Multiple sequence alignment - TraesCS5B01G258800

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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 TraesCS5B01G258800 chr5B 100.000 2276 0 0 1 2276 441447339 441445064 0.000000e+00 4204.0
1 TraesCS5B01G258800 chr5B 96.331 954 26 5 1326 2276 49915824 49914877 0.000000e+00 1559.0
2 TraesCS5B01G258800 chr5B 95.283 954 31 6 1326 2276 524461233 524460291 0.000000e+00 1500.0
3 TraesCS5B01G258800 chr5B 97.143 455 10 1 1825 2276 41406657 41406203 0.000000e+00 765.0
4 TraesCS5B01G258800 chr5B 96.703 455 12 1 1825 2276 494656063 494656517 0.000000e+00 754.0
5 TraesCS5B01G258800 chr5B 96.703 455 12 1 1825 2276 537916505 537916051 0.000000e+00 754.0
6 TraesCS5B01G258800 chr5B 87.765 425 28 20 879 1294 448804033 448803624 2.050000e-130 475.0
7 TraesCS5B01G258800 chr5B 91.667 120 3 4 511 630 387957197 387957309 2.340000e-35 159.0
8 TraesCS5B01G258800 chr5B 94.286 105 3 1 527 631 27484840 27484739 8.420000e-35 158.0
9 TraesCS5B01G258800 chr2B 95.702 954 34 5 1326 2276 77528035 77527086 0.000000e+00 1528.0
10 TraesCS5B01G258800 chr2B 94.025 954 30 11 1326 2276 229910120 229909191 0.000000e+00 1421.0
11 TraesCS5B01G258800 chr2B 96.923 455 11 1 1825 2276 786812203 786812657 0.000000e+00 760.0
12 TraesCS5B01G258800 chr2B 87.975 474 34 14 823 1286 701491112 701490652 2.570000e-149 538.0
13 TraesCS5B01G258800 chr2B 95.146 103 5 0 526 628 154830252 154830150 1.810000e-36 163.0
14 TraesCS5B01G258800 chr2B 94.286 105 6 0 524 628 154830147 154830251 6.510000e-36 161.0
15 TraesCS5B01G258800 chr2B 91.954 87 7 0 434 520 572585826 572585912 3.070000e-24 122.0
16 TraesCS5B01G258800 chr2B 90.909 88 6 2 438 525 701492536 701492451 1.430000e-22 117.0
17 TraesCS5B01G258800 chr2B 90.909 88 6 2 438 525 701492908 701492823 1.430000e-22 117.0
18 TraesCS5B01G258800 chr6B 93.542 991 31 5 1317 2276 11990036 11989048 0.000000e+00 1445.0
19 TraesCS5B01G258800 chr6B 93.571 980 34 2 1326 2276 663151873 663150894 0.000000e+00 1434.0
20 TraesCS5B01G258800 chr6B 92.615 1002 41 5 1305 2276 182144355 182145353 0.000000e+00 1410.0
21 TraesCS5B01G258800 chr6B 84.733 524 40 17 823 1329 674935332 674935832 2.630000e-134 488.0
22 TraesCS5B01G258800 chr6B 94.340 106 3 1 526 631 678685774 678685876 2.340000e-35 159.0
23 TraesCS5B01G258800 chr6B 84.783 92 5 3 664 747 674935130 674935220 1.450000e-12 84.2
24 TraesCS5B01G258800 chr3B 93.686 982 31 4 1326 2276 817228277 817229258 0.000000e+00 1441.0
25 TraesCS5B01G258800 chr3B 88.754 329 21 6 1 322 692222701 692223020 2.740000e-104 388.0
26 TraesCS5B01G258800 chr3B 97.674 43 1 0 280 322 692223203 692223245 8.720000e-10 75.0
27 TraesCS5B01G258800 chr4B 93.621 972 31 14 1315 2256 12064144 12063174 0.000000e+00 1423.0
28 TraesCS5B01G258800 chr4B 79.923 518 72 15 825 1329 607288184 607287686 3.600000e-93 351.0
29 TraesCS5B01G258800 chr4B 86.598 97 9 2 1229 1321 426107919 426108015 1.110000e-18 104.0
30 TraesCS5B01G258800 chr4B 100.000 28 0 0 664 691 607286903 607286876 4.000000e-03 52.8
31 TraesCS5B01G258800 chr5D 93.062 663 28 9 665 1320 371441175 371440524 0.000000e+00 953.0
32 TraesCS5B01G258800 chr5D 91.150 113 4 3 520 628 559427712 559427822 5.070000e-32 148.0
33 TraesCS5B01G258800 chr5D 90.351 114 5 2 527 635 65831437 65831549 6.550000e-31 145.0
34 TraesCS5B01G258800 chr5D 94.667 75 4 0 416 490 371441362 371441288 1.430000e-22 117.0
35 TraesCS5B01G258800 chr5A 90.361 664 25 13 664 1320 474537861 474537230 0.000000e+00 835.0
36 TraesCS5B01G258800 chr5A 90.924 617 32 12 709 1321 456485865 456485269 0.000000e+00 808.0
37 TraesCS5B01G258800 chr5A 87.368 95 6 1 416 504 456492546 456492452 1.110000e-18 104.0
38 TraesCS5B01G258800 chr5A 96.825 63 1 1 463 525 474538003 474537942 1.110000e-18 104.0
39 TraesCS5B01G258800 chr7D 96.703 455 12 1 1825 2276 101006523 101006977 0.000000e+00 754.0
40 TraesCS5B01G258800 chr7D 91.964 112 3 2 527 632 370063025 370062914 3.920000e-33 152.0
41 TraesCS5B01G258800 chr7D 91.228 114 4 2 523 631 280404932 280404820 1.410000e-32 150.0
42 TraesCS5B01G258800 chr7D 90.598 117 5 2 519 630 378149794 378149679 1.410000e-32 150.0
43 TraesCS5B01G258800 chr7D 88.710 124 7 3 521 637 227507235 227507112 6.550000e-31 145.0
44 TraesCS5B01G258800 chr2D 89.006 473 28 18 818 1283 582495027 582494572 4.240000e-157 564.0
45 TraesCS5B01G258800 chr2D 92.373 118 4 1 520 632 71576936 71577053 1.810000e-36 163.0
46 TraesCS5B01G258800 chr2D 89.024 82 8 1 444 525 488228537 488228617 1.440000e-17 100.0
47 TraesCS5B01G258800 chr3D 91.304 322 20 3 1 322 524784148 524784461 1.250000e-117 433.0
48 TraesCS5B01G258800 chr3D 91.228 114 3 3 520 628 582122927 582123038 5.070000e-32 148.0
49 TraesCS5B01G258800 chr3D 89.831 118 6 2 526 638 38258003 38257887 1.820000e-31 147.0
50 TraesCS5B01G258800 chr3D 85.714 77 3 1 254 322 524784608 524784684 8.720000e-10 75.0
51 TraesCS5B01G258800 chr3A 90.994 322 21 3 1 322 659160954 659161267 5.810000e-116 427.0
52 TraesCS5B01G258800 chr3A 90.164 122 7 1 526 642 638982539 638982418 1.090000e-33 154.0
53 TraesCS5B01G258800 chr4A 83.093 485 47 18 836 1308 686385704 686385243 2.100000e-110 409.0
54 TraesCS5B01G258800 chr4A 90.588 85 6 2 664 747 641610301 641610384 6.650000e-21 111.0
55 TraesCS5B01G258800 chr4A 89.157 83 8 1 439 520 641610152 641610234 4.000000e-18 102.0
56 TraesCS5B01G258800 chr4A 85.185 81 7 3 742 818 686385835 686385756 6.740000e-11 78.7
57 TraesCS5B01G258800 chr4A 100.000 28 0 0 664 691 686384223 686384196 4.000000e-03 52.8
58 TraesCS5B01G258800 chr7B 94.286 105 3 2 524 628 125882286 125882185 8.420000e-35 158.0
59 TraesCS5B01G258800 chr1B 91.379 116 5 1 522 632 350969229 350969114 1.090000e-33 154.0
60 TraesCS5B01G258800 chr6A 91.304 115 4 2 523 631 555582297 555582183 3.920000e-33 152.0
61 TraesCS5B01G258800 chr6A 91.892 111 4 1 526 631 27130993 27130883 1.410000e-32 150.0
62 TraesCS5B01G258800 chr6A 84.828 145 9 9 493 628 613039076 613039216 1.420000e-27 134.0
63 TraesCS5B01G258800 chr6A 85.556 90 10 1 661 747 593353457 593353546 8.660000e-15 91.6
64 TraesCS5B01G258800 chr1A 89.062 128 6 3 514 634 498624340 498624214 3.920000e-33 152.0
65 TraesCS5B01G258800 chr6D 92.593 108 3 1 527 629 3196382 3196489 1.410000e-32 150.0
66 TraesCS5B01G258800 chr6D 91.818 110 4 1 524 628 81674635 81674744 5.070000e-32 148.0
67 TraesCS5B01G258800 chr6D 90.991 111 5 1 527 632 112344482 112344372 6.550000e-31 145.0
68 TraesCS5B01G258800 chr6D 90.991 111 5 1 527 632 139320813 139320703 6.550000e-31 145.0
69 TraesCS5B01G258800 chr6D 90.351 114 5 2 527 635 193130740 193130852 6.550000e-31 145.0
70 TraesCS5B01G258800 chr6D 89.744 117 6 2 527 638 205413575 205413460 6.550000e-31 145.0
71 TraesCS5B01G258800 chr6D 86.364 88 7 3 664 747 446488907 446488993 8.660000e-15 91.6
72 TraesCS5B01G258800 chr1D 90.598 117 6 1 520 631 66558294 66558410 1.410000e-32 150.0
73 TraesCS5B01G258800 chrUn 90.435 115 5 2 526 634 323910853 323910739 1.820000e-31 147.0
74 TraesCS5B01G258800 chrUn 90.435 115 5 2 526 634 323914028 323913914 1.820000e-31 147.0
75 TraesCS5B01G258800 chrUn 90.435 115 5 2 526 634 391739777 391739891 1.820000e-31 147.0
76 TraesCS5B01G258800 chrUn 91.589 107 4 1 527 628 91488908 91489014 2.360000e-30 143.0
77 TraesCS5B01G258800 chrUn 90.741 108 5 1 527 629 31713243 31713350 3.050000e-29 139.0
78 TraesCS5B01G258800 chrUn 90.741 108 5 1 527 629 301837028 301836921 3.050000e-29 139.0
79 TraesCS5B01G258800 chrUn 90.654 107 5 1 527 628 143995224 143995330 1.100000e-28 137.0
80 TraesCS5B01G258800 chrUn 89.189 111 7 1 527 632 267451510 267451400 1.420000e-27 134.0
81 TraesCS5B01G258800 chrUn 89.189 111 7 1 527 632 340254878 340254768 1.420000e-27 134.0
82 TraesCS5B01G258800 chr4D 89.744 117 6 2 527 638 374220664 374220549 6.550000e-31 145.0
83 TraesCS5B01G258800 chr4D 91.667 108 3 2 527 629 450206773 450206667 6.550000e-31 145.0


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 TraesCS5B01G258800 chr5B 441445064 441447339 2275 True 4204.000000 4204 100.0000 1 2276 1 chr5B.!!$R4 2275
1 TraesCS5B01G258800 chr5B 49914877 49915824 947 True 1559.000000 1559 96.3310 1326 2276 1 chr5B.!!$R3 950
2 TraesCS5B01G258800 chr5B 524460291 524461233 942 True 1500.000000 1500 95.2830 1326 2276 1 chr5B.!!$R6 950
3 TraesCS5B01G258800 chr2B 77527086 77528035 949 True 1528.000000 1528 95.7020 1326 2276 1 chr2B.!!$R1 950
4 TraesCS5B01G258800 chr2B 229909191 229910120 929 True 1421.000000 1421 94.0250 1326 2276 1 chr2B.!!$R3 950
5 TraesCS5B01G258800 chr2B 701490652 701492908 2256 True 257.333333 538 89.9310 438 1286 3 chr2B.!!$R4 848
6 TraesCS5B01G258800 chr6B 11989048 11990036 988 True 1445.000000 1445 93.5420 1317 2276 1 chr6B.!!$R1 959
7 TraesCS5B01G258800 chr6B 663150894 663151873 979 True 1434.000000 1434 93.5710 1326 2276 1 chr6B.!!$R2 950
8 TraesCS5B01G258800 chr6B 182144355 182145353 998 False 1410.000000 1410 92.6150 1305 2276 1 chr6B.!!$F1 971
9 TraesCS5B01G258800 chr6B 674935130 674935832 702 False 286.100000 488 84.7580 664 1329 2 chr6B.!!$F3 665
10 TraesCS5B01G258800 chr3B 817228277 817229258 981 False 1441.000000 1441 93.6860 1326 2276 1 chr3B.!!$F1 950
11 TraesCS5B01G258800 chr3B 692222701 692223245 544 False 231.500000 388 93.2140 1 322 2 chr3B.!!$F2 321
12 TraesCS5B01G258800 chr4B 12063174 12064144 970 True 1423.000000 1423 93.6210 1315 2256 1 chr4B.!!$R1 941
13 TraesCS5B01G258800 chr4B 607286876 607288184 1308 True 201.900000 351 89.9615 664 1329 2 chr4B.!!$R2 665
14 TraesCS5B01G258800 chr5D 371440524 371441362 838 True 535.000000 953 93.8645 416 1320 2 chr5D.!!$R1 904
15 TraesCS5B01G258800 chr5A 456485269 456485865 596 True 808.000000 808 90.9240 709 1321 1 chr5A.!!$R1 612
16 TraesCS5B01G258800 chr5A 474537230 474538003 773 True 469.500000 835 93.5930 463 1320 2 chr5A.!!$R3 857
17 TraesCS5B01G258800 chr3D 524784148 524784684 536 False 254.000000 433 88.5090 1 322 2 chr3D.!!$F2 321

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
338 571 0.033503 TCTGTCGGCTGGAGGTATGA 60.034 55.0 0.0 0.0 0.0 2.15 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1493 3453 0.106217 GAGAGGGGGAGAGAGAGTGG 60.106 65.0 0.0 0.0 0.0 4.0 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
64 65 9.809096 TCAGTTCTGTAATTATCAGACTGAATC 57.191 33.333 24.12 12.56 41.27 2.52
76 77 3.610242 CAGACTGAATCGTGACTTAGTGC 59.390 47.826 0.00 0.00 0.00 4.40
87 95 5.064834 TCGTGACTTAGTGCACTACTAGATG 59.935 44.000 26.02 14.99 42.57 2.90
102 110 7.389330 CACTACTAGATGGGATGTGAGTAGTAG 59.611 44.444 11.12 10.63 44.76 2.57
103 111 6.268855 ACTAGATGGGATGTGAGTAGTAGT 57.731 41.667 0.00 0.00 0.00 2.73
104 112 7.390013 ACTAGATGGGATGTGAGTAGTAGTA 57.610 40.000 0.00 0.00 0.00 1.82
116 124 6.125029 GTGAGTAGTAGTACATACCTGGGAA 58.875 44.000 10.33 0.00 34.67 3.97
137 145 7.175467 TGGGAATATTTTTCATGATCCGAGATG 59.825 37.037 0.00 0.00 0.00 2.90
190 198 4.998033 AGCTTTAAGTTCAGCTGTTCCTAC 59.002 41.667 14.67 5.69 44.98 3.18
192 200 4.967084 TTAAGTTCAGCTGTTCCTACCA 57.033 40.909 14.67 0.00 0.00 3.25
193 201 5.499004 TTAAGTTCAGCTGTTCCTACCAT 57.501 39.130 14.67 1.43 0.00 3.55
194 202 4.373156 AAGTTCAGCTGTTCCTACCATT 57.627 40.909 14.67 0.00 0.00 3.16
195 203 5.499004 AAGTTCAGCTGTTCCTACCATTA 57.501 39.130 14.67 0.00 0.00 1.90
206 214 6.486056 TGTTCCTACCATTAATTACCTGCAA 58.514 36.000 0.00 0.00 0.00 4.08
207 215 6.601613 TGTTCCTACCATTAATTACCTGCAAG 59.398 38.462 0.00 0.00 0.00 4.01
230 238 6.882656 AGGCATAGCATAGGATTACATGTAG 58.117 40.000 5.56 0.00 0.00 2.74
326 559 2.827190 TCCGGACGGATCTGTCGG 60.827 66.667 27.17 27.17 39.76 4.79
327 560 4.570663 CCGGACGGATCTGTCGGC 62.571 72.222 28.20 15.97 39.83 5.54
328 561 3.518998 CGGACGGATCTGTCGGCT 61.519 66.667 24.89 0.00 39.83 5.52
329 562 2.105128 GGACGGATCTGTCGGCTG 59.895 66.667 24.89 0.00 39.83 4.85
330 563 2.105128 GACGGATCTGTCGGCTGG 59.895 66.667 18.66 0.00 32.06 4.85
331 564 2.362503 ACGGATCTGTCGGCTGGA 60.363 61.111 0.00 0.00 0.00 3.86
332 565 2.343163 GACGGATCTGTCGGCTGGAG 62.343 65.000 18.66 0.00 32.06 3.86
333 566 2.818132 GGATCTGTCGGCTGGAGG 59.182 66.667 0.00 0.00 0.00 4.30
334 567 2.060980 GGATCTGTCGGCTGGAGGT 61.061 63.158 0.00 0.00 0.00 3.85
335 568 0.755698 GGATCTGTCGGCTGGAGGTA 60.756 60.000 0.00 0.00 0.00 3.08
336 569 1.333177 GATCTGTCGGCTGGAGGTAT 58.667 55.000 0.00 0.00 0.00 2.73
337 570 1.000283 GATCTGTCGGCTGGAGGTATG 60.000 57.143 0.00 0.00 0.00 2.39
338 571 0.033503 TCTGTCGGCTGGAGGTATGA 60.034 55.000 0.00 0.00 0.00 2.15
339 572 0.387202 CTGTCGGCTGGAGGTATGAG 59.613 60.000 0.00 0.00 0.00 2.90
340 573 0.033503 TGTCGGCTGGAGGTATGAGA 60.034 55.000 0.00 0.00 0.00 3.27
341 574 1.333177 GTCGGCTGGAGGTATGAGAT 58.667 55.000 0.00 0.00 0.00 2.75
342 575 1.689273 GTCGGCTGGAGGTATGAGATT 59.311 52.381 0.00 0.00 0.00 2.40
343 576 2.891580 GTCGGCTGGAGGTATGAGATTA 59.108 50.000 0.00 0.00 0.00 1.75
344 577 3.321111 GTCGGCTGGAGGTATGAGATTAA 59.679 47.826 0.00 0.00 0.00 1.40
345 578 3.321111 TCGGCTGGAGGTATGAGATTAAC 59.679 47.826 0.00 0.00 0.00 2.01
346 579 3.069586 CGGCTGGAGGTATGAGATTAACA 59.930 47.826 0.00 0.00 0.00 2.41
347 580 4.636249 GGCTGGAGGTATGAGATTAACAG 58.364 47.826 0.00 0.00 0.00 3.16
348 581 4.101741 GGCTGGAGGTATGAGATTAACAGT 59.898 45.833 0.00 0.00 0.00 3.55
349 582 5.304614 GGCTGGAGGTATGAGATTAACAGTA 59.695 44.000 0.00 0.00 0.00 2.74
350 583 6.183360 GGCTGGAGGTATGAGATTAACAGTAA 60.183 42.308 0.00 0.00 0.00 2.24
351 584 6.702282 GCTGGAGGTATGAGATTAACAGTAAC 59.298 42.308 0.00 0.00 0.00 2.50
352 585 7.632898 GCTGGAGGTATGAGATTAACAGTAACA 60.633 40.741 0.00 0.00 0.00 2.41
353 586 7.553334 TGGAGGTATGAGATTAACAGTAACAC 58.447 38.462 0.00 0.00 0.00 3.32
354 587 7.179516 TGGAGGTATGAGATTAACAGTAACACA 59.820 37.037 0.00 0.00 0.00 3.72
355 588 8.038944 GGAGGTATGAGATTAACAGTAACACAA 58.961 37.037 0.00 0.00 0.00 3.33
356 589 9.601217 GAGGTATGAGATTAACAGTAACACAAT 57.399 33.333 0.00 0.00 0.00 2.71
357 590 9.601217 AGGTATGAGATTAACAGTAACACAATC 57.399 33.333 0.00 0.00 0.00 2.67
358 591 9.601217 GGTATGAGATTAACAGTAACACAATCT 57.399 33.333 0.00 0.00 38.36 2.40
369 602 8.723942 ACAGTAACACAATCTATTTCTGGATC 57.276 34.615 0.00 0.00 0.00 3.36
370 603 8.321353 ACAGTAACACAATCTATTTCTGGATCA 58.679 33.333 0.00 0.00 0.00 2.92
371 604 9.166173 CAGTAACACAATCTATTTCTGGATCAA 57.834 33.333 0.00 0.00 0.00 2.57
372 605 9.739276 AGTAACACAATCTATTTCTGGATCAAA 57.261 29.630 0.00 0.00 0.00 2.69
373 606 9.994432 GTAACACAATCTATTTCTGGATCAAAG 57.006 33.333 0.00 0.00 0.00 2.77
374 607 8.641498 AACACAATCTATTTCTGGATCAAAGT 57.359 30.769 0.00 0.00 0.00 2.66
375 608 8.048534 ACACAATCTATTTCTGGATCAAAGTG 57.951 34.615 0.00 0.00 0.00 3.16
376 609 7.884877 ACACAATCTATTTCTGGATCAAAGTGA 59.115 33.333 0.00 0.00 0.00 3.41
377 610 8.180267 CACAATCTATTTCTGGATCAAAGTGAC 58.820 37.037 0.00 0.00 0.00 3.67
378 611 8.105829 ACAATCTATTTCTGGATCAAAGTGACT 58.894 33.333 0.00 0.00 0.00 3.41
379 612 8.396390 CAATCTATTTCTGGATCAAAGTGACTG 58.604 37.037 0.00 0.00 0.00 3.51
380 613 6.409704 TCTATTTCTGGATCAAAGTGACTGG 58.590 40.000 0.00 0.00 0.00 4.00
381 614 2.479566 TCTGGATCAAAGTGACTGGC 57.520 50.000 0.00 0.00 0.00 4.85
382 615 1.699083 TCTGGATCAAAGTGACTGGCA 59.301 47.619 0.00 0.00 0.00 4.92
383 616 2.082231 CTGGATCAAAGTGACTGGCAG 58.918 52.381 14.16 14.16 0.00 4.85
384 617 1.421268 TGGATCAAAGTGACTGGCAGT 59.579 47.619 22.26 22.26 0.00 4.40
385 618 2.158623 TGGATCAAAGTGACTGGCAGTT 60.159 45.455 22.98 2.47 41.88 3.16
387 620 3.319122 GGATCAAAGTGACTGGCAGTTTT 59.681 43.478 22.98 15.31 45.51 2.43
388 621 3.781079 TCAAAGTGACTGGCAGTTTTG 57.219 42.857 26.28 26.28 45.51 2.44
389 622 3.088532 TCAAAGTGACTGGCAGTTTTGT 58.911 40.909 28.73 13.53 45.51 2.83
390 623 3.509575 TCAAAGTGACTGGCAGTTTTGTT 59.490 39.130 28.73 17.41 45.51 2.83
391 624 4.021544 TCAAAGTGACTGGCAGTTTTGTTT 60.022 37.500 28.73 20.21 45.51 2.83
392 625 4.535526 AAGTGACTGGCAGTTTTGTTTT 57.464 36.364 22.98 8.08 36.79 2.43
393 626 4.110036 AGTGACTGGCAGTTTTGTTTTC 57.890 40.909 22.98 6.68 0.00 2.29
394 627 3.509575 AGTGACTGGCAGTTTTGTTTTCA 59.490 39.130 22.98 9.45 0.00 2.69
395 628 3.859386 GTGACTGGCAGTTTTGTTTTCAG 59.141 43.478 22.98 0.00 0.00 3.02
396 629 3.509575 TGACTGGCAGTTTTGTTTTCAGT 59.490 39.130 22.98 0.00 36.80 3.41
397 630 4.021544 TGACTGGCAGTTTTGTTTTCAGTT 60.022 37.500 22.98 0.00 34.63 3.16
398 631 5.184096 TGACTGGCAGTTTTGTTTTCAGTTA 59.816 36.000 22.98 0.00 34.63 2.24
399 632 6.031751 ACTGGCAGTTTTGTTTTCAGTTAA 57.968 33.333 15.88 0.00 30.95 2.01
400 633 5.867174 ACTGGCAGTTTTGTTTTCAGTTAAC 59.133 36.000 15.88 0.00 30.95 2.01
401 634 6.031751 TGGCAGTTTTGTTTTCAGTTAACT 57.968 33.333 1.12 1.12 32.30 2.24
402 635 5.866633 TGGCAGTTTTGTTTTCAGTTAACTG 59.133 36.000 26.60 26.60 45.08 3.16
414 647 2.930040 CAGTTAACTGACGCATAGGTGG 59.070 50.000 28.17 0.00 46.59 4.61
419 652 2.311688 CTGACGCATAGGTGGTCCCC 62.312 65.000 0.00 0.00 0.00 4.81
421 654 1.906105 GACGCATAGGTGGTCCCCAA 61.906 60.000 0.00 0.00 34.18 4.12
429 662 6.016555 GCATAGGTGGTCCCCAATAATAAAT 58.983 40.000 0.00 0.00 34.18 1.40
520 759 9.461312 AAGCTTTATCAAGGTGATTACATACAA 57.539 29.630 0.00 0.00 39.96 2.41
521 760 9.632638 AGCTTTATCAAGGTGATTACATACAAT 57.367 29.630 0.00 0.00 39.36 2.71
522 761 9.884465 GCTTTATCAAGGTGATTACATACAATC 57.116 33.333 0.00 0.00 38.26 2.67
533 772 8.262601 TGATTACATACAATCACATACTCCCT 57.737 34.615 0.00 0.00 39.43 4.20
534 773 8.367911 TGATTACATACAATCACATACTCCCTC 58.632 37.037 0.00 0.00 39.43 4.30
535 774 5.552870 ACATACAATCACATACTCCCTCC 57.447 43.478 0.00 0.00 0.00 4.30
536 775 4.968719 ACATACAATCACATACTCCCTCCA 59.031 41.667 0.00 0.00 0.00 3.86
537 776 5.608437 ACATACAATCACATACTCCCTCCAT 59.392 40.000 0.00 0.00 0.00 3.41
538 777 6.101734 ACATACAATCACATACTCCCTCCATT 59.898 38.462 0.00 0.00 0.00 3.16
539 778 5.041191 ACAATCACATACTCCCTCCATTC 57.959 43.478 0.00 0.00 0.00 2.67
540 779 4.060900 CAATCACATACTCCCTCCATTCG 58.939 47.826 0.00 0.00 0.00 3.34
541 780 2.039418 TCACATACTCCCTCCATTCGG 58.961 52.381 0.00 0.00 0.00 4.30
542 781 2.039418 CACATACTCCCTCCATTCGGA 58.961 52.381 0.00 0.00 39.79 4.55
543 782 2.434336 CACATACTCCCTCCATTCGGAA 59.566 50.000 0.00 0.00 42.21 4.30
544 783 3.071602 CACATACTCCCTCCATTCGGAAT 59.928 47.826 0.00 0.00 42.21 3.01
545 784 3.716872 ACATACTCCCTCCATTCGGAATT 59.283 43.478 0.00 0.00 42.21 2.17
546 785 4.905456 ACATACTCCCTCCATTCGGAATTA 59.095 41.667 0.00 0.00 42.21 1.40
547 786 3.840124 ACTCCCTCCATTCGGAATTAC 57.160 47.619 0.00 0.00 42.21 1.89
548 787 3.385115 ACTCCCTCCATTCGGAATTACT 58.615 45.455 0.00 0.00 42.21 2.24
549 788 3.780850 ACTCCCTCCATTCGGAATTACTT 59.219 43.478 0.00 0.00 42.21 2.24
550 789 4.130118 CTCCCTCCATTCGGAATTACTTG 58.870 47.826 0.00 0.00 42.21 3.16
551 790 3.521937 TCCCTCCATTCGGAATTACTTGT 59.478 43.478 0.00 0.00 42.21 3.16
552 791 3.877508 CCCTCCATTCGGAATTACTTGTC 59.122 47.826 0.00 0.00 42.21 3.18
553 792 4.384208 CCCTCCATTCGGAATTACTTGTCT 60.384 45.833 0.00 0.00 42.21 3.41
554 793 4.811557 CCTCCATTCGGAATTACTTGTCTC 59.188 45.833 0.00 0.00 42.21 3.36
555 794 4.430007 TCCATTCGGAATTACTTGTCTCG 58.570 43.478 0.00 0.00 38.83 4.04
556 795 3.555956 CCATTCGGAATTACTTGTCTCGG 59.444 47.826 0.00 0.00 0.00 4.63
557 796 4.430007 CATTCGGAATTACTTGTCTCGGA 58.570 43.478 0.00 0.00 0.00 4.55
558 797 4.524316 TTCGGAATTACTTGTCTCGGAA 57.476 40.909 0.00 0.00 0.00 4.30
559 798 4.524316 TCGGAATTACTTGTCTCGGAAA 57.476 40.909 0.00 0.00 0.00 3.13
560 799 5.080969 TCGGAATTACTTGTCTCGGAAAT 57.919 39.130 0.00 0.00 0.00 2.17
561 800 4.868171 TCGGAATTACTTGTCTCGGAAATG 59.132 41.667 0.00 0.00 0.00 2.32
562 801 4.034048 CGGAATTACTTGTCTCGGAAATGG 59.966 45.833 0.00 0.00 0.00 3.16
563 802 5.183228 GGAATTACTTGTCTCGGAAATGGA 58.817 41.667 0.00 0.00 0.00 3.41
564 803 5.823045 GGAATTACTTGTCTCGGAAATGGAT 59.177 40.000 0.00 0.00 0.00 3.41
565 804 6.238484 GGAATTACTTGTCTCGGAAATGGATG 60.238 42.308 0.00 0.00 0.00 3.51
566 805 3.703001 ACTTGTCTCGGAAATGGATGT 57.297 42.857 0.00 0.00 0.00 3.06
567 806 4.819105 ACTTGTCTCGGAAATGGATGTA 57.181 40.909 0.00 0.00 0.00 2.29
568 807 5.359194 ACTTGTCTCGGAAATGGATGTAT 57.641 39.130 0.00 0.00 0.00 2.29
569 808 5.360591 ACTTGTCTCGGAAATGGATGTATC 58.639 41.667 0.00 0.00 0.00 2.24
570 809 5.129485 ACTTGTCTCGGAAATGGATGTATCT 59.871 40.000 0.00 0.00 0.00 1.98
571 810 6.323996 ACTTGTCTCGGAAATGGATGTATCTA 59.676 38.462 0.00 0.00 0.00 1.98
572 811 6.332735 TGTCTCGGAAATGGATGTATCTAG 57.667 41.667 0.00 0.00 0.00 2.43
573 812 6.068670 TGTCTCGGAAATGGATGTATCTAGA 58.931 40.000 0.00 0.00 0.00 2.43
574 813 6.016192 TGTCTCGGAAATGGATGTATCTAGAC 60.016 42.308 0.00 0.00 0.00 2.59
575 814 5.181433 TCTCGGAAATGGATGTATCTAGACG 59.819 44.000 0.00 0.00 0.00 4.18
576 815 4.825634 TCGGAAATGGATGTATCTAGACGT 59.174 41.667 0.00 0.00 0.00 4.34
577 816 5.999600 TCGGAAATGGATGTATCTAGACGTA 59.000 40.000 0.00 0.00 0.00 3.57
578 817 6.657966 TCGGAAATGGATGTATCTAGACGTAT 59.342 38.462 0.00 0.00 0.00 3.06
579 818 7.176165 TCGGAAATGGATGTATCTAGACGTATT 59.824 37.037 0.00 0.00 0.00 1.89
580 819 7.813148 CGGAAATGGATGTATCTAGACGTATTT 59.187 37.037 0.00 0.00 0.00 1.40
581 820 9.141400 GGAAATGGATGTATCTAGACGTATTTC 57.859 37.037 0.00 5.47 32.79 2.17
582 821 9.915629 GAAATGGATGTATCTAGACGTATTTCT 57.084 33.333 0.00 0.00 31.59 2.52
594 833 9.961264 TCTAGACGTATTTCTAGATACATCCAT 57.039 33.333 7.44 0.00 46.09 3.41
597 836 9.915629 AGACGTATTTCTAGATACATCCATTTC 57.084 33.333 0.00 0.00 33.12 2.17
598 837 9.141400 GACGTATTTCTAGATACATCCATTTCC 57.859 37.037 0.00 0.00 33.12 3.13
599 838 7.813148 ACGTATTTCTAGATACATCCATTTCCG 59.187 37.037 0.00 0.00 33.12 4.30
600 839 8.027189 CGTATTTCTAGATACATCCATTTCCGA 58.973 37.037 0.00 0.00 33.12 4.55
601 840 9.360093 GTATTTCTAGATACATCCATTTCCGAG 57.640 37.037 0.00 0.00 33.63 4.63
602 841 7.597288 TTTCTAGATACATCCATTTCCGAGA 57.403 36.000 0.00 0.00 0.00 4.04
603 842 6.576662 TCTAGATACATCCATTTCCGAGAC 57.423 41.667 0.00 0.00 0.00 3.36
604 843 6.068670 TCTAGATACATCCATTTCCGAGACA 58.931 40.000 0.00 0.00 0.00 3.41
605 844 5.614324 AGATACATCCATTTCCGAGACAA 57.386 39.130 0.00 0.00 0.00 3.18
606 845 5.605534 AGATACATCCATTTCCGAGACAAG 58.394 41.667 0.00 0.00 0.00 3.16
607 846 3.703001 ACATCCATTTCCGAGACAAGT 57.297 42.857 0.00 0.00 0.00 3.16
608 847 4.819105 ACATCCATTTCCGAGACAAGTA 57.181 40.909 0.00 0.00 0.00 2.24
609 848 5.160607 ACATCCATTTCCGAGACAAGTAA 57.839 39.130 0.00 0.00 0.00 2.24
610 849 5.745227 ACATCCATTTCCGAGACAAGTAAT 58.255 37.500 0.00 0.00 0.00 1.89
611 850 6.180472 ACATCCATTTCCGAGACAAGTAATT 58.820 36.000 0.00 0.00 0.00 1.40
612 851 6.316390 ACATCCATTTCCGAGACAAGTAATTC 59.684 38.462 0.00 0.00 0.00 2.17
613 852 5.183228 TCCATTTCCGAGACAAGTAATTCC 58.817 41.667 0.00 0.00 0.00 3.01
614 853 4.034048 CCATTTCCGAGACAAGTAATTCCG 59.966 45.833 0.00 0.00 0.00 4.30
615 854 4.524316 TTTCCGAGACAAGTAATTCCGA 57.476 40.909 0.00 0.00 0.00 4.55
616 855 4.524316 TTCCGAGACAAGTAATTCCGAA 57.476 40.909 0.00 0.00 0.00 4.30
617 856 3.841643 TCCGAGACAAGTAATTCCGAAC 58.158 45.455 0.00 0.00 0.00 3.95
618 857 2.597305 CCGAGACAAGTAATTCCGAACG 59.403 50.000 0.00 0.00 0.00 3.95
619 858 3.495193 CGAGACAAGTAATTCCGAACGA 58.505 45.455 0.00 0.00 0.00 3.85
620 859 3.916172 CGAGACAAGTAATTCCGAACGAA 59.084 43.478 0.00 0.00 34.14 3.85
621 860 4.030306 CGAGACAAGTAATTCCGAACGAAG 59.970 45.833 0.00 0.00 32.78 3.79
622 861 4.243270 AGACAAGTAATTCCGAACGAAGG 58.757 43.478 0.00 0.00 32.78 3.46
623 862 3.332034 ACAAGTAATTCCGAACGAAGGG 58.668 45.455 0.00 0.00 32.78 3.95
624 863 3.007182 ACAAGTAATTCCGAACGAAGGGA 59.993 43.478 0.00 0.00 32.78 4.20
625 864 3.521947 AGTAATTCCGAACGAAGGGAG 57.478 47.619 0.00 0.00 32.78 4.30
626 865 2.830321 AGTAATTCCGAACGAAGGGAGT 59.170 45.455 0.00 0.00 32.78 3.85
627 866 4.019174 AGTAATTCCGAACGAAGGGAGTA 58.981 43.478 0.00 0.00 32.78 2.59
644 883 3.190744 GGAGTACATCACTGAACTGACGA 59.809 47.826 0.00 0.00 37.72 4.20
645 884 4.159857 GAGTACATCACTGAACTGACGAC 58.840 47.826 0.00 0.00 37.72 4.34
758 1126 6.422701 CACTTGTGAGAATCCGTGTTTACTTA 59.577 38.462 0.00 0.00 0.00 2.24
789 2615 3.324117 CATGATGATGATCCGGACTCAC 58.676 50.000 6.12 7.69 0.00 3.51
811 2641 0.586802 GTTTCTCGTGTGGCCAACTC 59.413 55.000 7.24 0.00 0.00 3.01
816 2646 2.177580 CGTGTGGCCAACTCGTGTT 61.178 57.895 7.24 0.00 40.13 3.32
817 2647 1.647084 GTGTGGCCAACTCGTGTTC 59.353 57.895 7.24 0.00 33.52 3.18
924 2767 2.027460 GGCCACCAAAGCAACACG 59.973 61.111 0.00 0.00 0.00 4.49
925 2768 2.485795 GGCCACCAAAGCAACACGA 61.486 57.895 0.00 0.00 0.00 4.35
926 2769 1.299089 GCCACCAAAGCAACACGAC 60.299 57.895 0.00 0.00 0.00 4.34
927 2770 1.358759 CCACCAAAGCAACACGACC 59.641 57.895 0.00 0.00 0.00 4.79
928 2771 1.380403 CCACCAAAGCAACACGACCA 61.380 55.000 0.00 0.00 0.00 4.02
929 2772 0.248458 CACCAAAGCAACACGACCAC 60.248 55.000 0.00 0.00 0.00 4.16
944 2793 3.959975 CACAACCACAACCGGCGG 61.960 66.667 27.06 27.06 0.00 6.13
958 2807 2.750888 GGCGGCATCGTCTTGTTCC 61.751 63.158 3.07 0.00 38.10 3.62
959 2808 1.741770 GCGGCATCGTCTTGTTCCT 60.742 57.895 0.00 0.00 38.89 3.36
960 2809 1.696832 GCGGCATCGTCTTGTTCCTC 61.697 60.000 0.00 0.00 38.89 3.71
967 2819 1.066114 CGTCTTGTTCCTCTCGACGC 61.066 60.000 0.00 0.00 40.52 5.19
982 2834 2.029970 TCGACGCAGACAAGTTTTCAAC 59.970 45.455 0.00 0.00 0.00 3.18
1206 3094 4.812476 TCCATGTTCGCCGAGCCG 62.812 66.667 0.00 0.00 0.00 5.52
1249 3149 2.559330 GCGGCTTAACCACCAACG 59.441 61.111 0.00 0.00 39.03 4.10
1308 3212 5.447954 CGTCGTCTTCTAGATGGCCTATATG 60.448 48.000 3.32 0.00 32.38 1.78
1477 3437 0.605589 CTCTCTCTCACACACACCCC 59.394 60.000 0.00 0.00 0.00 4.95
1493 3453 2.040359 CCCTCCCTCCCTCTTCCC 60.040 72.222 0.00 0.00 0.00 3.97
1759 3858 1.229209 TTCTCCTGTTCCCCGAGCT 60.229 57.895 0.00 0.00 0.00 4.09
1762 3861 4.020617 CCTGTTCCCCGAGCTGCA 62.021 66.667 1.02 0.00 0.00 4.41
2002 4133 0.179108 ATGCCTTCGCTACTTCGTCC 60.179 55.000 0.00 0.00 35.36 4.79
2007 4138 4.831307 CGCTACTTCGTCCGCGCT 62.831 66.667 5.56 0.00 39.11 5.92
2163 4294 2.269023 TGATCTCCTCTTGCCTTTCCA 58.731 47.619 0.00 0.00 0.00 3.53
2191 4322 1.605712 CCCTCTCGTTTGCTCTCGTTT 60.606 52.381 0.00 0.00 0.00 3.60
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 9.126151 TGAGAATATGTGTTTTGTTTCCACTAA 57.874 29.630 0.00 0.00 0.00 2.24
15 16 8.684386 TGAGAATATGTGTTTTGTTTCCACTA 57.316 30.769 0.00 0.00 0.00 2.74
35 36 9.025041 TCAGTCTGATAATTACAGAACTGAGAA 57.975 33.333 23.49 14.65 44.29 2.87
37 38 9.814899 ATTCAGTCTGATAATTACAGAACTGAG 57.185 33.333 24.41 14.48 43.66 3.35
54 55 3.610242 GCACTAAGTCACGATTCAGTCTG 59.390 47.826 0.00 0.00 0.00 3.51
64 65 4.941325 TCTAGTAGTGCACTAAGTCACG 57.059 45.455 27.61 12.90 39.28 4.35
76 77 6.065374 ACTACTCACATCCCATCTAGTAGTG 58.935 44.000 11.11 0.00 44.74 2.74
87 95 6.207025 CAGGTATGTACTACTACTCACATCCC 59.793 46.154 0.00 0.00 33.78 3.85
102 110 9.349713 TCATGAAAAATATTCCCAGGTATGTAC 57.650 33.333 0.00 0.00 0.00 2.90
104 112 9.082313 GATCATGAAAAATATTCCCAGGTATGT 57.918 33.333 0.00 0.00 0.00 2.29
116 124 8.915057 AAGTCATCTCGGATCATGAAAAATAT 57.085 30.769 0.00 0.00 30.76 1.28
137 145 6.012658 TCCATACAGCAAATTGTTGAAGTC 57.987 37.500 16.48 0.00 36.83 3.01
190 198 4.942761 ATGCCTTGCAGGTAATTAATGG 57.057 40.909 0.00 0.00 43.65 3.16
192 200 5.139727 TGCTATGCCTTGCAGGTAATTAAT 58.860 37.500 0.00 0.00 43.65 1.40
193 201 4.531854 TGCTATGCCTTGCAGGTAATTAA 58.468 39.130 0.00 0.00 43.65 1.40
194 202 4.163441 TGCTATGCCTTGCAGGTAATTA 57.837 40.909 0.00 0.00 43.65 1.40
195 203 3.017048 TGCTATGCCTTGCAGGTAATT 57.983 42.857 0.00 0.00 43.65 1.40
206 214 5.768980 ACATGTAATCCTATGCTATGCCT 57.231 39.130 0.00 0.00 0.00 4.75
207 215 6.878317 TCTACATGTAATCCTATGCTATGCC 58.122 40.000 7.06 0.00 0.00 4.40
230 238 5.581126 TGTTCATCCAGCCATTAACATTC 57.419 39.130 0.00 0.00 0.00 2.67
322 555 1.333177 ATCTCATACCTCCAGCCGAC 58.667 55.000 0.00 0.00 0.00 4.79
323 556 2.088104 AATCTCATACCTCCAGCCGA 57.912 50.000 0.00 0.00 0.00 5.54
324 557 3.069586 TGTTAATCTCATACCTCCAGCCG 59.930 47.826 0.00 0.00 0.00 5.52
325 558 4.101741 ACTGTTAATCTCATACCTCCAGCC 59.898 45.833 0.00 0.00 0.00 4.85
326 559 5.283457 ACTGTTAATCTCATACCTCCAGC 57.717 43.478 0.00 0.00 0.00 4.85
327 560 7.707035 GTGTTACTGTTAATCTCATACCTCCAG 59.293 40.741 0.00 0.00 0.00 3.86
328 561 7.179516 TGTGTTACTGTTAATCTCATACCTCCA 59.820 37.037 0.00 0.00 0.00 3.86
329 562 7.553334 TGTGTTACTGTTAATCTCATACCTCC 58.447 38.462 0.00 0.00 0.00 4.30
330 563 8.997621 TTGTGTTACTGTTAATCTCATACCTC 57.002 34.615 0.00 0.00 0.00 3.85
331 564 9.601217 GATTGTGTTACTGTTAATCTCATACCT 57.399 33.333 0.00 0.00 0.00 3.08
332 565 9.601217 AGATTGTGTTACTGTTAATCTCATACC 57.399 33.333 0.00 0.00 34.03 2.73
343 576 9.167311 GATCCAGAAATAGATTGTGTTACTGTT 57.833 33.333 0.00 0.00 30.51 3.16
344 577 8.321353 TGATCCAGAAATAGATTGTGTTACTGT 58.679 33.333 0.00 0.00 30.51 3.55
345 578 8.722480 TGATCCAGAAATAGATTGTGTTACTG 57.278 34.615 0.00 0.00 30.51 2.74
346 579 9.739276 TTTGATCCAGAAATAGATTGTGTTACT 57.261 29.630 0.00 0.00 30.51 2.24
347 580 9.994432 CTTTGATCCAGAAATAGATTGTGTTAC 57.006 33.333 0.00 0.00 30.51 2.50
348 581 9.739276 ACTTTGATCCAGAAATAGATTGTGTTA 57.261 29.630 0.00 0.00 30.51 2.41
349 582 8.517878 CACTTTGATCCAGAAATAGATTGTGTT 58.482 33.333 0.00 0.00 30.51 3.32
350 583 7.884877 TCACTTTGATCCAGAAATAGATTGTGT 59.115 33.333 0.00 0.00 30.51 3.72
351 584 8.180267 GTCACTTTGATCCAGAAATAGATTGTG 58.820 37.037 0.00 0.00 32.24 3.33
352 585 8.105829 AGTCACTTTGATCCAGAAATAGATTGT 58.894 33.333 0.00 0.00 0.00 2.71
353 586 8.396390 CAGTCACTTTGATCCAGAAATAGATTG 58.604 37.037 0.00 0.00 0.00 2.67
354 587 7.555554 CCAGTCACTTTGATCCAGAAATAGATT 59.444 37.037 0.00 0.00 0.00 2.40
355 588 7.052873 CCAGTCACTTTGATCCAGAAATAGAT 58.947 38.462 0.00 0.00 0.00 1.98
356 589 6.409704 CCAGTCACTTTGATCCAGAAATAGA 58.590 40.000 0.00 0.00 0.00 1.98
357 590 5.065731 GCCAGTCACTTTGATCCAGAAATAG 59.934 44.000 0.00 0.00 0.00 1.73
358 591 4.943705 GCCAGTCACTTTGATCCAGAAATA 59.056 41.667 0.00 0.00 0.00 1.40
359 592 3.760684 GCCAGTCACTTTGATCCAGAAAT 59.239 43.478 0.00 0.00 0.00 2.17
360 593 3.149196 GCCAGTCACTTTGATCCAGAAA 58.851 45.455 0.00 0.00 0.00 2.52
361 594 2.106338 TGCCAGTCACTTTGATCCAGAA 59.894 45.455 0.00 0.00 0.00 3.02
362 595 1.699083 TGCCAGTCACTTTGATCCAGA 59.301 47.619 0.00 0.00 0.00 3.86
363 596 2.082231 CTGCCAGTCACTTTGATCCAG 58.918 52.381 0.00 0.00 0.00 3.86
364 597 1.421268 ACTGCCAGTCACTTTGATCCA 59.579 47.619 0.00 0.00 0.00 3.41
365 598 2.191128 ACTGCCAGTCACTTTGATCC 57.809 50.000 0.00 0.00 0.00 3.36
366 599 4.202050 ACAAAACTGCCAGTCACTTTGATC 60.202 41.667 21.33 0.00 31.58 2.92
367 600 3.701040 ACAAAACTGCCAGTCACTTTGAT 59.299 39.130 21.33 8.00 31.58 2.57
368 601 3.088532 ACAAAACTGCCAGTCACTTTGA 58.911 40.909 21.33 0.00 31.58 2.69
369 602 3.508744 ACAAAACTGCCAGTCACTTTG 57.491 42.857 15.51 15.51 32.58 2.77
370 603 4.535526 AAACAAAACTGCCAGTCACTTT 57.464 36.364 0.00 0.00 0.00 2.66
371 604 4.021544 TGAAAACAAAACTGCCAGTCACTT 60.022 37.500 0.00 0.00 0.00 3.16
372 605 3.509575 TGAAAACAAAACTGCCAGTCACT 59.490 39.130 0.00 0.00 0.00 3.41
373 606 3.843999 TGAAAACAAAACTGCCAGTCAC 58.156 40.909 0.00 0.00 0.00 3.67
374 607 3.509575 ACTGAAAACAAAACTGCCAGTCA 59.490 39.130 0.00 0.00 0.00 3.41
375 608 4.110036 ACTGAAAACAAAACTGCCAGTC 57.890 40.909 0.00 0.00 0.00 3.51
376 609 4.535526 AACTGAAAACAAAACTGCCAGT 57.464 36.364 0.00 0.00 35.22 4.00
377 610 6.034898 CAGTTAACTGAAAACAAAACTGCCAG 59.965 38.462 28.17 0.00 46.59 4.85
378 611 5.866633 CAGTTAACTGAAAACAAAACTGCCA 59.133 36.000 28.17 0.00 46.59 4.92
379 612 6.331170 CAGTTAACTGAAAACAAAACTGCC 57.669 37.500 28.17 0.00 46.59 4.85
393 626 2.930040 CCACCTATGCGTCAGTTAACTG 59.070 50.000 26.60 26.60 45.08 3.16
394 627 2.565834 ACCACCTATGCGTCAGTTAACT 59.434 45.455 1.12 1.12 0.00 2.24
395 628 2.928116 GACCACCTATGCGTCAGTTAAC 59.072 50.000 0.00 0.00 0.00 2.01
396 629 2.093869 GGACCACCTATGCGTCAGTTAA 60.094 50.000 0.00 0.00 31.32 2.01
397 630 1.479323 GGACCACCTATGCGTCAGTTA 59.521 52.381 0.00 0.00 31.32 2.24
398 631 0.249398 GGACCACCTATGCGTCAGTT 59.751 55.000 0.00 0.00 31.32 3.16
399 632 1.614241 GGGACCACCTATGCGTCAGT 61.614 60.000 0.00 0.00 35.85 3.41
400 633 1.144057 GGGACCACCTATGCGTCAG 59.856 63.158 0.00 0.00 35.85 3.51
401 634 3.305314 GGGACCACCTATGCGTCA 58.695 61.111 0.00 0.00 35.85 4.35
413 646 7.539034 ATGCTAACATTTATTATTGGGGACC 57.461 36.000 0.00 0.00 41.69 4.46
414 647 9.515226 TCTATGCTAACATTTATTATTGGGGAC 57.485 33.333 0.00 0.00 37.74 4.46
452 685 3.388552 TCTCCCTTAGCTGAGTGATGA 57.611 47.619 4.63 0.00 0.00 2.92
518 757 4.060900 CGAATGGAGGGAGTATGTGATTG 58.939 47.826 0.00 0.00 0.00 2.67
519 758 3.071602 CCGAATGGAGGGAGTATGTGATT 59.928 47.826 0.00 0.00 37.49 2.57
520 759 2.634940 CCGAATGGAGGGAGTATGTGAT 59.365 50.000 0.00 0.00 37.49 3.06
521 760 2.039418 CCGAATGGAGGGAGTATGTGA 58.961 52.381 0.00 0.00 37.49 3.58
522 761 2.039418 TCCGAATGGAGGGAGTATGTG 58.961 52.381 0.00 0.00 40.17 3.21
523 762 2.471815 TCCGAATGGAGGGAGTATGT 57.528 50.000 0.00 0.00 40.17 2.29
533 772 4.430007 CGAGACAAGTAATTCCGAATGGA 58.570 43.478 0.00 0.00 44.61 3.41
534 773 3.555956 CCGAGACAAGTAATTCCGAATGG 59.444 47.826 0.00 0.00 0.00 3.16
535 774 4.430007 TCCGAGACAAGTAATTCCGAATG 58.570 43.478 0.00 0.00 0.00 2.67
536 775 4.730949 TCCGAGACAAGTAATTCCGAAT 57.269 40.909 0.00 0.00 0.00 3.34
537 776 4.524316 TTCCGAGACAAGTAATTCCGAA 57.476 40.909 0.00 0.00 0.00 4.30
538 777 4.524316 TTTCCGAGACAAGTAATTCCGA 57.476 40.909 0.00 0.00 0.00 4.55
539 778 4.034048 CCATTTCCGAGACAAGTAATTCCG 59.966 45.833 0.00 0.00 0.00 4.30
540 779 5.183228 TCCATTTCCGAGACAAGTAATTCC 58.817 41.667 0.00 0.00 0.00 3.01
541 780 6.316390 ACATCCATTTCCGAGACAAGTAATTC 59.684 38.462 0.00 0.00 0.00 2.17
542 781 6.180472 ACATCCATTTCCGAGACAAGTAATT 58.820 36.000 0.00 0.00 0.00 1.40
543 782 5.745227 ACATCCATTTCCGAGACAAGTAAT 58.255 37.500 0.00 0.00 0.00 1.89
544 783 5.160607 ACATCCATTTCCGAGACAAGTAA 57.839 39.130 0.00 0.00 0.00 2.24
545 784 4.819105 ACATCCATTTCCGAGACAAGTA 57.181 40.909 0.00 0.00 0.00 2.24
546 785 3.703001 ACATCCATTTCCGAGACAAGT 57.297 42.857 0.00 0.00 0.00 3.16
547 786 5.605534 AGATACATCCATTTCCGAGACAAG 58.394 41.667 0.00 0.00 0.00 3.16
548 787 5.614324 AGATACATCCATTTCCGAGACAA 57.386 39.130 0.00 0.00 0.00 3.18
549 788 6.016192 GTCTAGATACATCCATTTCCGAGACA 60.016 42.308 0.00 0.00 0.00 3.41
550 789 6.383415 GTCTAGATACATCCATTTCCGAGAC 58.617 44.000 0.00 0.00 0.00 3.36
551 790 5.181433 CGTCTAGATACATCCATTTCCGAGA 59.819 44.000 0.00 0.00 0.00 4.04
552 791 5.048643 ACGTCTAGATACATCCATTTCCGAG 60.049 44.000 0.00 0.00 0.00 4.63
553 792 4.825634 ACGTCTAGATACATCCATTTCCGA 59.174 41.667 0.00 0.00 0.00 4.55
554 793 5.122512 ACGTCTAGATACATCCATTTCCG 57.877 43.478 0.00 0.00 0.00 4.30
555 794 9.141400 GAAATACGTCTAGATACATCCATTTCC 57.859 37.037 0.00 0.00 0.00 3.13
556 795 9.915629 AGAAATACGTCTAGATACATCCATTTC 57.084 33.333 0.00 0.00 0.00 2.17
571 810 9.915629 GAAATGGATGTATCTAGAAATACGTCT 57.084 33.333 18.64 5.71 43.28 4.18
572 811 9.141400 GGAAATGGATGTATCTAGAAATACGTC 57.859 37.037 13.85 13.85 43.12 4.34
573 812 7.813148 CGGAAATGGATGTATCTAGAAATACGT 59.187 37.037 0.00 0.00 35.31 3.57
574 813 8.027189 TCGGAAATGGATGTATCTAGAAATACG 58.973 37.037 0.00 0.00 35.31 3.06
575 814 9.360093 CTCGGAAATGGATGTATCTAGAAATAC 57.640 37.037 0.00 0.00 33.54 1.89
576 815 9.309224 TCTCGGAAATGGATGTATCTAGAAATA 57.691 33.333 0.00 0.00 0.00 1.40
577 816 8.091449 GTCTCGGAAATGGATGTATCTAGAAAT 58.909 37.037 0.00 0.00 0.00 2.17
578 817 7.069455 TGTCTCGGAAATGGATGTATCTAGAAA 59.931 37.037 0.00 0.00 0.00 2.52
579 818 6.549736 TGTCTCGGAAATGGATGTATCTAGAA 59.450 38.462 0.00 0.00 0.00 2.10
580 819 6.068670 TGTCTCGGAAATGGATGTATCTAGA 58.931 40.000 0.00 0.00 0.00 2.43
581 820 6.332735 TGTCTCGGAAATGGATGTATCTAG 57.667 41.667 0.00 0.00 0.00 2.43
582 821 6.323996 ACTTGTCTCGGAAATGGATGTATCTA 59.676 38.462 0.00 0.00 0.00 1.98
583 822 5.129485 ACTTGTCTCGGAAATGGATGTATCT 59.871 40.000 0.00 0.00 0.00 1.98
584 823 5.360591 ACTTGTCTCGGAAATGGATGTATC 58.639 41.667 0.00 0.00 0.00 2.24
585 824 5.359194 ACTTGTCTCGGAAATGGATGTAT 57.641 39.130 0.00 0.00 0.00 2.29
586 825 4.819105 ACTTGTCTCGGAAATGGATGTA 57.181 40.909 0.00 0.00 0.00 2.29
587 826 3.703001 ACTTGTCTCGGAAATGGATGT 57.297 42.857 0.00 0.00 0.00 3.06
588 827 6.238484 GGAATTACTTGTCTCGGAAATGGATG 60.238 42.308 0.00 0.00 0.00 3.51
589 828 5.823045 GGAATTACTTGTCTCGGAAATGGAT 59.177 40.000 0.00 0.00 0.00 3.41
590 829 5.183228 GGAATTACTTGTCTCGGAAATGGA 58.817 41.667 0.00 0.00 0.00 3.41
591 830 4.034048 CGGAATTACTTGTCTCGGAAATGG 59.966 45.833 0.00 0.00 0.00 3.16
592 831 4.868171 TCGGAATTACTTGTCTCGGAAATG 59.132 41.667 0.00 0.00 0.00 2.32
593 832 5.080969 TCGGAATTACTTGTCTCGGAAAT 57.919 39.130 0.00 0.00 0.00 2.17
594 833 4.524316 TCGGAATTACTTGTCTCGGAAA 57.476 40.909 0.00 0.00 0.00 3.13
595 834 4.240096 GTTCGGAATTACTTGTCTCGGAA 58.760 43.478 0.00 0.00 0.00 4.30
596 835 3.671433 CGTTCGGAATTACTTGTCTCGGA 60.671 47.826 0.00 0.00 0.00 4.55
597 836 2.597305 CGTTCGGAATTACTTGTCTCGG 59.403 50.000 0.00 0.00 0.00 4.63
598 837 3.495193 TCGTTCGGAATTACTTGTCTCG 58.505 45.455 0.00 0.00 0.00 4.04
599 838 4.326548 CCTTCGTTCGGAATTACTTGTCTC 59.673 45.833 0.00 0.00 33.26 3.36
600 839 4.243270 CCTTCGTTCGGAATTACTTGTCT 58.757 43.478 0.00 0.00 33.26 3.41
601 840 3.370061 CCCTTCGTTCGGAATTACTTGTC 59.630 47.826 0.00 0.00 33.26 3.18
602 841 3.007182 TCCCTTCGTTCGGAATTACTTGT 59.993 43.478 0.00 0.00 33.26 3.16
603 842 3.592059 TCCCTTCGTTCGGAATTACTTG 58.408 45.455 0.00 0.00 33.26 3.16
604 843 3.260128 ACTCCCTTCGTTCGGAATTACTT 59.740 43.478 0.00 0.00 33.26 2.24
605 844 2.830321 ACTCCCTTCGTTCGGAATTACT 59.170 45.455 0.00 0.00 33.26 2.24
606 845 3.242549 ACTCCCTTCGTTCGGAATTAC 57.757 47.619 0.00 0.00 33.26 1.89
607 846 3.763360 TGTACTCCCTTCGTTCGGAATTA 59.237 43.478 0.00 0.00 33.26 1.40
608 847 2.564062 TGTACTCCCTTCGTTCGGAATT 59.436 45.455 0.00 0.00 33.26 2.17
609 848 2.173519 TGTACTCCCTTCGTTCGGAAT 58.826 47.619 0.00 0.00 33.26 3.01
610 849 1.619654 TGTACTCCCTTCGTTCGGAA 58.380 50.000 0.00 0.00 0.00 4.30
611 850 1.747355 GATGTACTCCCTTCGTTCGGA 59.253 52.381 0.00 0.00 0.00 4.55
612 851 1.475280 TGATGTACTCCCTTCGTTCGG 59.525 52.381 0.00 0.00 0.00 4.30
613 852 2.163815 AGTGATGTACTCCCTTCGTTCG 59.836 50.000 0.00 0.00 33.17 3.95
614 853 3.192844 TCAGTGATGTACTCCCTTCGTTC 59.807 47.826 0.00 0.00 37.60 3.95
615 854 3.162666 TCAGTGATGTACTCCCTTCGTT 58.837 45.455 0.00 0.00 37.60 3.85
616 855 2.803956 TCAGTGATGTACTCCCTTCGT 58.196 47.619 0.00 0.00 37.60 3.85
617 856 3.193691 AGTTCAGTGATGTACTCCCTTCG 59.806 47.826 0.00 0.00 37.60 3.79
618 857 4.220821 TCAGTTCAGTGATGTACTCCCTTC 59.779 45.833 0.00 0.00 37.60 3.46
619 858 4.021016 GTCAGTTCAGTGATGTACTCCCTT 60.021 45.833 0.00 0.00 37.60 3.95
620 859 3.511934 GTCAGTTCAGTGATGTACTCCCT 59.488 47.826 0.00 0.00 37.60 4.20
621 860 3.673594 CGTCAGTTCAGTGATGTACTCCC 60.674 52.174 0.00 0.00 37.60 4.30
622 861 3.190744 TCGTCAGTTCAGTGATGTACTCC 59.809 47.826 0.00 0.00 37.60 3.85
623 862 4.159857 GTCGTCAGTTCAGTGATGTACTC 58.840 47.826 0.00 0.00 37.60 2.59
624 863 3.365064 CGTCGTCAGTTCAGTGATGTACT 60.365 47.826 0.00 0.00 41.36 2.73
625 864 2.909244 CGTCGTCAGTTCAGTGATGTAC 59.091 50.000 0.00 0.00 35.33 2.90
626 865 2.095415 CCGTCGTCAGTTCAGTGATGTA 60.095 50.000 0.00 0.00 35.33 2.29
627 866 1.335964 CCGTCGTCAGTTCAGTGATGT 60.336 52.381 0.00 0.00 35.33 3.06
644 883 2.820197 GCCCTTCATTCTTTTTCTCCGT 59.180 45.455 0.00 0.00 0.00 4.69
645 884 2.819608 TGCCCTTCATTCTTTTTCTCCG 59.180 45.455 0.00 0.00 0.00 4.63
758 1126 5.530171 CGGATCATCATCATGGAAGAAAACT 59.470 40.000 0.00 0.00 0.00 2.66
789 2615 1.798813 GTTGGCCACACGAGAAACTAG 59.201 52.381 3.88 0.00 0.00 2.57
811 2641 2.338500 GGCTTGGAGTTAGAGAACACG 58.662 52.381 0.00 0.00 38.10 4.49
816 2646 0.895530 CACGGGCTTGGAGTTAGAGA 59.104 55.000 0.00 0.00 0.00 3.10
817 2647 0.895530 TCACGGGCTTGGAGTTAGAG 59.104 55.000 0.00 0.00 0.00 2.43
924 2767 2.841160 GCCGGTTGTGGTTGTGGTC 61.841 63.158 1.90 0.00 0.00 4.02
925 2768 2.831284 GCCGGTTGTGGTTGTGGT 60.831 61.111 1.90 0.00 0.00 4.16
926 2769 3.959975 CGCCGGTTGTGGTTGTGG 61.960 66.667 1.90 0.00 0.00 4.17
927 2770 3.959975 CCGCCGGTTGTGGTTGTG 61.960 66.667 1.90 0.00 39.95 3.33
944 2793 1.135373 TCGAGAGGAACAAGACGATGC 60.135 52.381 0.00 0.00 0.00 3.91
958 2807 1.772182 AAACTTGTCTGCGTCGAGAG 58.228 50.000 0.00 0.00 0.00 3.20
959 2808 2.124903 GAAAACTTGTCTGCGTCGAGA 58.875 47.619 0.00 0.00 0.00 4.04
960 2809 1.858458 TGAAAACTTGTCTGCGTCGAG 59.142 47.619 0.00 0.00 0.00 4.04
982 2834 1.470098 CATCAAGCCCGAAAACTGAGG 59.530 52.381 0.00 0.00 0.00 3.86
1065 2953 1.157870 CCGTCCACTTGAAGCACGTT 61.158 55.000 9.95 0.00 0.00 3.99
1232 3132 2.559330 CGTTGGTGGTTAAGCCGC 59.441 61.111 1.51 0.95 46.78 6.53
1238 3138 3.037249 GCGTCGCGTTGGTGGTTA 61.037 61.111 5.77 0.00 0.00 2.85
1258 3158 2.049475 ATCTACTGCGACTCGACGGC 62.049 60.000 1.63 0.00 0.00 5.68
1308 3212 8.472683 TCTTCTAGTGTAGTAGTAGAAACGAC 57.527 38.462 0.00 0.00 45.86 4.34
1477 3437 2.040359 GGGGAAGAGGGAGGGAGG 60.040 72.222 0.00 0.00 0.00 4.30
1493 3453 0.106217 GAGAGGGGGAGAGAGAGTGG 60.106 65.000 0.00 0.00 0.00 4.00
1759 3858 1.433471 CCGTCTCTGTAGCGATGCA 59.567 57.895 0.00 0.00 0.00 3.96
1762 3861 1.448922 GAGCCCGTCTCTGTAGCGAT 61.449 60.000 0.00 0.00 38.78 4.58
2002 4133 0.840729 GACTTGATCTCGTTAGCGCG 59.159 55.000 0.00 0.00 38.14 6.86
2007 4138 2.094182 GGTGCTGGACTTGATCTCGTTA 60.094 50.000 0.00 0.00 0.00 3.18
2040 4171 2.202676 GAGGAAGACGGCAGCGAG 60.203 66.667 0.00 0.00 0.00 5.03
2163 4294 1.339151 GCAAACGAGAGGGGAGACAAT 60.339 52.381 0.00 0.00 0.00 2.71
2191 4322 2.437002 GGCCACGGCGAAATACCA 60.437 61.111 16.62 0.00 43.06 3.25


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

AutoCloner maintained by Alex Coulton.