Multiple sequence alignment - TraesCS1A01G320200

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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 TraesCS1A01G320200 chr1A 100.000 3990 0 0 1 3990 510832122 510828133 0.000000e+00 7369.0
1 TraesCS1A01G320200 chr1D 93.814 3508 117 52 1 3458 413932596 413929139 0.000000e+00 5184.0
2 TraesCS1A01G320200 chr1D 84.988 433 32 20 3558 3990 413929147 413928748 3.710000e-110 409.0
3 TraesCS1A01G320200 chr1D 92.661 109 8 0 3456 3564 270277104 270277212 1.480000e-34 158.0
4 TraesCS1A01G320200 chr1B 92.855 3177 130 40 314 3458 558553309 558550198 0.000000e+00 4519.0
5 TraesCS1A01G320200 chr1B 91.793 329 21 5 1 327 558553650 558553326 1.690000e-123 453.0
6 TraesCS1A01G320200 chr3B 83.304 563 83 7 2380 2941 563394927 563395479 3.560000e-140 508.0
7 TraesCS1A01G320200 chr3B 79.545 264 32 15 1730 1975 41313490 41313231 6.860000e-38 169.0
8 TraesCS1A01G320200 chr3B 89.720 107 11 0 3458 3564 263803336 263803230 1.930000e-28 137.0
9 TraesCS1A01G320200 chr2B 82.426 404 50 12 462 862 6529979 6529594 2.300000e-87 333.0
10 TraesCS1A01G320200 chr2B 93.981 216 12 1 5 219 6534107 6533892 3.850000e-85 326.0
11 TraesCS1A01G320200 chr2B 89.394 198 17 1 218 415 6531100 6530907 3.080000e-61 246.0
12 TraesCS1A01G320200 chr2B 90.769 65 4 2 8 71 585196647 585196584 7.100000e-13 86.1
13 TraesCS1A01G320200 chr3A 86.420 162 11 8 1730 1882 193931862 193931703 2.470000e-37 167.0
14 TraesCS1A01G320200 chr3A 90.654 107 10 0 3458 3564 737582679 737582573 4.160000e-30 143.0
15 TraesCS1A01G320200 chr3A 83.333 162 16 8 1730 1882 194078556 194078397 5.380000e-29 139.0
16 TraesCS1A01G320200 chr3A 89.474 57 2 1 1730 1782 33437921 33437865 7.150000e-08 69.4
17 TraesCS1A01G320200 chrUn 91.589 107 9 0 3458 3564 108422476 108422582 8.930000e-32 148.0
18 TraesCS1A01G320200 chr5B 93.069 101 7 0 3458 3558 522040964 522041064 8.930000e-32 148.0
19 TraesCS1A01G320200 chr5D 92.157 102 8 0 3458 3559 430156908 430157009 1.160000e-30 145.0
20 TraesCS1A01G320200 chr5D 90.566 106 10 0 3459 3564 230508019 230508124 1.490000e-29 141.0
21 TraesCS1A01G320200 chr5A 90.654 107 10 0 3458 3564 217146512 217146406 4.160000e-30 143.0
22 TraesCS1A01G320200 chr5A 93.220 59 2 2 8 65 428418848 428418905 7.100000e-13 86.1
23 TraesCS1A01G320200 chr3D 89.908 109 10 1 3457 3564 251690063 251689955 5.380000e-29 139.0
24 TraesCS1A01G320200 chr6D 93.548 62 4 0 10 71 32451890 32451829 4.250000e-15 93.5
25 TraesCS1A01G320200 chr6D 89.041 73 6 1 7 79 335779399 335779329 5.490000e-14 89.8
26 TraesCS1A01G320200 chr6B 91.525 59 5 0 8 66 599841890 599841948 9.190000e-12 82.4


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 TraesCS1A01G320200 chr1A 510828133 510832122 3989 True 7369.000000 7369 100.000000 1 3990 1 chr1A.!!$R1 3989
1 TraesCS1A01G320200 chr1D 413928748 413932596 3848 True 2796.500000 5184 89.401000 1 3990 2 chr1D.!!$R1 3989
2 TraesCS1A01G320200 chr1B 558550198 558553650 3452 True 2486.000000 4519 92.324000 1 3458 2 chr1B.!!$R1 3457
3 TraesCS1A01G320200 chr3B 563394927 563395479 552 False 508.000000 508 83.304000 2380 2941 1 chr3B.!!$F1 561
4 TraesCS1A01G320200 chr2B 6529594 6534107 4513 True 301.666667 333 88.600333 5 862 3 chr2B.!!$R2 857

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
641 4398 0.184451 AGGCTAGAATACGACCCCGA 59.816 55.0 0.0 0.0 39.5 5.14 F
907 4669 0.249073 CCGGTGATAAGAGCCACGAG 60.249 60.0 0.0 0.0 34.3 4.18 F
2356 6152 0.393402 TCGGCAAGGAGTACGAGCTA 60.393 55.0 0.0 0.0 0.0 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2356 6152 0.959372 CGGAGTAGGTGGTGACGACT 60.959 60.000 0.0 0.0 0.0 4.18 R
2782 6578 1.542472 TCCATCAGCTTGTCGAACGTA 59.458 47.619 0.0 0.0 0.0 3.57 R
3738 7551 0.107654 ACCACGGCATTCTCTTAGGC 60.108 55.000 0.0 0.0 0.0 3.93 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
22 23 3.303132 CGCAGACTGTTAATATTTCGGCC 60.303 47.826 3.99 0.00 0.00 6.13
30 31 1.129058 AATATTTCGGCCTCGACCCT 58.871 50.000 0.00 0.00 45.92 4.34
80 81 2.423577 GCCTCGGTTTCTACATGTTGT 58.576 47.619 2.30 0.00 0.00 3.32
90 91 7.325097 CGGTTTCTACATGTTGTTTTATTGGTC 59.675 37.037 2.30 0.00 0.00 4.02
285 3081 1.762708 ATGGGTTGCCAAAGATACCG 58.237 50.000 0.00 0.00 0.00 4.02
312 3138 7.539712 TTGCTAAAGAAGAGATTGGTTATCG 57.460 36.000 0.00 0.00 38.36 2.92
366 3194 3.821600 GAGTGGGTCTTTTCTCTTTTCCC 59.178 47.826 0.00 0.00 0.00 3.97
418 3247 5.073428 AGGGTTCTTTCCTCTCACAAAATC 58.927 41.667 0.00 0.00 0.00 2.17
419 3248 4.827284 GGGTTCTTTCCTCTCACAAAATCA 59.173 41.667 0.00 0.00 0.00 2.57
422 3251 7.264947 GGTTCTTTCCTCTCACAAAATCAAAA 58.735 34.615 0.00 0.00 0.00 2.44
423 3252 7.436376 GGTTCTTTCCTCTCACAAAATCAAAAG 59.564 37.037 0.00 0.00 0.00 2.27
426 3255 4.151883 TCCTCTCACAAAATCAAAAGGGG 58.848 43.478 0.00 0.00 0.00 4.79
427 3256 3.259123 CCTCTCACAAAATCAAAAGGGGG 59.741 47.826 0.00 0.00 0.00 5.40
428 3257 2.632512 TCTCACAAAATCAAAAGGGGGC 59.367 45.455 0.00 0.00 0.00 5.80
431 4160 3.200825 TCACAAAATCAAAAGGGGGCAAA 59.799 39.130 0.00 0.00 0.00 3.68
477 4206 1.048724 TCCAGGGGGTCGATGATCAC 61.049 60.000 0.00 0.00 34.93 3.06
577 4308 3.271729 CTCATCATGCATATGAGCCTCC 58.728 50.000 22.17 0.00 45.89 4.30
579 4310 0.694771 TCATGCATATGAGCCTCCCC 59.305 55.000 6.97 0.00 38.37 4.81
580 4311 0.323178 CATGCATATGAGCCTCCCCC 60.323 60.000 6.97 0.00 36.36 5.40
581 4312 0.477202 ATGCATATGAGCCTCCCCCT 60.477 55.000 6.97 0.00 0.00 4.79
582 4313 1.130054 TGCATATGAGCCTCCCCCTC 61.130 60.000 6.97 0.00 0.00 4.30
583 4314 1.846712 GCATATGAGCCTCCCCCTCC 61.847 65.000 6.97 0.00 0.00 4.30
584 4315 1.162085 ATATGAGCCTCCCCCTCCC 59.838 63.158 0.00 0.00 0.00 4.30
585 4316 1.391713 ATATGAGCCTCCCCCTCCCT 61.392 60.000 0.00 0.00 0.00 4.20
589 4320 3.773154 GCCTCCCCCTCCCTCTCT 61.773 72.222 0.00 0.00 0.00 3.10
603 4334 1.228184 TCTCTCCCTCCCGCGTATC 60.228 63.158 4.92 0.00 0.00 2.24
618 4375 3.646303 GCGTATCAGAAAAACGACGAAG 58.354 45.455 0.00 0.00 38.89 3.79
641 4398 0.184451 AGGCTAGAATACGACCCCGA 59.816 55.000 0.00 0.00 39.50 5.14
672 4433 2.595463 CCCCCATCATTCGCGCAT 60.595 61.111 8.75 0.00 0.00 4.73
681 4442 4.858433 TTCGCGCATCGTACGGGG 62.858 66.667 16.52 9.72 42.95 5.73
702 4463 4.219944 GGGTTTTGGTATTCTCCCTTTCAC 59.780 45.833 0.00 0.00 32.89 3.18
728 4489 0.799534 GCAATCGTACCTACGTGCGT 60.800 55.000 0.00 2.05 46.69 5.24
729 4490 0.911856 CAATCGTACCTACGTGCGTG 59.088 55.000 7.55 0.00 46.69 5.34
784 4545 1.668151 GGCGAAAAGACGAGGCTGT 60.668 57.895 0.00 0.00 35.09 4.40
856 4618 1.823470 CCACACCCACACCACACAG 60.823 63.158 0.00 0.00 0.00 3.66
906 4668 1.813859 CCGGTGATAAGAGCCACGA 59.186 57.895 0.00 0.00 34.30 4.35
907 4669 0.249073 CCGGTGATAAGAGCCACGAG 60.249 60.000 0.00 0.00 34.30 4.18
908 4670 0.872021 CGGTGATAAGAGCCACGAGC 60.872 60.000 0.00 0.00 44.25 5.03
956 4718 2.654912 GCACGCACTACACGACACC 61.655 63.158 0.00 0.00 0.00 4.16
977 4739 2.496817 GCGGTAGAGGAGGCTGTG 59.503 66.667 0.00 0.00 0.00 3.66
1373 5153 1.367471 GCATCGATCCATCCGTCCA 59.633 57.895 0.00 0.00 0.00 4.02
1400 5180 1.329256 CACCCTAGCCTGCTACGTAT 58.671 55.000 0.00 0.00 0.00 3.06
1401 5181 1.687123 CACCCTAGCCTGCTACGTATT 59.313 52.381 0.00 0.00 0.00 1.89
1402 5182 2.889045 CACCCTAGCCTGCTACGTATTA 59.111 50.000 0.00 0.00 0.00 0.98
1403 5183 2.889678 ACCCTAGCCTGCTACGTATTAC 59.110 50.000 0.00 0.00 0.00 1.89
1431 5217 0.602562 ATGTGTCCGTTTTGGCATGG 59.397 50.000 0.00 0.00 37.80 3.66
1726 5522 2.570181 CACGACCCCTACACCGTC 59.430 66.667 0.00 0.00 32.50 4.79
2356 6152 0.393402 TCGGCAAGGAGTACGAGCTA 60.393 55.000 0.00 0.00 0.00 3.32
2452 6248 0.804989 CGCCCATGTTCAACTTCCTC 59.195 55.000 0.00 0.00 0.00 3.71
2806 6602 0.247460 TCGACAAGCTGATGGACCTG 59.753 55.000 0.00 0.00 0.00 4.00
3086 6887 3.047877 GAAAGGACGTGGTGGCCG 61.048 66.667 0.00 0.00 0.00 6.13
3096 6897 0.741221 GTGGTGGCCGAGTCTTGATC 60.741 60.000 0.00 0.00 0.00 2.92
3275 7078 7.691050 GCCTTTTGTAATAAAGTAGTTGTAGCG 59.309 37.037 0.00 0.00 34.11 4.26
3345 7149 5.181084 CGCTCGATTTGTAAATGTAAGTCG 58.819 41.667 0.00 0.00 37.37 4.18
3399 7203 2.710377 GAACATGTCATGTGCTACCCA 58.290 47.619 19.08 0.00 44.07 4.51
3413 7217 2.294512 GCTACCCATTTTATGCTCCTGC 59.705 50.000 0.00 0.00 40.20 4.85
3432 7236 6.118852 TCCTGCCAAGTTTAATTTTTGCTTT 58.881 32.000 0.00 0.00 0.00 3.51
3433 7237 6.259829 TCCTGCCAAGTTTAATTTTTGCTTTC 59.740 34.615 0.00 0.00 0.00 2.62
3434 7238 6.042144 TGCCAAGTTTAATTTTTGCTTTCG 57.958 33.333 0.00 0.00 0.00 3.46
3454 7259 3.134458 CGGGATTGCTAAATCTCAGTCC 58.866 50.000 0.00 0.00 42.61 3.85
3458 7263 5.189180 GGATTGCTAAATCTCAGTCCACTT 58.811 41.667 0.00 0.00 41.74 3.16
3459 7264 5.649831 GGATTGCTAAATCTCAGTCCACTTT 59.350 40.000 0.00 0.00 41.74 2.66
3460 7265 6.151817 GGATTGCTAAATCTCAGTCCACTTTT 59.848 38.462 0.00 0.00 41.74 2.27
3461 7266 6.959639 TTGCTAAATCTCAGTCCACTTTTT 57.040 33.333 0.00 0.00 0.00 1.94
3484 7289 9.545105 TTTTTCGATAAAGGGCGTCTATATTAA 57.455 29.630 0.00 0.00 0.00 1.40
3485 7290 8.524870 TTTCGATAAAGGGCGTCTATATTAAC 57.475 34.615 0.00 0.00 0.00 2.01
3486 7291 7.458409 TCGATAAAGGGCGTCTATATTAACT 57.542 36.000 0.00 0.00 0.00 2.24
3487 7292 7.533426 TCGATAAAGGGCGTCTATATTAACTC 58.467 38.462 0.00 0.00 0.00 3.01
3488 7293 7.175467 TCGATAAAGGGCGTCTATATTAACTCA 59.825 37.037 0.00 0.00 0.00 3.41
3489 7294 7.811236 CGATAAAGGGCGTCTATATTAACTCAA 59.189 37.037 0.00 0.00 0.00 3.02
3490 7295 9.485206 GATAAAGGGCGTCTATATTAACTCAAA 57.515 33.333 0.00 0.00 0.00 2.69
3491 7296 9.841295 ATAAAGGGCGTCTATATTAACTCAAAA 57.159 29.630 0.00 0.00 0.00 2.44
3492 7297 7.549615 AAGGGCGTCTATATTAACTCAAAAC 57.450 36.000 0.00 0.00 0.00 2.43
3493 7298 5.751990 AGGGCGTCTATATTAACTCAAAACG 59.248 40.000 0.00 0.00 0.00 3.60
3494 7299 5.521372 GGGCGTCTATATTAACTCAAAACGT 59.479 40.000 0.00 0.00 0.00 3.99
3495 7300 6.697019 GGGCGTCTATATTAACTCAAAACGTA 59.303 38.462 0.00 0.00 0.00 3.57
3496 7301 7.222611 GGGCGTCTATATTAACTCAAAACGTAA 59.777 37.037 0.00 0.00 0.00 3.18
3497 7302 8.052490 GGCGTCTATATTAACTCAAAACGTAAC 58.948 37.037 0.00 0.00 0.00 2.50
3498 7303 8.586273 GCGTCTATATTAACTCAAAACGTAACA 58.414 33.333 0.00 0.00 0.00 2.41
3506 7311 9.878599 ATTAACTCAAAACGTAACATCAAGAAG 57.121 29.630 0.00 0.00 0.00 2.85
3507 7312 7.548196 AACTCAAAACGTAACATCAAGAAGA 57.452 32.000 0.00 0.00 0.00 2.87
3508 7313 7.730364 ACTCAAAACGTAACATCAAGAAGAT 57.270 32.000 0.00 0.00 37.48 2.40
3509 7314 8.827177 ACTCAAAACGTAACATCAAGAAGATA 57.173 30.769 0.00 0.00 34.43 1.98
3510 7315 8.709646 ACTCAAAACGTAACATCAAGAAGATAC 58.290 33.333 0.00 0.00 34.43 2.24
3511 7316 8.596271 TCAAAACGTAACATCAAGAAGATACA 57.404 30.769 0.00 0.00 34.43 2.29
3512 7317 9.047371 TCAAAACGTAACATCAAGAAGATACAA 57.953 29.630 0.00 0.00 34.43 2.41
3513 7318 9.658475 CAAAACGTAACATCAAGAAGATACAAA 57.342 29.630 0.00 0.00 34.43 2.83
3516 7321 8.771920 ACGTAACATCAAGAAGATACAAATCA 57.228 30.769 0.00 0.00 34.43 2.57
3517 7322 9.383519 ACGTAACATCAAGAAGATACAAATCAT 57.616 29.630 0.00 0.00 34.43 2.45
3518 7323 9.642312 CGTAACATCAAGAAGATACAAATCATG 57.358 33.333 0.00 0.00 34.43 3.07
3522 7327 9.623000 ACATCAAGAAGATACAAATCATGATGA 57.377 29.630 20.42 0.00 39.89 2.92
3524 7329 9.848710 ATCAAGAAGATACAAATCATGATGAGT 57.151 29.630 9.46 13.05 34.43 3.41
3534 7339 7.879070 ACAAATCATGATGAGTAATACATGGC 58.121 34.615 9.46 0.00 40.00 4.40
3535 7340 7.040201 ACAAATCATGATGAGTAATACATGGCC 60.040 37.037 9.46 0.00 40.00 5.36
3536 7341 5.830799 TCATGATGAGTAATACATGGCCT 57.169 39.130 3.32 0.00 40.00 5.19
3537 7342 5.798132 TCATGATGAGTAATACATGGCCTC 58.202 41.667 3.32 0.00 40.00 4.70
3538 7343 5.545335 TCATGATGAGTAATACATGGCCTCT 59.455 40.000 3.32 0.00 40.00 3.69
3539 7344 5.219343 TGATGAGTAATACATGGCCTCTG 57.781 43.478 3.32 4.07 0.00 3.35
3540 7345 3.475566 TGAGTAATACATGGCCTCTGC 57.524 47.619 3.32 0.00 0.00 4.26
3541 7346 2.771372 TGAGTAATACATGGCCTCTGCA 59.229 45.455 3.32 0.00 40.13 4.41
3542 7347 3.392285 TGAGTAATACATGGCCTCTGCAT 59.608 43.478 3.32 0.00 40.13 3.96
3543 7348 4.592778 TGAGTAATACATGGCCTCTGCATA 59.407 41.667 3.32 0.00 40.13 3.14
3544 7349 5.157940 AGTAATACATGGCCTCTGCATAG 57.842 43.478 3.32 0.00 40.13 2.23
3545 7350 4.594920 AGTAATACATGGCCTCTGCATAGT 59.405 41.667 3.32 0.00 40.13 2.12
3546 7351 4.443978 AATACATGGCCTCTGCATAGTT 57.556 40.909 3.32 0.00 40.13 2.24
3547 7352 5.567037 AATACATGGCCTCTGCATAGTTA 57.433 39.130 3.32 0.00 40.13 2.24
3548 7353 3.482156 ACATGGCCTCTGCATAGTTAG 57.518 47.619 3.32 0.00 40.13 2.34
3549 7354 3.041211 ACATGGCCTCTGCATAGTTAGA 58.959 45.455 3.32 0.00 40.13 2.10
3550 7355 3.455910 ACATGGCCTCTGCATAGTTAGAA 59.544 43.478 3.32 0.00 40.13 2.10
3551 7356 4.103785 ACATGGCCTCTGCATAGTTAGAAT 59.896 41.667 3.32 0.00 40.13 2.40
3552 7357 4.077300 TGGCCTCTGCATAGTTAGAATG 57.923 45.455 3.32 0.00 40.13 2.67
3553 7358 3.455910 TGGCCTCTGCATAGTTAGAATGT 59.544 43.478 3.32 0.00 40.13 2.71
3554 7359 4.653801 TGGCCTCTGCATAGTTAGAATGTA 59.346 41.667 3.32 0.00 40.13 2.29
3555 7360 4.991687 GGCCTCTGCATAGTTAGAATGTAC 59.008 45.833 0.00 0.00 40.13 2.90
3556 7361 5.453339 GGCCTCTGCATAGTTAGAATGTACA 60.453 44.000 0.00 0.00 40.13 2.90
3557 7362 5.463724 GCCTCTGCATAGTTAGAATGTACAC 59.536 44.000 0.00 0.00 37.47 2.90
3558 7363 6.573434 CCTCTGCATAGTTAGAATGTACACA 58.427 40.000 0.00 0.00 0.00 3.72
3559 7364 6.699204 CCTCTGCATAGTTAGAATGTACACAG 59.301 42.308 0.00 0.00 0.00 3.66
3560 7365 7.170393 TCTGCATAGTTAGAATGTACACAGT 57.830 36.000 0.00 0.00 0.00 3.55
3561 7366 7.258441 TCTGCATAGTTAGAATGTACACAGTC 58.742 38.462 0.00 1.68 40.87 3.51
3562 7367 6.930731 TGCATAGTTAGAATGTACACAGTCA 58.069 36.000 11.87 0.00 42.78 3.41
3563 7368 7.382898 TGCATAGTTAGAATGTACACAGTCAA 58.617 34.615 11.87 2.57 42.78 3.18
3564 7369 7.330946 TGCATAGTTAGAATGTACACAGTCAAC 59.669 37.037 11.87 12.40 42.78 3.18
3565 7370 7.201530 GCATAGTTAGAATGTACACAGTCAACC 60.202 40.741 11.87 0.00 42.78 3.77
3566 7371 6.420913 AGTTAGAATGTACACAGTCAACCT 57.579 37.500 11.87 2.00 42.78 3.50
3567 7372 6.827727 AGTTAGAATGTACACAGTCAACCTT 58.172 36.000 11.87 0.00 42.78 3.50
3568 7373 7.959175 AGTTAGAATGTACACAGTCAACCTTA 58.041 34.615 11.87 0.00 42.78 2.69
3569 7374 8.088981 AGTTAGAATGTACACAGTCAACCTTAG 58.911 37.037 11.87 0.00 42.78 2.18
3570 7375 6.665992 AGAATGTACACAGTCAACCTTAGA 57.334 37.500 11.87 0.00 42.78 2.10
3571 7376 6.692486 AGAATGTACACAGTCAACCTTAGAG 58.308 40.000 11.87 0.00 42.78 2.43
3572 7377 6.267928 AGAATGTACACAGTCAACCTTAGAGT 59.732 38.462 11.87 0.00 42.78 3.24
3573 7378 5.864418 TGTACACAGTCAACCTTAGAGTT 57.136 39.130 0.00 0.00 0.00 3.01
3574 7379 6.964807 TGTACACAGTCAACCTTAGAGTTA 57.035 37.500 0.00 0.00 0.00 2.24
3575 7380 7.350744 TGTACACAGTCAACCTTAGAGTTAA 57.649 36.000 0.00 0.00 0.00 2.01
3576 7381 7.205297 TGTACACAGTCAACCTTAGAGTTAAC 58.795 38.462 0.00 0.00 0.00 2.01
3577 7382 6.229936 ACACAGTCAACCTTAGAGTTAACA 57.770 37.500 8.61 0.00 0.00 2.41
3581 7386 6.766467 ACAGTCAACCTTAGAGTTAACAAAGG 59.234 38.462 22.81 22.81 43.42 3.11
3584 7389 7.715686 AGTCAACCTTAGAGTTAACAAAGGAAG 59.284 37.037 27.66 21.22 40.85 3.46
3597 7402 1.268283 AAGGAAGGAGAAGGGAGCCG 61.268 60.000 0.00 0.00 0.00 5.52
3617 7422 1.072332 CACGACCACCATGTTCCCA 59.928 57.895 0.00 0.00 0.00 4.37
3674 7479 3.689002 CTCCCAAGGCGGCTCTTCC 62.689 68.421 13.70 0.00 0.00 3.46
3701 7506 1.891919 GTGTGGCAAGACGAGGCAA 60.892 57.895 0.00 0.00 43.50 4.52
3706 7519 2.787249 CAAGACGAGGCAATGGCG 59.213 61.111 0.00 0.00 42.47 5.69
3713 7526 3.480225 GAGGCAATGGCGATGCAGC 62.480 63.158 14.96 0.00 45.60 5.25
3727 7540 3.190849 CAGCAGATGCCGTGGTCG 61.191 66.667 0.14 0.00 43.38 4.79
3731 7544 3.311110 AGATGCCGTGGTCGTGGT 61.311 61.111 0.00 0.00 35.01 4.16
3733 7546 3.296709 GATGCCGTGGTCGTGGTCT 62.297 63.158 0.00 0.00 35.01 3.85
3734 7547 3.589654 ATGCCGTGGTCGTGGTCTG 62.590 63.158 0.00 0.00 35.01 3.51
3736 7549 4.293648 CCGTGGTCGTGGTCTGCA 62.294 66.667 0.00 0.00 35.01 4.41
3737 7550 3.036084 CGTGGTCGTGGTCTGCAC 61.036 66.667 0.00 0.00 0.00 4.57
3738 7551 3.036084 GTGGTCGTGGTCTGCACG 61.036 66.667 0.00 0.00 46.21 5.34
3739 7552 4.961511 TGGTCGTGGTCTGCACGC 62.962 66.667 0.00 0.00 44.69 5.34
3741 7554 4.664677 GTCGTGGTCTGCACGCCT 62.665 66.667 0.00 0.00 44.69 5.52
3742 7555 2.986979 TCGTGGTCTGCACGCCTA 60.987 61.111 0.00 0.00 44.69 3.93
3743 7556 2.048597 CGTGGTCTGCACGCCTAA 60.049 61.111 0.00 0.00 39.23 2.69
3744 7557 2.094659 CGTGGTCTGCACGCCTAAG 61.095 63.158 0.00 0.00 39.23 2.18
3745 7558 1.292223 GTGGTCTGCACGCCTAAGA 59.708 57.895 3.76 0.00 0.00 2.10
3746 7559 0.737715 GTGGTCTGCACGCCTAAGAG 60.738 60.000 3.76 0.00 0.00 2.85
3747 7560 0.898326 TGGTCTGCACGCCTAAGAGA 60.898 55.000 3.76 0.00 0.00 3.10
3748 7561 0.246635 GGTCTGCACGCCTAAGAGAA 59.753 55.000 0.00 0.00 0.00 2.87
3749 7562 1.134670 GGTCTGCACGCCTAAGAGAAT 60.135 52.381 0.00 0.00 0.00 2.40
3750 7563 1.929836 GTCTGCACGCCTAAGAGAATG 59.070 52.381 0.00 0.00 0.00 2.67
3751 7564 0.654683 CTGCACGCCTAAGAGAATGC 59.345 55.000 0.00 0.00 0.00 3.56
3752 7565 0.744414 TGCACGCCTAAGAGAATGCC 60.744 55.000 0.00 0.00 32.02 4.40
3753 7566 1.766143 GCACGCCTAAGAGAATGCCG 61.766 60.000 0.00 0.00 0.00 5.69
3754 7567 0.460284 CACGCCTAAGAGAATGCCGT 60.460 55.000 0.00 0.00 0.00 5.68
3755 7568 0.460284 ACGCCTAAGAGAATGCCGTG 60.460 55.000 0.00 0.00 0.00 4.94
3756 7569 1.154205 CGCCTAAGAGAATGCCGTGG 61.154 60.000 0.00 0.00 0.00 4.94
3757 7570 0.107654 GCCTAAGAGAATGCCGTGGT 60.108 55.000 0.00 0.00 0.00 4.16
3758 7571 1.679032 GCCTAAGAGAATGCCGTGGTT 60.679 52.381 0.00 0.00 0.00 3.67
3759 7572 2.009774 CCTAAGAGAATGCCGTGGTTG 58.990 52.381 0.00 0.00 0.00 3.77
3760 7573 2.615493 CCTAAGAGAATGCCGTGGTTGT 60.615 50.000 0.00 0.00 0.00 3.32
3761 7574 1.238439 AAGAGAATGCCGTGGTTGTG 58.762 50.000 0.00 0.00 0.00 3.33
3762 7575 0.606401 AGAGAATGCCGTGGTTGTGG 60.606 55.000 0.00 0.00 0.00 4.17
3784 7597 0.594028 CGCGCGCCTAAGAGAATGTA 60.594 55.000 27.72 0.00 0.00 2.29
3785 7598 1.567504 GCGCGCCTAAGAGAATGTAA 58.432 50.000 23.24 0.00 0.00 2.41
3786 7599 2.135933 GCGCGCCTAAGAGAATGTAAT 58.864 47.619 23.24 0.00 0.00 1.89
3787 7600 2.096713 GCGCGCCTAAGAGAATGTAATG 60.097 50.000 23.24 0.00 0.00 1.90
3788 7601 2.476619 CGCGCCTAAGAGAATGTAATGG 59.523 50.000 0.00 0.00 0.00 3.16
3789 7602 3.467803 GCGCCTAAGAGAATGTAATGGT 58.532 45.455 0.00 0.00 0.00 3.55
3800 7613 4.094887 AGAATGTAATGGTGACGATGCAAC 59.905 41.667 0.00 0.00 0.00 4.17
3814 7627 2.672651 CAACAGATGCCACGGCCA 60.673 61.111 2.24 0.00 41.09 5.36
3858 7671 2.111043 CTGGGCACTGTTGGTCGT 59.889 61.111 0.00 0.00 0.00 4.34
3871 7684 1.292223 GGTCGTGCTTGGCTGACTA 59.708 57.895 12.34 0.00 35.88 2.59
3885 7698 2.096248 CTGACTAGCTCTCCCTTCGTT 58.904 52.381 0.00 0.00 0.00 3.85
3897 7710 2.093921 TCCCTTCGTTAACGCATCATCA 60.094 45.455 22.96 0.87 39.60 3.07
3934 7747 1.822506 GAAAGGGCTTGGACCTACAC 58.177 55.000 0.00 0.00 42.44 2.90
3940 7753 2.554344 GGGCTTGGACCTACACATTCAA 60.554 50.000 0.00 0.00 0.00 2.69
3982 7795 2.672996 ACCGGTGGTGATGCAAGC 60.673 61.111 6.12 0.00 32.98 4.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 4.098960 TCGAGGCCGAAATATTAACAGTCT 59.901 41.667 0.00 0.00 42.51 3.24
22 23 5.941948 ACAACTTTTATGAAAGGGTCGAG 57.058 39.130 13.89 1.01 45.24 4.04
30 31 7.286546 TCATCCACCTGAACAACTTTTATGAAA 59.713 33.333 0.00 0.00 0.00 2.69
80 81 8.934507 ACAAAGAAATTCAACGACCAATAAAA 57.065 26.923 0.00 0.00 0.00 1.52
250 3046 5.581874 GCAACCCATTAAATTCTGGTCAATG 59.418 40.000 0.00 0.00 0.00 2.82
312 3138 9.005777 TCTTTGGTAACCAAGTAATTCATGTAC 57.994 33.333 0.00 0.00 44.84 2.90
380 3208 9.832445 GGAAAGAACCCTTTTCTTTTCTTTATT 57.168 29.630 12.10 0.00 45.59 1.40
381 3209 9.213777 AGGAAAGAACCCTTTTCTTTTCTTTAT 57.786 29.630 12.62 0.00 46.72 1.40
382 3210 8.603898 AGGAAAGAACCCTTTTCTTTTCTTTA 57.396 30.769 12.62 0.00 46.72 1.85
383 3211 7.496346 AGGAAAGAACCCTTTTCTTTTCTTT 57.504 32.000 12.62 7.67 46.72 2.52
450 4179 0.180406 CGACCCCCTGGATTAGTTGG 59.820 60.000 0.00 0.00 34.81 3.77
451 4180 1.200519 TCGACCCCCTGGATTAGTTG 58.799 55.000 0.00 0.00 34.81 3.16
452 4181 1.768870 CATCGACCCCCTGGATTAGTT 59.231 52.381 0.00 0.00 34.81 2.24
460 4189 1.068083 CGTGATCATCGACCCCCTG 59.932 63.158 0.00 0.00 0.00 4.45
477 4206 1.004560 ATCCGCCATACCATCTGCG 60.005 57.895 0.00 0.00 46.14 5.18
499 4228 1.334869 GTTGGCTCCATATTTGCTCCG 59.665 52.381 0.00 0.00 0.00 4.63
575 4306 3.036959 GGGAGAGAGGGAGGGGGA 61.037 72.222 0.00 0.00 0.00 4.81
577 4308 2.612251 GAGGGAGAGAGGGAGGGG 59.388 72.222 0.00 0.00 0.00 4.79
579 4310 2.612251 GGGAGGGAGAGAGGGAGG 59.388 72.222 0.00 0.00 0.00 4.30
580 4311 2.197324 CGGGAGGGAGAGAGGGAG 59.803 72.222 0.00 0.00 0.00 4.30
581 4312 4.144727 GCGGGAGGGAGAGAGGGA 62.145 72.222 0.00 0.00 0.00 4.20
603 4334 3.423645 GCCTGATCTTCGTCGTTTTTCTG 60.424 47.826 0.00 0.00 0.00 3.02
618 4375 2.231721 GGGGTCGTATTCTAGCCTGATC 59.768 54.545 0.00 0.00 33.67 2.92
641 4398 3.171348 GGGGGTTTCTGGTGCTCT 58.829 61.111 0.00 0.00 0.00 4.09
672 4433 2.566724 AGAATACCAAAACCCCGTACGA 59.433 45.455 18.76 0.00 0.00 3.43
681 4442 5.106673 CGAGTGAAAGGGAGAATACCAAAAC 60.107 44.000 0.00 0.00 0.00 2.43
702 4463 0.306840 TAGGTACGATTGCGAGCGAG 59.693 55.000 20.23 0.00 41.64 5.03
747 4508 1.038280 CCCCGAGTAGTGGTACATCC 58.962 60.000 0.00 0.00 44.52 3.51
754 4515 2.175035 TTTTCGCCCCCGAGTAGTGG 62.175 60.000 0.00 0.00 45.35 4.00
755 4516 0.739813 CTTTTCGCCCCCGAGTAGTG 60.740 60.000 0.00 0.00 45.35 2.74
800 4562 1.792949 CGGCGCAGATTTATAGGACAC 59.207 52.381 10.83 0.00 0.00 3.67
801 4563 1.872237 GCGGCGCAGATTTATAGGACA 60.872 52.381 29.21 0.00 0.00 4.02
856 4618 1.680338 AAGTGAAGGGTGCTTGTGTC 58.320 50.000 0.00 0.00 0.00 3.67
912 4674 1.847890 GACGGAGGCTAGCTCGCTAG 61.848 65.000 19.05 19.05 46.41 3.42
913 4675 1.892862 GACGGAGGCTAGCTCGCTA 60.893 63.158 15.72 0.00 0.00 4.26
942 4704 3.110178 GGCGGTGTCGTGTAGTGC 61.110 66.667 0.00 0.00 38.89 4.40
943 4705 2.803670 CGGCGGTGTCGTGTAGTG 60.804 66.667 0.00 0.00 38.89 2.74
944 4706 4.712425 GCGGCGGTGTCGTGTAGT 62.712 66.667 9.78 0.00 38.89 2.73
1040 4820 2.239439 TCCTCCCAGGAGACTCCGT 61.239 63.158 15.97 1.83 40.06 4.69
1107 4887 3.506059 CTGGCGCTGTATCTCCCCG 62.506 68.421 7.64 0.00 0.00 5.73
1360 5140 1.625315 TGATGGATGGACGGATGGATC 59.375 52.381 0.00 0.00 0.00 3.36
1361 5141 1.349026 GTGATGGATGGACGGATGGAT 59.651 52.381 0.00 0.00 0.00 3.41
1373 5153 1.135094 CAGGCTAGGGTGTGATGGAT 58.865 55.000 0.00 0.00 0.00 3.41
1400 5180 3.116063 CGGACACATGTACGTACGTAA 57.884 47.619 28.34 18.52 46.66 3.18
1401 5181 2.804421 CGGACACATGTACGTACGTA 57.196 50.000 23.60 23.60 46.66 3.57
1402 5182 3.681705 CGGACACATGTACGTACGT 57.318 52.632 25.98 25.98 46.66 3.57
1431 5217 2.284417 GTCCATTAGATCGGCGTTCAAC 59.716 50.000 19.04 4.81 0.00 3.18
1543 5339 1.886313 CGGCATGAGCAGGCTGTAG 60.886 63.158 17.16 3.11 44.61 2.74
2089 5885 1.526575 GGATGTATTGGGCCATGGCG 61.527 60.000 29.90 0.00 43.06 5.69
2356 6152 0.959372 CGGAGTAGGTGGTGACGACT 60.959 60.000 0.00 0.00 0.00 4.18
2782 6578 1.542472 TCCATCAGCTTGTCGAACGTA 59.458 47.619 0.00 0.00 0.00 3.57
3096 6897 1.139734 CACCGTCCATCAGTCTCCG 59.860 63.158 0.00 0.00 0.00 4.63
3180 6982 5.242615 TGACACTCCATGATTAGCTAGCTAG 59.757 44.000 23.03 16.84 0.00 3.42
3289 7093 8.043710 ACATTACCCAAAAATGACAAAGAAACA 58.956 29.630 3.01 0.00 37.68 2.83
3345 7149 7.114529 CCATAATCATAAAGACTAACGACCGAC 59.885 40.741 0.00 0.00 0.00 4.79
3395 7199 1.006998 TGGCAGGAGCATAAAATGGGT 59.993 47.619 0.00 0.00 44.61 4.51
3399 7203 6.603940 TTAAACTTGGCAGGAGCATAAAAT 57.396 33.333 2.65 0.00 44.61 1.82
3413 7217 5.755861 TCCCGAAAGCAAAAATTAAACTTGG 59.244 36.000 0.00 0.00 0.00 3.61
3432 7236 3.181465 GGACTGAGATTTAGCAATCCCGA 60.181 47.826 0.00 0.00 39.95 5.14
3433 7237 3.134458 GGACTGAGATTTAGCAATCCCG 58.866 50.000 0.00 0.00 39.95 5.14
3434 7238 3.879892 GTGGACTGAGATTTAGCAATCCC 59.120 47.826 0.00 0.00 39.95 3.85
3458 7263 9.545105 TTAATATAGACGCCCTTTATCGAAAAA 57.455 29.630 0.00 0.00 0.00 1.94
3459 7264 8.981647 GTTAATATAGACGCCCTTTATCGAAAA 58.018 33.333 0.00 0.00 0.00 2.29
3460 7265 8.362639 AGTTAATATAGACGCCCTTTATCGAAA 58.637 33.333 0.00 0.00 0.00 3.46
3461 7266 7.889469 AGTTAATATAGACGCCCTTTATCGAA 58.111 34.615 0.00 0.00 0.00 3.71
3462 7267 7.175467 TGAGTTAATATAGACGCCCTTTATCGA 59.825 37.037 0.00 0.00 0.00 3.59
3463 7268 7.310664 TGAGTTAATATAGACGCCCTTTATCG 58.689 38.462 0.00 0.00 0.00 2.92
3464 7269 9.485206 TTTGAGTTAATATAGACGCCCTTTATC 57.515 33.333 0.00 0.00 0.00 1.75
3466 7271 9.101655 GTTTTGAGTTAATATAGACGCCCTTTA 57.898 33.333 0.00 0.00 0.00 1.85
3467 7272 7.201582 CGTTTTGAGTTAATATAGACGCCCTTT 60.202 37.037 0.00 0.00 0.00 3.11
3468 7273 6.257193 CGTTTTGAGTTAATATAGACGCCCTT 59.743 38.462 0.00 0.00 0.00 3.95
3469 7274 5.751990 CGTTTTGAGTTAATATAGACGCCCT 59.248 40.000 0.00 0.00 0.00 5.19
3470 7275 5.521372 ACGTTTTGAGTTAATATAGACGCCC 59.479 40.000 0.00 0.00 0.00 6.13
3471 7276 6.579491 ACGTTTTGAGTTAATATAGACGCC 57.421 37.500 0.00 0.00 0.00 5.68
3472 7277 8.586273 TGTTACGTTTTGAGTTAATATAGACGC 58.414 33.333 0.00 0.00 0.00 5.19
3480 7285 9.878599 CTTCTTGATGTTACGTTTTGAGTTAAT 57.121 29.630 0.00 0.00 0.00 1.40
3481 7286 9.100554 TCTTCTTGATGTTACGTTTTGAGTTAA 57.899 29.630 0.00 0.00 0.00 2.01
3482 7287 8.651391 TCTTCTTGATGTTACGTTTTGAGTTA 57.349 30.769 0.00 0.00 0.00 2.24
3483 7288 7.548196 TCTTCTTGATGTTACGTTTTGAGTT 57.452 32.000 0.00 0.00 0.00 3.01
3484 7289 7.730364 ATCTTCTTGATGTTACGTTTTGAGT 57.270 32.000 0.00 0.00 33.43 3.41
3485 7290 8.708742 TGTATCTTCTTGATGTTACGTTTTGAG 58.291 33.333 0.00 0.00 36.65 3.02
3486 7291 8.596271 TGTATCTTCTTGATGTTACGTTTTGA 57.404 30.769 0.00 0.00 36.65 2.69
3487 7292 9.658475 TTTGTATCTTCTTGATGTTACGTTTTG 57.342 29.630 0.00 0.00 36.65 2.44
3490 7295 9.214957 TGATTTGTATCTTCTTGATGTTACGTT 57.785 29.630 0.00 0.00 36.65 3.99
3491 7296 8.771920 TGATTTGTATCTTCTTGATGTTACGT 57.228 30.769 0.00 0.00 36.65 3.57
3492 7297 9.642312 CATGATTTGTATCTTCTTGATGTTACG 57.358 33.333 0.00 0.00 36.65 3.18
3496 7301 9.623000 TCATCATGATTTGTATCTTCTTGATGT 57.377 29.630 5.16 0.00 36.81 3.06
3498 7303 9.848710 ACTCATCATGATTTGTATCTTCTTGAT 57.151 29.630 5.16 0.00 39.11 2.57
3508 7313 9.002600 GCCATGTATTACTCATCATGATTTGTA 57.997 33.333 5.16 9.20 39.68 2.41
3509 7314 7.040201 GGCCATGTATTACTCATCATGATTTGT 60.040 37.037 5.16 10.18 39.68 2.83
3510 7315 7.176165 AGGCCATGTATTACTCATCATGATTTG 59.824 37.037 5.16 4.34 39.68 2.32
3511 7316 7.236529 AGGCCATGTATTACTCATCATGATTT 58.763 34.615 5.16 0.00 39.68 2.17
3512 7317 6.787170 AGGCCATGTATTACTCATCATGATT 58.213 36.000 5.16 0.00 39.68 2.57
3513 7318 6.215023 AGAGGCCATGTATTACTCATCATGAT 59.785 38.462 5.01 1.18 39.68 2.45
3514 7319 5.545335 AGAGGCCATGTATTACTCATCATGA 59.455 40.000 5.01 0.00 39.68 3.07
3515 7320 5.642491 CAGAGGCCATGTATTACTCATCATG 59.358 44.000 5.01 0.00 37.83 3.07
3516 7321 5.802465 CAGAGGCCATGTATTACTCATCAT 58.198 41.667 5.01 0.00 0.00 2.45
3517 7322 4.503817 GCAGAGGCCATGTATTACTCATCA 60.504 45.833 5.01 0.00 0.00 3.07
3518 7323 3.999663 GCAGAGGCCATGTATTACTCATC 59.000 47.826 5.01 0.00 0.00 2.92
3519 7324 3.392285 TGCAGAGGCCATGTATTACTCAT 59.608 43.478 5.01 0.00 40.13 2.90
3520 7325 2.771372 TGCAGAGGCCATGTATTACTCA 59.229 45.455 5.01 0.00 40.13 3.41
3521 7326 3.475566 TGCAGAGGCCATGTATTACTC 57.524 47.619 5.01 0.00 40.13 2.59
3522 7327 4.594920 ACTATGCAGAGGCCATGTATTACT 59.405 41.667 13.85 0.00 40.13 2.24
3523 7328 4.899502 ACTATGCAGAGGCCATGTATTAC 58.100 43.478 13.85 0.00 40.13 1.89
3524 7329 5.567037 AACTATGCAGAGGCCATGTATTA 57.433 39.130 13.85 3.61 40.13 0.98
3525 7330 4.443978 AACTATGCAGAGGCCATGTATT 57.556 40.909 13.85 0.00 40.13 1.89
3526 7331 4.840680 TCTAACTATGCAGAGGCCATGTAT 59.159 41.667 13.85 11.17 40.13 2.29
3527 7332 4.223144 TCTAACTATGCAGAGGCCATGTA 58.777 43.478 13.85 2.82 40.13 2.29
3528 7333 3.041211 TCTAACTATGCAGAGGCCATGT 58.959 45.455 13.85 0.00 40.13 3.21
3529 7334 3.758755 TCTAACTATGCAGAGGCCATG 57.241 47.619 13.85 4.20 40.13 3.66
3530 7335 4.103785 ACATTCTAACTATGCAGAGGCCAT 59.896 41.667 13.85 0.00 40.13 4.40
3531 7336 3.455910 ACATTCTAACTATGCAGAGGCCA 59.544 43.478 13.85 0.00 40.13 5.36
3532 7337 4.078639 ACATTCTAACTATGCAGAGGCC 57.921 45.455 13.85 0.00 40.13 5.19
3533 7338 5.463724 GTGTACATTCTAACTATGCAGAGGC 59.536 44.000 13.85 0.00 41.68 4.70
3534 7339 6.573434 TGTGTACATTCTAACTATGCAGAGG 58.427 40.000 13.85 0.00 0.00 3.69
3535 7340 7.261325 ACTGTGTACATTCTAACTATGCAGAG 58.739 38.462 6.84 6.84 0.00 3.35
3536 7341 7.093945 TGACTGTGTACATTCTAACTATGCAGA 60.094 37.037 0.00 0.00 0.00 4.26
3537 7342 7.035612 TGACTGTGTACATTCTAACTATGCAG 58.964 38.462 0.00 0.00 0.00 4.41
3538 7343 6.930731 TGACTGTGTACATTCTAACTATGCA 58.069 36.000 0.00 0.00 0.00 3.96
3539 7344 7.201530 GGTTGACTGTGTACATTCTAACTATGC 60.202 40.741 0.00 0.00 0.00 3.14
3540 7345 8.035394 AGGTTGACTGTGTACATTCTAACTATG 58.965 37.037 0.00 0.00 29.74 2.23
3541 7346 8.135382 AGGTTGACTGTGTACATTCTAACTAT 57.865 34.615 0.00 0.00 29.74 2.12
3542 7347 7.534723 AGGTTGACTGTGTACATTCTAACTA 57.465 36.000 0.00 0.00 29.74 2.24
3543 7348 6.420913 AGGTTGACTGTGTACATTCTAACT 57.579 37.500 0.00 0.00 0.00 2.24
3544 7349 8.086522 TCTAAGGTTGACTGTGTACATTCTAAC 58.913 37.037 0.00 1.97 0.00 2.34
3545 7350 8.185506 TCTAAGGTTGACTGTGTACATTCTAA 57.814 34.615 0.00 0.00 0.00 2.10
3546 7351 7.450634 ACTCTAAGGTTGACTGTGTACATTCTA 59.549 37.037 0.00 0.00 0.00 2.10
3547 7352 6.267928 ACTCTAAGGTTGACTGTGTACATTCT 59.732 38.462 0.00 0.00 0.00 2.40
3548 7353 6.456501 ACTCTAAGGTTGACTGTGTACATTC 58.543 40.000 0.00 0.00 0.00 2.67
3549 7354 6.420913 ACTCTAAGGTTGACTGTGTACATT 57.579 37.500 0.00 0.00 0.00 2.71
3550 7355 6.420913 AACTCTAAGGTTGACTGTGTACAT 57.579 37.500 0.00 0.00 0.00 2.29
3551 7356 5.864418 AACTCTAAGGTTGACTGTGTACA 57.136 39.130 0.00 0.00 0.00 2.90
3552 7357 7.205297 TGTTAACTCTAAGGTTGACTGTGTAC 58.795 38.462 7.22 0.00 36.87 2.90
3553 7358 7.350744 TGTTAACTCTAAGGTTGACTGTGTA 57.649 36.000 7.22 0.00 36.87 2.90
3554 7359 6.229936 TGTTAACTCTAAGGTTGACTGTGT 57.770 37.500 7.22 0.00 36.87 3.72
3555 7360 7.254795 CCTTTGTTAACTCTAAGGTTGACTGTG 60.255 40.741 18.62 0.83 36.87 3.66
3556 7361 6.766467 CCTTTGTTAACTCTAAGGTTGACTGT 59.234 38.462 18.62 0.00 36.87 3.55
3557 7362 6.990349 TCCTTTGTTAACTCTAAGGTTGACTG 59.010 38.462 22.58 6.89 39.82 3.51
3558 7363 7.133133 TCCTTTGTTAACTCTAAGGTTGACT 57.867 36.000 22.58 0.00 39.82 3.41
3559 7364 7.041303 CCTTCCTTTGTTAACTCTAAGGTTGAC 60.041 40.741 22.58 0.00 39.82 3.18
3560 7365 6.996282 CCTTCCTTTGTTAACTCTAAGGTTGA 59.004 38.462 22.58 14.48 39.82 3.18
3561 7366 6.996282 TCCTTCCTTTGTTAACTCTAAGGTTG 59.004 38.462 22.58 18.12 39.82 3.77
3562 7367 7.072076 TCTCCTTCCTTTGTTAACTCTAAGGTT 59.928 37.037 22.58 0.00 39.82 3.50
3563 7368 6.557633 TCTCCTTCCTTTGTTAACTCTAAGGT 59.442 38.462 22.58 0.00 39.82 3.50
3564 7369 7.005709 TCTCCTTCCTTTGTTAACTCTAAGG 57.994 40.000 19.87 19.87 40.07 2.69
3565 7370 7.604545 CCTTCTCCTTCCTTTGTTAACTCTAAG 59.395 40.741 7.22 7.72 0.00 2.18
3566 7371 7.450903 CCTTCTCCTTCCTTTGTTAACTCTAA 58.549 38.462 7.22 0.00 0.00 2.10
3567 7372 6.013639 CCCTTCTCCTTCCTTTGTTAACTCTA 60.014 42.308 7.22 0.00 0.00 2.43
3568 7373 5.221945 CCCTTCTCCTTCCTTTGTTAACTCT 60.222 44.000 7.22 0.00 0.00 3.24
3569 7374 5.004448 CCCTTCTCCTTCCTTTGTTAACTC 58.996 45.833 7.22 0.00 0.00 3.01
3570 7375 4.663592 TCCCTTCTCCTTCCTTTGTTAACT 59.336 41.667 7.22 0.00 0.00 2.24
3571 7376 4.981812 TCCCTTCTCCTTCCTTTGTTAAC 58.018 43.478 0.00 0.00 0.00 2.01
3572 7377 4.506802 GCTCCCTTCTCCTTCCTTTGTTAA 60.507 45.833 0.00 0.00 0.00 2.01
3573 7378 3.009143 GCTCCCTTCTCCTTCCTTTGTTA 59.991 47.826 0.00 0.00 0.00 2.41
3574 7379 2.224892 GCTCCCTTCTCCTTCCTTTGTT 60.225 50.000 0.00 0.00 0.00 2.83
3575 7380 1.352687 GCTCCCTTCTCCTTCCTTTGT 59.647 52.381 0.00 0.00 0.00 2.83
3576 7381 1.340502 GGCTCCCTTCTCCTTCCTTTG 60.341 57.143 0.00 0.00 0.00 2.77
3577 7382 0.995803 GGCTCCCTTCTCCTTCCTTT 59.004 55.000 0.00 0.00 0.00 3.11
3581 7386 2.904131 CCGGCTCCCTTCTCCTTC 59.096 66.667 0.00 0.00 0.00 3.46
3584 7389 4.475135 GTGCCGGCTCCCTTCTCC 62.475 72.222 29.70 0.01 0.00 3.71
3597 7402 2.332654 GGAACATGGTGGTCGTGCC 61.333 63.158 0.00 0.00 34.15 5.01
3603 7408 1.272648 CCAGATTGGGAACATGGTGGT 60.273 52.381 0.00 0.00 42.32 4.16
3610 7415 1.661463 AGCTCTCCAGATTGGGAACA 58.339 50.000 0.00 0.00 38.32 3.18
3617 7422 2.773087 AGATGAGCAAGCTCTCCAGATT 59.227 45.455 21.35 0.08 43.12 2.40
3667 7472 1.374758 CACCCTCACACGGAAGAGC 60.375 63.158 0.00 0.00 0.00 4.09
3674 7479 2.203139 TTGCCACACCCTCACACG 60.203 61.111 0.00 0.00 0.00 4.49
3701 7506 3.745912 CATCTGCTGCATCGCCAT 58.254 55.556 1.31 0.00 0.00 4.40
3713 7526 2.815211 CCACGACCACGGCATCTG 60.815 66.667 0.00 0.00 44.46 2.90
3727 7540 0.737715 CTCTTAGGCGTGCAGACCAC 60.738 60.000 7.64 0.00 41.15 4.16
3731 7544 1.740380 GCATTCTCTTAGGCGTGCAGA 60.740 52.381 0.00 0.00 33.09 4.26
3733 7546 0.744414 GGCATTCTCTTAGGCGTGCA 60.744 55.000 0.00 0.00 34.45 4.57
3734 7547 1.766143 CGGCATTCTCTTAGGCGTGC 61.766 60.000 0.00 0.00 44.84 5.34
3735 7548 2.301505 CGGCATTCTCTTAGGCGTG 58.698 57.895 0.00 0.00 44.84 5.34
3736 7549 4.835927 CGGCATTCTCTTAGGCGT 57.164 55.556 0.00 0.00 44.84 5.68
3738 7551 0.107654 ACCACGGCATTCTCTTAGGC 60.108 55.000 0.00 0.00 0.00 3.93
3739 7552 2.009774 CAACCACGGCATTCTCTTAGG 58.990 52.381 0.00 0.00 0.00 2.69
3740 7553 2.416547 CACAACCACGGCATTCTCTTAG 59.583 50.000 0.00 0.00 0.00 2.18
3741 7554 2.422597 CACAACCACGGCATTCTCTTA 58.577 47.619 0.00 0.00 0.00 2.10
3742 7555 1.238439 CACAACCACGGCATTCTCTT 58.762 50.000 0.00 0.00 0.00 2.85
3743 7556 0.606401 CCACAACCACGGCATTCTCT 60.606 55.000 0.00 0.00 0.00 3.10
3744 7557 1.875963 CCACAACCACGGCATTCTC 59.124 57.895 0.00 0.00 0.00 2.87
3745 7558 4.079446 CCACAACCACGGCATTCT 57.921 55.556 0.00 0.00 0.00 2.40
3763 7576 3.792053 ATTCTCTTAGGCGCGCGGG 62.792 63.158 33.06 20.05 0.00 6.13
3764 7577 2.279517 ATTCTCTTAGGCGCGCGG 60.280 61.111 33.06 14.75 0.00 6.46
3765 7578 0.594028 TACATTCTCTTAGGCGCGCG 60.594 55.000 28.44 28.44 0.00 6.86
3766 7579 1.567504 TTACATTCTCTTAGGCGCGC 58.432 50.000 25.94 25.94 0.00 6.86
3784 7597 2.183478 TCTGTTGCATCGTCACCATT 57.817 45.000 0.00 0.00 0.00 3.16
3785 7598 2.011947 CATCTGTTGCATCGTCACCAT 58.988 47.619 0.00 0.00 0.00 3.55
3786 7599 1.441738 CATCTGTTGCATCGTCACCA 58.558 50.000 0.00 0.00 0.00 4.17
3871 7684 0.108756 GCGTTAACGAAGGGAGAGCT 60.109 55.000 31.03 0.00 43.02 4.09
3885 7698 4.385358 TTGTCTAGCTGATGATGCGTTA 57.615 40.909 0.00 0.00 35.28 3.18
3897 7710 1.141881 CGGCGACCATTGTCTAGCT 59.858 57.895 0.00 0.00 39.47 3.32
3923 7736 4.431416 ACTGTTGAATGTGTAGGTCCAA 57.569 40.909 0.00 0.00 0.00 3.53
3965 7778 2.672996 GCTTGCATCACCACCGGT 60.673 61.111 0.00 0.00 35.62 5.28


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

AutoCloner maintained by Alex Coulton.