Multiple sequence alignment - TraesCS4B01G296400

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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 TraesCS4B01G296400 chr4B 100.000 3081 0 0 1 3081 582024683 582021603 0.000000e+00 5690.0
1 TraesCS4B01G296400 chr4B 87.892 669 59 9 1001 1659 581956138 581955482 0.000000e+00 767.0
2 TraesCS4B01G296400 chr4B 90.690 290 27 0 1791 2080 581951010 581950721 1.340000e-103 387.0
3 TraesCS4B01G296400 chr4D 89.274 951 41 28 1482 2393 465351582 465350654 0.000000e+00 1134.0
4 TraesCS4B01G296400 chr4D 92.967 782 38 8 615 1388 465352389 465351617 0.000000e+00 1123.0
5 TraesCS4B01G296400 chr4D 85.403 1103 107 31 1001 2079 465161965 465160893 0.000000e+00 1096.0
6 TraesCS4B01G296400 chr4D 90.591 457 40 2 1001 1455 465185724 465185269 1.220000e-168 603.0
7 TraesCS4B01G296400 chr4D 83.828 606 65 20 1487 2086 465183993 465183415 2.090000e-151 545.0
8 TraesCS4B01G296400 chr4D 92.635 353 8 9 2089 2432 465182963 465182620 2.760000e-135 492.0
9 TraesCS4B01G296400 chr4D 84.649 456 32 14 2441 2879 465182573 465182139 1.320000e-113 420.0
10 TraesCS4B01G296400 chr4D 82.591 494 52 26 1603 2077 465157833 465157355 3.700000e-109 405.0
11 TraesCS4B01G296400 chr4D 92.708 192 12 2 401 591 465353274 465353084 3.030000e-70 276.0
12 TraesCS4B01G296400 chr4D 82.927 164 15 3 2876 3039 465180183 465180033 5.360000e-28 135.0
13 TraesCS4B01G296400 chr4D 91.489 47 4 0 3035 3081 99206166 99206120 7.130000e-07 65.8
14 TraesCS4B01G296400 chr4D 100.000 30 0 0 2323 2352 465156040 465156011 4.290000e-04 56.5
15 TraesCS4B01G296400 chr4A 87.179 1014 67 22 1489 2453 5122675 5123674 0.000000e+00 1094.0
16 TraesCS4B01G296400 chr4A 90.407 688 43 16 714 1390 5121948 5122623 0.000000e+00 883.0
17 TraesCS4B01G296400 chr4A 91.832 453 34 2 1001 1451 5193116 5193567 2.020000e-176 628.0
18 TraesCS4B01G296400 chr4A 86.230 610 46 21 1485 2080 5200245 5200830 7.250000e-176 627.0
19 TraesCS4B01G296400 chr4A 87.413 429 30 12 293 717 5119677 5120085 3.600000e-129 472.0
20 TraesCS4B01G296400 chr4A 88.660 194 7 4 61 253 5119497 5119676 4.000000e-54 222.0
21 TraesCS4B01G296400 chr4A 88.387 155 12 2 2494 2642 5124146 5124300 6.790000e-42 182.0
22 TraesCS4B01G296400 chr4A 91.489 47 2 2 3036 3081 631641394 631641349 2.560000e-06 63.9
23 TraesCS4B01G296400 chr3D 90.995 422 32 1 964 1385 432513129 432513544 5.770000e-157 564.0
24 TraesCS4B01G296400 chr3D 80.335 478 76 15 2562 3029 572268559 572268090 2.270000e-91 346.0
25 TraesCS4B01G296400 chr3D 93.333 45 3 0 3037 3081 192059874 192059918 1.980000e-07 67.6
26 TraesCS4B01G296400 chr3D 93.023 43 2 1 803 845 432507999 432508040 9.220000e-06 62.1
27 TraesCS4B01G296400 chr3A 90.443 429 35 2 964 1392 569890820 569891242 7.460000e-156 560.0
28 TraesCS4B01G296400 chr3A 89.786 421 37 4 967 1387 570114018 570114432 4.520000e-148 534.0
29 TraesCS4B01G296400 chr3A 82.540 567 77 18 1516 2081 569891324 569891869 2.150000e-131 479.0
30 TraesCS4B01G296400 chr3A 88.889 72 7 1 144 215 570113817 570113887 1.520000e-13 87.9
31 TraesCS4B01G296400 chr3A 93.023 43 2 1 803 845 569890542 569890583 9.220000e-06 62.1
32 TraesCS4B01G296400 chr3B 90.047 422 36 1 964 1385 564759114 564759529 2.700000e-150 542.0
33 TraesCS4B01G296400 chr3B 84.715 386 45 10 1766 2141 564759828 564760209 1.040000e-99 374.0
34 TraesCS4B01G296400 chr3B 84.685 111 9 6 110 215 564758872 564758979 1.510000e-18 104.0
35 TraesCS4B01G296400 chr3B 93.023 43 2 1 803 845 564758929 564758970 9.220000e-06 62.1
36 TraesCS4B01G296400 chr6B 97.826 46 1 0 3036 3081 693133626 693133671 2.550000e-11 80.5
37 TraesCS4B01G296400 chr1B 95.745 47 2 0 3035 3081 139087125 139087079 3.290000e-10 76.8
38 TraesCS4B01G296400 chr1B 95.652 46 2 0 3036 3081 662202667 662202712 1.180000e-09 75.0
39 TraesCS4B01G296400 chr2A 93.750 48 3 0 3034 3081 695164579 695164626 4.260000e-09 73.1
40 TraesCS4B01G296400 chr6A 92.000 50 2 2 3033 3081 115017597 115017549 5.510000e-08 69.4
41 TraesCS4B01G296400 chr5A 90.000 50 3 2 3033 3081 673443656 673443704 2.560000e-06 63.9


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 TraesCS4B01G296400 chr4B 582021603 582024683 3080 True 5690.000000 5690 100.000000 1 3081 1 chr4B.!!$R3 3080
1 TraesCS4B01G296400 chr4B 581955482 581956138 656 True 767.000000 767 87.892000 1001 1659 1 chr4B.!!$R2 658
2 TraesCS4B01G296400 chr4D 465350654 465353274 2620 True 844.333333 1134 91.649667 401 2393 3 chr4D.!!$R4 1992
3 TraesCS4B01G296400 chr4D 465156011 465161965 5954 True 519.166667 1096 89.331333 1001 2352 3 chr4D.!!$R2 1351
4 TraesCS4B01G296400 chr4D 465180033 465185724 5691 True 439.000000 603 86.926000 1001 3039 5 chr4D.!!$R3 2038
5 TraesCS4B01G296400 chr4A 5200245 5200830 585 False 627.000000 627 86.230000 1485 2080 1 chr4A.!!$F2 595
6 TraesCS4B01G296400 chr4A 5119497 5124300 4803 False 570.600000 1094 88.409200 61 2642 5 chr4A.!!$F3 2581
7 TraesCS4B01G296400 chr3A 569890542 569891869 1327 False 367.033333 560 88.668667 803 2081 3 chr3A.!!$F1 1278
8 TraesCS4B01G296400 chr3A 570113817 570114432 615 False 310.950000 534 89.337500 144 1387 2 chr3A.!!$F2 1243
9 TraesCS4B01G296400 chr3B 564758872 564760209 1337 False 270.525000 542 88.117500 110 2141 4 chr3B.!!$F1 2031

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
163 169 0.391661 CCTCTCGCTTGCTTTGCCTA 60.392 55.0 0.0 0.0 0.0 3.93 F
1554 5537 0.320683 CGCTTGACTGGATGGACACA 60.321 55.0 0.0 0.0 0.0 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1825 9426 0.388134 CCACGAACATCGAACCGACT 60.388 55.0 6.78 0.00 43.74 4.18 R
2407 11591 0.041839 GCTGAGTGCGTCACAACAAG 60.042 55.0 11.58 5.34 36.74 3.16 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
18 19 3.914984 GTGCAGAGGCTGAGTGTAA 57.085 52.632 0.00 0.00 41.91 2.41
19 20 2.393271 GTGCAGAGGCTGAGTGTAAT 57.607 50.000 0.00 0.00 41.91 1.89
20 21 2.704572 GTGCAGAGGCTGAGTGTAATT 58.295 47.619 0.00 0.00 41.91 1.40
21 22 3.861840 GTGCAGAGGCTGAGTGTAATTA 58.138 45.455 0.00 0.00 41.91 1.40
22 23 4.253685 GTGCAGAGGCTGAGTGTAATTAA 58.746 43.478 0.00 0.00 41.91 1.40
23 24 4.878397 GTGCAGAGGCTGAGTGTAATTAAT 59.122 41.667 0.00 0.00 41.91 1.40
24 25 6.049149 GTGCAGAGGCTGAGTGTAATTAATA 58.951 40.000 0.00 0.00 41.91 0.98
25 26 6.708054 GTGCAGAGGCTGAGTGTAATTAATAT 59.292 38.462 0.00 0.00 41.91 1.28
26 27 7.227512 GTGCAGAGGCTGAGTGTAATTAATATT 59.772 37.037 0.00 0.00 41.91 1.28
27 28 7.775093 TGCAGAGGCTGAGTGTAATTAATATTT 59.225 33.333 0.00 0.00 41.91 1.40
28 29 9.273016 GCAGAGGCTGAGTGTAATTAATATTTA 57.727 33.333 0.00 0.00 36.96 1.40
121 122 7.387122 TGTTTGTCATCTCAAAGATCTCTTCTG 59.613 37.037 0.00 0.00 37.87 3.02
123 124 5.718607 TGTCATCTCAAAGATCTCTTCTGGA 59.281 40.000 0.00 0.00 31.32 3.86
131 137 8.839310 TCAAAGATCTCTTCTGGAAGTTTAAG 57.161 34.615 9.73 1.45 39.38 1.85
147 153 9.574458 GGAAGTTTAAGAATAAGATTTTGCCTC 57.426 33.333 0.00 0.00 0.00 4.70
150 156 8.669243 AGTTTAAGAATAAGATTTTGCCTCTCG 58.331 33.333 0.00 0.00 0.00 4.04
151 157 5.491635 AAGAATAAGATTTTGCCTCTCGC 57.508 39.130 0.00 0.00 38.31 5.03
152 158 4.775236 AGAATAAGATTTTGCCTCTCGCT 58.225 39.130 0.00 0.00 38.78 4.93
163 169 0.391661 CCTCTCGCTTGCTTTGCCTA 60.392 55.000 0.00 0.00 0.00 3.93
175 181 4.015764 TGCTTTGCCTATGACTTTGCATA 58.984 39.130 0.00 0.00 33.08 3.14
183 189 6.997476 TGCCTATGACTTTGCATACATGATTA 59.003 34.615 0.00 0.00 0.00 1.75
253 259 4.843728 TCCGATAAAAATCAGGCTGACTT 58.156 39.130 21.37 13.26 0.00 3.01
254 260 5.253330 TCCGATAAAAATCAGGCTGACTTT 58.747 37.500 21.37 19.21 25.63 2.66
255 261 5.710099 TCCGATAAAAATCAGGCTGACTTTT 59.290 36.000 31.39 31.39 38.94 2.27
256 262 6.208599 TCCGATAAAAATCAGGCTGACTTTTT 59.791 34.615 33.08 31.43 37.11 1.94
276 282 3.934457 TTTTCGAGGGAAAAATCAGGC 57.066 42.857 0.00 0.00 46.27 4.85
277 283 2.879103 TTCGAGGGAAAAATCAGGCT 57.121 45.000 0.00 0.00 0.00 4.58
278 284 2.113860 TCGAGGGAAAAATCAGGCTG 57.886 50.000 8.58 8.58 0.00 4.85
279 285 1.628340 TCGAGGGAAAAATCAGGCTGA 59.372 47.619 21.19 21.19 0.00 4.26
280 286 1.740025 CGAGGGAAAAATCAGGCTGAC 59.260 52.381 21.37 6.42 0.00 3.51
281 287 2.616510 CGAGGGAAAAATCAGGCTGACT 60.617 50.000 21.37 5.81 0.00 3.41
282 288 3.425659 GAGGGAAAAATCAGGCTGACTT 58.574 45.455 21.37 13.26 0.00 3.01
283 289 3.160269 AGGGAAAAATCAGGCTGACTTG 58.840 45.455 21.37 0.00 0.00 3.16
284 290 2.353109 GGGAAAAATCAGGCTGACTTGC 60.353 50.000 21.37 17.28 0.00 4.01
285 291 2.589014 GAAAAATCAGGCTGACTTGCG 58.411 47.619 21.37 0.00 0.00 4.85
286 292 1.609208 AAAATCAGGCTGACTTGCGT 58.391 45.000 21.37 0.00 0.00 5.24
287 293 2.472695 AAATCAGGCTGACTTGCGTA 57.527 45.000 21.37 0.00 0.00 4.42
288 294 2.698855 AATCAGGCTGACTTGCGTAT 57.301 45.000 21.37 0.00 0.00 3.06
289 295 3.819564 AATCAGGCTGACTTGCGTATA 57.180 42.857 21.37 0.00 0.00 1.47
290 296 2.871182 TCAGGCTGACTTGCGTATAG 57.129 50.000 14.43 0.00 0.00 1.31
291 297 1.409064 TCAGGCTGACTTGCGTATAGG 59.591 52.381 14.43 0.00 0.00 2.57
302 308 2.375146 TGCGTATAGGCAGTCTCTTCA 58.625 47.619 15.82 0.00 38.17 3.02
312 318 8.900983 ATAGGCAGTCTCTTCAAAATAAGATC 57.099 34.615 0.00 0.00 35.04 2.75
314 320 5.497273 GCAGTCTCTTCAAAATAAGATCGC 58.503 41.667 0.00 0.00 35.04 4.58
336 342 5.200454 GCTGACTTCGCATACATGTTATTG 58.800 41.667 2.30 0.96 0.00 1.90
337 343 5.006649 GCTGACTTCGCATACATGTTATTGA 59.993 40.000 2.30 0.00 0.00 2.57
374 380 4.699522 GCTCCTTCCGGCGTGGTT 62.700 66.667 6.01 0.00 39.52 3.67
396 405 7.078228 GGTTATTCCGATCAATGATAGTTTGC 58.922 38.462 0.00 0.00 0.00 3.68
413 422 2.556287 CGAGGCCAACGCTTCAAC 59.444 61.111 5.01 0.00 41.05 3.18
498 507 6.535150 CCAAACTCGACTCACACATTATGTAT 59.465 38.462 0.00 0.00 40.64 2.29
545 554 4.002982 TGTCCAACTCTGCACATTGATAC 58.997 43.478 2.17 1.78 0.00 2.24
548 557 5.874810 GTCCAACTCTGCACATTGATACTTA 59.125 40.000 2.17 0.00 0.00 2.24
565 575 4.993029 ACTTACATCAGTCCTAGCAGAC 57.007 45.455 0.00 0.00 37.01 3.51
591 601 3.979101 TCATCAAATTTGGAAAGGCCC 57.021 42.857 17.90 0.00 34.97 5.80
629 1310 1.521450 GCTATGGCGGCTACGGACTA 61.521 60.000 11.43 0.00 41.36 2.59
633 1314 2.413142 GGCGGCTACGGACTAGTGT 61.413 63.158 0.00 0.00 41.36 3.55
635 1316 1.432251 CGGCTACGGACTAGTGTGG 59.568 63.158 0.00 0.00 36.18 4.17
636 1317 1.141234 GGCTACGGACTAGTGTGGC 59.859 63.158 11.78 11.78 41.29 5.01
637 1318 1.226603 GCTACGGACTAGTGTGGCG 60.227 63.158 0.00 0.00 32.91 5.69
638 1319 1.226603 CTACGGACTAGTGTGGCGC 60.227 63.158 0.00 0.00 0.00 6.53
639 1320 1.929806 CTACGGACTAGTGTGGCGCA 61.930 60.000 10.83 0.00 0.00 6.09
653 1334 1.472878 TGGCGCACACTTGTTTAAACA 59.527 42.857 17.01 17.01 37.08 2.83
687 1368 1.198637 GCAACTGTTGAAGCTAGCCAG 59.801 52.381 23.81 13.40 0.00 4.85
708 1389 1.607467 GCACAAGCCCACCTCCATT 60.607 57.895 0.00 0.00 33.58 3.16
932 3622 0.963355 GCGCCCCAGGTTTTGACATA 60.963 55.000 0.00 0.00 0.00 2.29
933 3623 0.808755 CGCCCCAGGTTTTGACATAC 59.191 55.000 0.00 0.00 0.00 2.39
934 3624 1.613255 CGCCCCAGGTTTTGACATACT 60.613 52.381 0.00 0.00 0.00 2.12
958 3653 0.666577 AGCTAACGACAAGCACGGAC 60.667 55.000 10.17 0.00 42.62 4.79
996 3691 1.452145 AAACCCCACGTGTGCACATC 61.452 55.000 24.69 15.31 0.00 3.06
1183 3886 4.719369 GCGAGGTGCCGACGTTCT 62.719 66.667 0.00 0.00 37.76 3.01
1184 3887 2.049433 CGAGGTGCCGACGTTCTT 60.049 61.111 0.00 0.00 0.00 2.52
1338 4041 1.375326 GGTGTTCCTCTCCGCCTTT 59.625 57.895 0.00 0.00 0.00 3.11
1422 4132 6.038985 TCTTCGAATCTGCAACTCTAGATTG 58.961 40.000 0.00 1.93 42.13 2.67
1436 4146 0.457337 AGATTGGACGTACGCGGAAC 60.457 55.000 16.72 7.50 43.45 3.62
1439 4149 2.049248 GGACGTACGCGGAACCAA 60.049 61.111 16.72 0.00 43.45 3.67
1463 4173 5.726980 AAAACATCAACATACACCAGCAT 57.273 34.783 0.00 0.00 0.00 3.79
1464 4174 5.726980 AAACATCAACATACACCAGCATT 57.273 34.783 0.00 0.00 0.00 3.56
1468 4187 3.949132 TCAACATACACCAGCATTAGCA 58.051 40.909 0.00 0.00 45.49 3.49
1554 5537 0.320683 CGCTTGACTGGATGGACACA 60.321 55.000 0.00 0.00 0.00 3.72
1708 5729 4.361451 AATCAATCTGTTGGAACATCGC 57.639 40.909 0.00 0.00 39.30 4.58
1787 9388 5.190992 TGCATGCTGTTTGGAATCATATC 57.809 39.130 20.33 0.00 0.00 1.63
1803 9404 7.202112 GGAATCATATCTATGGCAGGATCTGAT 60.202 40.741 18.95 18.95 37.37 2.90
1816 9417 2.638855 GGATCTGATGCTGGGAAGATCT 59.361 50.000 10.41 0.00 42.99 2.75
1975 9576 1.079336 GGTGCAGAACTACCCCGTC 60.079 63.158 0.00 0.00 0.00 4.79
2087 9688 2.659063 TATGCTGCCTGACGCACCT 61.659 57.895 0.00 0.00 44.64 4.00
2244 11420 0.538746 ATGGTTGGACCGGGTGTTTC 60.539 55.000 3.30 0.00 42.58 2.78
2268 11444 4.335594 GTCCCTTTCATTATGTTTCCGAGG 59.664 45.833 0.00 0.00 0.00 4.63
2272 11448 4.695217 TTCATTATGTTTCCGAGGCAAC 57.305 40.909 0.00 0.00 0.00 4.17
2321 11498 7.596749 TTTGAGATGTTTCCGAGACTTTATC 57.403 36.000 0.00 0.00 0.00 1.75
2394 11572 0.966179 AAAGTGAATTTCCGGTGGGC 59.034 50.000 0.00 0.00 0.00 5.36
2407 11591 3.075005 TGGGCGAGCACCTACTCC 61.075 66.667 0.00 0.00 32.79 3.85
2417 11601 2.143925 GCACCTACTCCTTGTTGTGAC 58.856 52.381 0.00 0.00 34.29 3.67
2432 11616 3.782244 GACGCACTCAGCTTGCCG 61.782 66.667 3.34 2.04 42.61 5.69
2436 11661 2.042831 GCACTCAGCTTGCCGGATT 61.043 57.895 5.05 0.00 41.15 3.01
2437 11662 1.589716 GCACTCAGCTTGCCGGATTT 61.590 55.000 5.05 0.00 41.15 2.17
2439 11664 1.398390 CACTCAGCTTGCCGGATTTAC 59.602 52.381 5.05 0.00 0.00 2.01
2445 11670 1.936547 GCTTGCCGGATTTACAGAGAG 59.063 52.381 5.05 0.00 0.00 3.20
2462 11687 3.273618 AGAGAGAGGGGAAATGGTCTAGT 59.726 47.826 0.00 0.00 0.00 2.57
2463 11688 4.034410 GAGAGAGGGGAAATGGTCTAGTT 58.966 47.826 0.00 0.00 0.00 2.24
2464 11689 4.034410 AGAGAGGGGAAATGGTCTAGTTC 58.966 47.826 0.00 0.00 32.78 3.01
2465 11690 4.034410 GAGAGGGGAAATGGTCTAGTTCT 58.966 47.826 0.00 0.00 33.99 3.01
2466 11691 5.043281 AGAGAGGGGAAATGGTCTAGTTCTA 60.043 44.000 0.00 0.00 33.99 2.10
2467 11692 4.963628 AGAGGGGAAATGGTCTAGTTCTAC 59.036 45.833 0.00 0.00 33.99 2.59
2495 11720 5.907197 TCTGAAAACTCGACATTCTTCAC 57.093 39.130 0.00 0.00 0.00 3.18
2497 11722 5.234329 TCTGAAAACTCGACATTCTTCACAC 59.766 40.000 0.00 0.00 0.00 3.82
2498 11723 4.026062 TGAAAACTCGACATTCTTCACACG 60.026 41.667 0.00 0.00 0.00 4.49
2540 12167 2.281002 TTGCGCTCTTGCTCTGCA 60.281 55.556 9.73 0.00 36.47 4.41
2632 12271 0.914644 CAGGTCATGACACTCCCCAT 59.085 55.000 26.47 0.00 0.00 4.00
2644 12283 1.001393 TCCCCATCCCTTGAAACGC 60.001 57.895 0.00 0.00 0.00 4.84
2646 12285 0.254747 CCCCATCCCTTGAAACGCTA 59.745 55.000 0.00 0.00 0.00 4.26
2655 12294 0.035739 TTGAAACGCTACCTGTCCCC 59.964 55.000 0.00 0.00 0.00 4.81
2671 12310 1.517832 CCCAAGTCGGTAGAGCAGG 59.482 63.158 0.00 0.00 0.00 4.85
2680 12319 3.127030 GTCGGTAGAGCAGGAAATTTTGG 59.873 47.826 0.00 0.00 0.00 3.28
2711 12350 0.911769 ACGCATCCTCCCAAGAATCA 59.088 50.000 0.00 0.00 0.00 2.57
2713 12352 1.878088 CGCATCCTCCCAAGAATCATG 59.122 52.381 0.00 0.00 0.00 3.07
2714 12353 2.747467 CGCATCCTCCCAAGAATCATGT 60.747 50.000 0.00 0.00 0.00 3.21
2719 12358 4.739793 TCCTCCCAAGAATCATGTTGTTT 58.260 39.130 0.00 0.00 0.00 2.83
2742 12381 2.356553 GTCCGTGCCAGCGTACAA 60.357 61.111 0.00 0.00 0.00 2.41
2743 12382 2.356553 TCCGTGCCAGCGTACAAC 60.357 61.111 0.00 0.00 0.00 3.32
2766 12409 0.391661 GGAATGACTGCCGCTCTTCA 60.392 55.000 0.00 0.00 0.00 3.02
2790 12433 2.156917 TCAGCTTGGACTGCAGAATTG 58.843 47.619 23.35 8.52 37.59 2.32
2804 12447 3.645884 CAGAATTGTTGCAGGTTGAAGG 58.354 45.455 0.00 0.00 0.00 3.46
2826 12469 0.813210 GCTCAAATCCCGAGGAGCTG 60.813 60.000 0.00 0.00 46.95 4.24
2831 12474 0.467384 AATCCCGAGGAGCTGTCATG 59.533 55.000 0.00 0.00 34.05 3.07
2835 12478 1.326213 CCGAGGAGCTGTCATGGTCT 61.326 60.000 0.00 0.00 35.11 3.85
2846 12489 2.026915 TGTCATGGTCTGATCAAGGTGG 60.027 50.000 0.00 0.00 35.97 4.61
2849 12492 1.728323 TGGTCTGATCAAGGTGGTCA 58.272 50.000 0.00 0.00 34.65 4.02
2850 12493 1.347707 TGGTCTGATCAAGGTGGTCAC 59.652 52.381 0.00 0.00 31.53 3.67
2851 12494 1.625818 GGTCTGATCAAGGTGGTCACT 59.374 52.381 0.00 0.00 31.53 3.41
2852 12495 2.354203 GGTCTGATCAAGGTGGTCACTC 60.354 54.545 0.00 0.00 31.53 3.51
2853 12496 2.564947 GTCTGATCAAGGTGGTCACTCT 59.435 50.000 0.00 0.00 31.53 3.24
2854 12497 2.828520 TCTGATCAAGGTGGTCACTCTC 59.171 50.000 0.00 0.00 31.53 3.20
2855 12498 2.830923 CTGATCAAGGTGGTCACTCTCT 59.169 50.000 0.00 0.00 31.53 3.10
2856 12499 4.019858 CTGATCAAGGTGGTCACTCTCTA 58.980 47.826 0.00 0.00 31.53 2.43
2858 12501 4.838423 TGATCAAGGTGGTCACTCTCTAAA 59.162 41.667 0.00 0.00 31.53 1.85
2867 12510 2.119495 TCACTCTCTAAATGGGGAGGC 58.881 52.381 0.00 0.00 0.00 4.70
2871 12514 1.216990 CTCTAAATGGGGAGGCAGGT 58.783 55.000 0.00 0.00 0.00 4.00
2879 12522 0.609406 GGGGAGGCAGGTGTTTCTTC 60.609 60.000 0.00 0.00 0.00 2.87
2909 14510 6.143598 CAGATACATGTCTGACGTCATGAATC 59.856 42.308 20.40 15.56 46.77 2.52
2920 14521 4.194640 ACGTCATGAATCTTGGATGAAGG 58.805 43.478 0.00 0.00 32.04 3.46
2922 14523 4.272018 CGTCATGAATCTTGGATGAAGGAC 59.728 45.833 0.00 0.00 31.85 3.85
2925 14526 1.594862 GAATCTTGGATGAAGGACGCG 59.405 52.381 3.53 3.53 31.85 6.01
2926 14527 0.179073 ATCTTGGATGAAGGACGCGG 60.179 55.000 12.47 0.00 31.85 6.46
2950 14551 1.096416 AGCAGGTAGTACGAGACAGC 58.904 55.000 0.00 0.00 0.00 4.40
2969 14570 2.049433 CCCACGCGTCGAAGAACT 60.049 61.111 9.86 0.00 39.69 3.01
2970 14571 1.663702 CCCACGCGTCGAAGAACTT 60.664 57.895 9.86 0.00 39.69 2.66
2971 14572 1.487231 CCACGCGTCGAAGAACTTG 59.513 57.895 9.86 0.00 39.69 3.16
2972 14573 0.937699 CCACGCGTCGAAGAACTTGA 60.938 55.000 9.86 0.00 39.69 3.02
2973 14574 1.060713 CACGCGTCGAAGAACTTGAT 58.939 50.000 9.86 0.00 39.69 2.57
2974 14575 2.247637 CACGCGTCGAAGAACTTGATA 58.752 47.619 9.86 0.00 39.69 2.15
2975 14576 2.659757 CACGCGTCGAAGAACTTGATAA 59.340 45.455 9.86 0.00 39.69 1.75
2976 14577 2.915463 ACGCGTCGAAGAACTTGATAAG 59.085 45.455 5.58 0.00 39.69 1.73
2977 14578 2.279136 CGCGTCGAAGAACTTGATAAGG 59.721 50.000 1.37 0.00 39.69 2.69
2985 14586 7.012421 GTCGAAGAACTTGATAAGGCCATAAAT 59.988 37.037 5.01 0.00 39.69 1.40
3003 14604 6.750963 CCATAAATTTTGAGAGCAAGCTTCTC 59.249 38.462 14.46 14.46 35.04 2.87
3011 14612 4.142071 TGAGAGCAAGCTTCTCATTACGAT 60.142 41.667 20.71 0.00 35.81 3.73
3012 14613 4.118410 AGAGCAAGCTTCTCATTACGATG 58.882 43.478 20.71 0.14 33.15 3.84
3023 14624 2.077801 ATTACGATGCGACGCAAGCG 62.078 55.000 32.58 32.58 43.62 4.68
3025 14626 4.257376 CGATGCGACGCAAGCGAG 62.257 66.667 31.61 17.11 43.62 5.03
3028 14629 2.603503 GATGCGACGCAAGCGAGTTC 62.604 60.000 28.24 14.04 43.62 3.01
3029 14630 4.470050 GCGACGCAAGCGAGTTCG 62.470 66.667 22.30 19.60 42.83 3.95
3039 14640 1.136147 GCGAGTTCGGCGAGTAAGA 59.864 57.895 10.46 0.00 40.23 2.10
3040 14641 0.862283 GCGAGTTCGGCGAGTAAGAG 60.862 60.000 10.46 2.30 40.23 2.85
3041 14642 0.862283 CGAGTTCGGCGAGTAAGAGC 60.862 60.000 10.46 0.00 35.37 4.09
3042 14643 0.170561 GAGTTCGGCGAGTAAGAGCA 59.829 55.000 10.46 0.00 34.54 4.26
3043 14644 0.601558 AGTTCGGCGAGTAAGAGCAA 59.398 50.000 10.46 0.00 34.54 3.91
3044 14645 0.714439 GTTCGGCGAGTAAGAGCAAC 59.286 55.000 10.46 0.00 34.54 4.17
3045 14646 0.601558 TTCGGCGAGTAAGAGCAACT 59.398 50.000 10.46 0.00 34.54 3.16
3046 14647 0.170561 TCGGCGAGTAAGAGCAACTC 59.829 55.000 4.99 0.00 40.01 3.01
3047 14648 0.802607 CGGCGAGTAAGAGCAACTCC 60.803 60.000 0.00 0.00 40.24 3.85
3048 14649 0.246635 GGCGAGTAAGAGCAACTCCA 59.753 55.000 0.00 0.00 40.24 3.86
3049 14650 1.337823 GGCGAGTAAGAGCAACTCCAA 60.338 52.381 0.00 0.00 40.24 3.53
3050 14651 1.727335 GCGAGTAAGAGCAACTCCAAC 59.273 52.381 0.00 0.00 40.24 3.77
3051 14652 1.986378 CGAGTAAGAGCAACTCCAACG 59.014 52.381 0.00 0.00 40.24 4.10
3052 14653 2.338500 GAGTAAGAGCAACTCCAACGG 58.662 52.381 0.00 0.00 37.91 4.44
3053 14654 1.002087 AGTAAGAGCAACTCCAACGGG 59.998 52.381 0.00 0.00 0.00 5.28
3054 14655 0.323629 TAAGAGCAACTCCAACGGGG 59.676 55.000 0.00 0.00 38.37 5.73
3055 14656 3.056328 GAGCAACTCCAACGGGGC 61.056 66.667 0.00 0.00 36.21 5.80
3058 14659 3.047877 CAACTCCAACGGGGCGAC 61.048 66.667 0.00 0.00 36.21 5.19
3073 14674 2.031465 GACCCAAAAGGACGGCGA 59.969 61.111 16.62 0.00 39.89 5.54
3074 14675 1.376812 GACCCAAAAGGACGGCGAT 60.377 57.895 16.62 0.00 39.89 4.58
3075 14676 0.958876 GACCCAAAAGGACGGCGATT 60.959 55.000 16.62 1.89 39.89 3.34
3076 14677 0.538746 ACCCAAAAGGACGGCGATTT 60.539 50.000 16.62 8.82 39.89 2.17
3077 14678 0.170339 CCCAAAAGGACGGCGATTTC 59.830 55.000 16.62 0.00 38.24 2.17
3078 14679 0.179200 CCAAAAGGACGGCGATTTCG 60.179 55.000 16.62 0.74 43.27 3.46
3079 14680 0.515564 CAAAAGGACGGCGATTTCGT 59.484 50.000 16.62 0.00 44.03 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.393271 ATTACACTCAGCCTCTGCAC 57.607 50.000 0.00 0.00 41.13 4.57
1 2 4.551702 TTAATTACACTCAGCCTCTGCA 57.448 40.909 0.00 0.00 41.13 4.41
2 3 7.736447 AATATTAATTACACTCAGCCTCTGC 57.264 36.000 0.00 0.00 37.95 4.26
67 68 9.793259 AAGAAATGTAGACAAATTTCACTCCTA 57.207 29.630 9.93 0.00 42.62 2.94
121 122 9.574458 GAGGCAAAATCTTATTCTTAAACTTCC 57.426 33.333 0.00 0.00 0.00 3.46
143 149 2.177778 GCAAAGCAAGCGAGAGGC 59.822 61.111 0.00 0.00 44.05 4.70
144 150 0.391661 TAGGCAAAGCAAGCGAGAGG 60.392 55.000 0.00 0.00 0.00 3.69
147 153 1.063174 GTCATAGGCAAAGCAAGCGAG 59.937 52.381 0.00 0.00 0.00 5.03
148 154 1.086696 GTCATAGGCAAAGCAAGCGA 58.913 50.000 0.00 0.00 0.00 4.93
149 155 1.089920 AGTCATAGGCAAAGCAAGCG 58.910 50.000 0.00 0.00 0.00 4.68
150 156 3.248266 CAAAGTCATAGGCAAAGCAAGC 58.752 45.455 0.00 0.00 0.00 4.01
151 157 3.248266 GCAAAGTCATAGGCAAAGCAAG 58.752 45.455 0.00 0.00 0.00 4.01
152 158 2.627221 TGCAAAGTCATAGGCAAAGCAA 59.373 40.909 0.00 0.00 32.54 3.91
175 181 7.308229 GCGAGGATAAGCTTGAAATAATCATGT 60.308 37.037 9.86 0.00 38.03 3.21
183 189 4.061596 GCTAGCGAGGATAAGCTTGAAAT 58.938 43.478 9.86 0.00 44.15 2.17
256 262 3.255642 CAGCCTGATTTTTCCCTCGAAAA 59.744 43.478 0.00 0.00 44.38 2.29
257 263 2.819608 CAGCCTGATTTTTCCCTCGAAA 59.180 45.455 0.00 0.00 36.18 3.46
258 264 2.039746 TCAGCCTGATTTTTCCCTCGAA 59.960 45.455 0.00 0.00 0.00 3.71
259 265 1.628340 TCAGCCTGATTTTTCCCTCGA 59.372 47.619 0.00 0.00 0.00 4.04
260 266 1.740025 GTCAGCCTGATTTTTCCCTCG 59.260 52.381 0.00 0.00 0.00 4.63
261 267 3.078891 AGTCAGCCTGATTTTTCCCTC 57.921 47.619 0.00 0.00 0.00 4.30
262 268 3.160269 CAAGTCAGCCTGATTTTTCCCT 58.840 45.455 0.00 0.00 0.00 4.20
263 269 2.353109 GCAAGTCAGCCTGATTTTTCCC 60.353 50.000 0.00 0.00 0.00 3.97
264 270 2.669391 CGCAAGTCAGCCTGATTTTTCC 60.669 50.000 0.00 0.00 0.00 3.13
265 271 2.589014 CGCAAGTCAGCCTGATTTTTC 58.411 47.619 0.00 0.00 0.00 2.29
266 272 2.712057 CGCAAGTCAGCCTGATTTTT 57.288 45.000 0.00 0.00 0.00 1.94
280 286 3.181486 TGAAGAGACTGCCTATACGCAAG 60.181 47.826 0.00 0.00 38.56 4.01
281 287 2.758423 TGAAGAGACTGCCTATACGCAA 59.242 45.455 0.00 0.00 38.56 4.85
282 288 2.375146 TGAAGAGACTGCCTATACGCA 58.625 47.619 0.00 0.00 37.19 5.24
283 289 3.438297 TTGAAGAGACTGCCTATACGC 57.562 47.619 0.00 0.00 0.00 4.42
284 290 7.921214 TCTTATTTTGAAGAGACTGCCTATACG 59.079 37.037 0.00 0.00 31.72 3.06
285 291 9.771534 ATCTTATTTTGAAGAGACTGCCTATAC 57.228 33.333 0.00 0.00 38.80 1.47
286 292 9.988815 GATCTTATTTTGAAGAGACTGCCTATA 57.011 33.333 0.00 0.00 38.80 1.31
287 293 7.655328 CGATCTTATTTTGAAGAGACTGCCTAT 59.345 37.037 0.00 0.00 38.80 2.57
288 294 6.980978 CGATCTTATTTTGAAGAGACTGCCTA 59.019 38.462 0.00 0.00 38.80 3.93
289 295 5.814705 CGATCTTATTTTGAAGAGACTGCCT 59.185 40.000 0.00 0.00 38.80 4.75
290 296 5.503194 GCGATCTTATTTTGAAGAGACTGCC 60.503 44.000 0.00 0.00 38.80 4.85
291 297 5.293079 AGCGATCTTATTTTGAAGAGACTGC 59.707 40.000 0.00 0.00 38.80 4.40
302 308 3.932710 TGCGAAGTCAGCGATCTTATTTT 59.067 39.130 0.00 0.00 37.44 1.82
312 318 1.280982 ACATGTATGCGAAGTCAGCG 58.719 50.000 0.00 0.00 37.44 5.18
314 320 6.588348 TCAATAACATGTATGCGAAGTCAG 57.412 37.500 0.00 0.00 0.00 3.51
361 367 1.426041 CGGAATAACCACGCCGGAAG 61.426 60.000 5.05 0.00 40.08 3.46
364 370 1.219522 GATCGGAATAACCACGCCGG 61.220 60.000 0.00 0.00 43.71 6.13
374 380 6.220201 TCGCAAACTATCATTGATCGGAATA 58.780 36.000 1.55 0.00 0.00 1.75
396 405 2.175184 CTGTTGAAGCGTTGGCCTCG 62.175 60.000 3.32 10.54 41.24 4.63
413 422 3.438360 GTTTGGATTTATGAAGCCGCTG 58.562 45.455 0.00 0.00 44.36 5.18
503 512 7.111466 TGGACATTTGACAGTCAATATGATGA 58.889 34.615 27.56 12.33 36.11 2.92
565 575 6.093082 GGCCTTTCCAAATTTGATGATTTCAG 59.907 38.462 19.86 0.00 33.05 3.02
591 601 7.637229 CCATAGCAACTGTTATTTGATGAGAG 58.363 38.462 0.00 0.00 0.00 3.20
633 1314 1.472878 TGTTTAAACAAGTGTGCGCCA 59.527 42.857 18.54 0.00 35.67 5.69
635 1316 3.035942 CTCTGTTTAAACAAGTGTGCGC 58.964 45.455 20.89 0.00 38.66 6.09
636 1317 4.028383 CACTCTGTTTAAACAAGTGTGCG 58.972 43.478 30.55 18.18 39.87 5.34
637 1318 5.163754 ACTCACTCTGTTTAAACAAGTGTGC 60.164 40.000 33.29 10.51 42.24 4.57
638 1319 6.250819 CACTCACTCTGTTTAAACAAGTGTG 58.749 40.000 33.29 32.51 42.24 3.82
639 1320 5.163754 GCACTCACTCTGTTTAAACAAGTGT 60.164 40.000 33.29 24.91 41.41 3.55
653 1334 1.047002 AGTTGCTCAGCACTCACTCT 58.953 50.000 0.00 0.00 38.71 3.24
702 1383 3.262420 CACTGACCTTACGGAAATGGAG 58.738 50.000 0.00 0.00 0.00 3.86
708 1389 0.319211 CACGCACTGACCTTACGGAA 60.319 55.000 0.00 0.00 0.00 4.30
813 3361 9.208022 CGAGGATAAGCTTGAATAATCATGTAA 57.792 33.333 9.86 0.00 34.96 2.41
932 3622 1.605712 GCTTGTCGTTAGCTGTGGAGT 60.606 52.381 0.00 0.00 35.74 3.85
933 3623 1.071605 GCTTGTCGTTAGCTGTGGAG 58.928 55.000 0.00 0.00 35.74 3.86
934 3624 0.391228 TGCTTGTCGTTAGCTGTGGA 59.609 50.000 0.00 0.00 39.38 4.02
958 3653 3.479269 GCGACTGTTTCTCCGCGG 61.479 66.667 22.12 22.12 38.27 6.46
996 3691 4.292178 GCCGGAGCCTCCATCTCG 62.292 72.222 12.13 0.00 35.91 4.04
1021 3716 2.330372 CGATGTGCTTGCTGCTGGT 61.330 57.895 0.00 0.00 43.37 4.00
1023 3718 0.453950 GAACGATGTGCTTGCTGCTG 60.454 55.000 0.00 0.00 43.37 4.41
1183 3886 1.373748 GCGGCTTGGTGTAGTCGAA 60.374 57.895 1.40 0.00 45.67 3.71
1184 3887 2.260434 GCGGCTTGGTGTAGTCGA 59.740 61.111 1.40 0.00 45.67 4.20
1338 4041 3.305314 GACCTGTGGTCCGGCATA 58.695 61.111 0.00 0.00 46.19 3.14
1374 4077 3.306166 GTCGATCATGGTGTACCTTTTCG 59.694 47.826 2.32 7.44 36.82 3.46
1422 4132 1.220817 TTTTGGTTCCGCGTACGTCC 61.221 55.000 17.90 11.84 37.70 4.79
1444 4154 4.336433 GCTAATGCTGGTGTATGTTGATGT 59.664 41.667 0.00 0.00 36.03 3.06
1447 4157 3.949132 TGCTAATGCTGGTGTATGTTGA 58.051 40.909 0.00 0.00 40.48 3.18
1479 4198 9.410556 GCAAAACATTCATCAGTAGTACAAATT 57.589 29.630 2.52 0.00 0.00 1.82
1480 4199 8.796475 AGCAAAACATTCATCAGTAGTACAAAT 58.204 29.630 2.52 0.00 0.00 2.32
1481 4200 8.165239 AGCAAAACATTCATCAGTAGTACAAA 57.835 30.769 2.52 0.00 0.00 2.83
1482 4201 7.360017 CGAGCAAAACATTCATCAGTAGTACAA 60.360 37.037 2.52 0.00 0.00 2.41
1500 5467 6.133392 CACGAACTTTTTAGATCGAGCAAAA 58.867 36.000 2.38 5.25 37.49 2.44
1539 5522 2.015456 ACTCTGTGTCCATCCAGTCA 57.985 50.000 0.00 0.00 0.00 3.41
1554 5537 4.780021 TCAGGATCTTGAGGCTTAAACTCT 59.220 41.667 2.91 0.00 35.98 3.24
1661 5644 4.840772 CAGAGCAACAAGTTCGTAATTTCG 59.159 41.667 0.00 0.00 31.99 3.46
1662 5645 5.748592 ACAGAGCAACAAGTTCGTAATTTC 58.251 37.500 0.00 0.00 31.99 2.17
1708 5729 1.128136 CTCAATCAGTGCACAGCTTCG 59.872 52.381 21.04 2.66 0.00 3.79
1717 5763 6.309737 GGTCAATTTCAAATCTCAATCAGTGC 59.690 38.462 0.00 0.00 0.00 4.40
1787 9388 2.615747 CCAGCATCAGATCCTGCCATAG 60.616 54.545 0.00 0.00 39.22 2.23
1803 9404 2.699321 CTCATCAGAGATCTTCCCAGCA 59.301 50.000 0.00 0.00 44.98 4.41
1816 9417 2.109425 TCGAACCGACTCTCATCAGA 57.891 50.000 0.00 0.00 0.00 3.27
1825 9426 0.388134 CCACGAACATCGAACCGACT 60.388 55.000 6.78 0.00 43.74 4.18
1936 9537 3.157680 CACCGTTGGAACCCCTCT 58.842 61.111 0.00 0.00 0.00 3.69
1975 9576 1.135489 TCGATTTCCTTGACCTCGTCG 60.135 52.381 0.00 0.00 34.95 5.12
2087 9688 4.640771 AAAGAGATAGACCACCAAGCAA 57.359 40.909 0.00 0.00 0.00 3.91
2244 11420 3.936453 TCGGAAACATAATGAAAGGGACG 59.064 43.478 0.00 0.00 0.00 4.79
2272 11448 6.668323 ACCTATCAATCGACAACAACAAAAG 58.332 36.000 0.00 0.00 0.00 2.27
2277 11453 6.664515 TCAAAACCTATCAATCGACAACAAC 58.335 36.000 0.00 0.00 0.00 3.32
2321 11498 2.416747 TCTGTCTGAAATTGAGTGCGG 58.583 47.619 0.00 0.00 0.00 5.69
2394 11572 1.000955 ACAACAAGGAGTAGGTGCTCG 59.999 52.381 0.00 0.00 36.41 5.03
2407 11591 0.041839 GCTGAGTGCGTCACAACAAG 60.042 55.000 11.58 5.34 36.74 3.16
2432 11616 5.372373 CATTTCCCCTCTCTCTGTAAATCC 58.628 45.833 0.00 0.00 0.00 3.01
2436 11661 3.775316 GACCATTTCCCCTCTCTCTGTAA 59.225 47.826 0.00 0.00 0.00 2.41
2437 11662 3.012959 AGACCATTTCCCCTCTCTCTGTA 59.987 47.826 0.00 0.00 0.00 2.74
2439 11664 2.476199 AGACCATTTCCCCTCTCTCTG 58.524 52.381 0.00 0.00 0.00 3.35
2445 11670 4.963628 AGTAGAACTAGACCATTTCCCCTC 59.036 45.833 0.00 0.00 0.00 4.30
2462 11687 8.107399 TGTCGAGTTTTCAGATAGAAGTAGAA 57.893 34.615 0.00 0.00 37.57 2.10
2463 11688 7.683437 TGTCGAGTTTTCAGATAGAAGTAGA 57.317 36.000 0.00 0.00 37.57 2.59
2464 11689 8.918961 AATGTCGAGTTTTCAGATAGAAGTAG 57.081 34.615 0.00 0.00 37.57 2.57
2465 11690 8.740906 AGAATGTCGAGTTTTCAGATAGAAGTA 58.259 33.333 0.00 0.00 37.57 2.24
2466 11691 7.607250 AGAATGTCGAGTTTTCAGATAGAAGT 58.393 34.615 0.00 0.00 37.57 3.01
2467 11692 8.472683 AAGAATGTCGAGTTTTCAGATAGAAG 57.527 34.615 0.00 0.00 37.57 2.85
2510 12137 1.226575 GCGCAACGGGATAAAAGGC 60.227 57.895 0.30 0.00 0.00 4.35
2540 12167 1.290134 GGGAACTGGAGGAAGATGGT 58.710 55.000 0.00 0.00 0.00 3.55
2604 12236 1.538629 TCATGACCTGGCCCACTCA 60.539 57.895 0.00 0.00 0.00 3.41
2632 12271 1.001633 GACAGGTAGCGTTTCAAGGGA 59.998 52.381 0.00 0.00 0.00 4.20
2655 12294 2.743636 TTTCCTGCTCTACCGACTTG 57.256 50.000 0.00 0.00 0.00 3.16
2671 12310 3.982576 ACACACTCCGTCCAAAATTTC 57.017 42.857 0.00 0.00 0.00 2.17
2680 12319 0.801067 GGATGCGTACACACTCCGTC 60.801 60.000 0.00 0.00 0.00 4.79
2687 12326 0.249120 CTTGGGAGGATGCGTACACA 59.751 55.000 0.00 0.00 0.00 3.72
2711 12350 0.534203 ACGGACGCTCCAAACAACAT 60.534 50.000 5.15 0.00 35.91 2.71
2713 12352 1.278637 CACGGACGCTCCAAACAAC 59.721 57.895 5.15 0.00 35.91 3.32
2714 12353 2.539338 GCACGGACGCTCCAAACAA 61.539 57.895 5.15 0.00 35.91 2.83
2742 12381 2.434884 CGGCAGTCATTCCGCAGT 60.435 61.111 0.00 0.00 39.14 4.40
2761 12404 3.254166 GCAGTCCAAGCTGATTTTGAAGA 59.746 43.478 0.00 0.00 38.70 2.87
2766 12409 2.867624 TCTGCAGTCCAAGCTGATTTT 58.132 42.857 14.67 0.00 38.70 1.82
2790 12433 0.538287 AGCCTCCTTCAACCTGCAAC 60.538 55.000 0.00 0.00 0.00 4.17
2804 12447 0.105778 CTCCTCGGGATTTGAGCCTC 59.894 60.000 0.00 0.00 31.98 4.70
2826 12469 2.026822 ACCACCTTGATCAGACCATGAC 60.027 50.000 0.00 0.00 41.91 3.06
2831 12474 1.625818 AGTGACCACCTTGATCAGACC 59.374 52.381 0.00 0.00 0.00 3.85
2835 12478 2.894731 AGAGAGTGACCACCTTGATCA 58.105 47.619 0.00 0.00 0.00 2.92
2846 12489 2.158885 GCCTCCCCATTTAGAGAGTGAC 60.159 54.545 0.00 0.00 31.43 3.67
2849 12492 2.122768 CTGCCTCCCCATTTAGAGAGT 58.877 52.381 0.00 0.00 31.43 3.24
2850 12493 1.419387 CCTGCCTCCCCATTTAGAGAG 59.581 57.143 0.00 0.00 31.43 3.20
2851 12494 1.274416 ACCTGCCTCCCCATTTAGAGA 60.274 52.381 0.00 0.00 31.43 3.10
2852 12495 1.133976 CACCTGCCTCCCCATTTAGAG 60.134 57.143 0.00 0.00 0.00 2.43
2853 12496 0.918983 CACCTGCCTCCCCATTTAGA 59.081 55.000 0.00 0.00 0.00 2.10
2854 12497 0.625849 ACACCTGCCTCCCCATTTAG 59.374 55.000 0.00 0.00 0.00 1.85
2855 12498 1.080638 AACACCTGCCTCCCCATTTA 58.919 50.000 0.00 0.00 0.00 1.40
2856 12499 0.190815 AAACACCTGCCTCCCCATTT 59.809 50.000 0.00 0.00 0.00 2.32
2858 12501 1.142688 AGAAACACCTGCCTCCCCAT 61.143 55.000 0.00 0.00 0.00 4.00
2867 12510 3.117491 TCTGAGCTGAAGAAACACCTG 57.883 47.619 0.00 0.00 0.00 4.00
2871 12514 5.798132 ACATGTATCTGAGCTGAAGAAACA 58.202 37.500 0.00 0.00 0.00 2.83
2909 14510 0.807667 CTCCGCGTCCTTCATCCAAG 60.808 60.000 4.92 0.00 0.00 3.61
2920 14521 3.642778 TACCTGCTTGCTCCGCGTC 62.643 63.158 4.92 0.00 0.00 5.19
2922 14523 2.279502 TACTACCTGCTTGCTCCGCG 62.280 60.000 0.00 0.00 0.00 6.46
2925 14526 0.815734 TCGTACTACCTGCTTGCTCC 59.184 55.000 0.00 0.00 0.00 4.70
2926 14527 1.743958 TCTCGTACTACCTGCTTGCTC 59.256 52.381 0.00 0.00 0.00 4.26
2936 14537 0.682209 TGGGGGCTGTCTCGTACTAC 60.682 60.000 0.00 0.00 0.00 2.73
2937 14538 0.682209 GTGGGGGCTGTCTCGTACTA 60.682 60.000 0.00 0.00 0.00 1.82
2938 14539 1.982938 GTGGGGGCTGTCTCGTACT 60.983 63.158 0.00 0.00 0.00 2.73
2950 14551 4.367023 TTCTTCGACGCGTGGGGG 62.367 66.667 20.70 12.24 0.00 5.40
2969 14570 7.123997 TGCTCTCAAAATTTATGGCCTTATCAA 59.876 33.333 3.32 0.00 0.00 2.57
2970 14571 6.606796 TGCTCTCAAAATTTATGGCCTTATCA 59.393 34.615 3.32 0.00 0.00 2.15
2971 14572 7.042797 TGCTCTCAAAATTTATGGCCTTATC 57.957 36.000 3.32 0.00 0.00 1.75
2972 14573 7.422465 TTGCTCTCAAAATTTATGGCCTTAT 57.578 32.000 3.32 0.00 0.00 1.73
2973 14574 6.627953 GCTTGCTCTCAAAATTTATGGCCTTA 60.628 38.462 3.32 0.00 0.00 2.69
2974 14575 5.727434 CTTGCTCTCAAAATTTATGGCCTT 58.273 37.500 3.32 0.00 0.00 4.35
2975 14576 4.382362 GCTTGCTCTCAAAATTTATGGCCT 60.382 41.667 3.32 0.00 0.00 5.19
2976 14577 3.867493 GCTTGCTCTCAAAATTTATGGCC 59.133 43.478 0.00 0.00 0.00 5.36
2977 14578 4.752146 AGCTTGCTCTCAAAATTTATGGC 58.248 39.130 0.00 0.00 0.00 4.40
3003 14604 0.651610 GCTTGCGTCGCATCGTAATG 60.652 55.000 22.41 6.70 38.76 1.90
3011 14612 3.403057 GAACTCGCTTGCGTCGCA 61.403 61.111 17.58 17.58 36.47 5.10
3012 14613 4.470050 CGAACTCGCTTGCGTCGC 62.470 66.667 11.10 11.10 0.00 5.19
3023 14624 0.170561 TGCTCTTACTCGCCGAACTC 59.829 55.000 0.00 0.00 0.00 3.01
3025 14626 0.714439 GTTGCTCTTACTCGCCGAAC 59.286 55.000 0.00 0.00 0.00 3.95
3028 14629 0.802607 GGAGTTGCTCTTACTCGCCG 60.803 60.000 0.00 0.00 42.31 6.46
3029 14630 0.246635 TGGAGTTGCTCTTACTCGCC 59.753 55.000 0.00 0.00 42.31 5.54
3032 14633 2.338500 CCGTTGGAGTTGCTCTTACTC 58.662 52.381 0.00 0.00 41.00 2.59
3041 14642 3.047877 GTCGCCCCGTTGGAGTTG 61.048 66.667 0.00 0.00 35.07 3.16
3042 14643 4.324991 GGTCGCCCCGTTGGAGTT 62.325 66.667 0.00 0.00 35.07 3.01
3052 14653 3.053896 CGTCCTTTTGGGTCGCCC 61.054 66.667 7.87 7.87 45.71 6.13
3053 14654 3.053896 CCGTCCTTTTGGGTCGCC 61.054 66.667 0.00 0.00 43.37 5.54
3054 14655 3.733960 GCCGTCCTTTTGGGTCGC 61.734 66.667 0.00 0.00 43.37 5.19
3055 14656 3.419759 CGCCGTCCTTTTGGGTCG 61.420 66.667 0.00 0.00 44.10 4.79
3056 14657 0.958876 AATCGCCGTCCTTTTGGGTC 60.959 55.000 0.00 0.00 40.87 4.46
3057 14658 0.538746 AAATCGCCGTCCTTTTGGGT 60.539 50.000 0.00 0.00 40.87 4.51
3058 14659 0.170339 GAAATCGCCGTCCTTTTGGG 59.830 55.000 0.00 0.00 40.87 4.12
3059 14660 0.179200 CGAAATCGCCGTCCTTTTGG 60.179 55.000 0.00 0.00 42.21 3.28
3060 14661 0.515564 ACGAAATCGCCGTCCTTTTG 59.484 50.000 2.15 0.00 44.43 2.44
3061 14662 2.922779 ACGAAATCGCCGTCCTTTT 58.077 47.368 2.15 0.00 44.43 2.27
3062 14663 4.687464 ACGAAATCGCCGTCCTTT 57.313 50.000 2.15 0.00 44.43 3.11


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

AutoCloner maintained by Alex Coulton.