Multiple sequence alignment - TraesCS2D01G438100

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2D01G438100 chr2D 100.000 3191 0 0 1 3191 547770381 547773571 0.000000e+00 5893.0
1 TraesCS2D01G438100 chr2D 79.118 680 77 36 29 653 158101214 158100545 2.960000e-110 409.0
2 TraesCS2D01G438100 chr2D 79.294 652 72 26 49 653 143311318 143311953 6.410000e-107 398.0
3 TraesCS2D01G438100 chr2D 85.764 288 36 4 1970 2257 547777706 547777988 1.860000e-77 300.0
4 TraesCS2D01G438100 chr2D 82.036 334 40 14 44 363 61007646 61007319 1.890000e-67 267.0
5 TraesCS2D01G438100 chr2D 79.603 353 52 13 1947 2293 547954428 547954766 5.320000e-58 235.0
6 TraesCS2D01G438100 chr2D 84.416 154 11 7 1430 1571 256671677 256671525 4.290000e-29 139.0
7 TraesCS2D01G438100 chr2D 88.000 100 8 4 1471 1567 293659740 293659838 7.230000e-22 115.0
8 TraesCS2D01G438100 chr2D 82.114 123 17 5 1441 1560 176071019 176071139 2.030000e-17 100.0
9 TraesCS2D01G438100 chr2D 76.415 212 33 15 1 198 161398093 161397885 7.280000e-17 99.0
10 TraesCS2D01G438100 chr2D 80.916 131 15 3 2209 2329 547803914 547804044 9.420000e-16 95.3
11 TraesCS2D01G438100 chr2A 85.209 2853 231 86 4 2739 691175548 691172770 0.000000e+00 2754.0
12 TraesCS2D01G438100 chr2A 82.116 794 104 20 1591 2372 691143493 691142726 0.000000e+00 645.0
13 TraesCS2D01G438100 chr2A 82.667 525 70 12 1628 2140 691121745 691121230 2.260000e-121 446.0
14 TraesCS2D01G438100 chr2A 92.268 194 14 1 2739 2932 691171200 691171008 1.130000e-69 274.0
15 TraesCS2D01G438100 chr2A 87.562 201 25 0 2932 3132 691170978 691170778 1.910000e-57 233.0
16 TraesCS2D01G438100 chr2A 84.416 154 11 7 1430 1571 252092320 252092472 4.290000e-29 139.0
17 TraesCS2D01G438100 chr2A 88.462 104 11 1 1078 1180 691122732 691122629 1.200000e-24 124.0
18 TraesCS2D01G438100 chr2B 89.950 597 27 8 851 1415 654373850 654374445 0.000000e+00 739.0
19 TraesCS2D01G438100 chr2B 90.351 570 43 6 1750 2319 654374651 654375208 0.000000e+00 737.0
20 TraesCS2D01G438100 chr2B 83.291 796 97 17 1589 2372 654529189 654529960 0.000000e+00 701.0
21 TraesCS2D01G438100 chr2B 79.950 803 97 32 2357 3123 654375209 654375983 1.690000e-147 532.0
22 TraesCS2D01G438100 chr2B 83.803 426 58 4 1950 2372 654718309 654718726 8.300000e-106 394.0
23 TraesCS2D01G438100 chr2B 83.099 426 61 4 1950 2372 654646232 654646649 8.360000e-101 377.0
24 TraesCS2D01G438100 chr2B 82.864 426 62 4 1950 2372 654696292 654696709 3.890000e-99 372.0
25 TraesCS2D01G438100 chr2B 82.394 426 64 2 1950 2372 654677509 654677926 8.410000e-96 361.0
26 TraesCS2D01G438100 chr2B 83.333 396 55 4 1950 2342 654667422 654667809 3.920000e-94 355.0
27 TraesCS2D01G438100 chr2B 88.077 260 31 0 2932 3191 654420483 654420742 3.090000e-80 309.0
28 TraesCS2D01G438100 chr2B 80.645 372 57 9 1589 1952 654644069 654644433 1.130000e-69 274.0
29 TraesCS2D01G438100 chr2B 80.645 372 57 10 1589 1952 654665354 654665718 1.130000e-69 274.0
30 TraesCS2D01G438100 chr2B 80.645 372 57 9 1589 1952 654675351 654675715 1.130000e-69 274.0
31 TraesCS2D01G438100 chr2B 80.645 372 57 9 1589 1952 654694137 654694501 1.130000e-69 274.0
32 TraesCS2D01G438100 chr2B 79.570 372 61 11 1589 1952 654716122 654716486 5.280000e-63 252.0
33 TraesCS2D01G438100 chr2B 89.655 145 12 1 2732 2873 654376798 654376942 7.030000e-42 182.0
34 TraesCS2D01G438100 chr2B 86.061 165 16 4 1589 1747 654374458 654374621 1.520000e-38 171.0
35 TraesCS2D01G438100 chr2B 85.065 154 10 7 1430 1571 288939922 288939770 9.230000e-31 145.0
36 TraesCS2D01G438100 chr2B 94.382 89 5 0 732 820 654373759 654373847 1.540000e-28 137.0
37 TraesCS2D01G438100 chr1B 80.439 547 76 23 135 653 605017891 605018434 3.860000e-104 388.0
38 TraesCS2D01G438100 chr1B 76.865 657 92 35 43 658 676186315 676186952 1.850000e-82 316.0
39 TraesCS2D01G438100 chr1B 81.308 321 39 15 46 351 398000665 398000351 1.140000e-59 241.0
40 TraesCS2D01G438100 chr1B 83.974 156 11 7 1429 1572 518807888 518808041 1.540000e-28 137.0
41 TraesCS2D01G438100 chr3B 81.818 484 64 13 107 570 593058893 593059372 4.990000e-103 385.0
42 TraesCS2D01G438100 chr7A 79.964 549 61 23 43 548 602102045 602102587 3.030000e-95 359.0
43 TraesCS2D01G438100 chr7A 77.755 481 63 20 210 651 77469192 77469667 4.080000e-64 255.0
44 TraesCS2D01G438100 chr5B 79.182 538 83 20 46 560 443269806 443269275 2.360000e-91 346.0
45 TraesCS2D01G438100 chr5B 84.167 120 7 4 1430 1537 278229909 278229790 4.350000e-19 106.0
46 TraesCS2D01G438100 chr3D 78.637 543 87 18 130 651 469167396 469166862 1.830000e-87 333.0
47 TraesCS2D01G438100 chr3D 82.979 329 42 11 43 363 597863390 597863068 5.210000e-73 285.0
48 TraesCS2D01G438100 chr3D 87.500 152 8 4 1429 1569 76231145 76230994 7.080000e-37 165.0
49 TraesCS2D01G438100 chr3D 86.928 153 9 4 1429 1570 73853087 73853239 9.160000e-36 161.0
50 TraesCS2D01G438100 chr3D 100.000 30 0 0 1430 1459 563692621 563692592 4.450000e-04 56.5
51 TraesCS2D01G438100 chr7B 78.089 607 72 32 103 653 331008533 331009134 8.530000e-86 327.0
52 TraesCS2D01G438100 chr7B 94.000 50 2 1 1430 1478 107649539 107649490 1.230000e-09 75.0
53 TraesCS2D01G438100 chr7D 76.615 650 99 31 43 654 86076993 86076359 3.090000e-80 309.0
54 TraesCS2D01G438100 chr7D 82.059 340 39 12 329 656 20110954 20111283 1.460000e-68 270.0
55 TraesCS2D01G438100 chr7D 81.402 328 38 14 43 351 62236549 62236872 2.460000e-61 246.0
56 TraesCS2D01G438100 chr7D 80.000 130 9 11 1430 1544 109301461 109301588 2.640000e-11 80.5
57 TraesCS2D01G438100 chr6D 77.562 566 83 28 43 569 312191812 312192372 5.170000e-78 302.0
58 TraesCS2D01G438100 chr6D 84.286 140 17 5 1430 1568 153810792 153810657 7.180000e-27 132.0
59 TraesCS2D01G438100 chr6D 91.935 62 5 0 1471 1532 469057749 469057810 1.580000e-13 87.9
60 TraesCS2D01G438100 chr5D 81.493 335 43 12 43 363 232422157 232421828 1.140000e-64 257.0
61 TraesCS2D01G438100 chr5D 86.184 152 10 6 1432 1572 375306027 375306178 1.530000e-33 154.0
62 TraesCS2D01G438100 chr4A 81.682 333 40 19 43 363 485382579 485382902 1.140000e-64 257.0
63 TraesCS2D01G438100 chrUn 79.941 339 46 8 2006 2331 248123838 248124167 2.480000e-56 230.0
64 TraesCS2D01G438100 chrUn 79.762 336 46 9 2009 2331 346479337 346479011 1.150000e-54 224.0
65 TraesCS2D01G438100 chrUn 85.256 156 9 7 1429 1572 480163319 480163472 7.130000e-32 148.0
66 TraesCS2D01G438100 chr6B 74.497 596 78 28 130 653 526801184 526801777 1.170000e-44 191.0
67 TraesCS2D01G438100 chr6B 83.942 137 10 6 1430 1554 277616302 277616166 1.550000e-23 121.0
68 TraesCS2D01G438100 chr6B 85.047 107 12 3 1471 1577 201412075 201412177 4.350000e-19 106.0
69 TraesCS2D01G438100 chr4B 79.323 266 44 8 395 652 91187607 91187345 3.270000e-40 176.0
70 TraesCS2D01G438100 chr4B 89.286 84 8 1 1439 1521 413827400 413827483 1.570000e-18 104.0
71 TraesCS2D01G438100 chr1A 88.028 142 13 3 1433 1570 440793194 440793053 7.080000e-37 165.0
72 TraesCS2D01G438100 chr1A 85.256 156 9 7 1429 1572 486340622 486340775 7.130000e-32 148.0
73 TraesCS2D01G438100 chr1A 100.000 34 0 0 1430 1463 153293437 153293404 2.660000e-06 63.9
74 TraesCS2D01G438100 chr1D 85.256 156 9 7 1429 1572 386431957 386432110 7.130000e-32 148.0
75 TraesCS2D01G438100 chr5A 84.967 153 11 5 1430 1570 328945879 328945727 9.230000e-31 145.0
76 TraesCS2D01G438100 chr5A 83.660 153 12 7 1430 1570 6416804 6416955 7.180000e-27 132.0
77 TraesCS2D01G438100 chr6A 81.818 143 13 3 1430 1560 518790986 518791127 1.210000e-19 108.0
78 TraesCS2D01G438100 chr6A 88.710 62 7 0 1471 1532 617705568 617705629 3.410000e-10 76.8
79 TraesCS2D01G438100 chr4D 82.031 128 21 2 1439 1565 335771098 335771224 1.210000e-19 108.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G438100 chr2D 547770381 547773571 3190 False 5893.000000 5893 100.000000 1 3191 1 chr2D.!!$F4 3190
1 TraesCS2D01G438100 chr2D 158100545 158101214 669 True 409.000000 409 79.118000 29 653 1 chr2D.!!$R2 624
2 TraesCS2D01G438100 chr2D 143311318 143311953 635 False 398.000000 398 79.294000 49 653 1 chr2D.!!$F1 604
3 TraesCS2D01G438100 chr2A 691170778 691175548 4770 True 1087.000000 2754 88.346333 4 3132 3 chr2A.!!$R3 3128
4 TraesCS2D01G438100 chr2A 691142726 691143493 767 True 645.000000 645 82.116000 1591 2372 1 chr2A.!!$R1 781
5 TraesCS2D01G438100 chr2A 691121230 691122732 1502 True 285.000000 446 85.564500 1078 2140 2 chr2A.!!$R2 1062
6 TraesCS2D01G438100 chr2B 654529189 654529960 771 False 701.000000 701 83.291000 1589 2372 1 chr2B.!!$F2 783
7 TraesCS2D01G438100 chr2B 654373759 654376942 3183 False 416.333333 739 88.391500 732 3123 6 chr2B.!!$F3 2391
8 TraesCS2D01G438100 chr2B 654644069 654646649 2580 False 325.500000 377 81.872000 1589 2372 2 chr2B.!!$F4 783
9 TraesCS2D01G438100 chr2B 654694137 654696709 2572 False 323.000000 372 81.754500 1589 2372 2 chr2B.!!$F7 783
10 TraesCS2D01G438100 chr2B 654716122 654718726 2604 False 323.000000 394 81.686500 1589 2372 2 chr2B.!!$F8 783
11 TraesCS2D01G438100 chr2B 654675351 654677926 2575 False 317.500000 361 81.519500 1589 2372 2 chr2B.!!$F6 783
12 TraesCS2D01G438100 chr2B 654665354 654667809 2455 False 314.500000 355 81.989000 1589 2342 2 chr2B.!!$F5 753
13 TraesCS2D01G438100 chr1B 605017891 605018434 543 False 388.000000 388 80.439000 135 653 1 chr1B.!!$F2 518
14 TraesCS2D01G438100 chr1B 676186315 676186952 637 False 316.000000 316 76.865000 43 658 1 chr1B.!!$F3 615
15 TraesCS2D01G438100 chr7A 602102045 602102587 542 False 359.000000 359 79.964000 43 548 1 chr7A.!!$F2 505
16 TraesCS2D01G438100 chr5B 443269275 443269806 531 True 346.000000 346 79.182000 46 560 1 chr5B.!!$R2 514
17 TraesCS2D01G438100 chr3D 469166862 469167396 534 True 333.000000 333 78.637000 130 651 1 chr3D.!!$R2 521
18 TraesCS2D01G438100 chr7B 331008533 331009134 601 False 327.000000 327 78.089000 103 653 1 chr7B.!!$F1 550
19 TraesCS2D01G438100 chr7D 86076359 86076993 634 True 309.000000 309 76.615000 43 654 1 chr7D.!!$R1 611
20 TraesCS2D01G438100 chr6D 312191812 312192372 560 False 302.000000 302 77.562000 43 569 1 chr6D.!!$F1 526

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
712 835 0.459585 CCAGGAGTTAAGCGCGCTAA 60.46 55.0 36.73 24.21 0.0 3.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2678 5326 0.031449 TTAAGTTGCTTGGTTGCGCC 59.969 50.0 4.18 0.0 35.36 6.53 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 0.946221 GTCACGACTGTGCCTCTTGG 60.946 60.000 0.00 0.00 46.01 3.61
177 194 1.125093 TTTCGGGAGAGTCAAGGCCA 61.125 55.000 5.01 0.00 41.75 5.36
218 258 4.700427 GCGTTTCTTTCGCGAGAC 57.300 55.556 9.59 3.87 43.94 3.36
270 310 1.372997 GCTTTCACGAGAGGCACGA 60.373 57.895 0.00 0.00 34.70 4.35
490 601 2.413796 TCCAACGATGAAAACGATTCGG 59.586 45.455 11.29 0.00 34.88 4.30
491 602 2.413796 CCAACGATGAAAACGATTCGGA 59.586 45.455 11.29 0.00 34.88 4.55
589 712 4.781959 GCACATGCAACGCGCCAT 62.782 61.111 5.73 3.50 41.33 4.40
660 783 5.962433 TCGATTAGTGATTTCGGAGAAAGT 58.038 37.500 1.70 0.00 45.90 2.66
684 807 6.729690 TTCATGGGAATCAAAATATGACCC 57.270 37.500 0.00 0.00 42.29 4.46
685 808 4.826733 TCATGGGAATCAAAATATGACCCG 59.173 41.667 0.00 0.00 44.02 5.28
705 828 4.645809 CTGGCCCAGGAGTTAAGC 57.354 61.111 1.63 0.00 0.00 3.09
706 829 1.450312 CTGGCCCAGGAGTTAAGCG 60.450 63.158 1.63 0.00 0.00 4.68
707 830 2.824489 GGCCCAGGAGTTAAGCGC 60.824 66.667 0.00 0.00 0.00 5.92
708 831 3.195698 GCCCAGGAGTTAAGCGCG 61.196 66.667 0.00 0.00 0.00 6.86
709 832 3.195698 CCCAGGAGTTAAGCGCGC 61.196 66.667 26.66 26.66 0.00 6.86
710 833 2.125512 CCAGGAGTTAAGCGCGCT 60.126 61.111 31.32 31.32 0.00 5.92
711 834 1.141019 CCAGGAGTTAAGCGCGCTA 59.859 57.895 36.73 18.30 0.00 4.26
712 835 0.459585 CCAGGAGTTAAGCGCGCTAA 60.460 55.000 36.73 24.21 0.00 3.09
713 836 1.355971 CAGGAGTTAAGCGCGCTAAA 58.644 50.000 36.73 23.21 0.00 1.85
714 837 1.730064 CAGGAGTTAAGCGCGCTAAAA 59.270 47.619 36.73 27.60 0.00 1.52
715 838 2.158841 CAGGAGTTAAGCGCGCTAAAAA 59.841 45.455 36.73 24.97 0.00 1.94
744 867 9.367444 AGTAGTAATAACCGACAAAAAGAGATG 57.633 33.333 0.00 0.00 0.00 2.90
763 886 4.400961 GCGGCCCACAAGCTCTCT 62.401 66.667 0.00 0.00 0.00 3.10
979 1106 1.689273 ACTGCAAGACTTCTCTCGGTT 59.311 47.619 0.00 0.00 37.43 4.44
1134 1274 2.282391 TTGGCAGCGCATCAGGTT 60.282 55.556 11.47 0.00 0.00 3.50
1244 1882 5.777850 TTGATTCTCCCGTCATATCGTTA 57.222 39.130 0.00 0.00 0.00 3.18
1277 1915 1.909700 ATTTGTTGTCCGAGCCATGT 58.090 45.000 0.00 0.00 0.00 3.21
1357 1995 0.110104 AGGATCTTGCTGCCCATAGC 59.890 55.000 0.00 0.00 43.95 2.97
1363 2016 1.250154 TTGCTGCCCATAGCCACAAC 61.250 55.000 0.00 0.00 43.02 3.32
1407 2128 5.751586 TGGGGTTAATTAAGATGGTCTCAC 58.248 41.667 0.00 0.00 0.00 3.51
1426 2147 9.315525 GGTCTCACCTAACTTAAGTTCATAATC 57.684 37.037 23.76 9.23 39.31 1.75
1428 2149 8.483758 TCTCACCTAACTTAAGTTCATAATCCC 58.516 37.037 23.76 0.00 39.31 3.85
1439 2160 4.077982 AGTTCATAATCCCTACTCCCTCCA 60.078 45.833 0.00 0.00 0.00 3.86
1452 2173 7.390027 CCTACTCCCTCCATTCACAAATATAG 58.610 42.308 0.00 0.00 0.00 1.31
1481 2214 9.123902 TGTTTTGGATATTCAATATGGACTGAG 57.876 33.333 0.00 0.00 0.00 3.35
1488 2221 9.368674 GATATTCAATATGGACTGAGATGAGTG 57.631 37.037 0.00 0.00 0.00 3.51
1495 2228 4.380531 TGGACTGAGATGAGTGAACAAAC 58.619 43.478 0.00 0.00 0.00 2.93
1496 2229 4.141733 TGGACTGAGATGAGTGAACAAACA 60.142 41.667 0.00 0.00 0.00 2.83
1497 2230 4.212214 GGACTGAGATGAGTGAACAAACAC 59.788 45.833 0.00 0.00 40.60 3.32
1498 2231 4.769688 ACTGAGATGAGTGAACAAACACA 58.230 39.130 0.00 0.00 42.45 3.72
1505 2238 5.041951 TGAGTGAACAAACACACTGAAAC 57.958 39.130 0.00 0.00 45.54 2.78
1506 2239 4.517075 TGAGTGAACAAACACACTGAAACA 59.483 37.500 0.00 0.00 45.54 2.83
1540 2273 7.553881 ACATCCGATTCACAAATAAGTTAGG 57.446 36.000 0.00 0.00 0.00 2.69
1541 2274 7.335627 ACATCCGATTCACAAATAAGTTAGGA 58.664 34.615 0.00 0.00 0.00 2.94
1622 2367 2.148768 TGCTCAGTTGCTGATGTTCTG 58.851 47.619 0.00 0.00 39.92 3.02
1647 2392 5.006941 GCTCATGTTTGTTGTTTGCTTCATT 59.993 36.000 0.00 0.00 0.00 2.57
1656 2401 7.301068 TGTTGTTTGCTTCATTTTCGAATTT 57.699 28.000 0.00 0.00 0.00 1.82
1693 2445 3.511477 TGAAAGAGTCTAAGAGGCCAGT 58.489 45.455 5.01 0.00 0.00 4.00
1697 2449 6.213600 TGAAAGAGTCTAAGAGGCCAGTAAAT 59.786 38.462 5.01 0.00 0.00 1.40
1707 2459 2.068519 GGCCAGTAAATGCTGTTTTGC 58.931 47.619 0.00 0.00 34.84 3.68
1732 2489 4.438200 CGTCAATTTAATGTGGGGTGCTAC 60.438 45.833 0.00 0.00 0.00 3.58
1733 2490 4.705023 GTCAATTTAATGTGGGGTGCTACT 59.295 41.667 0.00 0.00 0.00 2.57
1736 2493 5.968676 ATTTAATGTGGGGTGCTACTCTA 57.031 39.130 0.00 0.00 0.00 2.43
1743 2500 4.161565 TGTGGGGTGCTACTCTATTAGTTG 59.838 45.833 0.00 0.00 39.80 3.16
1745 2502 4.781087 TGGGGTGCTACTCTATTAGTTGTT 59.219 41.667 0.00 0.00 39.80 2.83
1765 2552 5.211973 TGTTAGCTATCTGGGATGAAGACT 58.788 41.667 0.00 0.00 0.00 3.24
1784 2572 8.243426 TGAAGACTTACATGTAATTCATTTGGC 58.757 33.333 27.82 14.84 34.09 4.52
1834 2622 7.841915 TGATAATTTGATGAAGTCGCTACAA 57.158 32.000 0.00 0.00 0.00 2.41
1847 2635 2.166459 TCGCTACAAGAGAATGACCCTG 59.834 50.000 0.00 0.00 0.00 4.45
1894 2682 5.279006 GGTGTGATTCTTCCCTTCCTTTTTC 60.279 44.000 0.00 0.00 0.00 2.29
1945 2737 2.037251 ACTACAGTTCGTTGCTGGATGT 59.963 45.455 8.07 0.00 38.22 3.06
1965 4585 6.293790 GGATGTAAACTAACGTTTTTGCTCCT 60.294 38.462 5.91 0.00 42.91 3.69
2020 4640 3.251571 GCGTTGAAGACTTCCGATAAGT 58.748 45.455 12.66 3.16 0.00 2.24
2028 4648 3.511934 AGACTTCCGATAAGTTGCTGAGT 59.488 43.478 4.86 0.00 0.00 3.41
2111 4731 2.359169 GGGGAGATCGTGCAGTGGA 61.359 63.158 0.00 0.00 0.00 4.02
2112 4732 1.690219 GGGGAGATCGTGCAGTGGAT 61.690 60.000 0.00 0.00 0.00 3.41
2206 4827 1.906333 TAGTGAGCTGTGGTGGCGA 60.906 57.895 0.00 0.00 34.52 5.54
2207 4828 2.154798 TAGTGAGCTGTGGTGGCGAC 62.155 60.000 0.00 0.00 34.52 5.19
2208 4829 4.662961 TGAGCTGTGGTGGCGACG 62.663 66.667 0.00 0.00 34.52 5.12
2209 4830 4.664677 GAGCTGTGGTGGCGACGT 62.665 66.667 0.00 0.00 34.52 4.34
2210 4831 4.969196 AGCTGTGGTGGCGACGTG 62.969 66.667 0.00 0.00 34.52 4.49
2245 4866 7.156876 TGTGTTTGATTATCCAAATCAGGAC 57.843 36.000 1.18 5.40 41.30 3.85
2248 4869 6.316140 TGTTTGATTATCCAAATCAGGACTCG 59.684 38.462 13.00 0.00 41.30 4.18
2270 4891 1.553706 CCTTTCCTGCCAGCATTCTT 58.446 50.000 0.00 0.00 0.00 2.52
2352 4976 1.272092 TGCTTCCAGGGTCCATTTCTG 60.272 52.381 0.00 0.00 0.00 3.02
2394 5018 2.132762 GGCAGTCCGTTGGATAATACG 58.867 52.381 0.00 0.00 32.73 3.06
2426 5051 7.667043 AAAGACGTGCATGTTTCTAAAGATA 57.333 32.000 13.92 0.00 0.00 1.98
2432 5057 6.237942 CGTGCATGTTTCTAAAGATAGACAGG 60.238 42.308 0.00 0.00 37.88 4.00
2449 5074 9.937175 GATAGACAGGAAAATATTTGTAAGTGC 57.063 33.333 0.39 0.00 0.00 4.40
2472 5105 8.814235 GTGCCAATGATTTAGAAGAATTTCATG 58.186 33.333 0.00 0.00 35.70 3.07
2526 5160 0.037326 TCCGCTAGAGCTTGTTGGTG 60.037 55.000 0.00 0.00 39.32 4.17
2542 5176 3.695830 TGGTGTGTAGGATTGAGAACC 57.304 47.619 0.00 0.00 0.00 3.62
2545 5179 3.941483 GGTGTGTAGGATTGAGAACCATG 59.059 47.826 0.00 0.00 0.00 3.66
2546 5180 4.565652 GGTGTGTAGGATTGAGAACCATGT 60.566 45.833 0.00 0.00 0.00 3.21
2547 5181 5.338056 GGTGTGTAGGATTGAGAACCATGTA 60.338 44.000 0.00 0.00 0.00 2.29
2548 5182 5.812642 GTGTGTAGGATTGAGAACCATGTAG 59.187 44.000 0.00 0.00 0.00 2.74
2552 5186 7.868415 GTGTAGGATTGAGAACCATGTAGTATC 59.132 40.741 0.00 0.00 0.00 2.24
2554 5188 7.623999 AGGATTGAGAACCATGTAGTATCAT 57.376 36.000 0.00 0.00 0.00 2.45
2642 5290 8.832521 CCCTATTTTTATGACAACTACGCAATA 58.167 33.333 0.00 0.00 0.00 1.90
2668 5316 9.656323 ACACCTAGTCCTTCAGAAATGTATATA 57.344 33.333 0.00 0.00 0.00 0.86
2697 5345 0.031449 GGCGCAACCAAGCAACTTAA 59.969 50.000 10.83 0.00 38.86 1.85
2700 5348 2.408368 GCGCAACCAAGCAACTTAAATC 59.592 45.455 0.30 0.00 0.00 2.17
2710 5359 7.035612 CCAAGCAACTTAAATCCAATTCTACC 58.964 38.462 0.00 0.00 0.00 3.18
2711 5360 7.093771 CCAAGCAACTTAAATCCAATTCTACCT 60.094 37.037 0.00 0.00 0.00 3.08
2716 5365 9.626045 CAACTTAAATCCAATTCTACCTGTTTC 57.374 33.333 0.00 0.00 0.00 2.78
2717 5366 8.349568 ACTTAAATCCAATTCTACCTGTTTCC 57.650 34.615 0.00 0.00 0.00 3.13
2723 5372 9.547279 AATCCAATTCTACCTGTTTCCTATTTT 57.453 29.630 0.00 0.00 0.00 1.82
2725 5374 8.802267 TCCAATTCTACCTGTTTCCTATTTTTG 58.198 33.333 0.00 0.00 0.00 2.44
2783 7055 5.882000 CCTCAATATGAATTCAGTGGTGTCA 59.118 40.000 14.54 0.00 0.00 3.58
2792 7064 5.757850 ATTCAGTGGTGTCAGTTTTCTTC 57.242 39.130 0.00 0.00 0.00 2.87
2799 7071 3.689649 GGTGTCAGTTTTCTTCCGCATAT 59.310 43.478 0.00 0.00 0.00 1.78
2800 7072 4.156008 GGTGTCAGTTTTCTTCCGCATATT 59.844 41.667 0.00 0.00 0.00 1.28
2808 7080 6.148150 AGTTTTCTTCCGCATATTGTACGAAA 59.852 34.615 0.00 0.00 0.00 3.46
2867 7142 1.230324 GCAGTCTTGTCCAGGTTGAC 58.770 55.000 0.00 0.00 35.77 3.18
2896 7171 4.607293 AAAGGGTGAGAAAATCAAAGGC 57.393 40.909 0.00 0.00 40.43 4.35
2897 7172 3.243359 AGGGTGAGAAAATCAAAGGCA 57.757 42.857 0.00 0.00 40.43 4.75
2898 7173 3.575805 AGGGTGAGAAAATCAAAGGCAA 58.424 40.909 0.00 0.00 40.43 4.52
2911 7186 4.114073 TCAAAGGCAACATACCGTATACG 58.886 43.478 18.40 18.40 41.41 3.06
2912 7187 2.144482 AGGCAACATACCGTATACGC 57.856 50.000 19.86 3.26 41.41 4.42
2928 7203 1.867363 ACGCTAGAATCAGTTCCCCT 58.133 50.000 0.00 0.00 34.81 4.79
2943 7248 3.517296 TCCCCTTAACAGTGAATGCAA 57.483 42.857 0.00 0.00 0.00 4.08
2950 7255 5.630680 CCTTAACAGTGAATGCAATGACAAC 59.369 40.000 8.44 0.00 42.40 3.32
2957 7262 4.442073 GTGAATGCAATGACAACAGTGTTC 59.558 41.667 5.27 0.00 42.92 3.18
2962 7267 3.482110 GCAATGACAACAGTGTTCGAAAC 59.518 43.478 5.27 0.68 42.92 2.78
3037 7342 3.823873 TCAAACACGATAATGGCAACCTT 59.176 39.130 0.00 0.00 0.00 3.50
3041 7346 2.006888 ACGATAATGGCAACCTTCACG 58.993 47.619 0.00 0.00 0.00 4.35
3047 7352 0.813610 TGGCAACCTTCACGTCACAG 60.814 55.000 0.00 0.00 0.00 3.66
3054 7359 0.578683 CTTCACGTCACAGCACACAG 59.421 55.000 0.00 0.00 0.00 3.66
3055 7360 0.108377 TTCACGTCACAGCACACAGT 60.108 50.000 0.00 0.00 0.00 3.55
3062 7367 0.035881 CACAGCACACAGTCCCAGAT 59.964 55.000 0.00 0.00 0.00 2.90
3063 7368 0.035881 ACAGCACACAGTCCCAGATG 59.964 55.000 0.00 0.00 0.00 2.90
3067 7372 0.979665 CACACAGTCCCAGATGGTCT 59.020 55.000 0.00 0.00 32.16 3.85
3068 7373 1.349026 CACACAGTCCCAGATGGTCTT 59.651 52.381 0.00 0.00 29.18 3.01
3070 7375 2.567615 ACACAGTCCCAGATGGTCTTAC 59.432 50.000 0.00 0.00 29.18 2.34
3073 7378 2.099921 CAGTCCCAGATGGTCTTACTCG 59.900 54.545 0.00 0.00 29.18 4.18
3080 7385 2.428890 AGATGGTCTTACTCGCTCCAAG 59.571 50.000 0.00 0.00 0.00 3.61
3082 7387 1.544691 TGGTCTTACTCGCTCCAAGAC 59.455 52.381 5.36 5.36 44.78 3.01
3083 7388 2.281140 GTCTTACTCGCTCCAAGACC 57.719 55.000 2.94 0.00 41.40 3.85
3097 7402 2.040412 CCAAGACCCAGGAGCTTTAAGT 59.960 50.000 0.00 0.00 0.00 2.24
3133 7438 1.821753 CCTCCTCGGCTAGATATGTGG 59.178 57.143 0.00 0.00 0.00 4.17
3134 7439 1.203523 CTCCTCGGCTAGATATGTGGC 59.796 57.143 0.00 0.00 0.00 5.01
3135 7440 1.203063 TCCTCGGCTAGATATGTGGCT 60.203 52.381 8.13 0.00 0.00 4.75
3136 7441 2.041216 TCCTCGGCTAGATATGTGGCTA 59.959 50.000 8.13 0.00 0.00 3.93
3137 7442 2.425312 CCTCGGCTAGATATGTGGCTAG 59.575 54.545 8.13 6.23 37.69 3.42
3138 7443 3.085533 CTCGGCTAGATATGTGGCTAGT 58.914 50.000 8.13 0.00 37.13 2.57
3139 7444 3.497332 TCGGCTAGATATGTGGCTAGTT 58.503 45.455 8.13 0.00 37.13 2.24
3140 7445 4.659115 TCGGCTAGATATGTGGCTAGTTA 58.341 43.478 8.13 0.00 37.13 2.24
3141 7446 5.074804 TCGGCTAGATATGTGGCTAGTTAA 58.925 41.667 8.13 0.00 37.13 2.01
3142 7447 5.183331 TCGGCTAGATATGTGGCTAGTTAAG 59.817 44.000 8.13 0.00 37.13 1.85
3143 7448 5.047943 CGGCTAGATATGTGGCTAGTTAAGT 60.048 44.000 8.13 0.00 37.13 2.24
3144 7449 6.391537 GGCTAGATATGTGGCTAGTTAAGTC 58.608 44.000 8.13 0.00 37.13 3.01
3145 7450 6.391537 GCTAGATATGTGGCTAGTTAAGTCC 58.608 44.000 0.54 0.00 37.13 3.85
3146 7451 6.015350 GCTAGATATGTGGCTAGTTAAGTCCA 60.015 42.308 0.54 0.00 37.13 4.02
3147 7452 7.310113 GCTAGATATGTGGCTAGTTAAGTCCAT 60.310 40.741 0.54 0.00 37.13 3.41
3148 7453 6.998802 AGATATGTGGCTAGTTAAGTCCATC 58.001 40.000 0.00 0.00 35.00 3.51
3149 7454 6.784969 AGATATGTGGCTAGTTAAGTCCATCT 59.215 38.462 0.00 0.00 35.00 2.90
3150 7455 7.950684 AGATATGTGGCTAGTTAAGTCCATCTA 59.049 37.037 0.00 0.00 35.00 1.98
3151 7456 5.593679 TGTGGCTAGTTAAGTCCATCTAC 57.406 43.478 0.00 0.00 35.00 2.59
3152 7457 5.020795 TGTGGCTAGTTAAGTCCATCTACA 58.979 41.667 0.00 0.00 35.00 2.74
3153 7458 5.105473 TGTGGCTAGTTAAGTCCATCTACAC 60.105 44.000 0.00 0.00 35.00 2.90
3154 7459 4.404715 TGGCTAGTTAAGTCCATCTACACC 59.595 45.833 0.00 0.00 0.00 4.16
3155 7460 4.202233 GGCTAGTTAAGTCCATCTACACCC 60.202 50.000 0.00 0.00 0.00 4.61
3156 7461 4.499357 GCTAGTTAAGTCCATCTACACCCG 60.499 50.000 0.00 0.00 0.00 5.28
3157 7462 2.764572 AGTTAAGTCCATCTACACCCGG 59.235 50.000 0.00 0.00 0.00 5.73
3158 7463 1.117150 TAAGTCCATCTACACCCGGC 58.883 55.000 0.00 0.00 0.00 6.13
3159 7464 1.623542 AAGTCCATCTACACCCGGCC 61.624 60.000 0.00 0.00 0.00 6.13
3160 7465 2.039787 TCCATCTACACCCGGCCA 59.960 61.111 2.24 0.00 0.00 5.36
3161 7466 1.383943 TCCATCTACACCCGGCCAT 60.384 57.895 2.24 0.00 0.00 4.40
3162 7467 1.071471 CCATCTACACCCGGCCATC 59.929 63.158 2.24 0.00 0.00 3.51
3163 7468 1.410850 CCATCTACACCCGGCCATCT 61.411 60.000 2.24 0.00 0.00 2.90
3164 7469 0.469917 CATCTACACCCGGCCATCTT 59.530 55.000 2.24 0.00 0.00 2.40
3165 7470 0.469917 ATCTACACCCGGCCATCTTG 59.530 55.000 2.24 0.00 0.00 3.02
3166 7471 1.153168 CTACACCCGGCCATCTTGG 60.153 63.158 2.24 0.00 41.55 3.61
3179 7484 2.420022 CCATCTTGGCAAGGTTACTTCG 59.580 50.000 25.92 6.83 33.81 3.79
3180 7485 1.519408 TCTTGGCAAGGTTACTTCGC 58.481 50.000 25.92 0.00 33.81 4.70
3181 7486 0.165944 CTTGGCAAGGTTACTTCGCG 59.834 55.000 19.55 0.00 33.81 5.87
3182 7487 1.847890 TTGGCAAGGTTACTTCGCGC 61.848 55.000 0.00 0.00 33.81 6.86
3183 7488 2.322081 GGCAAGGTTACTTCGCGCA 61.322 57.895 8.75 0.00 33.81 6.09
3184 7489 1.132640 GCAAGGTTACTTCGCGCAG 59.867 57.895 8.75 3.63 33.81 5.18
3185 7490 1.787847 CAAGGTTACTTCGCGCAGG 59.212 57.895 11.19 0.86 33.81 4.85
3186 7491 0.669318 CAAGGTTACTTCGCGCAGGA 60.669 55.000 11.19 0.00 33.81 3.86
3187 7492 0.034337 AAGGTTACTTCGCGCAGGAA 59.966 50.000 11.19 4.69 28.54 3.36
3188 7493 0.389948 AGGTTACTTCGCGCAGGAAG 60.390 55.000 19.52 19.52 46.94 3.46
3189 7494 1.359459 GGTTACTTCGCGCAGGAAGG 61.359 60.000 23.27 10.05 46.06 3.46
3190 7495 0.389426 GTTACTTCGCGCAGGAAGGA 60.389 55.000 23.27 15.74 46.06 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 0.468226 TCGTTTCCAAGAGGCACAGT 59.532 50.000 0.00 0.00 33.74 3.55
10 11 2.045561 TTTCGTTTCCAAGAGGCACA 57.954 45.000 0.00 0.00 33.74 4.57
163 180 1.452833 GGCATGGCCTTGACTCTCC 60.453 63.158 22.21 9.37 46.69 3.71
321 373 1.285950 GAAGCAAAACCGCACCTCC 59.714 57.895 0.00 0.00 0.00 4.30
374 451 2.951458 CGGGAGCACGGGTTTTTC 59.049 61.111 0.00 0.00 0.00 2.29
438 549 6.849811 CGCGTCGAGATCTTAAAAACTAGATA 59.150 38.462 0.00 0.00 31.46 1.98
490 601 4.965062 TCTTAAATCGTGCGTCCAAATTC 58.035 39.130 0.00 0.00 0.00 2.17
491 602 4.693566 TCTCTTAAATCGTGCGTCCAAATT 59.306 37.500 0.00 0.00 0.00 1.82
565 679 3.726517 GTTGCATGTGCGCCTCGT 61.727 61.111 4.18 0.00 45.83 4.18
589 712 1.593196 CCTTCTCAGGTTGCGACAAA 58.407 50.000 6.39 0.00 35.06 2.83
660 783 6.183360 CGGGTCATATTTTGATTCCCATGAAA 60.183 38.462 0.00 0.00 39.57 2.69
716 839 9.768662 TCTCTTTTTGTCGGTTATTACTACTTT 57.231 29.630 0.00 0.00 0.00 2.66
717 840 9.939802 ATCTCTTTTTGTCGGTTATTACTACTT 57.060 29.630 0.00 0.00 0.00 2.24
718 841 9.367444 CATCTCTTTTTGTCGGTTATTACTACT 57.633 33.333 0.00 0.00 0.00 2.57
719 842 9.362539 TCATCTCTTTTTGTCGGTTATTACTAC 57.637 33.333 0.00 0.00 0.00 2.73
720 843 9.582431 CTCATCTCTTTTTGTCGGTTATTACTA 57.418 33.333 0.00 0.00 0.00 1.82
721 844 7.064728 GCTCATCTCTTTTTGTCGGTTATTACT 59.935 37.037 0.00 0.00 0.00 2.24
722 845 7.180748 GCTCATCTCTTTTTGTCGGTTATTAC 58.819 38.462 0.00 0.00 0.00 1.89
729 852 1.394917 CCGCTCATCTCTTTTTGTCGG 59.605 52.381 0.00 0.00 0.00 4.79
809 932 1.792118 GAACGCCCTTGTCGCCTTTT 61.792 55.000 0.00 0.00 0.00 2.27
819 942 2.357517 CACGCTGAGAACGCCCTT 60.358 61.111 0.00 0.00 0.00 3.95
848 971 2.311841 AGAAGGGGAAAAATCGATGGGT 59.688 45.455 0.00 0.00 0.00 4.51
918 1044 4.508128 GGCGTCGCTGGATCCGAA 62.508 66.667 18.11 0.00 36.36 4.30
953 1080 1.301716 GAAGTCTTGCAGTGGCGGA 60.302 57.895 0.00 0.00 45.35 5.54
961 1088 1.686587 TGAACCGAGAGAAGTCTTGCA 59.313 47.619 0.00 0.00 33.20 4.08
979 1106 1.005748 CTGTGCTCAAGGTCGCTGA 60.006 57.895 0.00 0.00 0.00 4.26
1134 1274 1.613630 GGAGGGGTCAGCTTCCTCA 60.614 63.158 18.27 0.00 46.55 3.86
1211 1847 3.243301 CGGGAGAATCAATTTGATGCTGG 60.243 47.826 22.18 9.23 42.74 4.85
1244 1882 3.632145 ACAACAAATTCGAAGGAGCAAGT 59.368 39.130 3.35 0.00 0.00 3.16
1363 2016 4.865925 CCAATATCCAACATTGCACACTTG 59.134 41.667 0.00 0.00 33.00 3.16
1407 2128 9.984190 GAGTAGGGATTATGAACTTAAGTTAGG 57.016 37.037 20.58 0.00 38.56 2.69
1426 2147 1.879575 TGTGAATGGAGGGAGTAGGG 58.120 55.000 0.00 0.00 0.00 3.53
1428 2149 7.235606 TCCTATATTTGTGAATGGAGGGAGTAG 59.764 40.741 0.00 0.00 32.94 2.57
1452 2173 9.082313 AGTCCATATTGAATATCCAAAACATCC 57.918 33.333 0.00 0.00 0.00 3.51
1467 2188 6.155049 TGTTCACTCATCTCAGTCCATATTGA 59.845 38.462 0.00 0.00 0.00 2.57
1468 2189 6.343703 TGTTCACTCATCTCAGTCCATATTG 58.656 40.000 0.00 0.00 0.00 1.90
1469 2190 6.550938 TGTTCACTCATCTCAGTCCATATT 57.449 37.500 0.00 0.00 0.00 1.28
1481 2214 5.484173 TTCAGTGTGTTTGTTCACTCATC 57.516 39.130 0.00 0.00 42.05 2.92
1488 2221 5.640732 AGACATGTTTCAGTGTGTTTGTTC 58.359 37.500 0.00 0.00 0.00 3.18
1495 2228 8.982685 GGATGTATATAGACATGTTTCAGTGTG 58.017 37.037 17.40 0.00 40.18 3.82
1496 2229 7.867909 CGGATGTATATAGACATGTTTCAGTGT 59.132 37.037 17.40 0.00 40.18 3.55
1497 2230 8.082242 TCGGATGTATATAGACATGTTTCAGTG 58.918 37.037 17.40 0.00 40.18 3.66
1498 2231 8.178313 TCGGATGTATATAGACATGTTTCAGT 57.822 34.615 17.40 0.00 40.18 3.41
1505 2238 8.986477 TTGTGAATCGGATGTATATAGACATG 57.014 34.615 17.40 4.78 40.18 3.21
1540 2273 5.629849 CCTCCGTTCACGAATATAAGATGTC 59.370 44.000 0.00 0.00 43.02 3.06
1541 2274 5.068723 ACCTCCGTTCACGAATATAAGATGT 59.931 40.000 0.00 0.00 43.02 3.06
1622 2367 2.825205 AGCAAACAACAAACATGAGCC 58.175 42.857 0.00 0.00 0.00 4.70
1667 2413 4.404073 GGCCTCTTAGACTCTTTCATCAGA 59.596 45.833 0.00 0.00 0.00 3.27
1670 2419 4.161377 ACTGGCCTCTTAGACTCTTTCATC 59.839 45.833 3.32 0.00 0.00 2.92
1682 2434 4.301072 AACAGCATTTACTGGCCTCTTA 57.699 40.909 3.32 0.00 42.21 2.10
1693 2445 4.560136 TTGACGAGCAAAACAGCATTTA 57.440 36.364 0.00 0.00 36.85 1.40
1697 2449 3.435105 AAATTGACGAGCAAAACAGCA 57.565 38.095 0.00 0.00 40.48 4.41
1707 2459 3.427503 GCACCCCACATTAAATTGACGAG 60.428 47.826 0.00 0.00 0.00 4.18
1732 2489 8.410673 TCCCAGATAGCTAACAACTAATAGAG 57.589 38.462 0.00 0.00 0.00 2.43
1733 2490 8.807118 CATCCCAGATAGCTAACAACTAATAGA 58.193 37.037 0.00 0.00 0.00 1.98
1736 2493 7.618019 TCATCCCAGATAGCTAACAACTAAT 57.382 36.000 0.00 0.00 0.00 1.73
1743 2500 5.799827 AGTCTTCATCCCAGATAGCTAAC 57.200 43.478 0.00 0.00 0.00 2.34
1745 2502 6.373759 TGTAAGTCTTCATCCCAGATAGCTA 58.626 40.000 0.00 0.00 0.00 3.32
1765 2552 7.845037 TGAATGGCCAAATGAATTACATGTAA 58.155 30.769 20.14 20.14 39.39 2.41
1783 2571 4.825634 TCTTCCTGATTGATGATGAATGGC 59.174 41.667 0.00 0.00 0.00 4.40
1784 2572 6.062749 AGTCTTCCTGATTGATGATGAATGG 58.937 40.000 0.00 0.00 0.00 3.16
1834 2622 1.599047 CCACGCAGGGTCATTCTCT 59.401 57.895 0.00 0.00 0.00 3.10
1847 2635 2.825836 CATCAGGGAAGGCCACGC 60.826 66.667 5.01 7.25 35.15 5.34
1894 2682 4.695455 CCACAGGTTACATCCACAGTAAAG 59.305 45.833 0.00 0.00 33.64 1.85
1930 2722 5.379827 GTTAGTTTACATCCAGCAACGAAC 58.620 41.667 0.00 0.00 30.86 3.95
1965 4585 3.258372 AGAGTTTGAGGTACAGCGATTGA 59.742 43.478 0.00 0.00 0.00 2.57
2020 4640 1.207339 CATTCGCGCAACTCAGCAA 59.793 52.632 8.75 0.00 0.00 3.91
2028 4648 0.385849 CAGCTTTCACATTCGCGCAA 60.386 50.000 8.75 0.78 0.00 4.85
2111 4731 6.991531 GCTCTGAAGAACCTCTATGATTGAAT 59.008 38.462 0.00 0.00 0.00 2.57
2112 4732 6.070596 TGCTCTGAAGAACCTCTATGATTGAA 60.071 38.462 0.00 0.00 0.00 2.69
2206 4827 0.107831 ACACAACACCTATGCCACGT 59.892 50.000 0.00 0.00 0.00 4.49
2207 4828 1.234821 AACACAACACCTATGCCACG 58.765 50.000 0.00 0.00 0.00 4.94
2208 4829 2.621055 TCAAACACAACACCTATGCCAC 59.379 45.455 0.00 0.00 0.00 5.01
2209 4830 2.937519 TCAAACACAACACCTATGCCA 58.062 42.857 0.00 0.00 0.00 4.92
2210 4831 4.519540 AATCAAACACAACACCTATGCC 57.480 40.909 0.00 0.00 0.00 4.40
2211 4832 6.127758 TGGATAATCAAACACAACACCTATGC 60.128 38.462 0.00 0.00 0.00 3.14
2212 4833 7.389803 TGGATAATCAAACACAACACCTATG 57.610 36.000 0.00 0.00 0.00 2.23
2213 4834 8.415950 TTTGGATAATCAAACACAACACCTAT 57.584 30.769 0.00 0.00 32.39 2.57
2217 4838 7.329226 CCTGATTTGGATAATCAAACACAACAC 59.671 37.037 0.00 0.00 39.13 3.32
2245 4866 2.032528 TGGCAGGAAAGGCACGAG 59.967 61.111 0.00 0.00 39.34 4.18
2248 4869 1.538687 AATGCTGGCAGGAAAGGCAC 61.539 55.000 14.16 0.00 39.34 5.01
2270 4891 6.303839 AGGAACTAGTAAAAGGATTTGTGCA 58.696 36.000 0.00 0.00 35.26 4.57
2281 4902 7.606456 CAGGAAGCATACAAGGAACTAGTAAAA 59.394 37.037 0.00 0.00 38.49 1.52
2352 4976 3.743396 CACAACACTTCTCAGGCTTCTAC 59.257 47.826 0.00 0.00 0.00 2.59
2394 5018 3.846360 ACATGCACGTCTTTAGTACTCC 58.154 45.455 0.00 0.00 0.00 3.85
2395 5019 5.634020 AGAAACATGCACGTCTTTAGTACTC 59.366 40.000 0.00 0.00 0.00 2.59
2396 5020 5.539048 AGAAACATGCACGTCTTTAGTACT 58.461 37.500 0.00 0.00 0.00 2.73
2397 5021 5.840940 AGAAACATGCACGTCTTTAGTAC 57.159 39.130 0.00 0.00 0.00 2.73
2398 5022 7.868922 TCTTTAGAAACATGCACGTCTTTAGTA 59.131 33.333 0.00 0.00 0.00 1.82
2399 5023 6.704493 TCTTTAGAAACATGCACGTCTTTAGT 59.296 34.615 0.00 0.00 0.00 2.24
2400 5024 7.117241 TCTTTAGAAACATGCACGTCTTTAG 57.883 36.000 0.00 0.00 0.00 1.85
2426 5051 6.719370 TGGCACTTACAAATATTTTCCTGTCT 59.281 34.615 0.00 0.00 0.00 3.41
2445 5070 8.125978 TGAAATTCTTCTAAATCATTGGCACT 57.874 30.769 0.00 0.00 32.33 4.40
2447 5072 7.982919 CCATGAAATTCTTCTAAATCATTGGCA 59.017 33.333 0.00 0.00 32.33 4.92
2448 5073 8.199449 TCCATGAAATTCTTCTAAATCATTGGC 58.801 33.333 0.00 0.00 32.33 4.52
2526 5160 5.978814 ACTACATGGTTCTCAATCCTACAC 58.021 41.667 0.00 0.00 0.00 2.90
2593 5241 5.875359 GGAGAAAATTCCGTGAGATTAGTGT 59.125 40.000 0.00 0.00 0.00 3.55
2594 5242 5.294552 GGGAGAAAATTCCGTGAGATTAGTG 59.705 44.000 0.00 0.00 38.17 2.74
2613 5261 6.759827 GCGTAGTTGTCATAAAAATAGGGAGA 59.240 38.462 0.00 0.00 0.00 3.71
2614 5262 6.537301 TGCGTAGTTGTCATAAAAATAGGGAG 59.463 38.462 0.00 0.00 0.00 4.30
2636 5284 3.130516 TCTGAAGGACTAGGTGTATTGCG 59.869 47.826 0.00 0.00 0.00 4.85
2642 5290 6.875972 ATACATTTCTGAAGGACTAGGTGT 57.124 37.500 0.00 0.00 0.00 4.16
2678 5326 0.031449 TTAAGTTGCTTGGTTGCGCC 59.969 50.000 4.18 0.00 35.36 6.53
2680 5328 2.986479 GGATTTAAGTTGCTTGGTTGCG 59.014 45.455 0.00 0.00 35.36 4.85
2697 5345 9.547279 AAAATAGGAAACAGGTAGAATTGGATT 57.453 29.630 0.00 0.00 0.00 3.01
2700 5348 8.585018 ACAAAAATAGGAAACAGGTAGAATTGG 58.415 33.333 0.00 0.00 0.00 3.16
2783 7055 5.172934 TCGTACAATATGCGGAAGAAAACT 58.827 37.500 0.00 0.00 36.99 2.66
2792 7064 5.197549 CACTTGATTTCGTACAATATGCGG 58.802 41.667 0.00 0.00 36.99 5.69
2799 7071 7.620600 GCGAGATTAACACTTGATTTCGTACAA 60.621 37.037 0.00 0.00 36.22 2.41
2800 7072 6.183360 GCGAGATTAACACTTGATTTCGTACA 60.183 38.462 0.00 0.00 36.22 2.90
2808 7080 6.741992 TTTGATGCGAGATTAACACTTGAT 57.258 33.333 0.00 0.00 0.00 2.57
2867 7142 6.500041 TGATTTTCTCACCCTTTTACAAACG 58.500 36.000 0.00 0.00 0.00 3.60
2911 7186 5.099042 TGTTAAGGGGAACTGATTCTAGC 57.901 43.478 0.00 0.00 34.98 3.42
2912 7187 6.070767 TCACTGTTAAGGGGAACTGATTCTAG 60.071 42.308 0.00 0.00 34.98 2.43
2928 7203 6.141560 TGTTGTCATTGCATTCACTGTTAA 57.858 33.333 0.00 0.00 0.00 2.01
2943 7248 4.574421 TCATGTTTCGAACACTGTTGTCAT 59.426 37.500 0.00 0.00 45.50 3.06
2950 7255 8.018677 AGTAAACTATCATGTTTCGAACACTG 57.981 34.615 0.00 0.00 45.50 3.66
3004 7309 3.878086 TCGTGTTTGAATCACAAGAGC 57.122 42.857 7.12 0.00 39.77 4.09
3037 7342 0.527600 GACTGTGTGCTGTGACGTGA 60.528 55.000 0.00 0.00 0.00 4.35
3041 7346 0.882042 CTGGGACTGTGTGCTGTGAC 60.882 60.000 0.00 0.00 0.00 3.67
3047 7352 0.674895 GACCATCTGGGACTGTGTGC 60.675 60.000 0.54 0.00 41.15 4.57
3054 7359 1.202428 GCGAGTAAGACCATCTGGGAC 60.202 57.143 0.54 0.00 41.15 4.46
3055 7360 1.112113 GCGAGTAAGACCATCTGGGA 58.888 55.000 0.54 0.00 41.15 4.37
3062 7367 1.544691 GTCTTGGAGCGAGTAAGACCA 59.455 52.381 12.25 0.00 42.65 4.02
3063 7368 2.281140 GTCTTGGAGCGAGTAAGACC 57.719 55.000 12.25 0.00 42.65 3.85
3067 7372 0.895530 CTGGGTCTTGGAGCGAGTAA 59.104 55.000 0.00 0.00 32.70 2.24
3068 7373 0.970937 CCTGGGTCTTGGAGCGAGTA 60.971 60.000 7.67 0.00 34.87 2.59
3070 7375 1.954362 CTCCTGGGTCTTGGAGCGAG 61.954 65.000 0.00 2.61 42.62 5.03
3080 7385 3.863041 CACTACTTAAAGCTCCTGGGTC 58.137 50.000 0.00 0.00 0.00 4.46
3082 7387 2.633488 GCACTACTTAAAGCTCCTGGG 58.367 52.381 0.00 0.00 0.00 4.45
3083 7388 2.271800 CGCACTACTTAAAGCTCCTGG 58.728 52.381 0.00 0.00 0.00 4.45
3097 7402 4.715523 GGCCCAAGTGCCGCACTA 62.716 66.667 25.96 0.00 44.62 2.74
3119 7424 3.944055 AACTAGCCACATATCTAGCCG 57.056 47.619 0.00 0.00 36.60 5.52
3120 7425 6.347859 ACTTAACTAGCCACATATCTAGCC 57.652 41.667 0.00 0.00 36.60 3.93
3125 7430 6.998802 AGATGGACTTAACTAGCCACATATC 58.001 40.000 0.00 0.00 34.37 1.63
3132 7437 4.202233 GGGTGTAGATGGACTTAACTAGCC 60.202 50.000 0.00 0.00 0.00 3.93
3133 7438 4.499357 CGGGTGTAGATGGACTTAACTAGC 60.499 50.000 0.00 0.00 0.00 3.42
3134 7439 4.037684 CCGGGTGTAGATGGACTTAACTAG 59.962 50.000 0.00 0.00 0.00 2.57
3135 7440 3.956199 CCGGGTGTAGATGGACTTAACTA 59.044 47.826 0.00 0.00 0.00 2.24
3136 7441 2.764572 CCGGGTGTAGATGGACTTAACT 59.235 50.000 0.00 0.00 0.00 2.24
3137 7442 2.740904 GCCGGGTGTAGATGGACTTAAC 60.741 54.545 2.18 0.00 0.00 2.01
3138 7443 1.483415 GCCGGGTGTAGATGGACTTAA 59.517 52.381 2.18 0.00 0.00 1.85
3139 7444 1.117150 GCCGGGTGTAGATGGACTTA 58.883 55.000 2.18 0.00 0.00 2.24
3140 7445 1.623542 GGCCGGGTGTAGATGGACTT 61.624 60.000 2.18 0.00 0.00 3.01
3141 7446 2.064581 GGCCGGGTGTAGATGGACT 61.065 63.158 2.18 0.00 0.00 3.85
3142 7447 1.696097 ATGGCCGGGTGTAGATGGAC 61.696 60.000 2.18 0.00 0.00 4.02
3143 7448 1.383943 ATGGCCGGGTGTAGATGGA 60.384 57.895 2.18 0.00 0.00 3.41
3144 7449 1.071471 GATGGCCGGGTGTAGATGG 59.929 63.158 2.18 0.00 0.00 3.51
3145 7450 0.469917 AAGATGGCCGGGTGTAGATG 59.530 55.000 2.18 0.00 0.00 2.90
3146 7451 0.469917 CAAGATGGCCGGGTGTAGAT 59.530 55.000 2.18 0.00 0.00 1.98
3147 7452 1.622607 CCAAGATGGCCGGGTGTAGA 61.623 60.000 2.18 0.00 0.00 2.59
3148 7453 1.153168 CCAAGATGGCCGGGTGTAG 60.153 63.158 2.18 0.00 0.00 2.74
3149 7454 2.994699 CCAAGATGGCCGGGTGTA 59.005 61.111 2.18 0.00 0.00 2.90
3158 7463 2.420022 CGAAGTAACCTTGCCAAGATGG 59.580 50.000 5.89 0.00 41.55 3.51
3159 7464 2.159517 GCGAAGTAACCTTGCCAAGATG 60.160 50.000 5.89 0.00 0.00 2.90
3160 7465 2.084546 GCGAAGTAACCTTGCCAAGAT 58.915 47.619 5.89 0.00 0.00 2.40
3161 7466 1.519408 GCGAAGTAACCTTGCCAAGA 58.481 50.000 5.89 0.00 0.00 3.02
3162 7467 0.165944 CGCGAAGTAACCTTGCCAAG 59.834 55.000 0.00 0.00 0.00 3.61
3163 7468 1.847890 GCGCGAAGTAACCTTGCCAA 61.848 55.000 12.10 0.00 0.00 4.52
3164 7469 2.322081 GCGCGAAGTAACCTTGCCA 61.322 57.895 12.10 0.00 0.00 4.92
3165 7470 2.240612 CTGCGCGAAGTAACCTTGCC 62.241 60.000 12.10 0.00 0.00 4.52
3166 7471 1.132640 CTGCGCGAAGTAACCTTGC 59.867 57.895 12.10 0.00 0.00 4.01
3167 7472 0.669318 TCCTGCGCGAAGTAACCTTG 60.669 55.000 14.34 0.00 0.00 3.61
3168 7473 0.034337 TTCCTGCGCGAAGTAACCTT 59.966 50.000 14.34 0.00 0.00 3.50
3169 7474 0.389948 CTTCCTGCGCGAAGTAACCT 60.390 55.000 14.34 0.00 35.52 3.50
3170 7475 1.359459 CCTTCCTGCGCGAAGTAACC 61.359 60.000 14.34 0.00 38.05 2.85
3171 7476 0.389426 TCCTTCCTGCGCGAAGTAAC 60.389 55.000 14.34 0.00 38.05 2.50
3172 7477 1.969085 TCCTTCCTGCGCGAAGTAA 59.031 52.632 14.34 1.83 38.05 2.24
3173 7478 3.689414 TCCTTCCTGCGCGAAGTA 58.311 55.556 14.34 0.00 38.05 2.24


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.