
447 ACAACTATTCTTACACTTTTACGTTATGACAATTCTAACACACTTTATGACAAATGATATCAATT
* *
15532992 TTATAATTATTCTCATATTTTTACATTAACATGTATTTTTTTTTGTTCAGAATTTTTTTATTTAT
512 TTACAATTATTCTCATATTTTTACATTAACATGTA-TTTTTTTGGTTCAGAATTTTTTTATTTAT
* * * *
15533057 AATAATAAATTTTTTATGTTATTAATTTAATTATTTATGTTACAATAAAATCTTTTACTTGTTCT
576 AATAATAAATTTTTTATATTATCAAATTAATTATTTACGTTACAATAAAATCTTTTACTTGTTCT
* * * * * * * *
15533122 TACCTTTTATTATATTTAGAATTATTATAATTTTTTCTTAATATATTATGACACTTCTAATATAT
641 TACCTTTGATTATATTAAGAATCATCATAACTTTTTCTTAATATATTATAACACTTCAAACATAT
* * * **
15533187 TTTACGTAAAATGATGCAAATTTTATGATTATTTTCACATTTTTATGTTAACACTTATTTTTTTA
706 TTTACGCAAAATGATACAAAGTTTATGATTATTTTCACATTTTTACATTAACACTTATTTTTTTA
*
15533252 TTTAGAATTATTTTTTATTTATAATACTAATTTTTTATGTTA
771 TTTAGAATTATTTTTTATTCATAATACTAATTTTTTATGTTA
15533294 ATACTAATTT
Statistics
Matches: 669, Mismatches: 118, Indels: 57
0.79 0.14 0.07
Matches are distributed among these distances:
935 1 0.00
936 133 0.20
937 124 0.19
938 222 0.33
939 112 0.17
940 41 0.06
941 1 0.00
942 34 0.05
943 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (934 bp):
ATATTAATTTTATAACTATTCTCACGTTTTAACATTAACACTCTTTTTTTTTATTTAAAATATTT
TTATTTATAATAATAATTTTTTTATATTATCAACTTAATTATTGACGTTATAATAATATTATTTT
AAGCTTATTATTACTTTCATTACGTCTAGAATTATCATAACTCTTTCTTAAGGTATTACAACACT
TCTAACCATTTTAAGTCAAATAATATCAAATTTATGATTAATCTTACCTTTTACATATAACACTA
TTATTTTTTTGTTTAGAATTATTAGTTATTTATAATAATTATTCTTTTACGTACCAAAAATAATA
TTTACATTACAATAATATTTTTTATACTTGTTTCTACTTTTCATTACGTTAGAATTACCACGACC
TTTATTAAGGTATTACAACACTTCTAATCTAATTTACACCAAATGACACTAATTTTACAACTATT
CTTACACTTTTACGTTATGACAATTCTAACACACTTTATGACAAATGATATCAATTTTACAATTA
TTCTCATATTTTTACATTAACATGTATTTTTTTGGTTCAGAATTTTTTTATTTATAATAATAAAT
TTTTTATATTATCAAATTAATTATTTACGTTACAATAAAATCTTTTACTTGTTCTTACCTTTGAT
TATATTAAGAATCATCATAACTTTTTCTTAATATATTATAACACTTCAAACATATTTTACGCAAA
ATGATACAAAGTTTATGATTATTTTCACATTTTTACATTAACACTTATTTTTTTATTTAGAATTA
TTTTTTATTCATAATACTAATTTTTTATGTTACAAATTTATTATGTTTCAATAATATTTTTTTTT
TACATTTGTTGTTATTTTTCATTATGTTTAAAATTATTATAATTTTTTGTTAAAGTGTAATGATA
CTTTTAACCATTTTACATCAAATA
Found at i:15532707 original size:217 final size:215
Alignment explanation
Indices: 15532047--15532837 Score: 606
Period size: 218 Copynumber: 3.6 Consensus size: 215
15532037 ATGTTAGATT
* * ** * * * *
15532047 ATATCAATTTTACGATTATTCTCATCTTTTTATTTTAATACTTATTTTTTGGTTT-AGATTTTTT
1 ATATCAATTTTATGATTATTCTCACCTTTTTACATTAACACTTATTTTTTTGTTTAAAATTATTT
*
15532111 TTATTTATAATAATAA--TTTTTATATTGTCAAATTAATTATTTACGTTATAATAAAATTTTTTA
66 TTATTTATAATAATAATTTTTTTATATTGTC--ATTAATTA-TTACGTTATAATAATATTTTTTA
* * * * * * * * * *
15532174 TGTTTGTTCTTACCTTTGATTATATTAAGAATCATCATAACTTTTTCTTAAAT-T-TTATAATAT
128 TGCTTGTTATTATCTTTCATTATGTTTAGAATTATCATAATTTTTTCTTAAATGTGTTACAACAT
* * *
15532237 TTC-AAACATATTTTATGCCAAATT
193 TTCTAAAC--ATTTTACGTCAAATA
* * * * *
15532261 ATACCAAGTTTACT-ATTATTTTCACATTTTTACATTAACACTTATTTTTTTGTTTAGAATTATT
1 ATATCAATTTTA-TGATTATTCTCACCTTTTTACATTAACACTTATTTTTTTGTTTAAAATTA-T
* * * * * *
15532325 TATTTATTCATAGTACTAATTTTTTTATGTT-ACA--AATTTATTATGTT-TCAATAATATTTTT
64 T-TTTATTTATAATAATAATTTTTTTATATTGTCATTAA-TTATTACGTTAT-AATAATA--TTT
* * * * * * * *
15532386 TTTTTACATTTGTTGTTATTTTTCATTATGTTTAAAATTATTATAATTTTTTGTTAAA-GTGTAA
124 TTTATGC--TTGTTATTATCTTTCATTATGTTTAGAATTATCATAATTTTTTCTTAAATGTGTTA
* * *
15532450 TGATAC-TTT-TAACCATTTTACATCAAATA
187 -CA-ACATTTCTAAACATTTTACGTCAAATA
* * * * * *
15532479 ATATTAATTTTATGATCATTCTCACCGTTTTACGTTAACTCTTATTTTTTTATTTAAAATTATTT
1 ATATCAATTTTATGATTATTCTCACCTTTTTACATTAACACTTATTTTTTTGTTTAAAATTATTT
* *
15532544 TTATTTGTAATAATAATTTTTTTATATTGTCAGTTTAATTACTTACGTTATAATAATATATTTTA
66 TTATTTATAATAATAATTTTTTTATATTGTCA--TTAATTA-TTACGTTATAATAATATTTTTTA
* *
15532609 TGCTTATTATTATCTTTCA-TACGTTTAGAATTATCATAATTTTTTCTTAAATGTGTTACAACAT
128 TGCTTGTTATTATCTTTCATTATGTTTAGAATTATCATAATTTTTTCTTAAATGTGTTACAACAT
*
15532673 TTCTAATCATTTTACGTCAAATA
193 TTCTAAACATTTTACGTCAAATA
* * * *
15532696 ATATCAATTTTATGATTAATCTTACCTTTTATATATTAACACTTATTTTTTTTTTGTTTAGAATT
1 ATATCAATTTTATGATTATTCTCACCTTTT-TACATTAACACTTA---TTTTTTTGTTTAAAATT
* * * * * * ** * *
15532761 ATTAGTTATTTCTAATAATTATTCTTTTAT-GTGCCAAAAATAATATTTATGTTACAATAATATT
62 ATT-TTTATTTATAATAATAATTTTTTTATATTGTCATTAAT--TA-TTACGTTATAATAATATT
15532825 TTTTATGCTTGTT
123 TTTTATGCTTGTT
15532838 TCTACTTTTT
Statistics
Matches: 445, Mismatches: 97, Indels: 63
0.74 0.16 0.10
Matches are distributed among these distances:
213 1 0.00
214 58 0.13
215 8 0.02
216 66 0.15
217 80 0.18
218 111 0.25
219 21 0.05
220 10 0.02
221 67 0.15
222 23 0.05
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (215 bp):
ATATCAATTTTATGATTATTCTCACCTTTTTACATTAACACTTATTTTTTTGTTTAAAATTATTT
TTATTTATAATAATAATTTTTTTATATTGTCATTAATTATTACGTTATAATAATATTTTTTATGC
TTGTTATTATCTTTCATTATGTTTAGAATTATCATAATTTTTTCTTAAATGTGTTACAACATTTC
TAAACATTTTACGTCAAATA
Found at i:15532829 original size:20 final size:20
Alignment explanation
Indices: 15532774--15532831 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
15532764 AGTTATTTCT
*
15532774 AATAATTATTCTTTTATGTGCC
1 AATAA-TATT-TTTTATGTGAC
* * * *
15532796 AAAAATAATATTTATGTTAC
1 AATAATATTTTTTATGTGAC
15532816 AATAATATTTTTTATG
1 AATAATATTTTTTATG
15532832 CTTGTTTCTA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 21 0.75
21 3 0.11
22 4 0.14
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (20 bp):
AATAATATTTTTTATGTGAC
Found at i:15533248 original size:19 final size:19
Alignment explanation
Indices: 15533226--15533304 Score: 74
Period size: 19 Copynumber: 4.2 Consensus size: 19
15533216 TATTTTCACA
* *
15533226 TTTTTATGTTAACACTTATT
1 TTTTTATGTTAATAC-TAAT
*
15533246 TTTTTAT-TTAGA-A-TTAT
1 TTTTTATGTTA-ATACTAAT
*
15533263 TTTTTATTTATAATACTAAT
1 TTTTTATGT-TAATACTAAT
15533283 TTTTTATGTTAATACTAAT
1 TTTTTATGTTAATACTAAT
15533302 TTT
1 TTT
15533305 ATGATTATTC
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
17 9 0.18
18 2 0.04
19 20 0.40
20 19 0.38
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTTATGTTAATACTAAT
Found at i:15537860 original size:21 final size:24
Alignment explanation
Indices: 15537801--15537867 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 24
15537791 TCATGTATTA
*
15537801 AAAAATGTATATGAAATGAGT-A-AA
1 AAAAAT-TATATGAAAT-AGTCATAT
15537825 AAAAATTATATGAAATA-TCATAT
1 AAAAATTATATGAAATAGTCATAT
15537848 AAAAA-TA-ATGAAATAGTCAT
1 AAAAATTATATGAAATAGTCAT
15537868 CAACCTCTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
21 9 0.23
22 8 0.21
23 16 0.41
24 6 0.15
ACGTcount: A:0.58, C:0.03, G:0.10, T:0.28
Consensus pattern (24 bp):
AAAAATTATATGAAATAGTCATAT
Found at i:15537867 original size:22 final size:23
Alignment explanation
Indices: 15537825--15537867 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
15537815 AATGAGTAAA
15537825 AAAAATTATATGAAATATCATAT
1 AAAAATTATATGAAATATCATAT
15537848 AAAAA-TA-ATGAAATAGTCAT
1 AAAAATTATATGAAATA-TCAT
15537868 CAACCTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (23 bp):
AAAAATTATATGAAATATCATAT
Found at i:15538063 original size:96 final size:90
Alignment explanation
Indices: 15537902--15538089 Score: 268
Period size: 96 Copynumber: 2.0 Consensus size: 90
15537892 AAATACATTG
* * *
15537902 AATTATATCTCTATGTGGGTCACAGACAAAAAAAAAAGGGAGGTATTTATTTATATTATTATAAT
1 AATTATATCTCTATGTGAGTCACAGACAAAAAAAAAAGGAAGGTATGTATTTATATTATTATAAT
*
15537967 TTTTACATTTTTTTGAATTTTTAATTA
66 TTTTACA--TTTTTAAATTTTTAATTA
*
15537994 AATTATATCTCTATGTGAGTCACAGACAAAATAACAAAAATTGAAGGTATGTATTTATATTATTA
1 AATTATATCTCTATGTGAGTCACAGAC-AAA-AA-AAAAA-GGAAGGTATGTATTTATATTATTA
*
15538059 TAATTTTTGCATTTTTAAATTTTTAATTA
62 TAATTTTTACATTTTTAAATTTTTAATTA
15538088 AA
1 AA
15538090 ATTAAATTCA
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
92 26 0.30
93 3 0.03
94 21 0.24
95 5 0.06
96 31 0.36
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.44
Consensus pattern (90 bp):
AATTATATCTCTATGTGAGTCACAGACAAAAAAAAAAGGAAGGTATGTATTTATATTATTATAAT
TTTTACATTTTTAAATTTTTAATTA
Found at i:15541465 original size:37 final size:37
Alignment explanation
Indices: 15541415--15541487 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
15541405 GTCTTGGCAA
* *
15541415 TTATGTGTGGATTATAGACAGTTAAACAAACTCACAC
1 TTATGAGTGGATTACAGACAGTTAAACAAACTCACAC
15541452 TTATGAGTGGATTACAGACAGTTAAACAAACTCACA
1 TTATGAGTGGATTACAGACAGTTAAACAAACTCACA
15541488 TTTAAGGACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (37 bp):
TTATGAGTGGATTACAGACAGTTAAACAAACTCACAC
Found at i:15546265 original size:243 final size:239
Alignment explanation
Indices: 15545837--15546319 Score: 706
Period size: 243 Copynumber: 2.0 Consensus size: 239
15545827 CAAAATATTT
* * *
15545837 CTACTCTTTATCAAAGGTGTTTAGTAGCGTAAGCACCAATTTTGATTGAAAAAATGAATGTTGTG
1 CTACTCTTTATCAAAGGTGTTCAGTAGCGTAAACACCAATTTTGATTCAAAAAATGAATGTTGTG
15545902 TCAAAATAAATTTGAATCAATTTTCAATTTCATTAAGTCTGTTCAAATACCTTAATTAGGTTTAA
66 TCAAAATAAATTTGAATCAATTTTCAATTTCATTAAGTCTGTTCAAATACCTTAATTAGGTTTAA
* * * *
15545967 TGAATTATTTTTGTATTGGGTCATTTAAATTTTATTGAACTTTTAAATTTTTATTTATTTTCATT
131 TAAATTATTTTTGCATTGGGTCATTTAAATTTTATTAAACTTTTAAATCTTTATTTATTTT-ATT
*
15546032 -TTCATT-TTCATTTATTATTATTAT-TATGTTTTCCTTTTTTCTTTTTTC
195 ATT-ATTATT-A-TTATTATTATT-TCT-T-TTTTCCTTTTTTCTTGTTTC
* * *
15546080 CTACTCTTTATCAAAGGTGTTCAGTAGTGTAAACACCAATTTTGTTTCAAAAATTGAATGTTGTG
1 CTACTCTTTATCAAAGGTGTTCAGTAGCGTAAACACCAATTTTGATTCAAAAAATGAATGTTGTG
* * * * *
15546145 TCAAAA-AAGTTTTAATCAATTTTCAATTTCATTCAAGTTTGTTCAAATATCTTAATTGGGTTT-
66 TCAAAATAAATTTGAATCAATTTTCAATTTCATT-AAGTCTGTTCAAATACCTTAATTAGGTTTA
15546208 ATCAAATTATTTTTGCATTGGGTCATTTAAATTTTATTAAACTTTTAAATCTTTATTTATTTTAT
130 AT-AAATTATTTTTGCATTGGGTCATTTAAATTTTATTAAACTTTTAAATCTTTATTTATTTTAT
15546273 TATTATTATTATTATTATTATTTCTTTTTTCCTTTTTTCTTGTTTC
194 TATTATTATTATTATTATTATTTCTTTTTTCCTTTTTTCTTGTTTC
15546319 C
1 C
15546320 CCTTTTTTTT
Statistics
Matches: 219, Mismatches: 16, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
239 20 0.09
240 2 0.01
241 12 0.05
242 34 0.16
243 151 0.69
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.51
Consensus pattern (239 bp):
CTACTCTTTATCAAAGGTGTTCAGTAGCGTAAACACCAATTTTGATTCAAAAAATGAATGTTGTG
TCAAAATAAATTTGAATCAATTTTCAATTTCATTAAGTCTGTTCAAATACCTTAATTAGGTTTAA
TAAATTATTTTTGCATTGGGTCATTTAAATTTTATTAAACTTTTAAATCTTTATTTATTTTATTA
TTATTATTATTATTATTATTTCTTTTTTCCTTTTTTCTTGTTTC
Found at i:15546277 original size:3 final size:3
Alignment explanation
Indices: 15546264--15546294 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
15546254 AAATCTTTAT
15546264 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15546295 TCTTTTTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:15547096 original size:19 final size:18
Alignment explanation
Indices: 15547074--15547109 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
15547064 TATTCTAATA
*
15547074 TATTATTTTTTGCTTTTTT
1 TATTATTATTTG-TTTTTT
15547093 TATTATTATTTGTTTTT
1 TATTATTATTTGTTTTT
15547110 ATTTTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.78
Consensus pattern (18 bp):
TATTATTATTTGTTTTTT
Found at i:15551225 original size:17 final size:17
Alignment explanation
Indices: 15551205--15551260 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
15551195 AGTTTACAAG
15551205 CTTTTCATTTTTAGTAA
1 CTTTTCATTTTTAGTAA
15551222 C-TTTC-TATTTTAGGTAA
1 CTTTTCAT-TTTTA-GTAA
15551239 -TTTTCTATTTTTAGTAA
1 CTTTTC-ATTTTTAGTAA
*
15551256 GTTTT
1 CTTTT
15551261 AGGATTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
15 1 0.03
16 9 0.27
17 13 0.39
18 9 0.27
19 1 0.03
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.61
Consensus pattern (17 bp):
CTTTTCATTTTTAGTAA
Found at i:15551232 original size:16 final size:17
Alignment explanation
Indices: 15551207--15551255 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
15551197 TTTACAAGCT
15551207 TTTC-ATTTTTAGTAAC
1 TTTCTATTTTTAGTAAC
*
15551223 TTTCTA-TTTTAGGTAAT
1 TTTCTATTTTTA-GTAAC
15551240 TTTCTATTTTTAGTAA
1 TTTCTATTTTTAGTAA
15551256 GTTTTAGGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 9 0.31
17 15 0.52
18 5 0.17
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.59
Consensus pattern (17 bp):
TTTCTATTTTTAGTAAC
Found at i:15586899 original size:25 final size:24
Alignment explanation
Indices: 15586871--15586928 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
15586861 TATTTTTATC
* *
15586871 TTTAAATTTTTATATT-ATATATATT
1 TTTAAATTTGTAT-TTAATAAATA-T
*
15586896 TTTATATTTGTATTTAATAAATAT
1 TTTAAATTTGTATTTAATAAATAT
15586920 TTTAAATTT
1 TTTAAATTT
15586929 ATCTTCATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTAAATTTGTATTTAATAAATAT
Found at i:15587025 original size:16 final size:15
Alignment explanation
Indices: 15587004--15587062 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 15
15586994 AAAATAAAAA
15587004 AATATTTTATTATTTT
1 AATATTTT-TTATTTT
15587020 AATATTTTTTATTTT
1 AATATTTTTTATTTT
*
15587035 --TATTTTGTATATTT
1 AATATTTTTTAT-TTT
15587049 AACTAATTTTTTAT
1 AA-T-ATTTTTTAT
15587063 AATATATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
13 9 0.25
14 3 0.08
15 7 0.19
16 8 0.22
17 1 0.03
18 8 0.22
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (15 bp):
AATATTTTTTATTTT
Found at i:15587959 original size:36 final size:38
Alignment explanation
Indices: 15587876--15587955 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
15587866 AAAGAATAGG
*
15587876 TTAACATGTAGAAATTAAAAACGTATATATAATTTTAT
1 TTAACATGTAGAAATTAAAAAAGTATATATAATTTTAT
15587914 TTAACATGTAGAAATTAAAAAAGTATATATAATTTTAT
1 TTAACATGTAGAAATTAAAAAAGTATATATAATTTTAT
15587952 TTAA
1 TTAA
15587956 TGTATTAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (38 bp):
TTAACATGTAGAAATTAAAAAAGTATATATAATTTTAT
Found at i:15589360 original size:16 final size:17
Alignment explanation
Indices: 15589327--15589359 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15589317 TGTTAACACT
15589327 TATTTTTTGATTTAAAA
1 TATTTTTTGATTTAAAA
*
15589344 TATTTTTTTATTTAAA
1 TATTTTTTGATTTAAA
15589360 TTAATAATTT
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:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTTTTTGATTTAAAA
Found at i:15589782 original size:19 final size:20
Alignment explanation
Indices: 15589760--15589800 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
15589750 AAATTAACTC
* *
15589760 TTATTTTTAA-AATTATTTT
1 TTATTTGTAACAATAATTTT
15589779 TTATTTGTAACAATAATTTT
1 TTATTTGTAACAATAATTTT
15589799 TT
1 TT
15589801 TACATTGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTATTTGTAACAATAATTTT
Found at i:15590677 original size:213 final size:215
Alignment explanation
Indices: 15590191--15590796 Score: 562
Period size: 214 Copynumber: 2.8 Consensus size: 215
15590181 TCTAATATAC
* * * ** * * * * *
15590191 TTTATATCAAATGATTTTAATTTTACAATTATTCTTACATTTTTACATTAACA-TATATTTTTTT
1 TTTACATCAAATGATATCAATTTTATGATTATTCTCACGTTATTATATTAACACT-TATTTTTTA
* *
15590255 GTTTAGAATTATTTTTTATTTATAATAATAATTTTTATGT-TA-TC-AACTTAATTATTTACGTT
65 GTTTA-AATTATTTTTTATTTATAATAATAA-TTTT-TGTACATTCTAAC-TAATTATTTATGTT
* * * * * * * * * *
15590317 ACAATAA-AA-TCTTTTACACTTATTCTTATCTTTCAATA--TATTAGAATTATCACAA-TTTTT
126 GCAATAATAACT-TTTTATAATTGTTATTACCTTTCATTACGT-TTAAAATTATTATAATTTTTT
* **
15590377 T-TAAGGTAT-TACT-ATACTTCTAATATAT
189 TCTAA-G-ATCTAATGATACTT-TAA-CCAT
* * *
15590405 TTTACGTCAAATGATATCAATTTTATGATTATTCTCACTTTATTATATTAACACTTATTTTTTGG
1 TTTACATCAAATGATATCAATTTTATGATTATTCTCACGTTATTATATTAACACTTATTTTTTAG
* * *
15590470 TTTAGAATTATTTTTTATTTATAATACTAATTTTTTTACA-T-TAAC-AATT-TATTATGTTTCA
66 TTTA-AATTATTTTTTATTTATAATAATAATTTTTGTACATTCTAACTAATTAT-TTATGTTGCA
* * * * *
15590531 ATAATATCTTTTTATATTTGTTGTTACTTTTTATTACGTTTAAAATTATTATAATTTTTTTCTAA
129 ATAATAACTTTTTATAATTGTTATTACCTTTCATTACGTTTAAAATTATTATAATTTTTTTCTAA
15590596 GATCTAATGATACTTTAACCAT
194 GATCTAATGATACTTTAACCAT
* * * *
15590618 TTTACATTAAATGATATCAATTTTATGATTATTTTCACCGTT-TTATGTTAACTCTTATTTTTTA
1 TTTACATCAAATGATATCAATTTTATGATTATTCTCA-CGTTATTATATTAACACTTATTTTTTA
* * *
15590682 TTTTAAATTATTTTTTATTTGTAATAATAATTTTTGTATATTGCTAACTTAATTATTTATGTTGC
65 GTTTAAATTATTTTTTATTTATAATAATAATTTTTGTACATT-CTAAC-TAATTATTTATGTTGC
15590747 AATAATAACTTTTTATAATTGTTATTACCTTTCATTACGTTTAAAATTAT
128 AATAATAACTTTTTATAATTGTTATTACCTTTCATTACGTTTAAAATTAT
15590797 CAAAACTTTT
Statistics
Matches: 324, Mismatches: 49, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
210 1 0.00
211 16 0.05
212 53 0.16
213 84 0.26
214 98 0.30
215 14 0.04
217 57 0.18
218 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (215 bp):
TTTACATCAAATGATATCAATTTTATGATTATTCTCACGTTATTATATTAACACTTATTTTTTAG
TTTAAATTATTTTTTATTTATAATAATAATTTTTGTACATTCTAACTAATTATTTATGTTGCAAT
AATAACTTTTTATAATTGTTATTACCTTTCATTACGTTTAAAATTATTATAATTTTTTTCTAAGA
TCTAATGATACTTTAACCAT
Found at i:15591090 original size:17 final size:16
Alignment explanation
Indices: 15591056--15591102 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
15591046 AGAAGTCGAT
15591056 AAAGAAACAAAACA-TA
1 AAAGAAACAAAA-AGTA
15591072 AAAGAAACAAAAAGTTA
1 AAAGAAACAAAAAG-TA
* *
15591089 AAGGAAAAAAAAAG
1 AAAGAAACAAAAAG
15591103 AAGTCATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 1 0.04
16 12 0.44
17 14 0.52
ACGTcount: A:0.74, C:0.06, G:0.13, T:0.06
Consensus pattern (16 bp):
AAAGAAACAAAAAGTA
Found at i:15591091 original size:16 final size:16
Alignment explanation
Indices: 15591055--15591102 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
15591045 TAGAAGTCGA
15591055 TAAAGAAACAAAACA-T
1 TAAAGAAACAAAA-AGT
*
15591071 AAAAGAAACAAAAAGT
1 TAAAGAAACAAAAAGT
*
15591087 TAAAGGAAAAAAAAAG
1 TAAA-GAAACAAAAAG
15591103 AAGTCATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 1 0.04
16 16 0.59
17 10 0.37
ACGTcount: A:0.73, C:0.06, G:0.12, T:0.08
Consensus pattern (16 bp):
TAAAGAAACAAAAAGT
Found at i:15592464 original size:18 final size:17
Alignment explanation
Indices: 15592413--15592464 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
15592403 TTTTTAGAAT
15592413 TTTTATAAAATTTTCTATA
1 TTTT-TAAAATTTT-TATA
* *
15592432 TTTTTAATAACTTTTATG
1 TTTTTAA-AATTTTTATA
15592450 TTTTTAGAAATTTTT
1 TTTTTA-AAATTTTT
15592465 TACATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTTTAAAATTTTTATA
Found at i:15601328 original size:2 final size:2
Alignment explanation
Indices: 15601321--15601363 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
15601311 CAAAATTGCT
15601321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15601363 T
1 T
15601364 CCTATTTGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15602760 original size:25 final size:25
Alignment explanation
Indices: 15602732--15602779 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15602722 TTCTTGTAAT
15602732 TTTCATAAAGTAAATAATATTCGAA
1 TTTCATAAAGTAAATAATATTCGAA
* * *
15602757 TTTCGTGATGTAAATAATATTCG
1 TTTCATAAAGTAAATAATATTCG
15602780 TAATCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (25 bp):
TTTCATAAAGTAAATAATATTCGAA
Found at i:15603034 original size:19 final size:19
Alignment explanation
Indices: 15602982--15603028 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
15602972 TTTATTTTAC
15602982 AAAATAAAAGTATATTTTT
1 AAAATAAAAGTATATTTTT
15603001 AAAATAAAAGTATATTTTT
1 AAAATAAAAGTATATTTTT
15603020 AAAATAAAA
1 AAAATAAAA
15603029 AAATATATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
AAAATAAAAGTATATTTTT
Found at i:15605892 original size:11 final size:11
Alignment explanation
Indices: 15605867--15605902 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
15605857 GATTAAAATA
*
15605867 AAATTAAGAATT
1 AAATTAAG-AGT
15605879 AAATTAAGAGT
1 AAATTAAGAGT
15605890 AAATTAAGAGT
1 AAATTAAGAGT
15605901 AA
1 AA
15605903 TTTATGCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (11 bp):
AAATTAAGAGT
Found at i:15609239 original size:28 final size:28
Alignment explanation
Indices: 15609205--15609265 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
15609195 CTAAATTAAA
*
15609205 ATAAAATAGTTAATATAATATTTAAATT
1 ATAAAATAGTTAATATAATACTTAAATT
* ** *
15609233 TTAAAATTTTTAATATGATACTTAAATT
1 ATAAAATAGTTAATATAATACTTAAATT
15609261 ATAAA
1 ATAAA
15609266 TTATTTATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (28 bp):
ATAAAATAGTTAATATAATACTTAAATT
Found at i:15609272 original size:28 final size:28
Alignment explanation
Indices: 15609205--15609272 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
15609195 CTAAATTAAA
* * *
15609205 ATAAAATAGTTAATATAATATTTAAATT
1 ATAAATTATTTAATATAATACTTAAATT
* *
15609233 TTAAAATT-TTTAATATGATACTTAAATT
1 AT-AAATTATTTAATATAATACTTAAATT
15609261 ATAAATTATTTA
1 ATAAATTATTTA
15609273 TTTATCACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
27 5 0.16
28 23 0.72
29 4 0.12
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (28 bp):
ATAAATTATTTAATATAATACTTAAATT
Found at i:15610728 original size:82 final size:84
Alignment explanation
Indices: 15610572--15610738 Score: 189
Period size: 82 Copynumber: 2.0 Consensus size: 84
15610562 AATCAGACTC
* ** *
15610572 AAGGAAAAGAAGAGAAAAAAAATAAAGCAAAGAAAAAAGTAACCTTGTCAAACTGTTACATTATT
1 AAGGAAAAGAAGAGAAAAAAAATAAACCAAAGAAAAAAGTAACCTTGTCAAACCATTACATCATT
*
15610637 CATAGTTCAT-GGAACAAAA
66 CATACTTCATAGGAA-AAAA
* * * * *
15610656 AAGGAAAAGAAGATG-AAACAAA-AAACCAATGAAAAAAGTAATC-TGTCAAACCATTATATCCT
1 AAGGAAAAGAAGA-GAAAAAAAATAAACCAAAGAAAAAAGTAACCTTGTCAAACCATTACATCAT
*
15610718 TCCTACTTCATAGGAAAAAA
65 TCATACTTCATAGGAAAAAA
15610738 A
1 A
15610739 TTGTTGCTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
82 28 0.40
83 22 0.31
84 19 0.27
85 1 0.01
ACGTcount: A:0.54, C:0.13, G:0.14, T:0.19
Consensus pattern (84 bp):
AAGGAAAAGAAGAGAAAAAAAATAAACCAAAGAAAAAAGTAACCTTGTCAAACCATTACATCATT
CATACTTCATAGGAAAAAA
Found at i:15623168 original size:63 final size:62
Alignment explanation
Indices: 15623092--15623546 Score: 280
Period size: 63 Copynumber: 7.3 Consensus size: 62
15623082 ATTTGTCTTT
* * * *
15623092 ACAAACACCTTAATTGATCAATTTTTAAAATTATATTTTAGATCAATTAAGGTGTTTGTGTAC
1 ACAAATACCTTAATTGATCAA-TTATAAAATTATAATTTAGATCAATTAAGGTGTTTCTGTAC
* * * * *
15623155 ATAAATGCTTTAATTGATCCTAA--ATATAATTTTAATTTAGATCAATTAAGGTGTTTCTAG-AC
1 ACAAATACCTTAATTGAT-C-AATTATAAAATTATAATTTAGATCAATTAAGGTGTTTCT-GTAC
* * * * * * * * * * *
15623217 ATC-AATGCCTTAATTGATTAGTTTTATAATTTAAAAGTTA-CTCAATTAGGGCGTTTATGTAC
1 A-CAAATACCTTAATTGATCAATTATA-AAATTATAATTTAGATCAATTAAGGTGTTTCTGTAC
* * * * * * *
15623279 AAAAATACCTTAATTAATCTAAATTA-AAAATTATATTTTAAATCAATTAAGGCGTTTCTATGC
1 ACAAATACCTTAATTGATC--AATTATAAAATTATAATTTAGATCAATTAAGGTGTTTCTGTAC
* * * * * * * * * *
15623342 ACAAACACTTTAATTTATCAATTATATAATT-TAATTGATTATCAATTAA-ATTTTTTTATAC
1 ACAAATACCTTAATTGATCAATTATAAAATTATAATTTA-GATCAATTAAGGTGTTTCTGTAC
* * * ** *
15623403 ATAAATACCTTAATTGATCAATTATATAATTTTTAAAATA-AGTCAATTAAGGCGTTTCTGTAC
1 ACAAATACCTTAATTGATCAATTATA-AAATTATAATTTAGA-TCAATTAAGGTGTTTCTGTAC
** * * ** * *
15623466 ACAAACGCTTTAATTGATCAATTATATAAATTTTAAAATAGATAAATTAAGGTGTTTATGTAC
1 ACAAATACCTTAATTGATCAATTATA-AAATTATAATTTAGATCAATTAAGGTGTTTCTGTAC
15623529 ACAAATACCTTAATTGAT
1 ACAAATACCTTAATTGAT
15623547 TAGTTTTATA
Statistics
Matches: 297, Mismatches: 76, Indels: 38
0.72 0.18 0.09
Matches are distributed among these distances:
60 1 0.00
61 41 0.14
62 113 0.38
63 135 0.45
64 5 0.02
65 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (62 bp):
ACAAATACCTTAATTGATCAATTATAAAATTATAATTTAGATCAATTAAGGTGTTTCTGTAC
Found at i:15623245 original size:62 final size:62
Alignment explanation
Indices: 15623099--15623599 Score: 257
Period size: 63 Copynumber: 8.0 Consensus size: 62
15623089 TTTACAAACA
* * * * *
15623099 CCTTAATTGATCAATTTTTAAAATTATATTTTAGATCAATTAAGGTGTTTGTGTACATAAATG
1 CCTTAATTGATCTA-TTTTATAATTTTAATTTAGATCAATTAAGGTGTTTCTGTACATAAATG
* ** *
15623162 CTTTAATTGATCCTA-AATATAATTTTAATTTAGATCAATTAAGGTGTTTCTAG-ACATCAATG
1 CCTTAATTGAT-CTATTTTATAATTTTAATTTAGATCAATTAAGGTGTTTCT-GTACATAAATG
* * * * * * * *
15623224 CCTTAATTGAT-TAGTTTTATAATTTAAAAGTTA-CTCAATTAGGGCGTTTATGTACAAAAATA
1 CCTTAATTGATCTA-TTTTATAATTT-TAATTTAGATCAATTAAGGTGTTTCTGTACATAAATG
* * * * * * * * * * * **
15623286 CCTTAATTAATCTAAATTAAAAATTATATTTTAAATCAATTAAGGCGTTTCTATGCACAAACA
1 CCTTAATTGATCT-ATTTTATAATTTTAATTTAGATCAATTAAGGTGTTTCTGTACATAAATG
* * * * * * * * * * *
15623349 CTTTAATTTATCAATTATATAA-TTTAATTGATTATCAATTAA-ATTTTTTTATACATAAATA
1 CCTTAATTGATCTATTTTATAATTTTAATTTA-GATCAATTAAGGTGTTTCTGTACATAAATG
* * ** * * *
15623410 CCTTAATTGATCAATTATATAATTTTTAAAATA-AGTCAATTAAGGCGTTTCTGTACACAAACG
1 CCTTAATTGATCTATTTTATAA-TTTTAATTTAGA-TCAATTAAGGTGTTTCTGTACATAAATG
* * * ** * * * *
15623473 CTTTAATTGATCAATTATATAAATTTTAAAATAGATAAATTAAGGTGTTTATGTACACAAATA
1 CCTTAATTGATCTATTTTAT-AATTTTAATTTAGATCAATTAAGGTGTTTCTGTACATAAATG
* * * * *
15623536 CCTTAATTGAT-TAGTTTTATAA-TTTAATTGATG-TACAATTAAGGCGTTTGTGTATAGAAATG
1 CCTTAATTGATCTA-TTTTATAATTTTAATTTA-GAT-CAATTAAGGTGTTTCTGTACATAAATG
15623598 CC
1 CC
15623600 ACAAATGTCT
Statistics
Matches: 334, Mismatches: 85, Indels: 39
0.73 0.19 0.09
Matches are distributed among these distances:
60 2 0.01
61 47 0.14
62 139 0.42
63 140 0.42
64 6 0.02
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (62 bp):
CCTTAATTGATCTATTTTATAATTTTAATTTAGATCAATTAAGGTGTTTCTGTACATAAATG
Found at i:15623388 original size:187 final size:186
Alignment explanation
Indices: 15623118--15623466 Score: 400
Period size: 187 Copynumber: 1.9 Consensus size: 186
15623108 ATCAATTTTT
* * * * * **
15623118 AAAATTATATTTTAGATCAATTAAGGTGTTTGTGTACATAAATGCTTTAATTGATCCTAAATATA
1 AAAATTATATTTTAAATCAATTAAGGCGTTTCTATACACAAACACTTTAATTGATCCTAAATATA
* * * * * * *
15623183 ATTTTAATTTAGATCAATTAAGGTGTTTCTAGACATCAATGCCTTAATTGATTAGTTTTATAA-T
66 ATTTTAATTGAGATCAATTAA-ATGTTTCTAGACATAAATACCTTAATTGATCAATTATATAATT
* *
15623247 TTAAAAGTTACTCAATTAGGGCGTTTATGTACAAAAATACCTTAATTAATCTAAATTA
130 TTAAAA-TAACTCAATTAAGGCGTTTATGTACAAAAATACCTTAATTAATCTAAATTA
* *
15623305 AAAATTATATTTTAAATCAATTAAGGCGTTTCTATGCACAAACACTTTAATTTAT-C-AATTATA
1 AAAATTATATTTTAAATCAATTAAGGCGTTTCTATACACAAACACTTTAATTGATCCTAA--ATA
* * * *
15623368 TAA-TTTAATTGATTATCAATTAAATTTTTTTATACATAAATACCTTAATTGATCAATTATATAA
64 TAATTTTAATTGA-GATCAATTAAATGTTTCTAGACATAAATACCTTAATTGATCAATTATATAA
* *
15623432 TTTTTAAAATAAGTCAATTAAGGCGTTTCTGTACA
128 -TTTTAAAATAACTCAATTAAGGCGTTTATGTACA
15623467 CAAACGCTTT
Statistics
Matches: 133, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
185 2 0.02
186 41 0.31
187 83 0.62
188 7 0.05
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (186 bp):
AAAATTATATTTTAAATCAATTAAGGCGTTTCTATACACAAACACTTTAATTGATCCTAAATATA
ATTTTAATTGAGATCAATTAAATGTTTCTAGACATAAATACCTTAATTGATCAATTATATAATTT
TAAAATAACTCAATTAAGGCGTTTATGTACAAAAATACCTTAATTAATCTAAATTA
Found at i:15623524 original size:124 final size:124
Alignment explanation
Indices: 15623321--15623560 Score: 290
Period size: 124 Copynumber: 1.9 Consensus size: 124
15623311 ATATTTTAAA
* * *
15623321 TCAATTAAGGCGTTTCTATGCACAAACACTTTAATTTATCAATTATATAATTTAATTGATTATCA
1 TCAATTAAGGCGTTTCTATACACAAACACTTTAATTGATCAATTATATAATTTAATAGATTA-CA
** * *
15623386 ATTAAATTTTTTTA-TACATAAATACCTTAATTGATCAATTATATAATTTTTAAAATAAG
65 ATTAAAGGTGTTTAGTACACAAATACCTTAATTGATCAATTATATAATTTTTAAAATAAG
* *
15623445 TCAATTAAGGCGTTTCTGTACACAAACGCTTTAATTGATCAATTATATAAATTTTAAAATAGA-T
1 TCAATTAAGGCGTTTCTATACACAAACACTTTAATTGATCAATTATAT-AA-TTT--AATAGATT
* * *
15623509 A-AATT-AAGGTGTTTATGTACACAAATACCTTAATTGATTAGTTTTATAATTT
62 ACAATTAAAGGTGTTTA-GTACACAAATACCTTAATTGATCAATTATATAATTT
15623561 AATTGATGTA
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
124 51 0.52
125 6 0.06
126 34 0.35
127 2 0.02
128 5 0.05
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.42
Consensus pattern (124 bp):
TCAATTAAGGCGTTTCTATACACAAACACTTTAATTGATCAATTATATAATTTAATAGATTACAA
TTAAAGGTGTTTAGTACACAAATACCTTAATTGATCAATTATATAATTTTTAAAATAAG
Found at i:15623557 original size:63 final size:63
Alignment explanation
Indices: 15623400--15623682 Score: 207
Period size: 63 Copynumber: 4.4 Consensus size: 63
15623390 AATTTTTTTA
* * * *
15623400 TACATAAATACCTTAATTGATCAATTATATAATTTTTAAAATAAGTCAATTAAGGCGTTTCTG
1 TACACAAATACCTTAATTGATCAATTATATAAATTTTAAAATAAGTAAATTAAGGCGTTTATG
** * *
15623463 TACACAAACGCTTTAATTGATCAATTATATAAATTTTAAAAT-AGATAAATTAAGGTGTTTATG
1 TACACAAATACCTTAATTGATCAATTATATAAATTTTAAAATAAG-TAAATTAAGGCGTTTATG
* * * * *
15623526 TACACAAATACCTTAATTGATTAGTTTTAT-AA-TTT-AATTGATGTACAATTAAGGCGTTTGTG
1 TACACAAATACCTTAATTGATCAATTATATAAATTTTAAAAT-AAGTA-AATTAAGGCG--T-T-
15623588 TATAG
60 TAT-G
* ** * * *
15623593 AAATGCCACAAATGTCTTAATTGATCAATTATATCATTTTTAAAAT-AGATCAATTAAGGCGTTT
1 ---T-ACACAAATACCTTAATTGATCAATTATATAAATTTTAAAATAAG-TAAATTAAGGCGTTT
15623657 ATG
61 ATG
* * **
15623660 TAGAAAAACGCCTTAATTGATCA
1 TACACAAATACCTTAATTGATCA
15623683 TTTTTCTAAA
Statistics
Matches: 171, Mismatches: 32, Indels: 34
0.72 0.14 0.14
Matches are distributed among these distances:
60 3 0.02
61 5 0.03
62 14 0.08
63 93 0.54
64 2 0.01
65 1 0.01
66 3 0.02
67 2 0.01
68 3 0.02
69 1 0.01
70 2 0.01
71 23 0.13
72 12 0.07
73 4 0.02
74 3 0.02
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (63 bp):
TACACAAATACCTTAATTGATCAATTATATAAATTTTAAAATAAGTAAATTAAGGCGTTTATG
Found at i:15629965 original size:16 final size:16
Alignment explanation
Indices: 15629941--15629978 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
15629931 CATTCAAAGA
15629941 ATATATATGTATATAT
1 ATATATATGTATATAT
* *
15629957 ATATTTATGTATGTAT
1 ATATATATGTATATAT
15629973 ATATAT
1 ATATAT
15629979 TTGACTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (16 bp):
ATATATATGTATATAT
Found at i:15635076 original size:74 final size:72
Alignment explanation
Indices: 15634895--15635080 Score: 183
Period size: 74 Copynumber: 2.5 Consensus size: 72
15634885 AAAATCGATA
* * * *
15634895 ATATTTTTAAGATAGAAAAAACAATTTTTGTTGAAAATATGAAAAAAATTTTTTCTAAAATTCAA
1 ATATTTCTAAGATA-AAAAAACAATTTTTGTTGAAAAAAAGAAAAAAATATTTTCTAAAATTCAA
** **
15634960 CAAGGATT
65 CAAAAACG
* * * * ** *
15634968 ATGTTTCTAAAATAAAAAATGCAGTCATTGTTGAAAAAAAGAAAAAAAATATTTTCTAGAATTCA
1 ATATTTCTAAGATAAAAAA-ACAATTTTTGTTGAAAAAAAG-AAAAAAATATTTTCTAAAATTCA
15635033 ACAAAAACG
64 ACAAAAACG
* *
15635042 ATATTTCTAAGATAAAAAACATAATTTTTATTGAAAAAA
1 ATATTTCTAAGATAAAAAA-ACAATTTTTGTTGAAAAAA
15635081 TGACTTTTTA
Statistics
Matches: 87, Mismatches: 24, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
72 5 0.06
73 26 0.30
74 56 0.64
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (72 bp):
ATATTTCTAAGATAAAAAAACAATTTTTGTTGAAAAAAAGAAAAAAATATTTTCTAAAATTCAAC
AAAAACG
Found at i:15635169 original size:112 final size:114
Alignment explanation
Indices: 15635045--15635286 Score: 271
Period size: 112 Copynumber: 2.1 Consensus size: 114
15635035 AAAAACGATA
* * * * * **
15635045 TTTCTAAGATAAAAAACATAATTTTTATTG-AAAAAATGACT-TTTTAAAAATAAAAATATAATT
1 TTTCTAAAATAAAAAACACAATATTTATTGAAAAAAATGA-TATTTT-AAAATAAAAACACAAGC
*
15635108 TTTGTTAAAAATAT-AAAAAA-ATA-TTTCTTAG-ATTTCAATAAAGATAGTG
64 TTTGTTAAAAATATGAAAAAAGATACTTT-TTAGAATTT-AATAAAAATAGTG
* ** * *
15635157 TTTTTAAAATAAAAAATGCAGTATTTATTGAAAAAAATGATATTTTAAAATAAAAACGCAAGCTT
1 TTTCTAAAATAAAAAACACAATATTTATTGAAAAAAATGATATTTTAAAATAAAAACACAAGCTT
*
15635222 TGTTGAAAATATGAAAAAAGTATACTTTTTAGAATTTAATAAAAATAGTG
66 TGTTAAAAATATGAAAAAAG-ATACTTTTTAGAATTTAATAAAAATAGTG
15635272 TTTCTAAAATAAAAA
1 TTTCTAAAATAAAAA
15635287 TGCAATAGTT
Statistics
Matches: 108, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
112 49 0.45
113 19 0.18
115 33 0.31
116 7 0.06
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (114 bp):
TTTCTAAAATAAAAAACACAATATTTATTGAAAAAAATGATATTTTAAAATAAAAACACAAGCTT
TGTTAAAAATATGAAAAAAGATACTTTTTAGAATTTAATAAAAATAGTG
Found at i:15635357 original size:37 final size:37
Alignment explanation
Indices: 15635316--15635396 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
15635306 ATGAAAAAAA
* * *
15635316 ATAAAA-CATAAAATATC-TTTATTTAATATTATTACAT
1 ATAAAATC-TAAAATA-CATTTACTTAACATTATTACAC
15635353 ATAAAATCTAAAATACATTTACTTAACATTATTACAC
1 ATAAAATCTAAAATACATTTACTTAACATTATTACAC
15635390 ATAAAAT
1 ATAAAAT
15635397 TTATTACACA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
36 1 0.03
37 37 0.95
38 1 0.03
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (37 bp):
ATAAAATCTAAAATACATTTACTTAACATTATTACAC
Found at i:15637396 original size:37 final size:37
Alignment explanation
Indices: 15637349--15637435 Score: 165
Period size: 37 Copynumber: 2.4 Consensus size: 37
15637339 GTATTTTTGA
15637349 TTTTTTGTATTTTGATTTTGTATCGTCGAGCATGTTT
1 TTTTTTGTATTTTGATTTTGTATCGTCGAGCATGTTT
*
15637386 TTTTTTGTATTTCGATTTTGTATCGTCGAGCATGTTT
1 TTTTTTGTATTTTGATTTTGTATCGTCGAGCATGTTT
15637423 TTTTTTGTATTTT
1 TTTTTTGTATTTT
15637436 TGGCTATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.13, C:0.08, G:0.17, T:0.62
Consensus pattern (37 bp):
TTTTTTGTATTTTGATTTTGTATCGTCGAGCATGTTT
Found at i:15638266 original size:6 final size:6
Alignment explanation
Indices: 15638257--15638281 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15638247 ATTAATATCA
15638257 ATAATT ATAATT ATAATT ATAATT A
1 ATAATT ATAATT ATAATT ATAATT A
15638282 AAAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:15638269 original size:29 final size:28
Alignment explanation
Indices: 15638224--15638282 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
15638214 ATATGAAACC
*
15638224 ATATCATATTATGATTATAA-ATAATTA
1 ATATCATATTATAATTATAATATAATTA
15638251 ATATCAATAATTATAATTATAATTATAATTA
1 ATATC-AT-ATTATAATTATAA-TATAATTA
15638282 A
1 A
15638283 AAAAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 5 0.19
28 2 0.07
29 12 0.44
31 8 0.30
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (28 bp):
ATATCATATTATAATTATAATATAATTA
Found at i:15640474 original size:17 final size:18
Alignment explanation
Indices: 15640441--15640474 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15640431 TTTTCACCAA
*
15640441 AAAAAAAAATGAGAAAAT
1 AAAAAAAAATGAAAAAAT
15640459 AAAAAAAAA-GAAAAAA
1 AAAAAAAAATGAAAAAA
15640475 GAGTGGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (18 bp):
AAAAAAAAATGAAAAAAT
Found at i:15641208 original size:164 final size:158
Alignment explanation
Indices: 15640936--15641253 Score: 406
Period size: 164 Copynumber: 2.0 Consensus size: 158
15640926 AAAGCTTAAA
* * * **
15640936 GTTCCCTCATTTTCATGCCTGCTATTTTACTTGTTTAGTGAAGCTTATAGTTTCATCATCCTCAC
1 GTTCCCTCATTTTCATGCCTACTACTTTACTTGTTTAGTGAAGCTTATAGCTTCATCATCAACAC
* * *
15641001 ATCTGTTACCTAATTTTTTGTGCAACTTGTTGATAGTAACCCAAAGCTTGGTTTTTTTTTTCCTT
66 ATCTGTTACCTAATTTTTTGCGCAACTTGTTGATAGAAACCCAAAGC-T--TTTTTTTTTT--AT
*
15641066 AGATTTATGGTGTGGT-CTTTTGTATGGTCAGTGG
126 -GATTTATGGTGTCGTCCTTTT-TATGGTCAGTGG
* * *
15641100 GTTCCCTCATTTTCATGCCTATTGCTTTGCTTGTTTAAG-GAAGCTTATAGCTTCATCATCAACA
1 GTTCCCTCATTTTCATGCCTACTACTTTACTTGTTT-AGTGAAGCTTATAGCTTCATCATCAACA
* * **
15641164 CATTTGTTACCTAGTTTTTTGCGTGACTTGTTGATAGAAACCCAAAGCTTTTTTTTTTTATGATT
65 CATCTGTTACCTAATTTTTTGCGCAACTTGTTGATAGAAACCCAAAGCTTTTTTTTTTTATGATT
15641229 TATGGTGTCGTCCTTTTTATGGTCA
130 TATGGTGTCGTCCTTTTTATGGTCA
15641254 ACATGGTTAC
Statistics
Matches: 136, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
158 22 0.16
159 6 0.04
161 10 0.07
163 1 0.01
164 95 0.70
165 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46
Consensus pattern (158 bp):
GTTCCCTCATTTTCATGCCTACTACTTTACTTGTTTAGTGAAGCTTATAGCTTCATCATCAACAC
ATCTGTTACCTAATTTTTTGCGCAACTTGTTGATAGAAACCCAAAGCTTTTTTTTTTTATGATTT
ATGGTGTCGTCCTTTTTATGGTCAGTGG
Found at i:15642155 original size:16 final size:16
Alignment explanation
Indices: 15642134--15642172 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15642124 TTATTTTTTG
*
15642134 TAATGATAAATTAATA
1 TAATGATAAATGAATA
*
15642150 TAATGATACATGAATA
1 TAATGATAAATGAATA
*
15642166 TTATGAT
1 TAATGAT
15642173 TAACTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (16 bp):
TAATGATAAATGAATA
Found at i:15642560 original size:16 final size:17
Alignment explanation
Indices: 15642541--15642573 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15642531 AAAATATATG
15642541 TAATAAAAAT-ATAAAA
1 TAATAAAAATAATAAAA
*
15642557 TAATAATAATAATAAAA
1 TAATAAAAATAATAAAA
15642574 AGTTTCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TAATAAAAATAATAAAA
Found at i:15646657 original size:19 final size:19
Alignment explanation
Indices: 15646625--15646663 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15646615 TAAATAAATT
15646625 TAAAATAATATTAAAATAA
1 TAAAATAATATTAAAATAA
15646644 TAAAA-AATATTTAAAATAA
1 TAAAATAATA-TTAAAATAA
15646663 T
1 T
15646664 TAATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATAATATTAAAATAA
Found at i:15647654 original size:2 final size:2
Alignment explanation
Indices: 15647647--15647678 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15647637 GATGTTTTCA
15647647 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15647679 TCATATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15648518 original size:17 final size:17
Alignment explanation
Indices: 15648474--15648518 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
15648464 GTGATCTACT
*
15648474 AATGATAAAATCACCTT
1 AATGATAAAATCACCTC
* *
15648491 AGTAATAAAATCACCTC
1 AATGATAAAATCACCTC
*
15648508 AATGATTAAAT
1 AATGATAAAAT
15648519 TACTATAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.29
Consensus pattern (17 bp):
AATGATAAAATCACCTC
Found at i:15649128 original size:19 final size:18
Alignment explanation
Indices: 15649097--15649138 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
15649087 ATTAGTAAAT
*
15649097 TTTAGTTTTAA-TTATCTA
1 TTTAATTTTAATTTA-CTA
15649115 TTTAATTTTGAATTTACTA
1 TTTAATTTT-AATTTACTA
15649134 TTTAA
1 TTTAA
15649139 GCTTTGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 10 0.48
20 3 0.14
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTAATTTTAATTTACTA
Found at i:15650065 original size:11 final size:11
Alignment explanation
Indices: 15650049--15650073 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15650039 CTTGTTTTAT
15650049 TTGTTTAGATC
1 TTGTTTAGATC
15650060 TTGTTTAGATC
1 TTGTTTAGATC
15650071 TTG
1 TTG
15650074 ATTGAAAATA
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:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (11 bp):
TTGTTTAGATC
Found at i:15651060 original size:96 final size:96
Alignment explanation
Indices: 15650891--15651081 Score: 310
Period size: 96 Copynumber: 2.0 Consensus size: 96
15650881 AAATATCTTT
* * * * * *
15650891 GGTGTTTGCACCCTAAAAATGCAATTCATATATGTTCTATTGGGATGAAAAGGTTTTGCGGCAGA
1 GGTGTTTGCACCCTAAAAATGCAATTCATATATGTTCTATCGAGATGAAAAGATTTTACAGCAAA
*
15650956 TGGTAAAGTGCTAAGGGATGCCATTACATAC
66 TGGAAAAGTGCTAAGGGATGCCATTACATAC
*
15650987 GGTGTTTGCACCCTAAAAATGCAATTCATATATGTTCTATCGAGATGGAAAGATTTTACAGCAAA
1 GGTGTTTGCACCCTAAAAATGCAATTCATATATGTTCTATCGAGATGAAAAGATTTTACAGCAAA
15651052 TGGAAAAGTGCTAAGGGATGCCATTACATA
66 TGGAAAAGTGCTAAGGGATGCCATTACATA
15651082 TAAGAATGGG
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (96 bp):
GGTGTTTGCACCCTAAAAATGCAATTCATATATGTTCTATCGAGATGAAAAGATTTTACAGCAAA
TGGAAAAGTGCTAAGGGATGCCATTACATAC
Found at i:15652352 original size:8 final size:7
Alignment explanation
Indices: 15652330--15652371 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
15652320 GGTTTTTGGC
15652330 TATTTTT
1 TATTTTT
15652337 TATTTTT
1 TATTTTT
15652344 TATTATTT
1 TATT-TTT
15652352 TATTTTT
1 TATTTTT
15652359 CT-TGTTTT
1 -TAT-TTTT
15652367 TATTT
1 TATTT
15652372 AATTAATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
7 18 0.58
8 13 0.42
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (7 bp):
TATTTTT
Found at i:15652354 original size:15 final size:14
Alignment explanation
Indices: 15652330--15652371 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
15652320 GGTTTTTGGC
15652330 TATTTTTTATTTTT
1 TATTTTTTATTTTT
15652344 TATTATTTTATTTTT
1 TATT-TTTTATTTTT
15652359 CT-TGTTTTTATTT
1 -TAT-TTTTTATTT
15652372 AATTAATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.16
15 19 0.76
16 2 0.08
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (14 bp):
TATTTTTTATTTTT
Found at i:15653769 original size:13 final size:13
Alignment explanation
Indices: 15653753--15653777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15653743 CTCGTAAACA
15653753 TTATTAATCTGTC
1 TTATTAATCTGTC
15653766 TTATTAATCTGT
1 TTATTAATCTGT
15653778 TACTAACATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (13 bp):
TTATTAATCTGTC
Found at i:15659620 original size:104 final size:104
Alignment explanation
Indices: 15659341--15659640 Score: 327
Period size: 104 Copynumber: 2.9 Consensus size: 104
15659331 ATTAAAAATG
*
15659341 ACATTTTCTCCTTTAAAAACGTAGT-TTTGAATGAAAAAATAATAATTTTTACAAACACTACATT
1 ACATTTTCTCCTTTAAAAACGTAGTGTTTGAATG-AAAAA-AATAATTTTTACAAGCACTACATT
*
15659405 TATGGAATGAGT----GCA-TTTTTACTTTTCTTTAAAGACA
64 TATGGAATGA-TAAACGCAGTCTTTACTTTTCTTTAAAGACA
* * * *
15659442 ACATTTACTCCTTTTTAAAATGTAGTGTTTGAATGAAAAAAA-AA---TTACAAGCACTACGTTT
1 ACATTTTCTCC-TTTAAAAACGTAGTGTTTGAATGAAAAAAATAATTTTTACAAGCACTACATTT
* * * *
15659503 ATGAAATGATAAACACAGTCCTCACTTTTCTTTAAA-A-A
65 ATGGAATGATAAACGCAGTCTTTACTTTTCTTTAAAGACA
* * * *
15659541 AGATGTTTTCTCCTTTAAAAACATAGTGTTTGAATGAAAAAAATAATTTTTATAAGCATTACATT
1 ACA--TTTTCTCCTTTAAAAACGTAGTGTTTGAATGAAAAAAATAATTTTTACAAGCACTACATT
*
15659606 TATGGAATGATAAACGCTGTCTTTACTTTTCTTTA
64 TATGGAATGATAAACGCAGTCTTTACTTTTCTTTA
15659641 TAAACTAATT
Statistics
Matches: 163, Mismatches: 23, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
96 1 0.01
97 23 0.14
99 3 0.02
100 32 0.20
101 36 0.22
102 17 0.10
103 8 0.05
104 43 0.26
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (104 bp):
ACATTTTCTCCTTTAAAAACGTAGTGTTTGAATGAAAAAAATAATTTTTACAAGCACTACATTTA
TGGAATGATAAACGCAGTCTTTACTTTTCTTTAAAGACA
Found at i:15663352 original size:19 final size:19
Alignment explanation
Indices: 15663317--15663373 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
15663307 TAATATTAAA
* *
15663317 AATATTAAAAAAATGATTT
1 AATATTAAAATATTGATTT
15663336 AATATTAAAATATTGA--T
1 AATATTAAAATATTGATTT
*
15663353 AATATT-AAATTTTGATTT
1 AATATTAAAATATTGATTT
15663371 AAT
1 AAT
15663374 TATTTCAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 8 0.24
17 7 0.21
18 4 0.12
19 14 0.42
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
AATATTAAAATATTGATTT
Found at i:15667195 original size:3 final size:3
Alignment explanation
Indices: 15667187--15667214 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15667177 AATTTGATTA
15667187 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15667215 TTCATTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15667258 original size:46 final size:46
Alignment explanation
Indices: 15667208--15667300 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
15667198 TAATAATAAT
* *
15667208 AATAATATTCATTTCATCCCAAATTGTTTTAATATTATTAATTTTC
1 AATAATATTCATTCCATCCCAAATTGTTTGAATATTATTAATTTTC
** *
15667254 AATAATATTCATTCCATCTTAAATTGTTTGGATATTATTAATTTTC
1 AATAATATTCATTCCATCCCAAATTGTTTGAATATTATTAATTTTC
15667300 A
1 A
15667301 CAGAGTTTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.34, C:0.12, G:0.04, T:0.49
Consensus pattern (46 bp):
AATAATATTCATTCCATCCCAAATTGTTTGAATATTATTAATTTTC
Found at i:15667631 original size:11 final size:10
Alignment explanation
Indices: 15667607--15667653 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 10
15667597 TTCACCTTTC
15667607 TTTTC-TTTT
1 TTTTCTTTTT
15667616 TTTTCTTTTT
1 TTTTCTTTTT
15667626 TATTTCTCTTTT
1 T-TTTCT-TTTT
15667638 TCTATTCTTTTT
1 T-T-TTCTTTTT
15667650 TTTT
1 TTTT
15667654 ATATCCTCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
9 5 0.15
10 7 0.21
11 6 0.18
12 11 0.33
13 4 0.12
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:15667662 original size:28 final size:28
Alignment explanation
Indices: 15667607--15667662 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
15667597 TTCACCTTTC
* * *
15667607 TTTTCTTTTTTTTCTTTTTTATTTCTCT
1 TTTTCTATTCTTTCTTTTTTATTCCTCT
15667635 TTTTCTATTCTTT-TTTTTTATATCCTCT
1 TTTTCTATTCTTTCTTTTTTAT-TCCTCT
15667663 CCATTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTCTATTCTTTCTTTTTTATTCCTCT
Found at i:15671984 original size:9 final size:9
Alignment explanation
Indices: 15671970--15671998 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15671960 CAATCAACCA
15671970 TTTTTTT-T
1 TTTTTTTGT
15671978 TTTTTTTGT
1 TTTTTTTGT
15671987 TTTTTTTGT
1 TTTTTTTGT
15671996 TTT
1 TTT
15671999 GTAAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:15672085 original size:30 final size:30
Alignment explanation
Indices: 15672050--15672108 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
15672040 AAATTGGGTC
15672050 TTAAAATTGAATTCGAGCCTACAATTGGAG
1 TTAAAATTGAATTCGAGCCTACAATTGGAG
* *
15672080 TTAAAATTGAATTTGGGCCTACAATTGGA
1 TTAAAATTGAATTCGAGCCTACAATTGGA
15672109 CTTTGGAGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (30 bp):
TTAAAATTGAATTCGAGCCTACAATTGGAG
Found at i:15672131 original size:21 final size:18
Alignment explanation
Indices: 15672081--15672132 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
15672071 CAATTGGAGT
*
15672081 TAAAATTGAATTTGGGCC
1 TAAAATTGACTTTGGGCC
*
15672099 TACAATTGGACTTTGGAGCCC
1 TAAAATT-GACTTTGG-G-CC
15672120 TAAAAATTGACTT
1 T-AAAATTGACTT
15672133 GAACTTCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 6 0.22
19 7 0.26
20 1 0.04
21 8 0.30
22 5 0.19
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (18 bp):
TAAAATTGACTTTGGGCC
Found at i:15672457 original size:16 final size:17
Alignment explanation
Indices: 15672436--15672467 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15672426 TTTTCAAAAG
15672436 TTTTCTT-ATTTTTTGT
1 TTTTCTTGATTTTTTGT
15672452 TTTTCTTGATTTTTTG
1 TTTTCTTGATTTTTTG
15672468 AAAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.78
Consensus pattern (17 bp):
TTTTCTTGATTTTTTGT
Found at i:15672494 original size:29 final size:28
Alignment explanation
Indices: 15672461--15672526 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
15672451 TTTTTCTTGA
15672461 TTTTTTGAAAATTTTTAGAAT-T-TTTTTT
1 TTTTTTGAAAATTTTT--AATGTCTTTTTT
*
15672489 TGTTTTTTAAAATTTTTAATGTCTTTTTT
1 T-TTTTTGAAAATTTTTAATGTCTTTTTT
15672518 TTTTTTGAA
1 TTTTTTGAA
15672527 TTCTTGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 3 0.09
28 9 0.27
29 21 0.64
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.68
Consensus pattern (28 bp):
TTTTTTGAAAATTTTTAATGTCTTTTTT
Done.