Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 67 of 214
Found at i:19038878 original size:15 final size:15
Alignment explanation
Indices: 19038858--19038887 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19038848 TAGGGTTAAA
19038858 TTTTTTACTCTGGGT
1 TTTTTTACTCTGGGT
19038873 TTTTTTACTCTGGGT
1 TTTTTTACTCTGGGT
19038888 GTATATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.13, G:0.20, T:0.60
Consensus pattern (15 bp):
TTTTTTACTCTGGGT
Found at i:19053250 original size:35 final size:35
Alignment explanation
Indices: 19053211--19053314 Score: 86
Period size: 35 Copynumber: 3.0 Consensus size: 35
19053201 TACATATGCG
* * *
19053211 TGTATAAATAAATTATAAAAATAGGTATGTTTATA
1 TGTATAAATAAATTATAAAAAAAAGTATGTGTATA
** * *
19053246 TGTATGTATATATTACAAAAAAAAGTATGTGTATA
1 TGTATAAATAAATTATAAAAAAAAGTATGTGTATA
* * *
19053281 AGTATATAA-AAATATATATAAAAAA-TATATGTAT
1 TGTATA-AATAAAT-TATAAAAAAAAGTATGTGTAT
19053315 GTATATATAA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
35 43 0.81
36 10 0.19
ACGTcount: A:0.51, C:0.01, G:0.11, T:0.38
Consensus pattern (35 bp):
TGTATAAATAAATTATAAAAAAAAGTATGTGTATA
Found at i:19054842 original size:50 final size:50
Alignment explanation
Indices: 19054788--19055163 Score: 187
Period size: 50 Copynumber: 7.5 Consensus size: 50
19054778 CTAGGGAGAT
* * * *
19054788 AAGATTCGTTATTCTAGCTTCAATCTATTTGACTTTAATGTCGGGGAAGG
1 AAGATTCGCTGTTGTAGCTTCAATCTATTTGACTTCAATGTCGGGGAAGG
* ** * *
19054838 AAGATTCGCCGTTGTAGCTTCAATCTATTCCACTGC-ATCG-CTAGGG-AGG
1 AAGATTCGCTGTTGTAGCTTCAATCTATTTGACTTCAAT-GTC-GGGGAAGG
* *
19054887 TGAGATTCGCTGTTGTAGCTTCAATCTATTTGACTACAATGTCGGGGAAGG
1 -AAGATTCGCTGTTGTAGCTTCAATCTATTTGACTTCAATGTCGGGGAAGG
* * * * * * * * * ** *
19054938 AAGATTCACCGTCGTAGCTTCCATCTGTTCCG-CTGCATTGCCTTGGAAGT
1 AAGATTCGCTGTTGTAGCTTCAATCTATT-TGACTTCAATGTCGGGGAAGG
* * * * * *
19054988 AAGTTTCACCGTTGTGGTTTCAATCT-TTTGAATTGCAATGTCGGGGAAGTG
1 AAGATTCGCTGTTGTAGCTTCAATCTATTTGACTT-CAATGTCGGGGAAG-G
* * * * * * * *
19055039 -AGATTCGCTGTCGTAGCTTCAATCTGTTCCG-CTGC-ATCGCCTGGCAAGT
1 AAGATTCGCTGTTGTAGCTTCAATCTATT-TGACTTCAAT-GTCGGGGAAGG
* * * *
19055088 AAGATTCACTGTTGTGGCTTCAATCT-TTTGAATTGCAATGTCGAGGAAGTG
1 AAGATTCGCTGTTGTAGCTTCAATCTATTTGACTT-CAATGTCGGGGAAG-G
* ** *
19055139 -AGATTTGCCATCGTAGCTTCAATCT
1 AAGATTCGCTGTTGTAGCTTCAATCT
19055164 GTTCCGCTGC
Statistics
Matches: 237, Mismatches: 71, Indels: 36
0.69 0.21 0.10
Matches are distributed among these distances:
48 2 0.01
49 14 0.06
50 208 0.88
51 12 0.05
52 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (50 bp):
AAGATTCGCTGTTGTAGCTTCAATCTATTTGACTTCAATGTCGGGGAAGG
Found at i:19054859 original size:100 final size:100
Alignment explanation
Indices: 19054687--19056122 Score: 1884
Period size: 100 Copynumber: 14.4 Consensus size: 100
19054677 CGTCGAGGAA
** * * * ** ** *
19054687 ATAAGATTTTCCGTTGCGGCTTCAATCTTTT-AGTTGTAATGTCGGAAAAGCAAGATTCGCCATC
1 ATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
* * *
19054751 GTAGCTTCAATCTGTTCCACTGCATTG-CTAGGGAG
66 GTAGCTTCAATCTGTTCCGCTGCATCGCCT-GGCAG
**** * * * *
19054786 ATAAGATTCGTTATTCTAGCTTCAATCTATTTGACTT-TAATGTCGGGGAAG-GAAGATTCGCCG
1 ATAAGATTCACCGTTGTGGCTTCAATCT-TTTGAATTGCAATGTCGGGGAAGTG-AGATTCGCCG
* * * *
19054849 TTGTAGCTTCAATCTATTCCACTGCATCG-CTAGGGAG
64 TCGTAGCTTCAATCTGTTCCGCTGCATCGCCT-GGCAG
* * * * * * * *
19054886 GTGAGATTCGCTGTTGTAGCTTCAATCTATTTG-ACTACAATGTCGGGGAAG-GAAGATTCACCG
1 ATAAGATTCACCGTTGTGGCTTCAATCT-TTTGAATTGCAATGTCGGGGAAGTG-AGATTCGCCG
* * *
19054949 TCGTAGCTTCCATCTGTTCCGCTGCATTGCCTTGGAAG
64 TCGTAGCTTCAATCTGTTCCGCTGCATCGCC-TGGCAG
* * *
19054987 -TAAGTTTCACCGTTGTGGTTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCTGTC
1 ATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
19055051 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCA-
66 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
* * * *
19055085 AGTAAGATTCACTGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGAGGAAGTGAGATTTGCCAT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
19055150 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
* * * *
19055185 AGTAAGATTCATCATTGTGGCTTTAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCACCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
* *
19055250 CATAGCTTCAATATGTTCCGCTGCATCGCCTGGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
* * *
19055285 AGTAAGATTCACCGTTGCGGCTTCAATCTTTTGAATTGTAATGTCGGGGAAGTGAGATTCACCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
* *
19055350 AGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGCAAG
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGC-AG
*
19055387 A-AAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCAGGGAAGTGAGATTCGCCGTC
1 ATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
*
19055451 GTAGCTTCAATCTGTTCCGTTGCATCGCCTGGCA-
66 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
*
19055485 AGTAAGATTCACAGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
*
19055550 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTCGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
* *
19055585 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCACCAT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
19055650 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAAG
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGC-AG
* *
19055687 A-AAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGTAATGTCGGGGAAGTGAGATTCGACGTC
1 ATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
* *
19055751 GTAGCTTCAATCTATTCCGCTGCATTGCCTGGCA-
66 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
* * *
19055785 AGTAAGATTCACCATTGTGGCTTCAATCTTTTGAATTACAATGTCGGGGAAGTGAGATTCACCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
* *
19055850 CGTAGCTTCAATCTGTTCCGCTGCATCACCTAGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
19055885 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
*
19055950 CGTAGCTTCAATCTGTTCCCCTGCATCGCCTGGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
* ** *
19055985 AGTAATATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTTTGGGAAGTGAGATTCACCGT
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGT
* *
19056050 CGTAGCTTCAATCTGTTCCACTGCATTGCCTGGCA-
65 CGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
*
19056085 AGTAAGATTCACTGTTGTGGCTTCAATCTTTTGAATTG
1 A-TAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTG
19056123 TAATATATGG
Statistics
Matches: 1205, Mismatches: 114, Indels: 35
0.89 0.08 0.03
Matches are distributed among these distances:
98 2 0.00
99 31 0.03
100 1158 0.96
101 11 0.01
102 3 0.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (100 bp):
ATAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTC
GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGCAG
Found at i:19057334 original size:43 final size:44
Alignment explanation
Indices: 19057276--19057358 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
19057266 AGATCATCAT
* *
19057276 ATGCCCCGATCTGATC-AAAATTTGAG-CTGCTCTGATCACCACC
1 ATGCCCCAATCTGATCTAAAATTTAAGTC-GCTCTGATCACCACC
*
19057319 ATGCCCCAATTTGATCTAAAATTTAAGTCGCTCTGATCAC
1 ATGCCCCAATCTGATCTAAAATTTAAGTCGCTCTGATCAC
19057359 TTCGCCCCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 14 0.40
44 20 0.57
45 1 0.03
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (44 bp):
ATGCCCCAATCTGATCTAAAATTTAAGTCGCTCTGATCACCACC
Found at i:19057482 original size:12 final size:11
Alignment explanation
Indices: 19057465--19057527 Score: 63
Period size: 12 Copynumber: 5.5 Consensus size: 11
19057455 GGCCTCTCCT
19057465 TTTTTCCTTTTC
1 TTTTT-CTTTTC
*
19057477 TTTTTCTCTTC
1 TTTTTCTTTTC
19057488 TTCTTTCTTTTC
1 TT-TTTCTTTTC
* *
19057500 TTCTTCTTCTC
1 TTTTTCTTTTC
*
19057511 TTTCTTTTTTTC
1 TTT-TTCTTTTC
19057523 TTTTT
1 TTTTT
19057528 TTTATTTGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
11 18 0.43
12 24 0.57
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:19057501 original size:23 final size:24
Alignment explanation
Indices: 19057463--19057527 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
19057453 TTGGCCTCTC
19057463 CTTT-TTTCCTTTTCTTTTTC-TCT
1 CTTTCTTT-CTTTTCTTTTTCTTCT
*
19057486 -TCTTCTTTCTTTTCTTCTTCTTCT
1 CT-TTCTTTCTTTTCTTTTTCTTCT
19057510 CTTTCTTT-TTTTCTTTTT
1 CTTTCTTTCTTTTCTTTTT
19057528 TTTATTTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 1 0.03
23 22 0.61
24 12 0.33
25 1 0.03
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (24 bp):
CTTTCTTTCTTTTCTTTTTCTTCT
Found at i:19057512 original size:20 final size:21
Alignment explanation
Indices: 19057483--19057524 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
19057473 TTTCTTTTTC
19057483 TCTTCTTCTTTCTTTTCTTCT
1 TCTTCTTCTTTCTTTTCTTCT
*
19057504 TCTTC-TCTTTCTTTTTTTCT
1 TCTTCTTCTTTCTTTTCTTCT
19057524 T
1 T
19057525 TTTTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TCTTCTTCTTTCTTTTCTTCT
Found at i:19057530 original size:12 final size:12
Alignment explanation
Indices: 19057464--19057573 Score: 51
Period size: 12 Copynumber: 8.3 Consensus size: 12
19057454 TGGCCTCTCC
*
19057464 TTTTTTCCTTTT
1 TTTTTTCTTTTT
* * *
19057476 CTTTTTCTCTTC
1 TTTTTTCTTTTT
*
19057488 TTCTTTCTTTTCT
1 TTTTTTCTTTT-T
*
19057501 TCTTCTTCTCTTTCT
1 T-TT-TT-TCTTTTT
19057516 TTTTTTCTTTTT
1 TTTTTTCTTTTT
*
19057528 TTTATTTGTTGTTGCT
1 TTT-TTTCTT-TT--T
19057544 TTTGTTT-TTTTT
1 TTT-TTTCTTTTT
19057556 TGTTTTTCTATTTT
1 T-TTTTTCT-TTTT
19057570 TTTT
1 TTTT
19057574 GAAACATTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
12 30 0.41
13 14 0.19
14 12 0.16
15 6 0.08
16 12 0.16
ACGTcount: A:0.02, C:0.15, G:0.05, T:0.78
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:19057573 original size:22 final size:22
Alignment explanation
Indices: 19057523--19057573 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
19057513 TCTTTTTTTC
19057523 TTTTTTTTATTTGTTGTTGCTT
1 TTTTTTTTATTTGTTGTTGCTT
* *
19057545 TTGTTTTTT-TTTGTT-TTTCTA
1 TT-TTTTTTATTTGTTGTTGCTT
19057566 TTTTTTTT
1 TTTTTTTT
19057574 GAAACATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 6 0.23
21 6 0.23
22 8 0.31
23 6 0.23
ACGTcount: A:0.04, C:0.04, G:0.10, T:0.82
Consensus pattern (22 bp):
TTTTTTTTATTTGTTGTTGCTT
Found at i:19070953 original size:16 final size:16
Alignment explanation
Indices: 19070927--19070980 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
19070917 TTTGGTTCGC
*
19070927 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
19070943 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
19070959 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
19070975 TGTAAT
1 TGTAAT
19070981 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:19071359 original size:14 final size:15
Alignment explanation
Indices: 19071310--19071361 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
19071300 ATAAAATATA
19071310 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
19071325 TATTAAATATATTAT
1 AATTAAATATATTAT
19071340 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
19071353 AATTTAATA
1 AATTAAATA
19071362 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:19071472 original size:18 final size:17
Alignment explanation
Indices: 19071451--19071485 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19071441 TTATTATTAA
*
19071451 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
19071469 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
19071486 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:19071599 original size:14 final size:15
Alignment explanation
Indices: 19071550--19071601 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
19071540 ATAAAATATA
19071550 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
19071565 TATTAAATATATTAT
1 AATTAAATATATTAT
19071580 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
19071593 AATTTAATA
1 AATTAAATA
19071602 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:19071719 original size:14 final size:15
Alignment explanation
Indices: 19071680--19071721 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19071670 AATTAACTTA
*
19071680 ATTATTATTAAATAT
1 ATTATAATTAAATAT
19071695 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
19071709 A-TATAATTTAATA
1 ATTATAATTAAATA
19071722 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:19071857 original size:120 final size:120
Alignment explanation
Indices: 19071203--19071846 Score: 1182
Period size: 120 Copynumber: 5.4 Consensus size: 120
19071193 TTTAAACATA
*
19071203 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTAT
1 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTAT
19071268 ATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATT
66 ATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATT
*
19071323 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTAT
1 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTAT
19071388 ATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATT
66 ATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATT
*
19071443 ATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTAT
1 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTAT
19071508 ATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATT
66 ATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATT
19071563 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTAT
1 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTAT
*
19071628 ATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACTTAATT
66 ATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATT
19071683 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTAT
1 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTAT
* * *
19071748 ATGGATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA-ATAATT
66 ATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-AACATAATT
* * *
19071803 AATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
19071847 TAAAATAATT
Statistics
Matches: 512, Mismatches: 11, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
120 510 1.00
121 2 0.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTAT
ATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATT
Found at i:19071959 original size:91 final size:90
Alignment explanation
Indices: 19071862--19072069 Score: 299
Period size: 91 Copynumber: 2.3 Consensus size: 90
19071852 TAATTATAAC
* ** * * *
19071862 TAATAAATTATCTTATATGAATTTGTATGATTTAAAAGAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAAGAATTAATATTAAATAAAATTTAATAAT
*
19071927 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
*
19071953 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATAAAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAAGAATTAATATTAAATAAAATTTAATAAT
*
19072018 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
19072044 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
19072070 CTAAAATCAA
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
91 84 0.80
92 21 0.20
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAAGAATTAATATTAAATAAAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:19072044 original size:47 final size:47
Alignment explanation
Indices: 19071906--19072050 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 47
19071896 AAAGAATTAT
* * *
19071906 TATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTT--
1 TATTAAATAAAATTTAATAATGATATATAATTTCATAAAATTCTTAA
* * ** * * **
19071951 GA-T-AATAAATTTTCTTATATGAATTTATACAATT--TAAAATAATTAA
1 TATTAAATAAAATTTAATA-ATG-ATATATA-ATTTCATAAAATTCTTAA
19071997 TATTAAATAAAATTTAATAATGATATATAATTTCATAAAATTCTTAA
1 TATTAAATAAAATTTAATAATGATATATAATTTCATAAAATTCTTAA
*
19072044 TAATAAA
1 TATTAAA
19072051 ATGTTCTTAT
Statistics
Matches: 71, Mismatches: 20, Indels: 16
0.66 0.19 0.15
Matches are distributed among these distances:
43 9 0.13
44 11 0.15
45 10 0.14
46 10 0.14
47 20 0.28
48 11 0.15
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (47 bp):
TATTAAATAAAATTTAATAATGATATATAATTTCATAAAATTCTTAA
Found at i:19075769 original size:20 final size:20
Alignment explanation
Indices: 19075746--19075811 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
19075736 TAATTAAAGG
19075746 TTGAACATAATTATTATTAT
1 TTGAACATAATTATTATTAT
* *
19075766 TTG-A-ATAATATCAATTA-AAGG
1 TTGAACATAAT-T--ATTATTA-T
19075787 TTGAACATAATTATTATTAT
1 TTGAACATAATTATTATTAT
19075807 TTGAA
1 TTGAA
19075812 TAATATCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
18 5 0.14
19 2 0.06
20 13 0.37
21 8 0.23
22 2 0.06
23 5 0.14
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (20 bp):
TTGAACATAATTATTATTAT
Found at i:19075783 original size:41 final size:41
Alignment explanation
Indices: 19075737--19075847 Score: 213
Period size: 41 Copynumber: 2.7 Consensus size: 41
19075727 GATTGAACAT
19075737 AATTAAAGGTTGAACATAATTATTATTATTTGAATAATATC
1 AATTAAAGGTTGAACATAATTATTATTATTTGAATAATATC
19075778 AATTAAAGGTTGAACATAATTATTATTATTTGAATAATATC
1 AATTAAAGGTTGAACATAATTATTATTATTTGAATAATATC
19075819 AATTAAAGGTTGAACATAATTATATATTA
1 AATTAAAGGTTGAACATAATTAT-TATTA
19075848 GTATCAAATT
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
41 64 0.93
42 5 0.07
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.41
Consensus pattern (41 bp):
AATTAAAGGTTGAACATAATTATTATTATTTGAATAATATC
Found at i:19075790 original size:21 final size:21
Alignment explanation
Indices: 19075766--19075832 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
19075756 TTATTATTAT
19075766 TTGAATAATATCAATTAAAGG
1 TTGAATAATATCAATTAAAGG
* *
19075787 TTGAACATAAT-T--ATTATTA-T
1 TTG-A-ATAATATCAATTA-AAGG
19075807 TTGAATAATATCAATTAAAGG
1 TTGAATAATATCAATTAAAGG
19075828 TTGAA
1 TTGAA
19075833 CATAATTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
18 5 0.14
19 2 0.06
20 8 0.23
21 13 0.37
22 2 0.06
23 5 0.14
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (21 bp):
TTGAATAATATCAATTAAAGG
Found at i:19075878 original size:13 final size:13
Alignment explanation
Indices: 19075860--19075884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19075850 ATCAAATTTG
19075860 TATGTACTCTTTA
1 TATGTACTCTTTA
19075873 TATGTACTCTTT
1 TATGTACTCTTT
19075885 CACTAATAAA
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:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:19075904 original size:51 final size:52
Alignment explanation
Indices: 19075849--19075954 Score: 151
Period size: 52 Copynumber: 2.1 Consensus size: 52
19075839 TATATATTAG
** *
19075849 TATCAAATTTGTATGTA-CTCTTTATATGTACTCTTTCACTAATAAATTATA
1 TATCAAATTTGTATCAATCTCTTTATATGTACGCTTTCACTAATAAATTATA
* * *
19075900 TATCAAATTTGTATCAATTTTTTTTTATGTACGCTTTCACTAATAAATTATA
1 TATCAAATTTGTATCAATCTCTTTATATGTACGCTTTCACTAATAAATTATA
19075952 TAT
1 TAT
19075955 TAGTAAAAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 15 0.31
52 33 0.69
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (52 bp):
TATCAAATTTGTATCAATCTCTTTATATGTACGCTTTCACTAATAAATTATA
Found at i:19077051 original size:5 final size:5
Alignment explanation
Indices: 19077041--19077074 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
19077031 AACCCAACAG
19077041 AACCA AACCA AACCA AACCA AACCA AACCA AACC
1 AACCA AACCA AACCA AACCA AACCA AACCA AACC
19077075 TAGCTTGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.59, C:0.41, G:0.00, T:0.00
Consensus pattern (5 bp):
AACCA
Found at i:19078922 original size:20 final size:18
Alignment explanation
Indices: 19078892--19078961 Score: 50
Period size: 20 Copynumber: 3.6 Consensus size: 18
19078882 AACTAATCAT
19078892 GGTACGAAAGTGCTATCAAG
1 GGTACG-AAGTGC-ATCAAG
* * *
19078912 GGTATCGAAGTACAACAGG
1 GGTA-CGAAGTGCATCAAG
*
19078931 GGCACGTAAGTGCGATCAAG
1 GGTACG-AAGTGC-ATCAAG
19078951 GGTACCGAAGT
1 GGTA-CGAAGT
19078962 ACAACAGGGG
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.05
19 12 0.32
20 20 0.53
21 4 0.11
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (18 bp):
GGTACGAAGTGCATCAAG
Found at i:19078953 original size:39 final size:39
Alignment explanation
Indices: 19078899--19078982 Score: 141
Period size: 39 Copynumber: 2.2 Consensus size: 39
19078889 CATGGTACGA
* *
19078899 AAGTGCTATCAAGGGTATCGAAGTACAACAGGGGCACGT
1 AAGTGCGATCAAGGGTACCGAAGTACAACAGGGGCACGT
*
19078938 AAGTGCGATCAAGGGTACCGAAGTACAACAGGGGCATGT
1 AAGTGCGATCAAGGGTACCGAAGTACAACAGGGGCACGT
19078977 AAGTGC
1 AAGTGC
19078983 TACTAGGTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.32, T:0.17
Consensus pattern (39 bp):
AAGTGCGATCAAGGGTACCGAAGTACAACAGGGGCACGT
Found at i:19087388 original size:2 final size:2
Alignment explanation
Indices: 19087381--19087410 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19087371 TTGGTGTTTC
*
19087381 TA TA TA TA TA TG 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
19087411 CATGTGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19090858 original size:14 final size:13
Alignment explanation
Indices: 19090839--19090877 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
19090829 CCAGAAGAGT
19090839 AAATCATTTTCCAG
1 AAATCATTTTCC-G
*
19090853 AAATCATTTTTCG
1 AAATCATTTTCCG
19090866 AAAGTCATTTTC
1 AAA-TCATTTTC
19090878 AGTAAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:19092272 original size:109 final size:107
Alignment explanation
Indices: 19092078--19092277 Score: 267
Period size: 109 Copynumber: 1.9 Consensus size: 107
19092068 ATATTTGGCA
19092078 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
1 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
* * *
19092143 AACATTGCCTTATTTTGAAAT-TTTTAAAAGGATATTAAGCC
66 AACATTGCCTCAATTAGAAATATTTTAAAAGGATATTAAGCC
* * * * *
19092184 ATTTGGTTGAACGAGAAAAATTGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
** *
19092249 CTGAATATTGCCTCAATTAGAAATATTTT
63 CAAAACATTGCCTCAATTAGAAATATTTT
19092278 CCTTTTTTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
106 14 0.18
108 25 0.32
109 36 0.46
110 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (107 bp):
ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
AACATTGCCTCAATTAGAAATATTTTAAAAGGATATTAAGCC
Found at i:19092760 original size:12 final size:12
Alignment explanation
Indices: 19092735--19092784 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
19092725 TAACGAAAAC
*
19092735 ATAAAA-TAAAA
1 ATAAAAGTAATA
*
19092746 ATAAAACTAATA
1 ATAAAAGTAATA
*
19092758 ATAATAGTAATA
1 ATAAAAGTAATA
*
19092770 ATAATAGTAATA
1 ATAAAAGTAATA
19092782 ATA
1 ATA
19092785 TGAAATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
11 6 0.17
12 29 0.83
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (12 bp):
ATAAAAGTAATA
Found at i:19092761 original size:3 final size:3
Alignment explanation
Indices: 19092735--19092784 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
19092725 TAACGAAAAC
* * *
19092735 ATA A-A ATA AAA ATA A-A ACTA ATA ATA ATA GTA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
19092779 ATA ATA
1 ATA ATA
19092785 TGAAATTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.11
3 32 0.84
4 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:19093465 original size:15 final size:16
Alignment explanation
Indices: 19093447--19093484 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19093437 CAAAATAGTT
*
19093447 AGAAAGAAA-AAAAAG
1 AGAAAAAAATAAAAAG
*
19093462 AGAAAAAAATAAAAAT
1 AGAAAAAAATAAAAAG
19093478 AGAAAAA
1 AGAAAAA
19093485 GAAAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (16 bp):
AGAAAAAAATAAAAAG
Found at i:19093475 original size:16 final size:15
Alignment explanation
Indices: 19093447--19093489 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
19093437 CAAAATAGTT
*
19093447 AGAAAGAAAAAAAAG
1 AGAAAAAAAAAAAAG
*
19093462 AGAAAAAAATAAAAAT
1 AGAAAAAAA-AAAAAG
19093478 AGAAAAAGAAAA
1 AGAAAAA-AAAA
19093490 TAAATATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.33
16 14 0.58
17 2 0.08
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (15 bp):
AGAAAAAAAAAAAAG
Found at i:19093475 original size:18 final size:19
Alignment explanation
Indices: 19093454--19093493 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
19093444 GTTAGAAAGA
*
19093454 AAAAAAAGAGAAA-AAAAT
1 AAAAAAAGAAAAAGAAAAT
*
19093472 AAAAATAGAAAAAGAAAAT
1 AAAAAAAGAAAAAGAAAAT
19093491 AAA
1 AAA
19093494 TATACCGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.07
Consensus pattern (19 bp):
AAAAAAAGAAAAAGAAAAT
Found at i:19103706 original size:104 final size:103
Alignment explanation
Indices: 19103520--19103726 Score: 378
Period size: 104 Copynumber: 2.0 Consensus size: 103
19103510 ATTTGCTACG
19103520 ACAATGACTCCTTTGTTGAGTTGGTTCCTTGTGAAAAAGGGGAGAAACTTTATATGGGCAACGCT
1 ACAATGACTCCTTTGTTGAGTTGGTTCCTTGTGAAAAAGGGGAGAAACTTTATATGGGCAACGCT
*
19103585 GCAACTTCCAAGGTTAAGGGGAAAAGTACTGTGATTTT
66 GCAACTTCCAAGATTAAGGGGAAAAGTACTGTGATTTT
*
19103623 ACAATGACTCCTTTTGTTGAGTTGGTTCCTTGTGAAAAATGGGAGAAACTTTATATGGGCAACGC
1 ACAATGACTCC-TTTGTTGAGTTGGTTCCTTGTGAAAAAGGGGAGAAACTTTATATGGGCAACGC
*
19103688 TGCAACTTCTAAGATTAAGGGGAAAAGTACTGTGATTTT
65 TGCAACTTCCAAGATTAAGGGGAAAAGTACTGTGATTTT
19103727 GAAGTTCACT
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
103 11 0.11
104 89 0.89
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (103 bp):
ACAATGACTCCTTTGTTGAGTTGGTTCCTTGTGAAAAAGGGGAGAAACTTTATATGGGCAACGCT
GCAACTTCCAAGATTAAGGGGAAAAGTACTGTGATTTT
Found at i:19109211 original size:385 final size:385
Alignment explanation
Indices: 19108497--19109270 Score: 1424
Period size: 385 Copynumber: 2.0 Consensus size: 385
19108487 CATAAAGTAG
*
19108497 ATTGTATGATGGCAGTTTCTTTCTTGCCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAAC
1 ATTGTATAATGGCAGTTTCTTTCTTGCCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAAC
*
19108562 AATCGTTCACTAGTCTTTCTTGAACCAAAGTCTCTGCTGGAACTAAATTCTCCCTCAAAAGAGTA
66 AATCGTTCACTAGTCTTTCTTGAACCAAAGTCTCTACTGGAACTAAATTCTCCCTCAAAAGAGTA
19108627 ACAGAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATAGTTGTGATGAAGA
131 ACAGAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATAGTTGTGATGAAGA
19108692 AAGGTAGGGTCCATCCTCACGAAATGTTACATCCATACATACATAATATTGTCTAGATGGTGGGT
196 AAGGTAGGGTCCATCCTCACGAAATGTTACATCCATACATACATAATATTGTCTAGATGGTGGGT
*
19108757 GGTAACATTTGTAACCGTTCTGTGTGGAAGAGTATCCAATGAAAACACATTTGACTACACGAGGA
261 GGTAACATTTGTAACCGTTCTGTGTGGAAGAGTATCCAATGAAAACACATTTGACTACACGAAGA
*
19108822 TCCAGTTTGCTCTCTTGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
326 TCCAGTTTGCTCTCATGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
*
19108882 ATTGTATAATGGCATTTTCTTTCTTGCCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAAC
1 ATTGTATAATGGCAGTTTCTTTCTTGCCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAAC
*
19108947 AATCGTTCACTAGTCTTTCTTGAACCAAAGTCTCTACTGGAACTAAATTCTCCCTCGAAAGAGTA
66 AATCGTTCACTAGTCTTTCTTGAACCAAAGTCTCTACTGGAACTAAATTCTCCCTCAAAAGAGTA
*
19109012 ACAGAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATGGTTGTGATGAAGA
131 ACAGAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATAGTTGTGATGAAGA
*
19109077 AAGGTAGGGTTCATCCTCACGAAATGTTACATCCATACATACATAATACTT-TCTAGATGGTGGG
196 AAGGTAGGGTCCATCCTCACGAAATGTTACATCCATACATACATAATA-TTGTCTAGATGGTGGG
* * * *
19109141 TGGTAACATTTGTAACCGTTCTGTGTGGGAGAGTATCTAATGAAAACACATTTGACTGCATGAAG
260 TGGTAACATTTGTAACCGTTCTGTGTGGAAGAGTATCCAATGAAAACACATTTGACTACACGAAG
19109206 ATCCAGTTTGCTCTCATGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
325 ATCCAGTTTGCTCTCATGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
19109267 ATTG
1 ATTG
19109271 GGTAATCCGT
Statistics
Matches: 376, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
385 374 0.99
386 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (385 bp):
ATTGTATAATGGCAGTTTCTTTCTTGCCTTTTCTAGTGTATGTCCGTAAATCATGTCTATCCAAC
AATCGTTCACTAGTCTTTCTTGAACCAAAGTCTCTACTGGAACTAAATTCTCCCTCAAAAGAGTA
ACAGAAAAAGGTGTCATCTCTTTATTTTCAACAACCTCCCACTGAAGAGATAGTTGTGATGAAGA
AAGGTAGGGTCCATCCTCACGAAATGTTACATCCATACATACATAATATTGTCTAGATGGTGGGT
GGTAACATTTGTAACCGTTCTGTGTGGAAGAGTATCCAATGAAAACACATTTGACTACACGAAGA
TCCAGTTTGCTCTCATGTCGAAGATGAACGAAGCAAACACAAGCAAAGACCTTTGGTGAA
Found at i:19117492 original size:27 final size:27
Alignment explanation
Indices: 19117462--19117527 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
19117452 AAAGAAAGTA
* *
19117462 TTTGTGGTGATCTATAAAAAGGAAGCT
1 TTTGTGGTGATCTATAAAAAGGAAACC
*
19117489 TTTGTGGTGATCTATGAAAAGGAAACC
1 TTTGTGGTGATCTATAAAAAGGAAACC
*
19117516 TTTATGGTGATC
1 TTTGTGGTGATC
19117528 CATGGAGGAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (27 bp):
TTTGTGGTGATCTATAAAAAGGAAACC
Found at i:19124211 original size:15 final size:16
Alignment explanation
Indices: 19124191--19124224 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
19124181 GTACGAAACT
19124191 TTTTAC-TTTAGTTAC
1 TTTTACTTTTAGTTAC
19124206 TTTTACTTTTAGTTAC
1 TTTTACTTTTAGTTAC
19124222 TTT
1 TTT
19124225 AGTAAAACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTACTTTTAGTTAC
Found at i:19135722 original size:15 final size:15
Alignment explanation
Indices: 19135702--19135731 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19135692 GACACATCCC
*
19135702 AAAAATTGGGTTAGT
1 AAAAATTGGATTAGT
19135717 AAAAATTGGATTAGT
1 AAAAATTGGATTAGT
19135732 GAACTAAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AAAAATTGGATTAGT
Found at i:19153535 original size:147 final size:144
Alignment explanation
Indices: 19153354--19153812 Score: 507
Period size: 147 Copynumber: 3.1 Consensus size: 144
19153344 CTTTAATCTG
* * * * *
19153354 CTGCAACGCC-AGAGAAAAAAATTCGCTTCCTTCAGCTTTAATATGTTCTACTACAATGCCAAGG
1 CTGCAACGCCAAG-GAAAAAGATTCGCTACCTTCAGCTTTAATCTGTTCTACTGCAACGCCAAGG
* * * * *
19153418 AAATAAGATTTGTTGCCTTCAGTTTTAATCTATTGCAACGCCAGGGAAATAAGATTCACTGCCTT
65 AAATAAGATTCGTTGCCTTCAGATTTAATCTACTGCAACGCCAAGGAAA-AAGATTCGCTGCCTT
19153483 TAGCTTTAACTTGTTCCA
129 TAGCTTTAA-TT-TTCCA
* *
19153501 CTGCAACGCTAAGGAAAAAGATTCGCTACCTTCAGCTTTAATCTGTCCTACTGCAACGCCAAGGA
1 CTGCAACGCCAAGGAAAAAGATTCGCTACCTTCAGCTTTAATCTGTTCTACTGCAACGCCAAGGA
* * *
19153566 AAAAAGATTCGCTACCTTCAGATTTAATCTGTCCTACTGCAACGCCAAGGAAAAAAGATTCGCTG
66 AATAAGATTCGTTGCCTTCAGATTTAA----T-CTACTGCAACGCCAAGG-AAAAAGATTCGCTG
* *
19153631 CCTTCAGCTTTAA---TCTA
125 CCTTTAGCTTTAATTTTCCA
* * * * * * *
19153648 CTGTAACGCCAGGGAAATAAGATTCACTGCCTTCAGCTTTAATCTGTTCAATTGCAACGCC-ATG
1 CTGCAACGCCAAGGAAA-AAGATTCGCTACCTTCAGCTTTAATCTGTTCTACTGCAACGCCAAGG
* *
19153712 AAATAAGATTCGTTGCCTTCA-ACTTTAATCTACTGCAATGCCAAGGAAAAAGATCCGCTGCCTT
65 AAATAAGATTCGTTGCCTTCAGA-TTTAATCTACTGCAACGCCAAGGAAAAAGATTCGCTGCCTT
19153776 TAGCTTTAATCTATTCCA
129 TAGCTTTAAT-T-TTCCA
*
19153794 TTGCAACGCCAAGGAAAAA
1 CTGCAACGCCAAGGAAAAA
19153813 AAATTTGCCA
Statistics
Matches: 262, Mismatches: 36, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
141 25 0.10
142 16 0.06
143 1 0.00
145 2 0.01
146 18 0.07
147 119 0.45
148 40 0.15
151 1 0.00
152 37 0.14
153 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (144 bp):
CTGCAACGCCAAGGAAAAAGATTCGCTACCTTCAGCTTTAATCTGTTCTACTGCAACGCCAAGGA
AATAAGATTCGTTGCCTTCAGATTTAATCTACTGCAACGCCAAGGAAAAAGATTCGCTGCCTTTA
GCTTTAATTTTCCA
Found at i:19153592 original size:51 final size:51
Alignment explanation
Indices: 19153354--19153813 Score: 417
Period size: 51 Copynumber: 9.4 Consensus size: 51
19153344 CTTTAATCTG
* * *
19153354 CTGCAACGCC-AGAGAAAAAA-ATTCGCTTCCTTCAGCTTTAATATGTTCTA
1 CTGCAACGCCAAG-GAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
* * * * * *
19153404 CTACAATGCCAAGGAAATAAGATTTGTTGCCTTCAGTTTTAA----T-CTA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
* * * * *
19153450 TTGCAACGCCAGGGAAATAAGATTCACTGCCTTTAGCTTTAA-CTTGTTCC-A
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATC-TG-TCCTA
* *
19153501 CTGCAACGCTAAGG-AAAAAGATTCGCTACCTTCAGCTTTAATCTGTCCTA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
* *
19153551 CTGCAACGCCAAGGAAAAAAGATTCGCTACCTTCAGATTTAATCTGTCCTA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
19153602 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAA----T-CTA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
* * * * * *
19153648 CTGTAACGCCAGGGAAATAAGATTCACTGCCTTCAGCTTTAATCTGTTCAA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
* * * * *
19153699 TTGCAACGCC-ATGAAATAAGATTCGTTGCCTTCAACTTTAA----T-CTA
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
* * * *
19153744 CTGCAATGCCAAGG-AAAAAGATCCGCTGCCTTTAGCTTTAATCTATTCC-A
1 CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCT-GTCCTA
*
19153794 TTGCAACGCCAAGGAAAAAA
1 CTGCAACGCCAAGGAAAAAA
19153814 AATTTGCCAT
Statistics
Matches: 336, Mismatches: 50, Indels: 47
0.78 0.12 0.11
Matches are distributed among these distances:
45 32 0.10
46 80 0.24
47 2 0.01
49 3 0.01
50 94 0.28
51 124 0.37
52 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (51 bp):
CTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTGTCCTA
Found at i:19153722 original size:198 final size:193
Alignment explanation
Indices: 19153344--19153813 Score: 574
Period size: 198 Copynumber: 2.4 Consensus size: 193
19153334 TAACTTGTAG
* * * * *
19153344 CTTTAATCTGCTGCAACGCC-AGAGAAAAAA-ATTCGCTTCCTTCAGCTTTAATATGTTCTACTA
1 CTTTAATCTACTGCAACGCCAAG-GAAAAAAGATTCGCTACCTTCAGCTTTAATCTGTCCTACTG
* * * * * *
19153407 CAATGCCAAGGAAATAAGATTTGTTGCCTTCAGTTTTAATCTATTGCAACGCCAGGGAAATAAGA
65 CAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGA
* * *
19153472 TTCACTGCCTTTAGCTTTAACTTGTTCCACTGCAACGCTAAGGAAAAAGATTCGCTACCTTCAG
130 TTCACTGCCTTCAGCTTTAACTTGTTCAACTGCAACGCTAAGGAAAAAGATTCGCTACCTTCAA
*
19153536 CTTTAATCTGTCCTACTGCAACGCCAAGGAAAAAAGATTCGCTACCTTCAGATTTAATCTGTCCT
1 CTTTAA----T-CTACTGCAACGCCAAGGAAAAAAGATTCGCTACCTTCAGCTTTAATCTGTCCT
*
19153601 ACTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTACTGTAACGCCAGGGAAAT
61 ACTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCAGGGAAAT
* * * * *
19153666 AAGATTCACTGCCTTCAGCTTTAA-TCTGTTCAATTGCAACGC-CATGAAATAAGATTCGTTGCC
126 AAGATTCACTGCCTTCAGCTTTAACT-TGTTCAACTGCAACGCTAAGGAAA-AAGATTCGCTACC
19153729 TTCAA
189 TTCAA
* * * * * *
19153734 CTTTAATCTACTGCAATGCCAAGG-AAAAAGATCCGCTGCCTTTAGCTTTAATCTATTCC-ATTG
1 CTTTAATCTACTGCAACGCCAAGGAAAAAAGATTCGCTACCTTCAGCTTTAATCT-GTCCTACTG
19153797 CAACGCCAAGGAAAAAA
65 CAACGCCAAGGAAAAAA
19153814 AATTTGCCAT
Statistics
Matches: 240, Mismatches: 28, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
192 52 0.22
193 19 0.08
194 1 0.00
196 1 0.00
197 25 0.10
198 142 0.59
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (193 bp):
CTTTAATCTACTGCAACGCCAAGGAAAAAAGATTCGCTACCTTCAGCTTTAATCTGTCCTACTGC
AACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGAT
TCACTGCCTTCAGCTTTAACTTGTTCAACTGCAACGCTAAGGAAAAAGATTCGCTACCTTCAA
Found at i:19164607 original size:16 final size:16
Alignment explanation
Indices: 19164586--19164619 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19164576 TTTTATGATG
* *
19164586 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
19164602 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
19164618 AA
1 AA
19164620 GCAAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:19168214 original size:39 final size:39
Alignment explanation
Indices: 19168162--19168244 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 39
19168152 CATGCATGTA
** *
19168162 CATATACATATTTTAATTTACATACTTATATATATATTTT
1 CATATACATATTTTAAAGTACATACTTACATATAT-TTTT
*
19168202 -ATATA-ATAATTTTAAAGTATATACTTACATATATTTTT
1 CATATACAT-ATTTTAAAGTACATACTTACATATATTTTT
19168240 CATAT
1 CATAT
19168245 TTCCATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
38 6 0.16
39 31 0.84
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (39 bp):
CATATACATATTTTAAAGTACATACTTACATATATTTTT
Found at i:19168416 original size:41 final size:41
Alignment explanation
Indices: 19168371--19168489 Score: 100
Period size: 41 Copynumber: 3.1 Consensus size: 41
19168361 ATTTTATTTG
19168371 CTTATATGCATTATTATTTTGTATGTCATTGATTTGTCCTT
1 CTTATATGCATTATTATTTTGTATGTCATTGATTTGTCCTT
* * *
19168412 C-T-TAT-C--TA--ATTTAT-T-T-TCATTGCTAT-TAC-T
1 CTTATATGCATTATTATTT-TGTATGTCATTGATTTGTCCTT
19168442 CGTATATATGCATTATTATTTTGTATGTCATTGATTTGTCCTT
1 C-T-TATATGCATTATTATTTTGTATGTCATTGATTTGTCCTT
19168485 CTTAT
1 CTTAT
19168490 CTAATTTATT
Statistics
Matches: 57, Mismatches: 6, Indels: 30
0.61 0.06 0.32
Matches are distributed among these distances:
30 2 0.04
31 2 0.04
32 8 0.14
33 2 0.04
34 8 0.14
35 2 0.04
36 2 0.04
37 2 0.04
38 2 0.04
39 8 0.14
40 2 0.04
41 12 0.21
42 3 0.05
43 2 0.04
ACGTcount: A:0.21, C:0.13, G:0.10, T:0.55
Consensus pattern (41 bp):
CTTATATGCATTATTATTTTGTATGTCATTGATTTGTCCTT
Found at i:19168432 original size:32 final size:32
Alignment explanation
Indices: 19168396--19168506 Score: 80
Period size: 32 Copynumber: 3.2 Consensus size: 32
19168386 ATTTTGTATG
19168396 TCATTGATTTGTCCTTCTTATCTAATTTATTT
1 TCATTGATTTGTCCTTCTTATCTAATTTATTT
** * * *
19168428 TCATTGCTATTACTCGTATATATGCATTAT-TATTTTGTATG
1 TCATTG--ATT--T-GT-CCT-T-C-TTATCTAATTTAT-TT
19168469 TCATTGATTTGTCCTTCTTATCTAATTTATTT
1 TCATTGATTTGTCCTTCTTATCTAATTTATTT
19168501 TCATTG
1 TCATTG
19168507 CTATTACTCG
Statistics
Matches: 58, Mismatches: 10, Indels: 22
0.64 0.11 0.24
Matches are distributed among these distances:
32 17 0.29
33 7 0.12
34 4 0.07
35 1 0.02
36 3 0.05
37 3 0.05
38 1 0.02
39 4 0.07
40 7 0.12
41 11 0.19
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.56
Consensus pattern (32 bp):
TCATTGATTTGTCCTTCTTATCTAATTTATTT
Found at i:19168457 original size:73 final size:73
Alignment explanation
Indices: 19168373--19168519 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
19168363 TTTATTTGCT
19168373 TATATGCATTATTATTTTGTATGTCATTGATTTGTCCTTCTTATCTAATTTATTTTCATTGCTAT
1 TATATGCATTATTATTTTGTATGTCATTGATTTGTCCTTCTTATCTAATTTATTTTCATTGCTAT
19168438 TACTCGTA
66 TACTCGTA
19168446 TATATGCATTATTATTTTGTATGTCATTGATTTGTCCTTCTTATCTAATTTATTTTCATTGCTAT
1 TATATGCATTATTATTTTGTATGTCATTGATTTGTCCTTCTTATCTAATTTATTTTCATTGCTAT
19168511 TACTCGTA
66 TACTCGTA
19168519 T
1 T
19168520 TATTTATGCT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.55
Consensus pattern (73 bp):
TATATGCATTATTATTTTGTATGTCATTGATTTGTCCTTCTTATCTAATTTATTTTCATTGCTAT
TACTCGTA
Found at i:19172765 original size:17 final size:20
Alignment explanation
Indices: 19172740--19172776 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
19172730 CTTTTTCTGA
19172740 AAAATATTAT-TTT-TATTT
1 AAAATATTATATTTCTATTT
19172758 AAAA-ATTATATTTCTATTT
1 AAAATATTATATTTCTATTT
19172777 TTAAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
AAAATATTATATTTCTATTT
Found at i:19173348 original size:19 final size:19
Alignment explanation
Indices: 19173324--19173367 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
19173314 TAAAAGCAAC
19173324 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
19173343 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
19173362 ACAACA
1 ACAACA
19173368 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:19176261 original size:95 final size:90
Alignment explanation
Indices: 19176002--19176399 Score: 602
Period size: 90 Copynumber: 4.4 Consensus size: 90
19175992 ATTAAAAATT
* * * * *
19176002 AATTAATATAATAGTACAACAACATAAATTAAACAAAAAAAAAGTATGTTAAACTACATTTTAAA
1 AATTAATATAATAGTACAATAGCATAAATTAAAC-AAAAAAAAGTCTGTTAAACCACAGTTTAAA
*
19176067 CTTTAAAGTTAGTTAATTGAAGCCTA
65 CATTAAAGTTAGTTAATTGAAGCCTA
* * *
19176093 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTTTGTTAAGCTATC-GTTTAAA
1 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCA-CAGTTTAAA
*
19176157 CTTTAAAGTTAGTTAATTGAAGCCTA
65 CATTAAAGTTAGTTAATTGAAGCCTA
19176183 AATTAATATAATAGTACAAGTACAACAGCATAAATTAAAC-AAAAAAAGTCTGTTAAACCACAGT
1 AATTAATATAATAGTACAA-T-----AGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAGT
*
19176247 TTAAACATTAAAGTTAGTTAATTGAAGCGTA
60 TTAAACATTAAAGTTAGTTAATTGAAGCCTA
19176278 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAGTTTAAAC
1 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAGTTTAAAC
*
19176343 ATTAAAGTTAGTTAATTGAATCCTA
66 ATTAAAGTTAGTTAATTGAAGCCTA
19176368 AATTAATATAATAGTACAATAGCATAAATTAA
1 AATTAATATAATAGTACAATAGCATAAATTAA
19176400 TTAATTGAAG
Statistics
Matches: 286, Mismatches: 12, Indels: 19
0.90 0.04 0.06
Matches are distributed among these distances:
89 14 0.05
90 155 0.54
91 34 0.12
94 2 0.01
95 67 0.23
96 14 0.05
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (90 bp):
AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTCTGTTAAACCACAGTTTAAAC
ATTAAAGTTAGTTAATTGAAGCCTA
Found at i:19176309 original size:185 final size:186
Alignment explanation
Indices: 19175997--19176386 Score: 619
Period size: 185 Copynumber: 2.1 Consensus size: 186
19175987 ATTAAATTAA
*
19175997 AAATTAAT-TAATA-TA-ATAGTACAACAACATAAATTAAACAAAAAAAAAGTATGTTAAACTAC
1 AAATTAATATAATAGTACA-AGTACAACAACATAAATTAAAC-AAAAAAAAGTATGTTAAACCAC
* *
19176059 ATTTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTA
64 AGTTTAAACATTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTA
* * * *
19176124 AACAAAAAAAAGTTTGTTAAGCTATC-GTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
129 AACAAAAAAAAGTCTGTTAAACCA-CAGTTTAAACATTAAAGTTAGTTAATTGAAGCCT
* *
19176182 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAAC-AAAAAAAGTCTGTTAAACCACAG
1 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACCACAG
*
19176246 TTTAAACATTAAAGTTAGTTAATTGAAGCGTAAATTAATATAATAGTACAATAGCATAAATTAAA
66 TTTAAACATTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAA
*
19176311 CAAAAAAAAGTCTGTTAAACCACAGTTTAAACATTAAAGTTAGTTAATTGAATCCT
131 CAAAAAAAAGTCTGTTAAACCACAGTTTAAACATTAAAGTTAGTTAATTGAAGCCT
19176367 AAATTAATATAATAGTACAA
1 AAATTAATATAATAGTACAA
19176387 TAGCATAAAT
Statistics
Matches: 190, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
184 1 0.01
185 160 0.84
186 5 0.03
187 23 0.12
188 1 0.01
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (186 bp):
AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAACCACAG
TTTAAACATTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAA
CAAAAAAAAGTCTGTTAAACCACAGTTTAAACATTAAAGTTAGTTAATTGAAGCCT
Found at i:19176581 original size:14 final size:13
Alignment explanation
Indices: 19176563--19176615 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
19176553 GGTATTTAAT
19176563 ATTTAATATTTTA
1 ATTTAATATTTTA
*
19176576 ATTTTAAT-TTATA
1 A-TTTAATATTTTA
*
19176589 ATTTAATTATTATA
1 ATTTAA-TATTTTA
*
19176603 ATCTAATATTTTA
1 ATTTAATATTTTA
19176616 TTCATCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.15
13 13 0.38
14 16 0.47
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTAATATTTTA
Found at i:19176583 original size:21 final size:20
Alignment explanation
Indices: 19176556--19176615 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 20
19176546 AAGGTCTGGT
*
19176556 ATTTAATATTTAATATTTTA
1 ATTTTATATTTAATATTTTA
*
19176576 ATTTTA-ATTT-ATAATTTA
1 ATTTTATATTTAATATTTTA
*
19176594 ATTATTATAATCTAATATTTTA
1 ATT-TTAT-ATTTAATATTTTA
19176616 TTCATCATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 10 0.31
19 7 0.22
20 5 0.16
21 3 0.09
22 7 0.22
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTTATATTTAATATTTTA
Found at i:19176726 original size:17 final size:17
Alignment explanation
Indices: 19176704--19176738 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
19176694 TTTTCTCTAT
*
19176704 TAATATTACGTTATTAC
1 TAATATTACATTATTAC
19176721 TAATATTACATTATTAC
1 TAATATTACATTATTAC
19176738 T
1 T
19176739 TTGGGAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:19177151 original size:19 final size:19
Alignment explanation
Indices: 19177127--19177186 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
19177117 GGAGAAGGAA
19177127 AATAGAGCGAAAATCATTC
1 AATAGAGCGAAAATCATTC
* *
19177146 AATAGAGCGAAACA-GATGC
1 AATAGAGCGAAA-ATCATTC
*
19177165 AAATAGAGCTAAAATCATTC
1 -AATAGAGCGAAAATCATTC
19177185 AA
1 AA
19177187 GAATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (19 bp):
AATAGAGCGAAAATCATTC
Found at i:19177711 original size:7 final size:7
Alignment explanation
Indices: 19177699--19177724 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19177689 TTCGAATAAT
19177699 TCGAAAA
1 TCGAAAA
19177706 TCGAAAA
1 TCGAAAA
19177713 TCGAAAA
1 TCGAAAA
19177720 TCGAA
1 TCGAA
19177725 TCAAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (7 bp):
TCGAAAA
Found at i:19178278 original size:18 final size:18
Alignment explanation
Indices: 19178255--19178308 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
19178245 AACATTATAA
19178255 AAATTCAAAAAAAAATTT
1 AAATTCAAAAAAAAATTT
* * *
19178273 AAATTCTTAAAAAATATAT
1 AAATTC-AAAAAAAAATTT
* *
19178292 AATTTAAAAAAAAAATT
1 AAATTCAAAAAAAAATT
19178309 CCAAAATCCT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATTCAAAAAAAAATTT
Found at i:19180404 original size:16 final size:17
Alignment explanation
Indices: 19180383--19180414 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19180373 GTAATATCTC
19180383 AATAATAAT-AAAATAA
1 AATAATAATCAAAATAA
19180399 AATAATAATCAAAATA
1 AATAATAATCAAAATA
19180415 TTCTAACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
AATAATAATCAAAATAA
Found at i:19185767 original size:25 final size:25
Alignment explanation
Indices: 19185739--19185791 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
19185729 TTCAATTGAG
19185739 TCTAGTTTCAAAAACAACAAGTGGA
1 TCTAGTTTCAAAAACAACAAGTGGA
19185764 TCTAGTTTCAAAAACAACAAGTGGA
1 TCTAGTTTCAAAAACAACAAGTGGA
19185789 TCT
1 TCT
19185792 TAATTTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (25 bp):
TCTAGTTTCAAAAACAACAAGTGGA
Found at i:19190222 original size:19 final size:20
Alignment explanation
Indices: 19190188--19190232 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
19190178 AAAACAAATA
*
19190188 CCAAAATCAAA-TTTAAAGT
1 CCAAAATCAAACTTAAAAGT
19190207 CCCAAAA-CAAACTTAAAAGT
1 -CCAAAATCAAACTTAAAAGT
19190227 CCAAAA
1 CCAAAA
19190233 AAATTACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.56, C:0.22, G:0.04, T:0.18
Consensus pattern (20 bp):
CCAAAATCAAACTTAAAAGT
Found at i:19190560 original size:31 final size:31
Alignment explanation
Indices: 19190453--19190604 Score: 153
Period size: 31 Copynumber: 4.7 Consensus size: 31
19190443 ACATATACAA
*
19190453 ATATCATATCAGAATGTCCTATTACCAGAAAC
1 ATATCATATCAGAATGTCATATT-CCAGAAAC
* ** *
19190485 ATATATCAAATCAGAATGTTGTATTTCCAGAATTAT
1 --ATATCATATCAGAATGTCATA-TTCCAGAA--AC
* * *
19190521 ATACCATATCAAAATGTCATATTCTAGAAAC
1 ATATCATATCAGAATGTCATATTCCAGAAAC
*
19190552 ATATCATATCA-AGATGTCATATTTCAGAAAC
1 ATATCATATCAGA-ATGTCATATTCCAGAAAC
19190583 ATATCATATCAGAATGTCATAT
1 ATATCATATCAGAATGTCATAT
19190605 AAGATCGAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
30 1 0.01
31 47 0.47
32 1 0.01
33 7 0.07
34 40 0.40
35 2 0.02
36 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.33
Consensus pattern (31 bp):
ATATCATATCAGAATGTCATATTCCAGAAAC
Found at i:19192765 original size:38 final size:38
Alignment explanation
Indices: 19192693--19192765 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
19192683 AAACTATGTT
* *
19192693 AAAAAAGATATATTAGTGTCAATTAGACTATTTCATTA
1 AAAAAAGATATATTAGTGTCAACTAAACTATTTCATTA
*
19192731 AAAAAAGATATATTAGTGTCAACTAAACTCTTTCA
1 AAAAAAGATATATTAGTGTCAACTAAACTATTTCA
19192766 GTCCTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (38 bp):
AAAAAAGATATATTAGTGTCAACTAAACTATTTCATTA
Found at i:19206370 original size:19 final size:19
Alignment explanation
Indices: 19206335--19206412 Score: 54
Period size: 19 Copynumber: 4.1 Consensus size: 19
19206325 GGATTATTAA
19206335 TTAT-TAATTATTAATAAT
1 TTATATAATTATTAATAAT
* *
19206353 TTATATAATTTTTTATAAT
1 TTATATAATTATTAATAAT
** *
19206372 TGTATA-AAAAATTAAAATAT
1 T-TATATAATTATTAATA-AT
*
19206392 TTTTATAATT-TCTAATAAT
1 TTATATAATTAT-TAATAAT
19206411 TT
1 TT
19206413 TTAATTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
18 4 0.09
19 27 0.61
20 13 0.30
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (19 bp):
TTATATAATTATTAATAAT
Found at i:19213821 original size:354 final size:354
Alignment explanation
Indices: 19212830--19213877 Score: 1940
Period size: 353 Copynumber: 3.0 Consensus size: 354
19212820 ATTTAACTGA
* * * *
19212830 GCCTGTTTTTGGGCCTATTGACATTAATTCAGCTGGGTTTGCTTTTGG-TTTTTTTGCTCTTGAG
1 GCCTATTTTTGGGTCTATTGACATTAATTCGGCTGGGTTTACTTTTGGCTTTTTTT-CTCTTGAG
* *
19212894 TTTGTTGAGCCTGTTGCTATAAATTCTGCTAGGCATGGTTTATCAAGTGGTGTTTCTACTCAGCT
65 TTTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTACTCAGCT
*
19212959 GTCTATGTCATTGCCTTCTACATCTACTAAGATGTTCGTTTGGTA-TTTCGACTCTGGTGCCACC
130 GTCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTT-GACTCTGGTGCCACC
19213023 AACCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTCAATATTTAGGTAAAATTCCTCT
194 AACCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTCAATATTTAGGTAAAATTCCTCT
19213088 ACTTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCATTATTTCTATTTCTC
259 ACTTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCATTATTTCTATTTCTC
19213153 GTAAATTGTTGCATTTAACTAATTTAGATGG
324 GTAAATTGTTGCATTTAACTAATTTAGATGG
*
19213184 GCCTATTTTTGGGTCTATTGACATTAATTCGACTGGGTTTACTTTTGGC-TTTTTTCTCTTGAGT
1 GCCTATTTTTGGGTCTATTGACATTAATTCGGCTGGGTTTACTTTTGGCTTTTTTTCTCTTGAGT
19213248 TTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTACTCAGCTG
66 TTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTACTCAGCTG
*
19213313 TCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTCGACTCTGGTGCCACCAA
131 TCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTTGACTCTGGTGCCACCAA
19213378 CCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTCAATATTTAGGTAAAATTCCTCTAC
196 CCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTCAATATTTAGGTAAAATTCCTCTAC
19213443 TTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCATTATTTCTATTTCTCGT
261 TTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCATTATTTCTATTTCTCGT
19213508 AAATTGTTGCATTTAACTAATTTAGATGG
326 AAATTGTTGCATTTAACTAATTTAGATGG
19213537 GCCTATTTTTGGGTCTATTGACATTAATTCGGCTGGGTTTACTTTTGGCTTTTTTTCTCTTGAGT
1 GCCTATTTTTGGGTCTATTGACATTAATTCGGCTGGGTTTACTTTTGGCTTTTTTTCTCTTGAGT
19213602 TTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTACTCAGCTG
66 TTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTACTCAGCTG
19213667 TCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTTGACTCTGGTGCCACCAA
131 TCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTTGACTCTGGTGCCACCAA
*
19213732 CCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGACTCAATATTTAGGTAAAATTCCTCTAC
196 CCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTCAATATTTAGGTAAAATTCCTCTAC
* * *
19213797 TTATGGGTGATGGTACTTGTGTTCATATTGTGCATTTGGGTCATAGCACTATTTCTATTTCTTGT
261 TTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCATTATTTCTATTTCTCGT
19213862 AAATTGTTGCATTTAA
326 AAATTGTTGCATTTAA
19213878 AAAATGTGTT
Statistics
Matches: 676, Mismatches: 15, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
353 339 0.50
354 337 0.50
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (354 bp):
GCCTATTTTTGGGTCTATTGACATTAATTCGGCTGGGTTTACTTTTGGCTTTTTTTCTCTTGAGT
TTGTTGGGCCTGTTGCTATAAATTCTGCTAGGCCTGGTTTATCAAGTGGTGTTTCTACTCAGCTG
TCTATGTCATTGCCTTCTACATCTACCAAGATGTTCGTTTGGTACTTTGACTCTGGTGCCACCAA
CCACGTATGTCAGGAGGCTTCTATATTGAATAATTCGAGTCAATATTTAGGTAAAATTCCTCTAC
TTATGGGTGATGGTACTTGTGTTCATATTGTGCGTTTGGGTCATAGCATTATTTCTATTTCTCGT
AAATTGTTGCATTTAACTAATTTAGATGG
Found at i:19216770 original size:71 final size:71
Alignment explanation
Indices: 19216654--19216798 Score: 254
Period size: 71 Copynumber: 2.0 Consensus size: 71
19216644 TCACTAAACC
* * *
19216654 ATTATCCTCATCGCCTTTTTGCCGGTTCAAGGAGAAACTTCAGGTCACAATATAGGAGTAGATGG
1 ATTATCCTCATCACCTTTTTGCCGATTCAAGGAGAAACTTCAGGTCACAATACAGGAGTAGATGG
19216719 GTGAAT
66 GTGAAT
*
19216725 ATTATCCTCATCACCTTTTTGCCGATTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
1 ATTATCCTCATCACCTTTTTGCCGATTCAAGGAGAAACTTCAGGTCACAATACAGGAGTAGATGG
19216790 GTGAAT
66 GTGAAT
19216796 ATT
1 ATT
19216799 TGAGTTAGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (71 bp):
ATTATCCTCATCACCTTTTTGCCGATTCAAGGAGAAACTTCAGGTCACAATACAGGAGTAGATGG
GTGAAT
Found at i:19220661 original size:15 final size:16
Alignment explanation
Indices: 19220633--19220665 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19220623 AATAGATGTT
*
19220633 ATAATATAATTTTAAA
1 ATAATATAAATTTAAA
19220649 ATAA-ATAAATTTAAA
1 ATAATATAAATTTAAA
19220664 AT
1 AT
19220666 TGAATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAATATAAATTTAAA
Found at i:19221278 original size:41 final size:41
Alignment explanation
Indices: 19221233--19221314 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
19221223 GTCAACAATT
* **
19221233 AATTATTTTTTAAAATTTAAAAAATATTCAAAA-AAATATAA
1 AATTAATTTTTAAAAGGTAAAAAATATT-AAAACAAATATAA
* *
19221274 AATTAATTTTTAAAAGGTAAAAATTATTAAAACTAATATAA
1 AATTAATTTTTAAAAGGTAAAAAATATTAAAACAAATATAA
19221315 TATATAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 4 0.11
41 31 0.89
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (41 bp):
AATTAATTTTTAAAAGGTAAAAAATATTAAAACAAATATAA
Found at i:19221719 original size:23 final size:23
Alignment explanation
Indices: 19221675--19221720 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19221665 GTTTTGATAT
**
19221675 TTTTAATTATTTTCTTAATATTA
1 TTTTAATTATTTTCAAAATATTA
19221698 TTTTAATTATTTT-AAAATTATTA
1 TTTTAATTATTTTCAAAA-TATTA
19221721 AACCATTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTTAATTATTTTCAAAATATTA
Found at i:19230313 original size:23 final size:24
Alignment explanation
Indices: 19230249--19230330 Score: 89
Period size: 23 Copynumber: 3.5 Consensus size: 24
19230239 AACGTTGTTC
*
19230249 GTGAACATGTTCAATTATATGTTCA
1 GTGAACATGTTCAATTA-ATGTTAA
***
19230274 -TGAACATGTTTGTTTAATGTT-A
1 GTGAACATGTTCAATTAATGTTAA
19230296 GTGAACATGTTCAATTAA-GTTAA
1 GTGAACATGTTCAATTAATGTTAA
*
19230319 ATGAACATGTTC
1 GTGAACATGTTC
19230331 GTGAACATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
22 4 0.08
23 31 0.65
24 13 0.27
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (24 bp):
GTGAACATGTTCAATTAATGTTAA
Found at i:19232814 original size:39 final size:40
Alignment explanation
Indices: 19232719--19232941 Score: 255
Period size: 39 Copynumber: 5.7 Consensus size: 40
19232709 TTGAATGATG
* *
19232719 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
19232758 ATCC-GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
19232798 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
19232837 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19232876 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19232915 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
19232942 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
39 93 0.57
40 68 0.42
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:19232955 original size:40 final size:40
Alignment explanation
Indices: 19232799--19232960 Score: 129
Period size: 40 Copynumber: 4.1 Consensus size: 40
19232789 GATACTAATT
** *
19232799 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGAT-ACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TGACTATA-A
** * *
19232838 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* ** *
19232876 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* *
19232917 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAA
19232957 CCGG
1 CCGG
19232961 TTAAATTCCG
Statistics
Matches: 108, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.01
39 44 0.41
40 61 0.56
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:19232963 original size:79 final size:79
Alignment explanation
Indices: 19232771--19232974 Score: 211
Period size: 79 Copynumber: 2.6 Consensus size: 79
19232761 CGACTAAGAT
** * *
19232771 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
*
19232834 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * * *
19232849 CCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
*
19232913 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * *
19232929 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
19232975 TACGTGATTT
Statistics
Matches: 108, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
77 1 0.01
78 35 0.32
79 48 0.44
80 24 0.22
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:19240743 original size:39 final size:40
Alignment explanation
Indices: 19240643--19240866 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
19240633 TTGAATGATG
*
19240643 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
**
19240682 ATCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
19240723 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
19240762 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19240801 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19240840 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
19240867 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 74 0.45
40 75 0.46
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:19240832 original size:79 final size:81
Alignment explanation
Indices: 19240643--19240866 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
19240633 TTGAATGATG
* ** *
19240643 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGAACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
19240705 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
19240723 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
* *
19240785 TGTGCGAGTTATTAAA
66 TGTGCGAGATACTAAA
* * * * *
19240801 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
19240865 TG
66 TG
19240867 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 36 0.28
79 53 0.42
80 37 0.29
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:19240888 original size:79 final size:79
Alignment explanation
Indices: 19240643--19240899 Score: 215
Period size: 79 Copynumber: 3.3 Consensus size: 79
19240633 TTGAATGATG
* * ** *
19240643 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGAACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
19240705 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
19240723 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** * *
19240787 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* *
19240801 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
19240865 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
19240881 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
19240900 TACGTGATTT
Statistics
Matches: 151, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
77 1 0.01
78 35 0.23
79 67 0.44
80 47 0.31
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:19259276 original size:39 final size:39
Alignment explanation
Indices: 19259228--19259437 Score: 323
Period size: 39 Copynumber: 5.3 Consensus size: 39
19259218 AGACTAAGAT
19259228 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
19259267 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
19259306 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * * *
19259345 CCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* * *
19259385 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-C
19259425 CCGAAGGCATTTG
1 CCGAAGGCATTTG
19259438 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 113 0.71
40 47 0.29
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:19260307 original size:13 final size:13
Alignment explanation
Indices: 19260283--19260400 Score: 67
Period size: 13 Copynumber: 9.1 Consensus size: 13
19260273 AGTTTAGCCT
*
19260283 TGCTTTTGAAAAG
1 TGCTTTTAAAAAG
*
19260296 TACTTTTAAAAAG
1 TGCTTTTAAAAAG
* **
19260309 TGCTGTGGAAAAG
1 TGCTTTTAAAAAG
**
19260322 TGCTTTTAAAATT
1 TGCTTTTAAAAAG
* **
19260335 TGCTGTGGAAAAG
1 TGCTTTTAAAAAG
*
19260348 TTCTTTTAAAAAG
1 TGCTTTTAAAAAG
**
19260361 TG-TTGTGGAAAAG
1 TGCTT-TTAAAAAG
* *
19260374 TGCTTTTGACAAG
1 TGCTTTTAAAAAG
* *
19260387 TACTTTTGAAAAG
1 TGCTTTTAAAAAG
19260400 T
1 T
19260401 TTGGTTTAAG
Statistics
Matches: 76, Mismatches: 27, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
12 2 0.03
13 72 0.95
14 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:19260312 original size:26 final size:26
Alignment explanation
Indices: 19260283--19260400 Score: 121
Period size: 26 Copynumber: 4.5 Consensus size: 26
19260273 AGTTTAGCCT
* *
19260283 TGCTTTTGAAAAGTACTTTTAAAAAG
1 TGCTTTGGAAAAGTGCTTTTAAAAAG
* **
19260309 TGCTGTGGAAAAGTGCTTTTAAAATT
1 TGCTTTGGAAAAGTGCTTTTAAAAAG
* *
19260335 TGCTGTGGAAAAGTTCTTTTAAAAAG
1 TGCTTTGGAAAAGTGCTTTTAAAAAG
* *
19260361 TG-TTGTGGAAAAGTGCTTTTGACAAG
1 TGCTT-TGGAAAAGTGCTTTTAAAAAG
* *
19260387 TACTTTTGAAAAGT
1 TGCTTTGGAAAAGT
19260401 TTGGTTTAAG
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
25 1 0.01
26 73 0.96
27 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (26 bp):
TGCTTTGGAAAAGTGCTTTTAAAAAG
Found at i:19260398 original size:52 final size:52
Alignment explanation
Indices: 19260285--19260401 Score: 155
Period size: 52 Copynumber: 2.2 Consensus size: 52
19260275 TTTAGCCTTG
* * *
19260285 CTTTTGAAAAGTACTTTTAAAAAGTGCTGTGGAAAAGTGCTTTTAAAATTTG
1 CTTTTGAAAAGTTCTTTTAAAAAGTGCTGTGGAAAAGTGCTTTTAAAATGTA
* * * *
19260337 CTGTGGAAAAGTTCTTTTAAAAAGTGTTGTGGAAAAGTGCTTTTGACAA-GTA
1 CTTTTGAAAAGTTCTTTTAAAAAGTGCTGTGGAAAAGTGCTTTT-AAAATGTA
19260389 CTTTTGAAAAGTT
1 CTTTTGAAAAGTT
19260402 TGGTTTAAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 52 0.95
53 3 0.05
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (52 bp):
CTTTTGAAAAGTTCTTTTAAAAAGTGCTGTGGAAAAGTGCTTTTAAAATGTA
Found at i:19262940 original size:20 final size:20
Alignment explanation
Indices: 19262917--19262968 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
19262907 TAGTGAGCAT
* *
19262917 CAAAATGCTAACAGATGCAC
1 CAAAATGCAAACAGAGGCAC
*
19262937 CAAAGTGCAAACAGAGGCAC
1 CAAAATGCAAACAGAGGCAC
* *
19262957 CGAAGTGCAAAC
1 CAAAATGCAAAC
19262969 CCGTACAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.25, G:0.21, T:0.10
Consensus pattern (20 bp):
CAAAATGCAAACAGAGGCAC
Found at i:19267648 original size:17 final size:16
Alignment explanation
Indices: 19267605--19267645 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
19267595 TATATTTTTG
*
19267605 AATTTTAATTTTGATT
1 AATTTTAATTTTGATA
*
19267621 AATTTTGAATTTTTATA
1 AATTTT-AATTTTGATA
19267638 AATTTTAA
1 AATTTTAA
19267646 ATTATTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
AATTTTAATTTTGATA
Found at i:19268660 original size:21 final size:21
Alignment explanation
Indices: 19268636--19268678 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
19268626 TCCCACTACA
**
19268636 TAGTGCGAGCTTAATTCTAGT
1 TAGTGCGAGCAGAATTCTAGT
19268657 TAGTGCGAGCAGAATTCTAGT
1 TAGTGCGAGCAGAATTCTAGT
19268678 T
1 T
19268679 GTATAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (21 bp):
TAGTGCGAGCAGAATTCTAGT
Found at i:19272756 original size:54 final size:54
Alignment explanation
Indices: 19272669--19272825 Score: 219
Period size: 54 Copynumber: 2.9 Consensus size: 54
19272659 GTTAAGGAGT
* *
19272669 CAAATGTCTAATGATTTCTTGAGAAGAGTTCCATATCGTTATTCTTATTCGAGC
1 CAAATGTCTAATGATTTCTTAAGAAGAGTTCCATATCGTGATTCTTATTCGAGC
* * * *
19272723 CAAACGTCTAATGATTTCTTAAGAAGAGATCCATATCATGATTCCTATTCGAGC
1 CAAATGTCTAATGATTTCTTAAGAAGAGTTCCATATCGTGATTCTTATTCGAGC
* *
19272777 CAAATGTCCAATGATTTCTTGAA-AAGA-TTCCATATCGAGATTCTTATTC
1 CAAATGTCTAATGATTTCTT-AAGAAGAGTTCCATATCGTGATTCTTATTC
19272826 ATCAAGGAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 18 0.20
54 70 0.78
55 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (54 bp):
CAAATGTCTAATGATTTCTTAAGAAGAGTTCCATATCGTGATTCTTATTCGAGC
Found at i:19273353 original size:18 final size:18
Alignment explanation
Indices: 19273332--19273367 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19273322 AAGAGAGCGT
* *
19273332 GAAAAATGAAAAAGAAAA
1 GAAAAAGGAAAAACAAAA
19273350 GAAAAAGGAAAAACAAAA
1 GAAAAAGGAAAAACAAAA
19273368 AGGAAAGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.03
Consensus pattern (18 bp):
GAAAAAGGAAAAACAAAA
Found at i:19282620 original size:50 final size:50
Alignment explanation
Indices: 19282478--19282718 Score: 279
Period size: 50 Copynumber: 4.8 Consensus size: 50
19282468 GATAATAACA
* ** * *
19282478 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * * ** *
19282527 TCCCAATGTCATATCTCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
19282577 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
19282627 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
19282677 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
19282719 TTACCCAAAT
Statistics
Matches: 161, Mismatches: 29, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 123 0.76
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:19288131 original size:50 final size:50
Alignment explanation
Indices: 19288006--19288200 Score: 162
Period size: 50 Copynumber: 3.9 Consensus size: 50
19287996 GATAATAACA
* * * ** * * *
19288006 TGCCAAAGCCATGTCCCAGACATGGTCTGACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * **
19288055 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* *** *
19288105 TGCCCATTTCATGTCCCAAACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTAC-ATGGGACCTCTCATATCGG
* *
19288155 TGCCAACGCCATGTCCCAGACATGGTATTACATGGGACCTCTCATA
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATA
19288201 ACCTCAATGA
Statistics
Matches: 117, Mismatches: 25, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.33
50 76 0.65
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:19293686 original size:50 final size:50
Alignment explanation
Indices: 19293623--19293755 Score: 185
Period size: 50 Copynumber: 2.7 Consensus size: 50
19293613 CAATTTCATA
* * * * *
19293623 TCCCAGATATGGTCTTACATGGGAGCTCTCATATTGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
* ** *
19293673 TCCCAGACATGGTCTTCCGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
19293723 TCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TCCCAGACATGGTCTTACATGGGACCTCTCATA
19293756 ATCTCAATAA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
Found at i:19305912 original size:36 final size:34
Alignment explanation
Indices: 19305872--19305946 Score: 80
Period size: 34 Copynumber: 2.1 Consensus size: 34
19305862 TGATGGTTGT
* *
19305872 TGTGAAAG-AGAATATGTGGGTATGATATTCATACCA
1 TGTGAAAGTA-AAAATGT-GGTATG-TATTCATACAA
* *
19305908 TGTGACAGTAAAAATGTGGTATGTTTTCATACAA
1 TGTGAAAGTAAAAATGTGGTATGTATTCATACAA
19305942 TGTGA
1 TGTGA
19305947 TAGTGATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
34 14 0.41
35 6 0.18
36 13 0.38
37 1 0.03
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.33
Consensus pattern (34 bp):
TGTGAAAGTAAAAATGTGGTATGTATTCATACAA
Found at i:19305986 original size:11 final size:11
Alignment explanation
Indices: 19305972--19306001 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
19305962 GCTAACGATG
19305972 TGAATATGCAA
1 TGAATATGCAA
*
19305983 TGAATATGCAG
1 TGAATATGCAA
19305994 TGAATATG
1 TGAATATG
19306002 TATGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (11 bp):
TGAATATGCAA
Found at i:19307544 original size:46 final size:45
Alignment explanation
Indices: 19307469--19307626 Score: 147
Period size: 46 Copynumber: 3.4 Consensus size: 45
19307459 TTATATTACA
* * *
19307469 AACTTAAGAATATAGGAATAGGTTTCGAGCTCCTACGTATGTTGTG
1 AACTCAAGAATACAAGAATAGGTTTCGAGCTCCT-CGTATGTTGTG
* * * * *
19307515 GACTCAAGAATACATGAATAGGTTCCGAGCTCCTGCATATGTTGCG
1 AACTCAAGAATACAAGAATAGGTTTCGAGCTCCT-CGTATGTTGTG
** * *
19307561 AACTTGAGAATACAAAAATAGGTTTTGAGCTCCT-GTATAAGTTGTG
1 AACTCAAGAATACAAGAATAGGTTTCGAGCTCCTCGTAT--GTTGTG
* *
19307607 AACTCGAGAATACAATAATA
1 AACTCAAGAATACAAGAATA
19307627 TTAAGCCCTG
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
44 3 0.03
46 88 0.97
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
AACTCAAGAATACAAGAATAGGTTTCGAGCTCCTCGTATGTTGTG
Found at i:19320510 original size:49 final size:50
Alignment explanation
Indices: 19320432--19320557 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 50
19320422 AATAATATGC
* * * * *
19320432 CAAA-GCCATGTCCCAGACATGGTCATACATGGGATGTT-TCCTGT-ACTG
1 CAAATGCCATGTCCCAGATATGGTCTTACATAGGA-GTTCTCATATCACTG
* *
19320480 CAAATGCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCAGTG
1 CAAATGCCATGTCCCAGATATGGTCTTACATAGGAGTTCTCATATCACTG
*
19320530 C-CATGCCATGTCCCAGATATGGTCTTAC
1 CAAATGCCATGTCCCAGATATGGTCTTAC
19320558 GGGGGACCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
48 7 0.11
49 55 0.83
50 4 0.06
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (50 bp):
CAAATGCCATGTCCCAGATATGGTCTTACATAGGAGTTCTCATATCACTG
Found at i:19320570 original size:49 final size:50
Alignment explanation
Indices: 19320482--19320608 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 50
19320472 CTGTACTGCA
* * ** * *
19320482 AATGCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCAGTGCC
1 AATGCCATGTCCCAGATATGGTCTTACAGAGGACCTCTCAGATCAGTACC
* * *
19320532 -ATGCCATGTCCCAGATATGGTCTTACGGGGGACCTCTCAGCTCAGTACC
1 AATGCCATGTCCCAGATATGGTCTTACAGAGGACCTCTCAGATCAGTACC
** *
19320581 AACACCATGTCCCAGACATGGTCTTACA
1 AATGCCATGTCCCAGATATGGTCTTACA
19320609 TGGGGTCTCA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
49 40 0.63
50 23 0.37
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (50 bp):
AATGCCATGTCCCAGATATGGTCTTACAGAGGACCTCTCAGATCAGTACC
Found at i:19324086 original size:68 final size:68
Alignment explanation
Indices: 19323972--19324098 Score: 182
Period size: 68 Copynumber: 1.9 Consensus size: 68
19323962 AGCCTATAAG
* * * **
19323972 AGTGTAAGACCATAGCTAGGCTATGGCAATATATAAAGTCCGCCAGGACAGTAAACATGGCACCA
1 AGTGTAAGACCAAAGCTAGGCTATGACAACATATAAAGTCAACCAGGACAGTAAACATGGCACCA
19324037 TAT
66 TAT
* * *
19324040 AGTGTAAGACCAAAGCTGGGCTATGACAACATATGAAGTCAACCAGGATAGTAAACATG
1 AGTGTAAGACCAAAGCTAGGCTATGACAACATATAAAGTCAACCAGGACAGTAAACATG
19324099 ACTTCATCTA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 51 1.00
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.20
Consensus pattern (68 bp):
AGTGTAAGACCAAAGCTAGGCTATGACAACATATAAAGTCAACCAGGACAGTAAACATGGCACCA
TAT
Found at i:19324117 original size:68 final size:68
Alignment explanation
Indices: 19323972--19324119 Score: 161
Period size: 68 Copynumber: 2.2 Consensus size: 68
19323962 AGCCTATAAG
* * * * ** *
19323972 AGTGTAAGACCATAGCTAGGCTATGGCAATATATAAAGTCCGCCAGGACAGTAAACATGGCACCA
1 AGTGCAAGACCAAAGCTAGGCTATGACAACATATAAAGTCAACCAGGACAGTAAACATGACACCA
19324037 TAT
66 TAT
* * * * **
19324040 AGTGTAAGACCAAAGCTGGGCTATGACAACATATGAAGTCAACCAGGATAGTAAACATGACTTCA
1 AGTGCAAGACCAAAGCTAGGCTATGACAACATATAAAGTCAACCAGGACAGTAAACATGACACCA
*
19324105 TCT
66 TAT
*
19324108 ATTGCAAGACCA
1 AGTGCAAGACCA
19324120 TAGTTTCACT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (68 bp):
AGTGCAAGACCAAAGCTAGGCTATGACAACATATAAAGTCAACCAGGACAGTAAACATGACACCA
TAT
Found at i:19331867 original size:24 final size:24
Alignment explanation
Indices: 19331818--19331869 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
19331808 ATGGCACTAC
* *
19331818 AAATGTAAAGGATGAATTGATAGA
1 AAATGTAAACGATGAATTGACAGA
*
19331842 AAATGTAAACGATGAATTGACGGA
1 AAATGTAAACGATGAATTGACAGA
19331866 AAAT
1 AAAT
19331870 TACCCAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.04, G:0.23, T:0.23
Consensus pattern (24 bp):
AAATGTAAACGATGAATTGACAGA
Found at i:19331944 original size:21 final size:21
Alignment explanation
Indices: 19331920--19331964 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
19331910 CTTGTTTACT
*
19331920 TTCCATTTAGCTCTTACGAGC
1 TTCCATTCAGCTCTTACGAGC
**
19331941 TTCCATTCAGCTCTTTTGAGC
1 TTCCATTCAGCTCTTACGAGC
19331962 TTC
1 TTC
19331965 AGTTTAACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.29, G:0.13, T:0.42
Consensus pattern (21 bp):
TTCCATTCAGCTCTTACGAGC
Found at i:19332000 original size:42 final size:42
Alignment explanation
Indices: 19331941--19332090 Score: 183
Period size: 42 Copynumber: 3.6 Consensus size: 42
19331931 TCTTACGAGC
* *
19331941 TTCCATTCAGCTCTTTTGAGCTTCAGTTTAACCCTTATTGGT
1 TTCCATTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * *
19331983 TTCCATTCAGCTCTTTTGAGCTTTAGTTTAACCCCTATGGGT
1 TTCCATTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* ** * *
19332025 TTCCGTTCAGCTCTTACAAGCTTCCGTTCAACCCTTATGGGT
1 TTCCATTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * *
19332067 TTCCGTTTAGCTCTCATGAGCTTC
1 TTCCATTCAGCTCTTATGAGCTTC
19332091 TGTTCCCTTC
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 93 1.00
ACGTcount: A:0.16, C:0.27, G:0.16, T:0.41
Consensus pattern (42 bp):
TTCCATTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
Found at i:19332070 original size:21 final size:21
Alignment explanation
Indices: 19332012--19332073 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
19332002 GCTTTAGTTT
*
19332012 AACCCCTATGGGTTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
* * *** *
19332033 AGCTCTTACAAGCTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
19332054 AACCCTTATGGGTTTCCGTT
1 AACCCTTATGGGTTTCCGTT
19332074 TAGCTCTCAT
Statistics
Matches: 28, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.31, G:0.18, T:0.35
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCGTTC
Found at i:19334860 original size:13 final size:13
Alignment explanation
Indices: 19334842--19334907 Score: 64
Period size: 13 Copynumber: 5.0 Consensus size: 13
19334832 TTTCAGGTGG
19334842 AAAATGATTATAT
1 AAAATGATTATAT
19334855 AAAATGATTATAT
1 AAAATGATTATAT
* *
19334868 -GAATCAGTTATAT
1 AAAATGA-TTATAT
*
19334881 AGAAATAGA-TATAC
1 A-AAAT-GATTATAT
19334895 AAAATGATTATAT
1 AAAATGATTATAT
19334908 CAATCAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
12 6 0.14
13 27 0.64
14 5 0.12
15 3 0.07
16 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.11, T:0.35
Consensus pattern (13 bp):
AAAATGATTATAT
Found at i:19334904 original size:40 final size:40
Alignment explanation
Indices: 19334850--19334933 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
19334840 GGAAAATGAT
* * *
19334850 TATATAAAATGATTATATGAATCAGTTATATAGAAATAGA
1 TATACAAAATGATTATATCAATCAATTATATAGAAATAGA
*
19334890 TATACAAAATGATTATATCAATCAATTATATGGAAATAGA
1 TATACAAAATGATTATATCAATCAATTATATAGAAATAGA
19334930 TATA
1 TATA
19334934 TGAATTGTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.35
Consensus pattern (40 bp):
TATACAAAATGATTATATCAATCAATTATATAGAAATAGA
Found at i:19338121 original size:37 final size:37
Alignment explanation
Indices: 19338071--19338150 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
19338061 ACAATTTACT
19338071 TACTTTTCTATCTCAGAGAATATCTATACCAAGTATC
1 TACTTTTCTATCTCAGAGAATATCTATACCAAGTATC
19338108 TACTTTTCTATCTCAGAGAATATCTATACCAAGTATC
1 TACTTTTCTATCTCAGAGAATATCTATACCAAGTATC
*
19338145 TTCTTT
1 TACTTT
19338151 GTTGGTCTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (37 bp):
TACTTTTCTATCTCAGAGAATATCTATACCAAGTATC
Found at i:19339601 original size:18 final size:19
Alignment explanation
Indices: 19339578--19339613 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
19339568 TCTATGAGGA
19339578 GGTATTTT-TTTATTTTCT
1 GGTATTTTATTTATTTTCT
*
19339596 GGTATTTTATTTGTTTTC
1 GGTATTTTATTTATTTTC
19339614 CCGTCTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.06, G:0.14, T:0.69
Consensus pattern (19 bp):
GGTATTTTATTTATTTTCT
Found at i:19340530 original size:42 final size:42
Alignment explanation
Indices: 19340480--19340674 Score: 200
Period size: 43 Copynumber: 4.6 Consensus size: 42
19340470 AGATTCCCCG
* * * *
19340480 AGGGGTTGTTAAGTGCTGATTCCCTGAATTATTGATTCT-AA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTGAA
*
19340521 AGGTGGTTGTTAAGTGCTGATTCCACCGTA-TATTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATTA-TTGATTGTGAA
* * * * *
19340565 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTGAA
*
19340606 AGGTGGTTGCTAAGTGTTGATTCCACCGTATCT-TTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGATTGTGAA
*
19340650 AGGGGTTGCTATGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
19340675 ATATCACTGA
Statistics
Matches: 128, Mismatches: 17, Indels: 17
0.79 0.10 0.10
Matches are distributed among these distances:
41 8 0.06
42 52 0.41
43 58 0.45
44 10 0.08
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (42 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTGAA
Found at i:19340627 original size:85 final size:84
Alignment explanation
Indices: 19340480--19340715 Score: 328
Period size: 85 Copynumber: 2.8 Consensus size: 84
19340470 AGATTCCCCG
* * * * * * * * *
19340480 AGGGGTTGTTAAGTGCTGATTCCCTGAATTATTGATTCTAAAGGTGGTTGTTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGTTGATTCC
19340545 ACCGTATATTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
19340565 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGTTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGTTGATTCC
*
19340630 ACCGTATCTTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
* * * *
19340650 AGGGGTTGCTATGTGCTGATTCCCCATATCACTGAATTTAAGGTGGTTGCTAAATGTTGAATCCA
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGTTGATTCCA
19340715 C
66 C
19340716 TAAGTAACGG
Statistics
Matches: 136, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 26 0.19
85 110 0.81
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.36
Consensus pattern (84 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGTTGATTCCA
CCGTATATTTGATTGTGAA
Found at i:19354659 original size:61 final size:61
Alignment explanation
Indices: 19354564--19354685 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
19354554 AATCAATTAA
19354564 TTGTTACAACAACTCTAGCATATTTAGTATGAACTCTCTCATCCAATCAACATTTTCAACT
1 TTGTTACAACAACTCTAGCATATTTAGTATGAACTCTCTCATCCAATCAACATTTTCAACT
19354625 TTGTTACAACAACTCTAGCATATTTAGTATGAACTCTCTCATCCAATCAACATTTTCAACT
1 TTGTTACAACAACTCTAGCATATTTAGTATGAACTCTCTCATCCAATCAACATTTTCAACT
19354686 GAAGATTGTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.36
Consensus pattern (61 bp):
TTGTTACAACAACTCTAGCATATTTAGTATGAACTCTCTCATCCAATCAACATTTTCAACT
Found at i:19360395 original size:22 final size:23
Alignment explanation
Indices: 19360367--19360411 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19360357 ATACAATCGT
*
19360367 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATATAATCTTAGA
*
19360389 AGATATGATTTTATAATCTTAGA
1 AGATATGATTATATAATCTTAGA
19360412 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (23 bp):
AGATATGATTATATAATCTTAGA
Found at i:19360426 original size:23 final size:23
Alignment explanation
Indices: 19360379--19360426 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
19360369 ATATGATATG
*
19360379 TAATCTTAGAAGATATGATTTTA
1 TAATCTTAGAAGATATAATTTTA
*
19360402 TAATCTTAG-AGATTTAATTTGTA
1 TAATCTTAGAAGATATAATTT-TA
19360425 TA
1 TA
19360427 TACCTTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTA
Found at i:19368603 original size:56 final size:56
Alignment explanation
Indices: 19368504--19368661 Score: 226
Period size: 56 Copynumber: 2.8 Consensus size: 56
19368494 GAGGGGGTGT
* * * *
19368504 TAAGATATTATTATGGGATTTTATCTTTTTAGCAATTTAATTCCTAATGAGATGTTA
1 TAAGATATTATTATGGGATATTATC-TTTTAGCAATTTGATTCCTAACGAGATATTA
* * * *
19368561 TAGGATGTTATTATGAGATATTATCTCTTAGCAATTTGATTCCTAACGAGATATTA
1 TAAGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAACGAGATATTA
*
19368617 TAAGATATTATTATGGGGTATTATCTTTTAGCAATTTGATTCCTA
1 TAAGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
19368662 CATAACTACT
Statistics
Matches: 88, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
56 67 0.76
57 21 0.24
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (56 bp):
TAAGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAACGAGATATTA
Found at i:19370031 original size:14 final size:15
Alignment explanation
Indices: 19370008--19370036 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19369998 TTTTTATTAA
19370008 TTTAATTTTCAATTT
1 TTTAATTTTCAATTT
19370023 TTTAA-TTTCAATTT
1 TTTAATTTTCAATTT
19370037 AATCATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTAATTTTCAATTT
Found at i:19370209 original size:10 final size:9
Alignment explanation
Indices: 19370186--19370261 Score: 61
Period size: 9 Copynumber: 8.7 Consensus size: 9
19370176 GTCAGCCTAA
19370186 TAAAAATTT
1 TAAAAATTT
19370195 TAAAAATTT
1 TAAAAATTT
*
19370204 TAAAAATAT
1 TAAAAATTT
*
19370213 TCAAAA--T
1 TAAAAATTT
19370220 TAAAAA-TT
1 TAAAAATTT
* *
19370228 AAAAAATATA
1 TAAAAAT-TT
*
19370238 TAAAAATTCA
1 TAAAAATT-T
19370248 TAAAAA-TT
1 TAAAAATTT
19370256 TAAAAA
1 TAAAAA
19370262 GAGAGCATGA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
7 6 0.11
8 12 0.21
9 24 0.43
10 14 0.25
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAAATTT
Found at i:19370224 original size:24 final size:25
Alignment explanation
Indices: 19370185--19370245 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
19370175 TGTCAGCCTA
*
19370185 ATAAAAATTTTAAAAATTTTAAAAATAT
1 ATAAAAA--TTAAAAA-TTAAAAAATAT
*
19370213 -TCAAAATTAAAAATTAAAAAATAT
1 ATAAAAATTAAAAATTAAAAAATAT
19370237 ATAAAAATT
1 ATAAAAATT
19370246 CATAAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 10 0.34
25 14 0.48
27 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
ATAAAAATTAAAAATTAAAAAATAT
Found at i:19372747 original size:6 final size:6
Alignment explanation
Indices: 19372738--19372771 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
19372728 AACATAATTA
19372738 TAATAT TAATAT TAATAT TAATAT TAATAT TAAT
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAAT
19372772 TATCACATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATAT
Found at i:19374685 original size:44 final size:44
Alignment explanation
Indices: 19374637--19374860 Score: 225
Period size: 44 Copynumber: 5.1 Consensus size: 44
19374627 GAGGTATAGA
* * *
19374637 ATTTGTCGCTTCAATCTGCTCCACCGCAACTTCAGGAAGATAAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
19374681 ATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGACAAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * **
19374725 A-TTGTGGCTTTTAGTCTATTCCACTGCAACTTCAGGGAGATAAG
1 ATTTGTAGC-TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
19374769 ATTTGTTGTTTCAATCTGCTCTACTGCAACTTCAGAGATATTAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* ** * **
19374813 ATTTATATATTTAATCTGCTCCACTTGCAACTTCAAAGAGATAAG
1 ATTTGTAGCTTCAATCTGCTCCAC-TGCAACTTCAGGGAGATAAG
19374858 ATT
1 ATT
19374861 CGCTATGGTA
Statistics
Matches: 146, Mismatches: 31, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
43 6 0.04
44 115 0.79
45 25 0.17
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
Found at i:19378467 original size:26 final size:25
Alignment explanation
Indices: 19378409--19378474 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
19378399 AAGCAAGCAC
* * *
19378409 TAACAGGAAGCTCACAAAGAGCCTT
1 TAACGGGAAGCTCACAAAGAGCATA
*
19378434 TAATCGGGAAGCTCACGAAGAGACATA
1 TAA-CGGGAAGCTCACAAAGAG-CATA
*
19378461 TAACGGGACGCTCA
1 TAACGGGAAGCTCA
19378475 TAAGAGCTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 26 0.76
27 5 0.15
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (25 bp):
TAACGGGAAGCTCACAAAGAGCATA
Found at i:19388103 original size:5 final size:5
Alignment explanation
Indices: 19388093--19388117 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19388083 GACTAAATTC
19388093 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
19388118 GGTGCAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:19389779 original size:41 final size:41
Alignment explanation
Indices: 19389720--19389865 Score: 247
Period size: 41 Copynumber: 3.6 Consensus size: 41
19389710 ACTGGCATAA
* *
19389720 AGCCTGCTAGACACAAAGCCCGATACATTTCACCGGCACAG
1 AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
*
19389761 AGCCTGCTAGGCATAAAGCCTGATACATTTCACCGGCACAG
1 AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
* *
19389802 AGCATGCTAGGCATAAAGCCCAATACATTTCACCGGCACAG
1 AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
19389843 AGCCTGCTAGGCATAAAGCCCGA
1 AGCCTGCTAGGCATAAAGCCCGA
19389866 ACTTACAAAA
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.32, C:0.31, G:0.21, T:0.16
Consensus pattern (41 bp):
AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
Found at i:19390069 original size:47 final size:47
Alignment explanation
Indices: 19389983--19390449 Score: 353
Period size: 47 Copynumber: 9.3 Consensus size: 47
19389973 TTTATTTCAG
*
19389983 TGCATAACAAATATATATATACATTCGGCCATAGTTTAATTCATTTCTC
1 TGCATAAC-AAT-TATATATACATTCGGCCATAGATTAATTCATTTCTC
* * * **
19390032 TGCATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAA
1 TGCATAACAATTATATATACATTCGGCCATAGATTAATTCATTTCTC
* * *
19390079 TGTATAACAAATATATATATATACATTCGGCCATAGTTTAATTTATTTCTC
1 TGCATAAC--A-AT-TATATATACATTCGGCCATAGATTAATTCATTTCTC
* * * *
19390130 TGCATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAAC
1 TGCATAACAATTATATATACATTCGGCCATAGATTAATTCATTTC-TC
* * * *
19390178 -GTATAACAAATATATATACATTCGGCCATAGTTTAATTTATTTCTC
1 TGCATAACAATTATATATACATTCGGCCATAGATTAATTCATTTCTC
* * * **
19390224 TGCATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAA
1 TGCATAACAATTATATATACATTCGGCCATAGATTAATTCATTTCTC
* * *
19390271 TGTATAACAAATATATATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATT
1 TGCATAAC------A-AT-TATATATACATTCGGCCAT-A--GAT-TAA-TTC-----A-TT-TC
19390336 TC
46 TC
* * *
19390338 AATGCATAACAAATATATATACATTTGGCCATAGTTTAATTCATTTCTC
1 --TGCATAACAATTATATATACATTCGGCCATAGATTAATTCATTTCTC
* * * *
19390387 TACATAACAATTACATATACATTCAGCTATAGATTAATTCATTT-TC
1 TGCATAACAATTATATATACATTCGGCCATAGATTAATTCATTTCTC
*
19390433 ATGCATAACAAATATAT
1 -TGCATAACAATTATAT
19390450 TTATATATAT
Statistics
Matches: 327, Mismatches: 62, Indels: 60
0.73 0.14 0.13
Matches are distributed among these distances:
46 3 0.01
47 197 0.60
48 6 0.02
49 13 0.04
50 4 0.01
51 37 0.11
53 1 0.00
54 2 0.01
55 16 0.05
56 4 0.01
57 3 0.01
58 3 0.01
59 3 0.01
60 4 0.01
61 18 0.06
62 1 0.00
63 1 0.00
65 1 0.00
66 2 0.01
67 1 0.00
69 7 0.02
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (47 bp):
TGCATAACAATTATATATACATTCGGCCATAGATTAATTCATTTCTC
Found at i:19390254 original size:94 final size:96
Alignment explanation
Indices: 19389970--19390291 Score: 567
Period size: 98 Copynumber: 3.4 Consensus size: 96
19389960 TAACTTCAAA
* * * *
19389970 TAATTTATTTCAGTGCATAACAAATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTGC
1 TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
19390035 ATAACAATTACATATACATTCAGCTATAGAT
66 ATAACAATTACATATACATTCAGCTATAGAT
19390066 TAATTCATTTCAATGTATAACAAATATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
1 TAATTCATTTCAATGTATAAC-AA-ATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
19390131 GCATAACAATTACATATACATTCAGCTATAGAT
64 GCATAACAATTACATATACATTCAGCTATAGAT
*
19390164 TAATTCATTTCAACGTATAAC-AA-ATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
1 TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
19390227 ATAACAATTACATATACATTCAGCTATAGAT
66 ATAACAATTACATATACATTCAGCTATAGAT
19390258 TAATTCATTTCAATGTATAACAAATATATATATA
1 TAATTCATTTCAATGTATAACAAATATATATATA
19390292 TATATACATT
Statistics
Matches: 216, Mismatches: 6, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
94 91 0.42
95 3 0.01
96 28 0.13
97 2 0.01
98 92 0.43
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (96 bp):
TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGC
ATAACAATTACATATACATTCAGCTATAGAT
Found at i:19390443 original size:163 final size:163
Alignment explanation
Indices: 19390164--19390466 Score: 518
Period size: 163 Copynumber: 1.9 Consensus size: 163
19390154 AGCTATAGAT
* * *
19390164 TAATTCATTTCAACGTATAACAAATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGCAT
1 TAATTCATTTCAACGCATAACAAATATATATACATTCGGCCATAGTTTAATTCATTTCTCTACAT
*
19390229 AACAATTACATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATATATATA
66 AACAATTACATATACATTCAGCTATAGATTAATTCATTTCAATGCATAACAAATATATATATATA
19390294 TATACATTCGGCCATAACCTATGTAATTTCAAA
131 TATACATTCGGCCATAACCTATGTAATTTCAAA
* * *
19390327 TAATTTATTTCAATGCATAACAAATATATATACATTTGGCCATAGTTTAATTCATTTCTCTACAT
1 TAATTCATTTCAACGCATAACAAATATATATACATTCGGCCATAGTTTAATTCATTTCTCTACAT
*
19390392 AACAATTACATATACATTCAGCTATAGATTAATTCATTTTC-ATGCATAACAAATATATTTATAT
66 AACAATTACATATACATTCAGCTATAGATTAATTCA-TTTCAATGCATAACAAATATATATATAT
19390456 ATATACATTCG
130 ATATACATTCG
19390467 TAGTTAATTT
Statistics
Matches: 131, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
163 127 0.97
164 4 0.03
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (163 bp):
TAATTCATTTCAACGCATAACAAATATATATACATTCGGCCATAGTTTAATTCATTTCTCTACAT
AACAATTACATATACATTCAGCTATAGATTAATTCATTTCAATGCATAACAAATATATATATATA
TATACATTCGGCCATAACCTATGTAATTTCAAA
Found at i:19395864 original size:18 final size:17
Alignment explanation
Indices: 19395841--19395894 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
19395831 TGGTTATAGT
19395841 TTTTAAAACCATTAAAAA
1 TTTTAAAA-CATTAAAAA
19395859 TTTTAAATA-ATTTAAAAA
1 TTTTAAA-ACA-TTAAAAA
*
19395877 TTATAAAACA-TAAAAA
1 TTTTAAAACATTAAAAA
19395893 TT
1 TT
19395895 ATATAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 8 0.25
17 2 0.06
18 21 0.66
19 1 0.03
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
TTTTAAAACATTAAAAA
Done.