Multiple sequence alignment - TraesCS7D01G074500

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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 TraesCS7D01G074500 chr7D 100.000 5600 0 0 999 6598 44291508 44297107 0.000000e+00 10342.0
1 TraesCS7D01G074500 chr7D 100.000 702 0 0 1 702 44290510 44291211 0.000000e+00 1297.0
2 TraesCS7D01G074500 chr7D 80.749 561 80 16 148 702 44264180 44264718 4.760000e-111 412.0
3 TraesCS7D01G074500 chr7D 92.727 55 3 1 3434 3487 44293885 44293939 1.970000e-10 78.7
4 TraesCS7D01G074500 chr7D 92.727 55 3 1 3376 3430 44293943 44293996 1.970000e-10 78.7
5 TraesCS7D01G074500 chr4A 92.622 3551 156 58 999 4497 655250632 655254128 0.000000e+00 5009.0
6 TraesCS7D01G074500 chr4A 92.608 974 45 10 4494 5458 655254287 655255242 0.000000e+00 1375.0
7 TraesCS7D01G074500 chr4A 85.727 1121 92 29 5520 6598 655255252 655256346 0.000000e+00 1122.0
8 TraesCS7D01G074500 chr4A 84.034 714 73 20 1 699 655249512 655250199 0.000000e+00 649.0
9 TraesCS7D01G074500 chr4A 80.087 693 98 27 1 684 655120821 655121482 4.630000e-131 479.0
10 TraesCS7D01G074500 chr4A 78.840 638 104 23 77 702 655051348 655051966 1.030000e-107 401.0
11 TraesCS7D01G074500 chr4A 92.727 55 3 1 3434 3487 655253009 655253063 1.970000e-10 78.7
12 TraesCS7D01G074500 chr4A 100.000 30 0 0 6329 6358 395038747 395038718 1.000000e-03 56.5
13 TraesCS7D01G074500 chr7A 94.376 2276 94 18 1173 3420 46709870 46712139 0.000000e+00 3463.0
14 TraesCS7D01G074500 chr7A 94.368 2042 58 15 3434 5467 46712095 46714087 0.000000e+00 3081.0
15 TraesCS7D01G074500 chr7A 88.517 1106 70 26 5520 6598 46714085 46715160 0.000000e+00 1286.0
16 TraesCS7D01G074500 chr7A 93.390 711 35 9 1 702 46708881 46709588 0.000000e+00 1042.0
17 TraesCS7D01G074500 chr7A 88.028 710 60 14 1 702 46637984 46638676 0.000000e+00 817.0
18 TraesCS7D01G074500 chr7A 93.506 385 17 6 1 379 46706029 46706411 3.450000e-157 566.0
19 TraesCS7D01G074500 chr7A 94.158 291 12 3 93 379 46696789 46697078 7.850000e-119 438.0
20 TraesCS7D01G074500 chr7A 97.122 139 4 0 999 1137 46709731 46709869 1.110000e-57 235.0
21 TraesCS7D01G074500 chr7A 94.444 36 2 0 1329 1364 128909646 128909681 1.000000e-03 56.5
22 TraesCS7D01G074500 chr1D 80.712 1685 228 57 3547 5151 451130548 451132215 0.000000e+00 1221.0
23 TraesCS7D01G074500 chr1D 77.441 1055 155 44 2141 3140 451129270 451130296 2.690000e-153 553.0
24 TraesCS7D01G074500 chr1D 81.818 165 21 8 1328 1489 414276752 414276594 5.370000e-26 130.0
25 TraesCS7D01G074500 chr1D 92.857 84 4 2 1859 1941 451129125 451129207 3.230000e-23 121.0
26 TraesCS7D01G074500 chr1A 80.383 1565 206 63 3546 5049 545889753 545891277 0.000000e+00 1096.0
27 TraesCS7D01G074500 chr1A 85.398 226 27 3 2141 2366 545888470 545888689 5.150000e-56 230.0
28 TraesCS7D01G074500 chr1A 83.916 143 21 2 1833 1974 545888299 545888440 1.150000e-27 135.0
29 TraesCS7D01G074500 chr1B 78.376 1059 138 55 4167 5151 619419202 619420243 2.630000e-168 603.0
30 TraesCS7D01G074500 chr1B 77.062 1055 154 48 2141 3140 619417124 619418145 1.630000e-145 527.0
31 TraesCS7D01G074500 chr1B 86.374 455 57 5 3719 4171 619418699 619419150 5.940000e-135 492.0
32 TraesCS7D01G074500 chr1B 92.857 84 6 0 1858 1941 619416978 619417061 8.980000e-24 122.0
33 TraesCS7D01G074500 chr1B 90.000 90 9 0 3756 3845 619419114 619419203 4.180000e-22 117.0
34 TraesCS7D01G074500 chr1B 100.000 31 0 0 6326 6356 221266490 221266460 2.570000e-04 58.4
35 TraesCS7D01G074500 chr2D 82.635 167 28 1 320 485 603219717 603219551 5.330000e-31 147.0
36 TraesCS7D01G074500 chr2D 78.325 203 44 0 278 480 112887909 112888111 1.490000e-26 132.0
37 TraesCS7D01G074500 chr2D 80.137 146 21 7 1336 1475 600327220 600327363 1.170000e-17 102.0
38 TraesCS7D01G074500 chr2A 84.247 146 21 1 1335 1478 107183862 107183717 2.480000e-29 141.0
39 TraesCS7D01G074500 chr6D 84.138 145 16 3 1335 1473 403051641 403051498 4.150000e-27 134.0
40 TraesCS7D01G074500 chr6D 81.818 132 18 5 1361 1490 470359231 470359104 9.050000e-19 106.0
41 TraesCS7D01G074500 chr6D 100.000 31 0 0 6326 6356 385231424 385231454 2.570000e-04 58.4
42 TraesCS7D01G074500 chr5D 82.166 157 22 4 1335 1485 513534141 513534297 5.370000e-26 130.0
43 TraesCS7D01G074500 chr5D 96.774 31 1 0 6329 6359 61715041 61715011 1.200000e-02 52.8
44 TraesCS7D01G074500 chr5A 81.944 144 22 4 1337 1479 528263835 528263975 1.160000e-22 119.0
45 TraesCS7D01G074500 chr5A 100.000 31 0 0 6329 6359 529184019 529183989 2.570000e-04 58.4
46 TraesCS7D01G074500 chr7B 81.132 159 19 5 1338 1485 155699246 155699088 4.180000e-22 117.0
47 TraesCS7D01G074500 chr4D 100.000 31 0 0 6326 6356 499228877 499228907 2.570000e-04 58.4
48 TraesCS7D01G074500 chr4B 100.000 30 0 0 6326 6355 641813616 641813645 1.000000e-03 56.5


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 TraesCS7D01G074500 chr7D 44290510 44297107 6597 False 2949.100000 10342 96.363500 1 6598 4 chr7D.!!$F2 6597
1 TraesCS7D01G074500 chr7D 44264180 44264718 538 False 412.000000 412 80.749000 148 702 1 chr7D.!!$F1 554
2 TraesCS7D01G074500 chr4A 655249512 655256346 6834 False 1646.740000 5009 89.543600 1 6598 5 chr4A.!!$F3 6597
3 TraesCS7D01G074500 chr4A 655120821 655121482 661 False 479.000000 479 80.087000 1 684 1 chr4A.!!$F2 683
4 TraesCS7D01G074500 chr4A 655051348 655051966 618 False 401.000000 401 78.840000 77 702 1 chr4A.!!$F1 625
5 TraesCS7D01G074500 chr7A 46706029 46715160 9131 False 1612.166667 3463 93.546500 1 6598 6 chr7A.!!$F4 6597
6 TraesCS7D01G074500 chr7A 46637984 46638676 692 False 817.000000 817 88.028000 1 702 1 chr7A.!!$F1 701
7 TraesCS7D01G074500 chr1D 451129125 451132215 3090 False 631.666667 1221 83.670000 1859 5151 3 chr1D.!!$F1 3292
8 TraesCS7D01G074500 chr1A 545888299 545891277 2978 False 487.000000 1096 83.232333 1833 5049 3 chr1A.!!$F1 3216
9 TraesCS7D01G074500 chr1B 619416978 619420243 3265 False 372.200000 603 84.933800 1858 5151 5 chr1B.!!$F1 3293

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
626 3511 1.133976 CCAAGAGCCCACCCTTATCTG 60.134 57.143 0.0 0.0 0.00 2.90 F
2322 5392 0.179056 CCGGTATCATTCGCCAGGTT 60.179 55.000 0.0 0.0 0.00 3.50 F
3922 7219 2.165357 AAATGGAAGGGAAGGATGGC 57.835 50.000 0.0 0.0 0.00 4.40 F
4723 8288 1.044611 GGGTGCCAAGCCTAAAAACA 58.955 50.000 0.0 0.0 41.05 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2529 5638 0.028505 GTATGTGCAGGCAATCGCTG 59.971 55.0 0.00 0.00 38.60 5.18 R
4003 7300 2.033299 GGCCATTATGTGAACATCGTGG 59.967 50.0 16.77 16.77 40.78 4.94 R
5492 9105 0.038159 GTGAAGCAGAGTACCGCAGT 60.038 55.0 2.77 0.00 0.00 4.40 R
6397 10045 0.246635 GAGGTATGGCATACGCGGAT 59.753 55.0 26.53 3.58 39.92 4.18 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
198 214 8.691661 AGCCTGAAAAATAGTGTAGAGAAAAA 57.308 30.769 0.00 0.00 0.00 1.94
305 755 7.493971 CCAAGTTTTATTCATCAAACACCACAA 59.506 33.333 0.00 0.00 35.66 3.33
307 757 9.442047 AAGTTTTATTCATCAAACACCACAAAA 57.558 25.926 0.00 0.00 35.66 2.44
325 775 4.019681 ACAAAATGTGGGATAGAGTTCGGA 60.020 41.667 0.00 0.00 0.00 4.55
328 778 3.314307 TGTGGGATAGAGTTCGGATCT 57.686 47.619 0.00 0.00 0.00 2.75
332 782 3.231818 GGGATAGAGTTCGGATCTTGGA 58.768 50.000 0.00 0.00 0.00 3.53
344 3222 3.741388 CGGATCTTGGAATTAGCCGAACT 60.741 47.826 0.00 0.00 39.62 3.01
361 3239 2.701073 ACTAAACGTGACGTCTCAGG 57.299 50.000 12.37 6.26 39.99 3.86
417 3295 3.125146 GCTTTGACATTGATAGCACGACA 59.875 43.478 0.00 0.00 0.00 4.35
420 3304 5.469373 TTGACATTGATAGCACGACATTC 57.531 39.130 0.00 0.00 0.00 2.67
423 3307 5.411053 TGACATTGATAGCACGACATTCAAA 59.589 36.000 0.00 0.00 30.81 2.69
424 3308 6.072783 TGACATTGATAGCACGACATTCAAAA 60.073 34.615 0.00 0.00 30.81 2.44
425 3309 6.317088 ACATTGATAGCACGACATTCAAAAG 58.683 36.000 0.00 0.00 30.81 2.27
426 3310 4.944962 TGATAGCACGACATTCAAAAGG 57.055 40.909 0.00 0.00 0.00 3.11
602 3487 3.497031 GTAGAAAGCCCGCCACGC 61.497 66.667 0.00 0.00 0.00 5.34
626 3511 1.133976 CCAAGAGCCCACCCTTATCTG 60.134 57.143 0.00 0.00 0.00 2.90
1062 4105 1.378124 GACGGAGGGAGAGAGGTTCG 61.378 65.000 0.00 0.00 0.00 3.95
1154 4198 2.872858 GGACGATTCTAGGGTTTCATGC 59.127 50.000 0.00 0.00 0.00 4.06
1183 4227 5.918576 TGCGATCTAGTATTTGGTATGAACG 59.081 40.000 0.00 0.00 0.00 3.95
1213 4257 1.337260 GGAATGGATCTCGGACGATGG 60.337 57.143 0.00 0.00 0.00 3.51
1221 4267 4.022242 GGATCTCGGACGATGGAGATTTTA 60.022 45.833 14.59 0.00 46.97 1.52
1341 4391 4.283467 GGCCTGAATTTCTTTTAAGGGTGT 59.717 41.667 0.00 0.00 0.00 4.16
1348 4398 3.713826 TCTTTTAAGGGTGTGGCTAGG 57.286 47.619 0.00 0.00 0.00 3.02
1361 4411 1.751351 TGGCTAGGTCTCAGTCGATTG 59.249 52.381 0.68 0.68 0.00 2.67
1411 4474 9.736023 GTGACAGAACACATAAGAAAGAAAAAT 57.264 29.630 0.00 0.00 40.11 1.82
1461 4524 9.014297 TCTCTACGCAAGATCTCATGAATATAA 57.986 33.333 0.00 0.00 43.62 0.98
1683 4750 9.970395 TTTGGATATTTGATCAATTGCAGATAC 57.030 29.630 9.40 0.00 0.00 2.24
1765 4832 3.220999 TACAGCCGCAGTGTCGCTT 62.221 57.895 0.00 0.42 0.00 4.68
1773 4840 0.667487 GCAGTGTCGCTTGCTACTCA 60.667 55.000 0.00 0.00 0.00 3.41
1946 5013 1.650528 CCCCCTCCTAGCCTTGATAG 58.349 60.000 0.00 0.00 0.00 2.08
1959 5026 6.613153 AGCCTTGATAGTAGTTTCTGTCTT 57.387 37.500 0.00 0.00 0.00 3.01
2029 5096 0.318120 CCCAAGAGTGCGCCATTTTT 59.682 50.000 4.18 0.00 0.00 1.94
2322 5392 0.179056 CCGGTATCATTCGCCAGGTT 60.179 55.000 0.00 0.00 0.00 3.50
2391 5493 4.869297 GCTGGCTACTCATGCTATATTCTG 59.131 45.833 0.00 0.00 0.00 3.02
2419 5521 3.799366 TGGAGCGTGTTTTAGAAAGTCA 58.201 40.909 0.00 0.00 0.00 3.41
2424 5526 5.116882 AGCGTGTTTTAGAAAGTCAGACTT 58.883 37.500 10.27 10.27 40.80 3.01
2444 5546 2.226330 TGTGCCAGCTTTGTAATTCGT 58.774 42.857 0.00 0.00 0.00 3.85
2499 5608 5.360591 ACCTGATCGATCCATTTGACTAAC 58.639 41.667 22.31 0.00 0.00 2.34
2525 5634 4.280929 GGCAACCTAGACTTTTTCCATTGT 59.719 41.667 0.00 0.00 0.00 2.71
2529 5638 5.842907 ACCTAGACTTTTTCCATTGTTTGC 58.157 37.500 0.00 0.00 0.00 3.68
2920 6084 2.178912 TTAGGCACCTTCCAAGTTCG 57.821 50.000 0.00 0.00 0.00 3.95
3144 6309 2.851195 CTGCCAGTACAGTTTGTCCTT 58.149 47.619 0.00 0.00 32.78 3.36
3175 6341 6.041637 TGCTAGAGTTCTGTTCCTACTGAAAA 59.958 38.462 0.00 0.00 41.82 2.29
3457 6623 7.338800 TGCTTTGAACTTTCTGAGAAGATTT 57.661 32.000 0.00 0.00 0.00 2.17
3459 6625 7.917505 TGCTTTGAACTTTCTGAGAAGATTTTC 59.082 33.333 0.00 0.00 0.00 2.29
3474 6640 7.664758 AGAAGATTTTCAATGTCAAGGGAAAG 58.335 34.615 0.00 0.00 35.70 2.62
3500 6666 8.980481 ACATAATACTGTTAAATCCTCCCTTG 57.020 34.615 0.00 0.00 0.00 3.61
3506 6672 7.989947 ACTGTTAAATCCTCCCTTGTCTATA 57.010 36.000 0.00 0.00 0.00 1.31
3507 6673 8.568617 ACTGTTAAATCCTCCCTTGTCTATAT 57.431 34.615 0.00 0.00 0.00 0.86
3526 6692 9.890629 GTCTATATATATGGAAAACATGGCTGA 57.109 33.333 10.10 0.00 40.82 4.26
3668 6839 7.906327 ACATGGCATATTAGGTTTTCTGTTTT 58.094 30.769 0.00 0.00 0.00 2.43
3679 6850 7.215719 AGGTTTTCTGTTTTATCTTACAGCC 57.784 36.000 0.00 0.00 41.16 4.85
3845 7142 8.507249 GCTTGTTTGTAGTGACTCATATCTTTT 58.493 33.333 0.00 0.00 0.00 2.27
3922 7219 2.165357 AAATGGAAGGGAAGGATGGC 57.835 50.000 0.00 0.00 0.00 4.40
4003 7300 6.324042 TGCAATGACATACAATGATGAACAC 58.676 36.000 0.00 0.00 31.65 3.32
4096 7393 7.659390 CCTAAAGTTGAGAATGAGGTGGATATC 59.341 40.741 0.00 0.00 0.00 1.63
4116 7413 8.399425 GGATATCTGTAGTCTCATATGTTACCG 58.601 40.741 1.90 0.07 0.00 4.02
4137 7434 9.843334 TTACCGTTTTTGTTTTGATATGGATAC 57.157 29.630 0.00 0.00 0.00 2.24
4237 7590 2.398588 TCCAACCACAGACACTTCTCT 58.601 47.619 0.00 0.00 0.00 3.10
4340 7693 3.435327 GTGTCGGTATTGATTGAAGCACA 59.565 43.478 0.00 0.00 0.00 4.57
4525 8083 3.214328 CATATTCACTGCAACCCCTACC 58.786 50.000 0.00 0.00 0.00 3.18
4723 8288 1.044611 GGGTGCCAAGCCTAAAAACA 58.955 50.000 0.00 0.00 41.05 2.83
4728 8293 4.242475 GTGCCAAGCCTAAAAACATTACC 58.758 43.478 0.00 0.00 0.00 2.85
4762 8342 6.126863 TCTTGTAGGAAAATGACCACAGAT 57.873 37.500 0.00 0.00 0.00 2.90
4957 8552 3.738282 TGCGCCACATTGTTTATCAAAAC 59.262 39.130 4.18 0.00 44.40 2.43
5082 8684 2.125912 CCTGGCAAGACCGACGAG 60.126 66.667 0.00 0.00 43.94 4.18
5133 8735 1.304962 TCTAGCCAAGACCGCCTCA 60.305 57.895 0.00 0.00 0.00 3.86
5224 8828 3.303990 CCTTGTGTGTAAGACATGTGTGC 60.304 47.826 1.15 0.00 41.01 4.57
5238 8842 5.308014 ACATGTGTGCCAGTGTATATATGG 58.692 41.667 0.00 0.00 37.15 2.74
5293 8898 4.333649 CCTGGTCTAATGTGTAGCATGTTG 59.666 45.833 0.00 0.00 37.96 3.33
5313 8919 7.710676 TGTTGTTGCCACCTATGTTAAATAT 57.289 32.000 0.00 0.00 0.00 1.28
5429 9039 4.734695 GCGAAAAAGGGCATCCTAATTCAG 60.735 45.833 0.00 0.00 44.07 3.02
5433 9043 7.410120 AAAAAGGGCATCCTAATTCAGTAAG 57.590 36.000 0.00 0.00 44.07 2.34
5460 9073 7.013274 TCCTGAAGAAAACAACAGAGGTTATTG 59.987 37.037 0.00 0.00 34.87 1.90
5464 9077 9.185192 GAAGAAAACAACAGAGGTTATTGATTG 57.815 33.333 0.00 0.00 34.87 2.67
5465 9078 7.661040 AGAAAACAACAGAGGTTATTGATTGG 58.339 34.615 0.00 0.00 34.87 3.16
5466 9079 6.976934 AAACAACAGAGGTTATTGATTGGT 57.023 33.333 0.00 0.00 34.87 3.67
5467 9080 6.976934 AACAACAGAGGTTATTGATTGGTT 57.023 33.333 0.00 0.00 34.87 3.67
5468 9081 6.976934 ACAACAGAGGTTATTGATTGGTTT 57.023 33.333 0.00 0.00 34.87 3.27
5469 9082 7.360113 ACAACAGAGGTTATTGATTGGTTTT 57.640 32.000 0.00 0.00 34.87 2.43
5470 9083 7.433680 ACAACAGAGGTTATTGATTGGTTTTC 58.566 34.615 0.00 0.00 34.87 2.29
5471 9084 7.069331 ACAACAGAGGTTATTGATTGGTTTTCA 59.931 33.333 0.00 0.00 34.87 2.69
5472 9085 7.219484 ACAGAGGTTATTGATTGGTTTTCAG 57.781 36.000 0.00 0.00 0.00 3.02
5473 9086 7.004086 ACAGAGGTTATTGATTGGTTTTCAGA 58.996 34.615 0.00 0.00 0.00 3.27
5474 9087 7.671398 ACAGAGGTTATTGATTGGTTTTCAGAT 59.329 33.333 0.00 0.00 0.00 2.90
5475 9088 8.186821 CAGAGGTTATTGATTGGTTTTCAGATC 58.813 37.037 0.00 0.00 0.00 2.75
5476 9089 8.112183 AGAGGTTATTGATTGGTTTTCAGATCT 58.888 33.333 0.00 0.00 0.00 2.75
5477 9090 8.655935 AGGTTATTGATTGGTTTTCAGATCTT 57.344 30.769 0.00 0.00 0.00 2.40
5478 9091 8.526147 AGGTTATTGATTGGTTTTCAGATCTTG 58.474 33.333 0.00 0.00 0.00 3.02
5479 9092 8.522830 GGTTATTGATTGGTTTTCAGATCTTGA 58.477 33.333 0.00 0.00 0.00 3.02
5480 9093 9.565213 GTTATTGATTGGTTTTCAGATCTTGAG 57.435 33.333 0.00 0.00 37.07 3.02
5481 9094 5.633830 TGATTGGTTTTCAGATCTTGAGC 57.366 39.130 0.00 0.00 37.07 4.26
5482 9095 4.460382 TGATTGGTTTTCAGATCTTGAGCC 59.540 41.667 0.00 0.00 37.07 4.70
5483 9096 3.795688 TGGTTTTCAGATCTTGAGCCT 57.204 42.857 0.00 0.00 37.07 4.58
5484 9097 4.104383 TGGTTTTCAGATCTTGAGCCTT 57.896 40.909 0.00 0.00 37.07 4.35
5485 9098 3.822735 TGGTTTTCAGATCTTGAGCCTTG 59.177 43.478 0.00 0.00 37.07 3.61
5486 9099 4.074970 GGTTTTCAGATCTTGAGCCTTGA 58.925 43.478 0.00 0.00 37.07 3.02
5487 9100 4.704057 GGTTTTCAGATCTTGAGCCTTGAT 59.296 41.667 0.00 0.00 37.07 2.57
5488 9101 5.392811 GGTTTTCAGATCTTGAGCCTTGATG 60.393 44.000 0.00 0.00 37.07 3.07
5489 9102 3.555527 TCAGATCTTGAGCCTTGATGG 57.444 47.619 0.00 0.00 39.35 3.51
5498 9111 3.136123 CCTTGATGGCCACTGCGG 61.136 66.667 8.16 2.50 38.85 5.69
5499 9112 2.360350 CTTGATGGCCACTGCGGT 60.360 61.111 8.16 0.00 38.85 5.68
5500 9113 1.078497 CTTGATGGCCACTGCGGTA 60.078 57.895 8.16 0.00 38.85 4.02
5501 9114 1.369091 CTTGATGGCCACTGCGGTAC 61.369 60.000 8.16 0.00 38.85 3.34
5502 9115 1.836999 TTGATGGCCACTGCGGTACT 61.837 55.000 8.16 0.00 38.85 2.73
5503 9116 1.521681 GATGGCCACTGCGGTACTC 60.522 63.158 8.16 0.00 38.85 2.59
5504 9117 1.961180 GATGGCCACTGCGGTACTCT 61.961 60.000 8.16 0.00 38.85 3.24
5505 9118 2.125512 GGCCACTGCGGTACTCTG 60.126 66.667 0.00 0.00 38.85 3.35
5506 9119 2.815647 GCCACTGCGGTACTCTGC 60.816 66.667 0.00 0.00 45.37 4.26
5507 9120 2.973899 CCACTGCGGTACTCTGCT 59.026 61.111 0.00 0.00 45.38 4.24
5508 9121 1.293498 CCACTGCGGTACTCTGCTT 59.707 57.895 0.00 0.00 45.38 3.91
5509 9122 0.737715 CCACTGCGGTACTCTGCTTC 60.738 60.000 0.00 0.00 45.38 3.86
5510 9123 0.038251 CACTGCGGTACTCTGCTTCA 60.038 55.000 0.00 0.00 45.38 3.02
5511 9124 0.038159 ACTGCGGTACTCTGCTTCAC 60.038 55.000 0.00 0.00 45.38 3.18
5512 9125 0.737715 CTGCGGTACTCTGCTTCACC 60.738 60.000 0.00 0.00 45.38 4.02
5513 9126 1.185618 TGCGGTACTCTGCTTCACCT 61.186 55.000 0.00 0.00 45.38 4.00
5514 9127 0.458716 GCGGTACTCTGCTTCACCTC 60.459 60.000 0.00 0.00 42.20 3.85
5515 9128 0.888619 CGGTACTCTGCTTCACCTCA 59.111 55.000 0.00 0.00 0.00 3.86
5516 9129 1.478510 CGGTACTCTGCTTCACCTCAT 59.521 52.381 0.00 0.00 0.00 2.90
5517 9130 2.688446 CGGTACTCTGCTTCACCTCATA 59.312 50.000 0.00 0.00 0.00 2.15
5518 9131 3.243234 CGGTACTCTGCTTCACCTCATAG 60.243 52.174 0.00 0.00 0.00 2.23
5530 9143 6.395780 TTCACCTCATAGGGTAAATTTCCA 57.604 37.500 0.00 0.00 40.58 3.53
5573 9187 4.353383 AGGGTAAACTGTTCTTGAGGAC 57.647 45.455 0.00 0.00 0.00 3.85
5589 9203 2.622942 GAGGACCTGCACAAAACAATGA 59.377 45.455 0.00 0.00 0.00 2.57
5597 9213 6.037391 ACCTGCACAAAACAATGAAAAATCTG 59.963 34.615 0.00 0.00 0.00 2.90
5604 9220 7.496591 ACAAAACAATGAAAAATCTGTGCTGAT 59.503 29.630 0.00 0.00 0.00 2.90
5650 9266 3.683365 ACATCAAAGGGGTTTGATTGC 57.317 42.857 10.03 0.00 46.24 3.56
5676 9292 2.586079 CTACCATCGGCGCCACTG 60.586 66.667 28.98 21.86 0.00 3.66
5685 9301 4.175337 GCGCCACTGCCATCCCTA 62.175 66.667 0.00 0.00 0.00 3.53
5796 9412 7.636259 GCTTAAAGCATAATGAAACAACACA 57.364 32.000 0.00 0.00 41.89 3.72
5818 9434 5.005971 ACATTCGCATTAGCATTTTCATTGC 59.994 36.000 0.00 0.00 42.27 3.56
5930 9550 0.894184 ACGTCCCTGCGAGAGAGAAA 60.894 55.000 0.00 0.00 35.59 2.52
5932 9552 1.715993 GTCCCTGCGAGAGAGAAAAC 58.284 55.000 0.00 0.00 0.00 2.43
5934 9554 0.243907 CCCTGCGAGAGAGAAAACGA 59.756 55.000 0.00 0.00 0.00 3.85
5961 9581 2.570181 GGTGCCATGCAACAGAGC 59.430 61.111 0.00 0.00 46.68 4.09
5970 9590 0.662619 TGCAACAGAGCGGAACAAAG 59.337 50.000 0.00 0.00 37.31 2.77
5981 9601 5.535030 AGAGCGGAACAAAGAAAATAAAGGT 59.465 36.000 0.00 0.00 0.00 3.50
5983 9603 5.068591 AGCGGAACAAAGAAAATAAAGGTGT 59.931 36.000 0.00 0.00 0.00 4.16
6022 9648 2.997485 AACTTCCATCTCTTTTGCGC 57.003 45.000 0.00 0.00 0.00 6.09
6057 9683 5.871524 TCGGAGATTTGAATGTTGAGAGAAG 59.128 40.000 0.00 0.00 0.00 2.85
6063 9700 3.520696 TGAATGTTGAGAGAAGAGGGGA 58.479 45.455 0.00 0.00 0.00 4.81
6084 9721 0.773644 AAGCAGGGGAAGCAAGAGAA 59.226 50.000 0.00 0.00 0.00 2.87
6101 9738 2.453242 AAGGGCTTCTTCACCTCGT 58.547 52.632 0.00 0.00 32.29 4.18
6203 9840 1.380524 TCTCCTTCTCCGATGTCGAC 58.619 55.000 9.11 9.11 43.02 4.20
6221 9861 0.398696 ACCCCTGCGACAAACATACA 59.601 50.000 0.00 0.00 0.00 2.29
6258 9901 4.161189 CCATGAGTGACAACCTAGATCAGT 59.839 45.833 0.00 0.00 0.00 3.41
6262 9905 5.047731 TGAGTGACAACCTAGATCAGTGAAG 60.048 44.000 0.00 0.00 0.00 3.02
6270 9913 0.329596 AGATCAGTGAAGCCCCCAAC 59.670 55.000 0.00 0.00 0.00 3.77
6273 9916 1.122632 TCAGTGAAGCCCCCAACGTA 61.123 55.000 0.00 0.00 0.00 3.57
6284 9927 0.461339 CCCAACGTACGATGAAGGGG 60.461 60.000 25.00 18.18 0.00 4.79
6359 10002 9.594038 CGGTTGTAATAACATCTTATATTGTGC 57.406 33.333 0.00 0.00 34.97 4.57
6369 10017 7.118723 ACATCTTATATTGTGCTGGAAGGAAA 58.881 34.615 0.00 0.00 34.45 3.13
6372 10020 7.118723 TCTTATATTGTGCTGGAAGGAAACAT 58.881 34.615 0.00 0.00 34.45 2.71
6376 10024 1.340889 GTGCTGGAAGGAAACATTGCA 59.659 47.619 0.00 0.00 34.45 4.08
6400 10048 3.065575 CTGGTGAACAGGCGTATCC 57.934 57.895 0.00 0.00 43.70 2.59
6401 10049 0.806102 CTGGTGAACAGGCGTATCCG 60.806 60.000 0.00 0.00 43.70 4.18
6462 10110 2.105528 CCGTAATCGTCCCACCCG 59.894 66.667 0.00 0.00 35.01 5.28
6485 10133 1.508632 CCGTCGTTTGACCTGAACAT 58.491 50.000 0.00 0.00 42.37 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
198 214 1.282157 CAGCCCAAGTAGCTAGGGTTT 59.718 52.381 15.95 4.68 44.69 3.27
261 711 1.385368 GTTTTACCTCCCCACCCCC 59.615 63.158 0.00 0.00 0.00 5.40
262 712 1.385368 GGTTTTACCTCCCCACCCC 59.615 63.158 0.00 0.00 34.73 4.95
265 715 2.670019 ACTTGGTTTTACCTCCCCAC 57.330 50.000 0.00 0.00 39.58 4.61
266 716 3.691698 AAACTTGGTTTTACCTCCCCA 57.308 42.857 0.00 0.00 39.58 4.96
270 720 9.974980 TTGATGAATAAAACTTGGTTTTACCTC 57.025 29.630 14.95 14.30 46.20 3.85
305 755 4.656112 AGATCCGAACTCTATCCCACATTT 59.344 41.667 0.00 0.00 0.00 2.32
307 757 3.850752 AGATCCGAACTCTATCCCACAT 58.149 45.455 0.00 0.00 0.00 3.21
325 775 5.293569 CGTTTAGTTCGGCTAATTCCAAGAT 59.706 40.000 2.21 0.00 39.23 2.40
328 778 4.152759 CACGTTTAGTTCGGCTAATTCCAA 59.847 41.667 0.00 0.00 39.23 3.53
332 782 3.365820 CGTCACGTTTAGTTCGGCTAATT 59.634 43.478 0.00 0.00 39.23 1.40
344 3222 0.038892 GGCCTGAGACGTCACGTTTA 60.039 55.000 19.50 0.00 41.37 2.01
361 3239 3.188667 CCAGGTTTTCTCTTTCGTTAGGC 59.811 47.826 0.00 0.00 0.00 3.93
424 3308 9.353999 GCGTCTTTATTTGATTGTAATTTTCCT 57.646 29.630 0.00 0.00 0.00 3.36
425 3309 9.353999 AGCGTCTTTATTTGATTGTAATTTTCC 57.646 29.630 0.00 0.00 0.00 3.13
1045 4088 1.378124 GACGAACCTCTCTCCCTCCG 61.378 65.000 0.00 0.00 0.00 4.63
1062 4105 2.415357 CGAAGAGAAGCTGACCTGAGAC 60.415 54.545 0.00 0.00 0.00 3.36
1154 4198 2.472861 CCAAATACTAGATCGCAGCACG 59.527 50.000 0.00 0.00 45.62 5.34
1183 4227 0.603975 GATCCATTCCCCGTGCTAGC 60.604 60.000 8.10 8.10 0.00 3.42
1341 4391 1.751351 CAATCGACTGAGACCTAGCCA 59.249 52.381 0.00 0.00 0.00 4.75
1361 4411 8.233190 CACTTGATTGAGACTTGGTTAAATCTC 58.767 37.037 0.00 0.00 38.46 2.75
1411 4474 6.814076 TTCGCGCAAAATTTTCTTTTTAGA 57.186 29.167 8.75 0.00 0.00 2.10
1461 4524 4.220821 ACTTGGTTATGTCTCAGTCGATGT 59.779 41.667 0.00 0.00 0.00 3.06
1683 4750 1.593265 GGCCAAACTGCCCAATCTG 59.407 57.895 0.00 0.00 46.11 2.90
1765 4832 1.006220 CGGCTGTGTGTGAGTAGCA 60.006 57.895 0.00 0.00 37.89 3.49
1946 5013 3.996480 ACTGAGGCAAGACAGAAACTAC 58.004 45.455 0.00 0.00 37.54 2.73
1959 5026 3.582647 TCTTGGAAATCACTACTGAGGCA 59.417 43.478 0.00 0.00 0.00 4.75
2029 5096 2.244486 TGCAATAGCCAAAATCCCCA 57.756 45.000 0.00 0.00 41.13 4.96
2246 5316 0.895100 GCTGTCCCTTGCACCATTCA 60.895 55.000 0.00 0.00 0.00 2.57
2291 5361 3.785189 ATACCGGTAAGCTGGCGCG 62.785 63.158 20.22 0.00 45.10 6.86
2322 5392 5.426689 ACCACAGCTGAAGAAAGATCATA 57.573 39.130 23.35 0.00 0.00 2.15
2391 5493 1.244019 AAAACACGCTCCAGGATGCC 61.244 55.000 0.00 0.00 31.97 4.40
2419 5521 2.638480 TACAAAGCTGGCACAAGTCT 57.362 45.000 0.00 0.00 38.70 3.24
2424 5526 2.226330 ACGAATTACAAAGCTGGCACA 58.774 42.857 0.00 0.00 0.00 4.57
2444 5546 9.905713 AGCCATCTAATGTTCTAAATTGACTTA 57.094 29.630 0.00 0.00 0.00 2.24
2499 5608 2.225727 GGAAAAAGTCTAGGTTGCCACG 59.774 50.000 0.00 0.00 0.00 4.94
2529 5638 0.028505 GTATGTGCAGGCAATCGCTG 59.971 55.000 0.00 0.00 38.60 5.18
2600 5728 3.630312 TGGGAGCTGTTTGAAACTTGTAC 59.370 43.478 9.69 0.00 0.00 2.90
3144 6309 5.869579 AGGAACAGAACTCTAGCAAAATCA 58.130 37.500 0.00 0.00 0.00 2.57
3349 6515 4.070716 CAACTGAAAGCAGAATGGAGACT 58.929 43.478 0.00 0.00 45.17 3.24
3474 6640 9.057089 CAAGGGAGGATTTAACAGTATTATGTC 57.943 37.037 0.00 0.00 31.50 3.06
3500 6666 9.890629 TCAGCCATGTTTTCCATATATATAGAC 57.109 33.333 0.00 0.00 30.71 2.59
3506 6672 8.609483 AGATACTCAGCCATGTTTTCCATATAT 58.391 33.333 0.00 0.00 30.71 0.86
3507 6673 7.977818 AGATACTCAGCCATGTTTTCCATATA 58.022 34.615 0.00 0.00 30.71 0.86
3922 7219 7.416154 TTCTCGAACACTTTTATACTTGGTG 57.584 36.000 0.00 0.00 0.00 4.17
4003 7300 2.033299 GGCCATTATGTGAACATCGTGG 59.967 50.000 16.77 16.77 40.78 4.94
4096 7393 8.380644 CAAAAACGGTAACATATGAGACTACAG 58.619 37.037 10.38 8.26 0.00 2.74
4116 7413 8.736751 ACACGTATCCATATCAAAACAAAAAC 57.263 30.769 0.00 0.00 0.00 2.43
4137 7434 7.616103 TTGTTGTCAAATGCTAAATAACACG 57.384 32.000 0.00 0.00 0.00 4.49
4216 7569 2.771943 AGAGAAGTGTCTGTGGTTGGAA 59.228 45.455 0.00 0.00 32.80 3.53
4525 8083 3.991121 ACAAAACAAAACAAGGGAACACG 59.009 39.130 0.00 0.00 0.00 4.49
4762 8342 2.102420 TGCACCGAGTTTTCTCTTCTCA 59.898 45.455 0.00 0.00 44.16 3.27
4957 8552 1.135689 GCACAGGAAGCATGGTTAACG 60.136 52.381 10.70 4.24 0.00 3.18
5082 8684 3.073446 CGCTTCCTCTTCGCGTTC 58.927 61.111 5.77 0.00 41.78 3.95
5133 8735 2.104963 GGGCTATCTCCTGATCCGTTTT 59.895 50.000 0.00 0.00 34.32 2.43
5224 8828 7.279536 GCAGATTCATGTCCATATATACACTGG 59.720 40.741 0.00 0.00 0.00 4.00
5293 8898 7.444183 TGCTCTATATTTAACATAGGTGGCAAC 59.556 37.037 0.00 0.00 31.00 4.17
5313 8919 2.941064 GAGCTGCATCAACATTGCTCTA 59.059 45.455 11.77 0.00 42.28 2.43
5429 9039 6.017852 CCTCTGTTGTTTTCTTCAGGACTTAC 60.018 42.308 0.00 0.00 0.00 2.34
5433 9043 4.200092 ACCTCTGTTGTTTTCTTCAGGAC 58.800 43.478 0.00 0.00 0.00 3.85
5460 9073 4.704057 AGGCTCAAGATCTGAAAACCAATC 59.296 41.667 0.00 0.00 32.17 2.67
5464 9077 4.074970 TCAAGGCTCAAGATCTGAAAACC 58.925 43.478 0.00 0.00 32.17 3.27
5465 9078 5.392811 CCATCAAGGCTCAAGATCTGAAAAC 60.393 44.000 0.00 0.00 32.17 2.43
5466 9079 4.703575 CCATCAAGGCTCAAGATCTGAAAA 59.296 41.667 0.00 0.00 32.17 2.29
5467 9080 4.267536 CCATCAAGGCTCAAGATCTGAAA 58.732 43.478 0.00 0.00 32.17 2.69
5468 9081 3.882444 CCATCAAGGCTCAAGATCTGAA 58.118 45.455 0.00 0.00 32.17 3.02
5469 9082 3.555527 CCATCAAGGCTCAAGATCTGA 57.444 47.619 0.00 0.00 0.00 3.27
5481 9094 2.535485 TACCGCAGTGGCCATCAAGG 62.535 60.000 9.72 13.72 43.94 3.61
5482 9095 1.078497 TACCGCAGTGGCCATCAAG 60.078 57.895 9.72 0.88 43.94 3.02
5483 9096 1.376683 GTACCGCAGTGGCCATCAA 60.377 57.895 9.72 0.00 43.94 2.57
5484 9097 2.238847 GAGTACCGCAGTGGCCATCA 62.239 60.000 9.72 0.00 43.94 3.07
5485 9098 1.521681 GAGTACCGCAGTGGCCATC 60.522 63.158 9.72 2.38 43.94 3.51
5486 9099 1.990060 AGAGTACCGCAGTGGCCAT 60.990 57.895 9.72 0.00 43.94 4.40
5487 9100 2.603473 AGAGTACCGCAGTGGCCA 60.603 61.111 0.00 0.00 43.94 5.36
5488 9101 2.125512 CAGAGTACCGCAGTGGCC 60.126 66.667 0.00 0.00 43.94 5.36
5489 9102 2.788191 AAGCAGAGTACCGCAGTGGC 62.788 60.000 0.00 0.00 43.94 5.01
5490 9103 0.737715 GAAGCAGAGTACCGCAGTGG 60.738 60.000 0.00 0.00 46.41 4.00
5491 9104 0.038251 TGAAGCAGAGTACCGCAGTG 60.038 55.000 2.77 0.00 0.00 3.66
5492 9105 0.038159 GTGAAGCAGAGTACCGCAGT 60.038 55.000 2.77 0.00 0.00 4.40
5493 9106 0.737715 GGTGAAGCAGAGTACCGCAG 60.738 60.000 2.77 0.00 0.00 5.18
5494 9107 1.185618 AGGTGAAGCAGAGTACCGCA 61.186 55.000 2.77 0.00 38.24 5.69
5495 9108 0.458716 GAGGTGAAGCAGAGTACCGC 60.459 60.000 0.00 0.00 38.24 5.68
5496 9109 0.888619 TGAGGTGAAGCAGAGTACCG 59.111 55.000 0.00 0.00 38.24 4.02
5497 9110 3.068873 CCTATGAGGTGAAGCAGAGTACC 59.931 52.174 0.00 0.00 0.00 3.34
5498 9111 3.068873 CCCTATGAGGTGAAGCAGAGTAC 59.931 52.174 0.00 0.00 31.93 2.73
5499 9112 3.300388 CCCTATGAGGTGAAGCAGAGTA 58.700 50.000 0.00 0.00 31.93 2.59
5500 9113 2.114616 CCCTATGAGGTGAAGCAGAGT 58.885 52.381 0.00 0.00 31.93 3.24
5501 9114 2.114616 ACCCTATGAGGTGAAGCAGAG 58.885 52.381 0.00 0.00 39.24 3.35
5502 9115 2.254152 ACCCTATGAGGTGAAGCAGA 57.746 50.000 0.00 0.00 39.24 4.26
5503 9116 4.487714 TTTACCCTATGAGGTGAAGCAG 57.512 45.455 0.00 0.00 41.42 4.24
5504 9117 5.450818 AATTTACCCTATGAGGTGAAGCA 57.549 39.130 0.00 0.00 38.63 3.91
5505 9118 5.299531 GGAAATTTACCCTATGAGGTGAAGC 59.700 44.000 0.00 0.00 38.63 3.86
5506 9119 6.423182 TGGAAATTTACCCTATGAGGTGAAG 58.577 40.000 0.00 0.00 38.63 3.02
5507 9120 6.395780 TGGAAATTTACCCTATGAGGTGAA 57.604 37.500 0.00 0.00 41.42 3.18
5508 9121 6.395780 TTGGAAATTTACCCTATGAGGTGA 57.604 37.500 0.00 0.00 41.42 4.02
5509 9122 6.663523 AGTTTGGAAATTTACCCTATGAGGTG 59.336 38.462 0.00 0.00 41.42 4.00
5510 9123 6.800890 AGTTTGGAAATTTACCCTATGAGGT 58.199 36.000 0.00 0.00 44.37 3.85
5511 9124 6.889722 TGAGTTTGGAAATTTACCCTATGAGG 59.110 38.462 0.00 0.00 34.30 3.86
5512 9125 7.938140 TGAGTTTGGAAATTTACCCTATGAG 57.062 36.000 0.00 0.00 0.00 2.90
5513 9126 8.112822 TGATGAGTTTGGAAATTTACCCTATGA 58.887 33.333 0.00 0.00 0.00 2.15
5514 9127 8.292444 TGATGAGTTTGGAAATTTACCCTATG 57.708 34.615 0.00 0.00 0.00 2.23
5515 9128 7.068716 GCTGATGAGTTTGGAAATTTACCCTAT 59.931 37.037 0.00 0.00 0.00 2.57
5516 9129 6.377146 GCTGATGAGTTTGGAAATTTACCCTA 59.623 38.462 0.00 0.00 0.00 3.53
5517 9130 5.185828 GCTGATGAGTTTGGAAATTTACCCT 59.814 40.000 0.00 0.00 0.00 4.34
5518 9131 5.185828 AGCTGATGAGTTTGGAAATTTACCC 59.814 40.000 0.00 0.00 0.00 3.69
5530 9143 5.879223 CCTATGAAGTGAAGCTGATGAGTTT 59.121 40.000 0.00 0.00 0.00 2.66
5573 9187 6.037391 ACAGATTTTTCATTGTTTTGTGCAGG 59.963 34.615 0.00 0.00 0.00 4.85
5589 9203 9.186837 AGATAAGAATGATCAGCACAGATTTTT 57.813 29.630 0.09 0.00 0.00 1.94
5597 9213 5.009410 CCCCAAAGATAAGAATGATCAGCAC 59.991 44.000 0.09 0.00 0.00 4.40
5604 9220 6.789268 TCTTTCACCCCAAAGATAAGAATGA 58.211 36.000 0.00 0.00 37.45 2.57
5676 9292 1.209621 TGGTTGGTAGTAGGGATGGC 58.790 55.000 0.00 0.00 0.00 4.40
5678 9294 3.071602 CCTGATGGTTGGTAGTAGGGATG 59.928 52.174 0.00 0.00 0.00 3.51
5679 9295 3.318313 CCTGATGGTTGGTAGTAGGGAT 58.682 50.000 0.00 0.00 0.00 3.85
5680 9296 2.759355 CCTGATGGTTGGTAGTAGGGA 58.241 52.381 0.00 0.00 0.00 4.20
5681 9297 1.141053 GCCTGATGGTTGGTAGTAGGG 59.859 57.143 0.00 0.00 35.27 3.53
5682 9298 1.141053 GGCCTGATGGTTGGTAGTAGG 59.859 57.143 0.00 0.00 35.27 3.18
5683 9299 2.103263 GAGGCCTGATGGTTGGTAGTAG 59.897 54.545 12.00 0.00 35.27 2.57
5684 9300 2.116238 GAGGCCTGATGGTTGGTAGTA 58.884 52.381 12.00 0.00 35.27 1.82
5685 9301 0.912486 GAGGCCTGATGGTTGGTAGT 59.088 55.000 12.00 0.00 35.27 2.73
5795 9411 5.428770 GCAATGAAAATGCTAATGCGAATG 58.571 37.500 0.00 0.00 43.34 2.67
5796 9412 5.646467 GCAATGAAAATGCTAATGCGAAT 57.354 34.783 0.00 0.00 43.34 3.34
5829 9445 2.094659 CGTGCTCCGATGTGTGGTC 61.095 63.158 0.00 0.00 39.56 4.02
5858 9474 1.836166 TCCATCTCCTTGAGCTTCCTG 59.164 52.381 0.00 0.00 0.00 3.86
5930 9550 2.997980 TGGCACCATGATTATGTCGTT 58.002 42.857 0.00 0.00 32.21 3.85
5952 9572 0.944386 TCTTTGTTCCGCTCTGTTGC 59.056 50.000 0.00 0.00 0.00 4.17
5953 9573 3.691049 TTTCTTTGTTCCGCTCTGTTG 57.309 42.857 0.00 0.00 0.00 3.33
5961 9581 6.416750 GTGACACCTTTATTTTCTTTGTTCCG 59.583 38.462 0.00 0.00 0.00 4.30
6014 9640 3.823716 GACAAAAAGTCAGCGCAAAAG 57.176 42.857 11.47 0.00 46.77 2.27
6057 9683 0.323816 CTTCCCCTGCTTTTCCCCTC 60.324 60.000 0.00 0.00 0.00 4.30
6063 9700 1.145738 TCTCTTGCTTCCCCTGCTTTT 59.854 47.619 0.00 0.00 0.00 2.27
6084 9721 1.878656 CGACGAGGTGAAGAAGCCCT 61.879 60.000 0.00 0.00 0.00 5.19
6099 9736 1.278238 GACATTTACAGGAGGCGACG 58.722 55.000 0.00 0.00 0.00 5.12
6101 9738 0.892755 ACGACATTTACAGGAGGCGA 59.107 50.000 0.00 0.00 0.00 5.54
6203 9840 1.086696 CTGTATGTTTGTCGCAGGGG 58.913 55.000 0.00 0.00 0.00 4.79
6221 9861 0.984230 TCATGGCCTTCTTCGTTCCT 59.016 50.000 3.32 0.00 0.00 3.36
6258 9901 1.546589 ATCGTACGTTGGGGGCTTCA 61.547 55.000 16.05 0.00 0.00 3.02
6262 9905 1.078988 TTCATCGTACGTTGGGGGC 60.079 57.895 22.44 0.00 0.00 5.80
6270 9913 2.519377 TAATGCCCCTTCATCGTACG 57.481 50.000 9.53 9.53 0.00 3.67
6273 9916 5.241403 TGATAATAATGCCCCTTCATCGT 57.759 39.130 0.00 0.00 0.00 3.73
6284 9927 9.552114 GCAGAACAGATTACATGATAATAATGC 57.448 33.333 0.00 2.57 0.00 3.56
6359 10002 5.047519 AGAGATTTGCAATGTTTCCTTCCAG 60.048 40.000 0.00 0.00 0.00 3.86
6369 10017 3.890756 TGTTCACCAGAGATTTGCAATGT 59.109 39.130 0.00 0.00 0.00 2.71
6372 10020 2.886523 CCTGTTCACCAGAGATTTGCAA 59.113 45.455 0.00 0.00 44.49 4.08
6376 10024 1.072331 ACGCCTGTTCACCAGAGATTT 59.928 47.619 0.00 0.00 44.49 2.17
6396 10044 1.475280 GAGGTATGGCATACGCGGATA 59.525 52.381 26.53 0.00 39.92 2.59
6397 10045 0.246635 GAGGTATGGCATACGCGGAT 59.753 55.000 26.53 3.58 39.92 4.18
6398 10046 1.663739 GAGGTATGGCATACGCGGA 59.336 57.895 26.53 0.00 39.92 5.54
6399 10047 1.733041 CGAGGTATGGCATACGCGG 60.733 63.158 28.66 18.62 39.92 6.46
6400 10048 0.729478 CTCGAGGTATGGCATACGCG 60.729 60.000 29.63 29.63 39.92 6.01
6401 10049 0.388649 CCTCGAGGTATGGCATACGC 60.389 60.000 26.53 20.45 36.61 4.42
6402 10050 3.794690 CCTCGAGGTATGGCATACG 57.205 57.895 26.53 17.86 36.61 3.06
6444 10092 2.417257 CGGGTGGGACGATTACGGA 61.417 63.158 0.00 0.00 44.46 4.69
6468 10116 3.807622 TGAAGATGTTCAGGTCAAACGAC 59.192 43.478 0.23 0.00 37.79 4.34
6474 10122 2.550855 GCCTGTGAAGATGTTCAGGTCA 60.551 50.000 5.37 0.06 43.55 4.02
6475 10123 2.079925 GCCTGTGAAGATGTTCAGGTC 58.920 52.381 5.37 0.00 43.55 3.85
6485 10133 0.469494 TCTTGTGCAGCCTGTGAAGA 59.531 50.000 0.00 0.00 0.00 2.87


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

AutoCloner maintained by Alex Coulton.