Multiple sequence alignment - TraesCS3A01G294800

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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 TraesCS3A01G294800 chr3A 100.000 7048 0 0 1 7048 528603428 528596381 0.000000e+00 13016.0
1 TraesCS3A01G294800 chr3D 91.988 2983 196 28 1991 4945 406170280 406167313 0.000000e+00 4145.0
2 TraesCS3A01G294800 chr3D 93.282 1176 64 5 5879 7048 406165057 406163891 0.000000e+00 1720.0
3 TraesCS3A01G294800 chr3D 92.737 1129 60 13 507 1622 406172033 406170914 0.000000e+00 1611.0
4 TraesCS3A01G294800 chr3D 93.277 952 36 5 4943 5885 406166410 406165478 0.000000e+00 1378.0
5 TraesCS3A01G294800 chr3D 91.714 531 20 6 1 507 45695572 45695042 0.000000e+00 715.0
6 TraesCS3A01G294800 chr3D 91.202 341 27 3 1664 2004 406170763 406170426 1.790000e-125 460.0
7 TraesCS3A01G294800 chr3B 92.861 1947 90 18 5123 7048 532189429 532187511 0.000000e+00 2780.0
8 TraesCS3A01G294800 chr3B 88.889 1827 158 30 2027 3828 532192560 532190754 0.000000e+00 2207.0
9 TraesCS3A01G294800 chr3B 88.731 1553 93 32 507 2004 532196193 532194668 0.000000e+00 1823.0
10 TraesCS3A01G294800 chr3B 90.838 513 35 8 4437 4944 532190410 532189905 0.000000e+00 676.0
11 TraesCS3A01G294800 chr3B 94.536 183 10 0 4000 4182 532190766 532190584 4.160000e-72 283.0
12 TraesCS3A01G294800 chr5D 92.500 520 26 5 1 507 445793854 445793335 0.000000e+00 732.0
13 TraesCS3A01G294800 chr6A 91.296 517 25 8 1 507 558182513 558182007 0.000000e+00 688.0
14 TraesCS3A01G294800 chr5B 87.867 511 46 10 5 507 652760465 652760967 2.830000e-163 586.0
15 TraesCS3A01G294800 chr2B 97.959 294 6 0 214 507 774164838 774165131 1.750000e-140 510.0
16 TraesCS3A01G294800 chr2B 81.118 519 73 20 3 507 63803482 63802975 6.630000e-105 392.0
17 TraesCS3A01G294800 chrUn 97.010 301 8 1 208 507 83560971 83560671 8.160000e-139 505.0
18 TraesCS3A01G294800 chrUn 97.010 301 8 1 208 507 448604453 448604753 8.160000e-139 505.0
19 TraesCS3A01G294800 chrUn 100.000 216 0 0 1 216 83553382 83553167 3.960000e-107 399.0
20 TraesCS3A01G294800 chrUn 100.000 216 0 0 1 216 207829633 207829848 3.960000e-107 399.0
21 TraesCS3A01G294800 chrUn 100.000 216 0 0 1 216 207833205 207833420 3.960000e-107 399.0
22 TraesCS3A01G294800 chrUn 100.000 216 0 0 1 216 265475535 265475320 3.960000e-107 399.0
23 TraesCS3A01G294800 chr1B 97.010 301 8 1 208 507 123415202 123415502 8.160000e-139 505.0
24 TraesCS3A01G294800 chr4B 96.689 302 9 1 208 508 172783496 172783195 1.060000e-137 501.0
25 TraesCS3A01G294800 chr4D 100.000 29 0 0 6343 6371 8626363 8626335 4.000000e-03 54.7


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 TraesCS3A01G294800 chr3A 528596381 528603428 7047 True 13016.0 13016 100.0000 1 7048 1 chr3A.!!$R1 7047
1 TraesCS3A01G294800 chr3D 406163891 406172033 8142 True 1862.8 4145 92.4972 507 7048 5 chr3D.!!$R2 6541
2 TraesCS3A01G294800 chr3D 45695042 45695572 530 True 715.0 715 91.7140 1 507 1 chr3D.!!$R1 506
3 TraesCS3A01G294800 chr3B 532187511 532196193 8682 True 1553.8 2780 91.1710 507 7048 5 chr3B.!!$R1 6541
4 TraesCS3A01G294800 chr5D 445793335 445793854 519 True 732.0 732 92.5000 1 507 1 chr5D.!!$R1 506
5 TraesCS3A01G294800 chr6A 558182007 558182513 506 True 688.0 688 91.2960 1 507 1 chr6A.!!$R1 506
6 TraesCS3A01G294800 chr5B 652760465 652760967 502 False 586.0 586 87.8670 5 507 1 chr5B.!!$F1 502
7 TraesCS3A01G294800 chr2B 63802975 63803482 507 True 392.0 392 81.1180 3 507 1 chr2B.!!$R1 504
8 TraesCS3A01G294800 chrUn 207829633 207833420 3787 False 399.0 399 100.0000 1 216 2 chrUn.!!$F2 215

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 1562 1.055040 CATCTCTCTCCCCACATCCC 58.945 60.000 0.00 0.0 0.0 3.85 F
942 1890 1.132332 TCTCCTCCCACCCTTAAACCA 60.132 52.381 0.00 0.0 0.0 3.67 F
2699 5850 0.179004 ACGATTTTGAGGTGGTGGCA 60.179 50.000 0.00 0.0 0.0 4.92 F
3158 6522 0.104120 GGGCTGTTTTTCTTGCGGTT 59.896 50.000 0.00 0.0 0.0 4.44 F
4267 7753 0.991920 CTAACAAGAAGCCCCTGGGA 59.008 55.000 16.20 0.0 37.5 4.37 F
5072 10059 0.515127 TTTGCTACCACGCGACAATG 59.485 50.000 15.93 0.0 0.0 2.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1735 2793 0.249398 ACGACTGGTCATTGGTAGGC 59.751 55.0 0.00 0.0 0.00 3.93 R
2752 5907 0.249155 GGCAATGATGGGCGAACATG 60.249 55.0 0.00 0.0 0.00 3.21 R
4253 7739 0.040204 CATGTTCCCAGGGGCTTCTT 59.960 55.0 5.33 0.0 34.68 2.52 R
4584 8234 0.909623 CCCCGGACTCCAACACTAAT 59.090 55.0 0.73 0.0 0.00 1.73 R
5361 10491 0.250553 TGTGGTTCTAACTTGGCCCG 60.251 55.0 0.00 0.0 0.00 6.13 R
6303 11869 0.318614 CTCCGGCACAAACGCAAAAT 60.319 50.0 0.00 0.0 0.00 1.82 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
465 581 3.417101 TGGGCGCTTAGAGATTTTTCAA 58.583 40.909 7.64 0.00 0.00 2.69
641 1562 1.055040 CATCTCTCTCCCCACATCCC 58.945 60.000 0.00 0.00 0.00 3.85
660 1581 2.240667 CCCCATCCTCTCTGTGATGTTT 59.759 50.000 0.00 0.00 37.30 2.83
772 1714 2.761071 GAGTGCTGCTTGCTACTCC 58.239 57.895 0.00 0.00 40.54 3.85
942 1890 1.132332 TCTCCTCCCACCCTTAAACCA 60.132 52.381 0.00 0.00 0.00 3.67
1076 2024 1.346395 GGACACTGGTACACACATCCA 59.654 52.381 0.00 0.00 0.00 3.41
1090 2038 5.888161 ACACACATCCATTTAATCTCCTTCC 59.112 40.000 0.00 0.00 0.00 3.46
1097 2045 5.059833 CCATTTAATCTCCTTCCGGAAGAG 58.940 45.833 39.78 31.56 40.79 2.85
1107 2056 1.257743 TCCGGAAGAGAACACTGGAG 58.742 55.000 0.00 0.00 34.63 3.86
1135 2084 5.452078 TCCAAAATGGAGCTTGTAAACTG 57.548 39.130 0.00 0.00 42.67 3.16
1175 2124 3.930336 TGATGCAGAGAGTGTAACAAGG 58.070 45.455 0.00 0.00 41.43 3.61
1310 2259 2.568612 CTGCCGCTCACTCTCGAA 59.431 61.111 0.00 0.00 0.00 3.71
1354 2303 3.366374 CCCTTGAATCTCAAAAGGTTCGC 60.366 47.826 0.00 0.00 44.30 4.70
1355 2304 3.482786 CTTGAATCTCAAAAGGTTCGCG 58.517 45.455 0.00 0.00 44.30 5.87
1359 2308 1.214367 TCTCAAAAGGTTCGCGTCAC 58.786 50.000 5.77 4.10 0.00 3.67
1405 2354 2.698803 TGTCATGTTCATCCCAACTCG 58.301 47.619 0.00 0.00 0.00 4.18
1406 2355 2.038426 TGTCATGTTCATCCCAACTCGT 59.962 45.455 0.00 0.00 0.00 4.18
1407 2356 3.074412 GTCATGTTCATCCCAACTCGTT 58.926 45.455 0.00 0.00 0.00 3.85
1662 2694 6.498651 ACTCTTTCTAAAGAAGAGGATGACCA 59.501 38.462 15.78 0.00 43.84 4.02
1667 2725 2.630889 AGAAGAGGATGACCAGTGGA 57.369 50.000 18.40 0.00 38.94 4.02
1676 2734 4.346418 AGGATGACCAGTGGAGTTGATATC 59.654 45.833 18.40 0.06 38.94 1.63
1734 2792 1.065272 GGGGGTTCGGCATTGTACTTA 60.065 52.381 0.00 0.00 0.00 2.24
1735 2793 2.285977 GGGGTTCGGCATTGTACTTAG 58.714 52.381 0.00 0.00 0.00 2.18
1747 2805 5.007724 GCATTGTACTTAGCCTACCAATGAC 59.992 44.000 12.80 2.86 32.43 3.06
1777 2835 3.980775 CGAAATTCAAACGTGAGCCAAAT 59.019 39.130 0.00 0.00 34.49 2.32
1801 2859 2.616376 CCGAATGGTGTGAAAGTGAACA 59.384 45.455 0.00 0.00 0.00 3.18
1802 2860 3.253188 CCGAATGGTGTGAAAGTGAACAT 59.747 43.478 0.00 0.00 0.00 2.71
1847 2905 5.761205 ACTAGAGAACAATAGAGCTCTCCA 58.239 41.667 22.17 3.55 38.56 3.86
1849 2907 7.522542 ACTAGAGAACAATAGAGCTCTCCATA 58.477 38.462 22.17 2.19 38.56 2.74
1851 2909 7.667575 AGAGAACAATAGAGCTCTCCATAAA 57.332 36.000 22.17 0.83 35.87 1.40
1856 2914 9.771534 GAACAATAGAGCTCTCCATAAACTTAT 57.228 33.333 22.17 0.37 0.00 1.73
1865 2923 9.343539 AGCTCTCCATAAACTTATAAATGTTCC 57.656 33.333 0.00 0.00 0.00 3.62
2221 5366 3.443681 CCAGTGATTACCAAGCCGAAAAT 59.556 43.478 0.00 0.00 0.00 1.82
2223 5368 5.124776 CCAGTGATTACCAAGCCGAAAATTA 59.875 40.000 0.00 0.00 0.00 1.40
2357 5503 0.179234 TGCAAACTCGGAGGTGTGAA 59.821 50.000 10.23 0.00 0.00 3.18
2358 5504 1.202758 TGCAAACTCGGAGGTGTGAAT 60.203 47.619 10.23 0.00 0.00 2.57
2360 5506 2.766313 CAAACTCGGAGGTGTGAATGA 58.234 47.619 10.23 0.00 0.00 2.57
2365 5511 1.066215 TCGGAGGTGTGAATGACATGG 60.066 52.381 0.00 0.00 36.78 3.66
2375 5521 2.649312 TGAATGACATGGGGGAGAAAGT 59.351 45.455 0.00 0.00 0.00 2.66
2383 5529 1.082194 TGGGGGAGAAAGTGATAGGGT 59.918 52.381 0.00 0.00 0.00 4.34
2390 5536 5.481122 GGGAGAAAGTGATAGGGTAGGATAC 59.519 48.000 0.00 0.00 42.04 2.24
2418 5564 6.578023 ACAAGAGATGGTGAGCTATAGTTTC 58.422 40.000 0.84 0.88 0.00 2.78
2429 5576 8.947115 GGTGAGCTATAGTTTCTTTAAACACAT 58.053 33.333 0.84 0.22 46.18 3.21
2477 5626 5.395103 GGAGAGATATAGTGCATGATGGACC 60.395 48.000 13.61 0.00 39.72 4.46
2486 5635 1.487976 GCATGATGGACCAAGAGAGGA 59.512 52.381 0.00 0.00 0.00 3.71
2490 5639 4.934797 TGATGGACCAAGAGAGGAAAAT 57.065 40.909 0.00 0.00 0.00 1.82
2491 5640 4.592942 TGATGGACCAAGAGAGGAAAATG 58.407 43.478 0.00 0.00 0.00 2.32
2492 5641 4.043310 TGATGGACCAAGAGAGGAAAATGT 59.957 41.667 0.00 0.00 0.00 2.71
2493 5642 4.021102 TGGACCAAGAGAGGAAAATGTC 57.979 45.455 0.00 0.00 0.00 3.06
2494 5643 3.394274 TGGACCAAGAGAGGAAAATGTCA 59.606 43.478 0.00 0.00 0.00 3.58
2495 5644 4.043310 TGGACCAAGAGAGGAAAATGTCAT 59.957 41.667 0.00 0.00 0.00 3.06
2496 5645 5.012893 GGACCAAGAGAGGAAAATGTCATT 58.987 41.667 0.00 0.00 0.00 2.57
2497 5646 5.105997 GGACCAAGAGAGGAAAATGTCATTG 60.106 44.000 0.00 0.00 0.00 2.82
2499 5648 4.768968 CCAAGAGAGGAAAATGTCATTGGT 59.231 41.667 0.00 0.00 32.02 3.67
2500 5649 5.945784 CCAAGAGAGGAAAATGTCATTGGTA 59.054 40.000 0.00 0.00 32.02 3.25
2501 5650 6.127897 CCAAGAGAGGAAAATGTCATTGGTAC 60.128 42.308 0.00 0.00 32.02 3.34
2561 5712 5.046231 AGGTTTCCTCCTCTCATCTAACAAC 60.046 44.000 0.00 0.00 31.32 3.32
2565 5716 3.444034 CCTCCTCTCATCTAACAACGTCA 59.556 47.826 0.00 0.00 0.00 4.35
2577 5728 6.867550 TCTAACAACGTCATCATTCTCATCT 58.132 36.000 0.00 0.00 0.00 2.90
2584 5735 3.043418 TCATCATTCTCATCTGCCTCCA 58.957 45.455 0.00 0.00 0.00 3.86
2589 5740 4.104261 TCATTCTCATCTGCCTCCAATCAT 59.896 41.667 0.00 0.00 0.00 2.45
2592 5743 3.651423 TCTCATCTGCCTCCAATCATCAT 59.349 43.478 0.00 0.00 0.00 2.45
2639 5790 1.666888 CCGGCTCTTTGTTCAATGTGC 60.667 52.381 13.28 13.28 0.00 4.57
2643 5794 3.491447 GGCTCTTTGTTCAATGTGCAGTT 60.491 43.478 19.18 0.00 0.00 3.16
2699 5850 0.179004 ACGATTTTGAGGTGGTGGCA 60.179 50.000 0.00 0.00 0.00 4.92
2743 5898 0.397187 CTGCATCCATCCTCCTCCAG 59.603 60.000 0.00 0.00 0.00 3.86
2788 5943 2.596851 CCGATGGGCCTATGAGGGG 61.597 68.421 6.22 0.00 35.37 4.79
2852 6007 2.740447 GTTAGGAGTTCGTTTTCGCCAT 59.260 45.455 0.00 0.00 43.73 4.40
2918 6073 5.078411 TCTAGTGACTTTCTCTTGCCATC 57.922 43.478 0.00 0.00 0.00 3.51
2922 6077 4.160439 AGTGACTTTCTCTTGCCATCGATA 59.840 41.667 0.00 0.00 0.00 2.92
2957 6112 2.597510 GGCGTGCCAGAAGGGTTT 60.598 61.111 5.89 0.00 39.65 3.27
2961 6116 1.733402 CGTGCCAGAAGGGTTTGCAA 61.733 55.000 0.00 0.00 39.65 4.08
2977 6132 3.737559 TGCAAATCTAGTTGGGGATGT 57.262 42.857 0.00 0.00 0.00 3.06
3088 6450 3.594453 GGGCATGATCCCAACAGAA 57.406 52.632 0.00 0.00 45.82 3.02
3089 6451 2.077687 GGGCATGATCCCAACAGAAT 57.922 50.000 0.00 0.00 45.82 2.40
3092 6454 3.198417 GGGCATGATCCCAACAGAATTTT 59.802 43.478 0.00 0.00 45.82 1.82
3117 6479 9.569167 TTGATCTATATTAGCTTTATTCCGTCG 57.431 33.333 0.00 0.00 0.00 5.12
3158 6522 0.104120 GGGCTGTTTTTCTTGCGGTT 59.896 50.000 0.00 0.00 0.00 4.44
3192 6556 1.732683 GCGCGTGGAATTTTGTGGG 60.733 57.895 8.43 0.00 0.00 4.61
3198 6563 2.352617 CGTGGAATTTTGTGGGTGATGG 60.353 50.000 0.00 0.00 0.00 3.51
3199 6564 2.028203 GTGGAATTTTGTGGGTGATGGG 60.028 50.000 0.00 0.00 0.00 4.00
3266 6634 4.341520 ACTCAAGTAATCATCGGTAGTCCC 59.658 45.833 0.00 0.00 0.00 4.46
3439 6810 3.456380 AAACCTTGCCCTGACATGTAT 57.544 42.857 0.00 0.00 0.00 2.29
3498 6982 6.369065 GGAGTATCATTTTCTCACACGACTTT 59.631 38.462 0.00 0.00 36.25 2.66
3627 7112 9.206870 CTTTTCCAAATATTTGTGTGCACTAAT 57.793 29.630 23.24 16.04 39.41 1.73
3675 7160 9.617975 CTTAAAAGAATCATCTGTTTTCTGGTC 57.382 33.333 0.00 0.00 34.81 4.02
3758 7243 7.711772 TCGTAATCCTGTGTTTGTTCTTTCTAA 59.288 33.333 0.00 0.00 0.00 2.10
3841 7326 3.182572 CACAAGTACTGAAGAACTCACGC 59.817 47.826 0.00 0.00 0.00 5.34
3849 7334 4.237724 CTGAAGAACTCACGCTTGACATA 58.762 43.478 0.00 0.00 0.00 2.29
3851 7336 4.864806 TGAAGAACTCACGCTTGACATATC 59.135 41.667 0.00 0.00 0.00 1.63
3852 7337 4.727507 AGAACTCACGCTTGACATATCT 57.272 40.909 0.00 0.00 0.00 1.98
3855 7340 5.590663 AGAACTCACGCTTGACATATCTAGA 59.409 40.000 0.00 0.00 30.00 2.43
3856 7341 5.431420 ACTCACGCTTGACATATCTAGAG 57.569 43.478 0.00 0.00 34.54 2.43
3857 7342 4.225984 CTCACGCTTGACATATCTAGAGC 58.774 47.826 0.00 0.00 32.25 4.09
3877 7362 6.064717 AGAGCAAATCTACCTTTTGTGTTCT 58.935 36.000 0.00 0.00 36.10 3.01
3898 7383 8.486210 TGTTCTAGGATATAACATCAGCAGTTT 58.514 33.333 0.00 0.00 33.46 2.66
4147 7633 7.054124 AGATTCTCTGTAAGTTTGTTGTTCCA 58.946 34.615 0.00 0.00 33.76 3.53
4157 7643 4.702612 AGTTTGTTGTTCCATACACACACA 59.297 37.500 0.00 0.00 36.21 3.72
4267 7753 0.991920 CTAACAAGAAGCCCCTGGGA 59.008 55.000 16.20 0.00 37.50 4.37
4275 7761 2.362889 GCCCCTGGGAACATGTGG 60.363 66.667 16.20 0.00 41.51 4.17
4313 7799 6.935741 ACAGAACAAAGTTTAGCATACACA 57.064 33.333 0.00 0.00 0.00 3.72
4319 7805 6.857956 ACAAAGTTTAGCATACACAACAACA 58.142 32.000 0.00 0.00 0.00 3.33
4348 7835 7.650504 CAGTTTTGTCATTGTCATGAAGTGATT 59.349 33.333 0.00 0.00 41.30 2.57
4464 8113 7.523216 CGGAAAATGGGGCTAAATCCTTATAAC 60.523 40.741 0.00 0.00 0.00 1.89
4596 8246 7.655328 TGTTGGCAATTTTTATTAGTGTTGGAG 59.345 33.333 1.92 0.00 0.00 3.86
4681 8331 4.274069 CAACATTACTCAATTGCCGATCG 58.726 43.478 8.51 8.51 0.00 3.69
4939 8992 0.977395 CGAGACCTTCCTCCCACTTT 59.023 55.000 0.00 0.00 0.00 2.66
4945 8999 5.098663 AGACCTTCCTCCCACTTTAATACA 58.901 41.667 0.00 0.00 0.00 2.29
4946 9000 5.189934 AGACCTTCCTCCCACTTTAATACAG 59.810 44.000 0.00 0.00 0.00 2.74
4948 9002 5.189934 ACCTTCCTCCCACTTTAATACAGAG 59.810 44.000 0.00 0.00 0.00 3.35
4951 9005 7.366011 CCTTCCTCCCACTTTAATACAGAGATT 60.366 40.741 0.00 0.00 0.00 2.40
4955 9009 9.853177 CCTCCCACTTTAATACAGAGATTATTT 57.147 33.333 0.00 0.00 0.00 1.40
5032 10019 7.310664 ACTAATCTCACTTTGATACGTTTCGA 58.689 34.615 0.00 0.00 0.00 3.71
5068 10055 3.308866 AGATTATTTTGCTACCACGCGAC 59.691 43.478 15.93 0.00 0.00 5.19
5072 10059 0.515127 TTTGCTACCACGCGACAATG 59.485 50.000 15.93 0.00 0.00 2.82
5116 10103 5.939296 TGTAATGCATTCTCATGTTGTCTCA 59.061 36.000 16.86 0.00 32.28 3.27
5345 10475 2.874701 CTCTGTTCCTGGCCAATTATCG 59.125 50.000 7.01 0.00 0.00 2.92
5361 10491 6.312672 CCAATTATCGGGAATTGTTTTTGGTC 59.687 38.462 16.62 0.00 42.72 4.02
5426 10556 2.754254 GGGTGGGACATTTCGCCC 60.754 66.667 0.00 0.00 44.52 6.13
5450 10580 2.079925 GCTGTTGGAAGAGTGATGGTC 58.920 52.381 0.00 0.00 0.00 4.02
5500 10630 8.225603 ACCTTTATGTATGAGCATTGTTAAGG 57.774 34.615 0.00 0.00 33.39 2.69
5568 10698 7.915397 GTGTAGGTTAGCATGATATTTTGTTGG 59.085 37.037 0.00 0.00 0.00 3.77
5764 10897 7.614494 AGCCATTTACAATTTGTCTATTTGCT 58.386 30.769 5.07 6.03 0.00 3.91
5765 10898 8.748412 AGCCATTTACAATTTGTCTATTTGCTA 58.252 29.630 5.07 0.00 0.00 3.49
5766 10899 8.807581 GCCATTTACAATTTGTCTATTTGCTAC 58.192 33.333 5.07 0.00 0.00 3.58
5770 10903 6.759497 ACAATTTGTCTATTTGCTACTCCC 57.241 37.500 0.00 0.00 0.00 4.30
5771 10904 6.485171 ACAATTTGTCTATTTGCTACTCCCT 58.515 36.000 0.00 0.00 0.00 4.20
5772 10905 7.630082 ACAATTTGTCTATTTGCTACTCCCTA 58.370 34.615 0.00 0.00 0.00 3.53
5773 10906 7.553044 ACAATTTGTCTATTTGCTACTCCCTAC 59.447 37.037 0.00 0.00 0.00 3.18
5774 10907 4.913335 TGTCTATTTGCTACTCCCTACG 57.087 45.455 0.00 0.00 0.00 3.51
5775 10908 4.529897 TGTCTATTTGCTACTCCCTACGA 58.470 43.478 0.00 0.00 0.00 3.43
5776 10909 4.337555 TGTCTATTTGCTACTCCCTACGAC 59.662 45.833 0.00 0.00 0.00 4.34
5777 10910 3.887716 TCTATTTGCTACTCCCTACGACC 59.112 47.826 0.00 0.00 0.00 4.79
5778 10911 1.188863 TTTGCTACTCCCTACGACCC 58.811 55.000 0.00 0.00 0.00 4.46
5779 10912 0.040058 TTGCTACTCCCTACGACCCA 59.960 55.000 0.00 0.00 0.00 4.51
5780 10913 0.040058 TGCTACTCCCTACGACCCAA 59.960 55.000 0.00 0.00 0.00 4.12
5781 10914 0.745468 GCTACTCCCTACGACCCAAG 59.255 60.000 0.00 0.00 0.00 3.61
5856 10989 1.003839 CAGCTCACCACGGGCTAAA 60.004 57.895 0.00 0.00 34.71 1.85
5877 11010 9.899226 GCTAAATTTTTCTACAGAAGTCAACAT 57.101 29.630 0.00 0.00 35.21 2.71
5897 11457 8.252417 TCAACATATGGTAGTCGCTAACTTAAA 58.748 33.333 7.80 0.00 39.55 1.52
5931 11491 4.160626 AGGGAAGTACTACATCTCAAGCAC 59.839 45.833 0.00 0.00 0.00 4.40
5993 11553 0.473694 TGGACCTCCCAGCTTTCTCA 60.474 55.000 0.00 0.00 40.82 3.27
6000 11560 3.368948 CCTCCCAGCTTTCTCAGAACTAC 60.369 52.174 0.00 0.00 0.00 2.73
6008 11568 4.743493 CTTTCTCAGAACTACAGGAGCTC 58.257 47.826 4.71 4.71 0.00 4.09
6055 11615 3.632643 ACCATTTGAATGATTTGCCCC 57.367 42.857 5.32 0.00 38.70 5.80
6065 11625 5.677567 GAATGATTTGCCCCATTCATTCTT 58.322 37.500 14.20 0.00 45.55 2.52
6135 11696 1.280982 AATGTACACGATCAGCTGCG 58.719 50.000 9.47 10.70 0.00 5.18
6154 11715 3.948473 TGCGAGTTAGAAGCTACATCTCT 59.052 43.478 0.00 0.00 0.00 3.10
6162 11723 8.899771 AGTTAGAAGCTACATCTCTAAGTCTTC 58.100 37.037 5.28 0.00 0.00 2.87
6318 11884 3.478063 GCATTAATTTTGCGTTTGTGCC 58.522 40.909 0.00 0.00 0.00 5.01
6324 11890 2.054140 TTTGCGTTTGTGCCGGAGAC 62.054 55.000 5.05 0.15 0.00 3.36
6478 12044 0.720027 CATGAGAACAGTCAGCAGCG 59.280 55.000 0.00 0.00 0.00 5.18
6481 12047 0.598680 GAGAACAGTCAGCAGCGTGT 60.599 55.000 0.00 0.00 0.00 4.49
6491 12057 2.930040 TCAGCAGCGTGTTAGAATTAGC 59.070 45.455 0.00 0.00 0.00 3.09
6586 12152 1.118838 CTTTGGGGTTGCCTGTTTCA 58.881 50.000 0.00 0.00 0.00 2.69
6768 12334 2.028203 GCTTGCTCCTGAAGAACTCTCT 60.028 50.000 0.00 0.00 0.00 3.10
6777 12343 1.135333 GAAGAACTCTCTGGGCCTACG 59.865 57.143 4.53 0.00 30.03 3.51
6796 12362 6.373779 CCTACGATGATGAATATTTGGCAAC 58.626 40.000 0.00 0.00 0.00 4.17
6884 12450 1.760613 CCTACCGAACCTTGATGGCTA 59.239 52.381 0.00 0.00 40.22 3.93
6921 12487 1.604278 AGTTTCTTTTCTCGTGCTGGC 59.396 47.619 0.00 0.00 0.00 4.85
6961 12527 5.635417 AGAAACTTCAAAATAGAGCCAGC 57.365 39.130 0.00 0.00 0.00 4.85
6997 12563 6.990341 TGTTATGAAACATCTGGATGAGTG 57.010 37.500 16.27 0.00 40.69 3.51
7016 12582 6.800543 TGAGTGCTCAGATTAGATAAGACAC 58.199 40.000 0.00 0.00 34.14 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
465 581 4.039609 GCTCTAGGCCCATATTGCAATTTT 59.960 41.667 18.75 2.82 34.27 1.82
583 1504 2.920384 TAGTGACCACCGGCAGCA 60.920 61.111 0.00 0.00 0.00 4.41
641 1562 4.161942 AGAGAAACATCACAGAGAGGATGG 59.838 45.833 6.58 0.00 44.01 3.51
687 1620 8.833231 AAACGAAGATCTGAGAGAAATGTAAA 57.167 30.769 0.00 0.00 0.00 2.01
961 1909 2.283966 ACAGGGCGAGGCACTACT 60.284 61.111 0.00 0.00 42.13 2.57
975 1923 1.397692 GAAGTACCGGAGAGACGACAG 59.602 57.143 9.46 0.00 35.47 3.51
1090 2038 3.936372 TTACTCCAGTGTTCTCTTCCG 57.064 47.619 0.00 0.00 0.00 4.30
1097 2045 6.868339 CCATTTTGGAAATTACTCCAGTGTTC 59.132 38.462 0.00 0.00 46.20 3.18
1124 2073 2.794631 GCACACACCACAGTTTACAAGC 60.795 50.000 0.00 0.00 0.00 4.01
1125 2074 2.538737 CGCACACACCACAGTTTACAAG 60.539 50.000 0.00 0.00 0.00 3.16
1126 2075 1.398739 CGCACACACCACAGTTTACAA 59.601 47.619 0.00 0.00 0.00 2.41
1134 2083 2.046796 ACACACGCACACACCACA 60.047 55.556 0.00 0.00 0.00 4.17
1135 2084 1.917782 AACACACACGCACACACCAC 61.918 55.000 0.00 0.00 0.00 4.16
1310 2259 5.013599 GGGGAATATTGCCTCTGAGTATTCT 59.986 44.000 23.50 0.01 38.90 2.40
1354 2303 1.568612 ATCAGCGTGCCAAAGTGACG 61.569 55.000 0.00 0.00 36.18 4.35
1355 2304 0.166814 GATCAGCGTGCCAAAGTGAC 59.833 55.000 0.00 0.00 0.00 3.67
1359 2308 2.163010 AGATTTGATCAGCGTGCCAAAG 59.837 45.455 0.00 0.00 32.87 2.77
1515 2464 5.120519 GTGAAGATGCTTGAGAAGTCTTCTG 59.879 44.000 19.95 6.92 43.11 3.02
1644 2676 4.467795 TCCACTGGTCATCCTCTTCTTTAG 59.532 45.833 0.00 0.00 34.23 1.85
1649 2681 2.183679 ACTCCACTGGTCATCCTCTTC 58.816 52.381 0.00 0.00 34.23 2.87
1662 2694 3.370527 CCAAACCCGATATCAACTCCACT 60.371 47.826 3.12 0.00 0.00 4.00
1667 2725 3.617284 GGAACCAAACCCGATATCAACT 58.383 45.455 3.12 0.00 0.00 3.16
1734 2792 0.537188 CGACTGGTCATTGGTAGGCT 59.463 55.000 0.00 0.00 0.00 4.58
1735 2793 0.249398 ACGACTGGTCATTGGTAGGC 59.751 55.000 0.00 0.00 0.00 3.93
1747 2805 2.220133 ACGTTTGAATTTCGACGACTGG 59.780 45.455 23.30 3.81 38.74 4.00
1777 2835 2.158885 TCACTTTCACACCATTCGGACA 60.159 45.455 0.00 0.00 35.59 4.02
1801 2859 6.317140 AGTCTTTGTATCAAATCGATGCACAT 59.683 34.615 0.00 0.00 45.17 3.21
1802 2860 5.643348 AGTCTTTGTATCAAATCGATGCACA 59.357 36.000 0.00 0.00 45.17 4.57
1851 2909 8.871629 TGTGTACCATTGGAACATTTATAAGT 57.128 30.769 10.37 0.00 39.30 2.24
1856 2914 7.589958 ACTTTGTGTACCATTGGAACATTTA 57.410 32.000 10.37 0.00 39.30 1.40
1865 2923 4.739716 GTGCTTCAACTTTGTGTACCATTG 59.260 41.667 0.00 0.00 0.00 2.82
1902 2960 2.762887 TGGTGTTTGATGTTTTGCCTCA 59.237 40.909 0.00 0.00 0.00 3.86
1967 3025 1.625818 AGCTTCGGTCAAGATGAGGTT 59.374 47.619 0.00 0.00 33.29 3.50
1968 3026 1.270907 AGCTTCGGTCAAGATGAGGT 58.729 50.000 0.00 0.00 33.29 3.85
2016 3235 3.373748 CGTGCCAACTTATCTAATGCACA 59.626 43.478 11.62 0.00 45.80 4.57
2110 5255 1.545582 CCCCACTAACGTTTCCTCGTA 59.454 52.381 5.91 0.00 43.38 3.43
2113 5258 1.622312 ACTCCCCACTAACGTTTCCTC 59.378 52.381 5.91 0.00 0.00 3.71
2114 5259 1.622312 GACTCCCCACTAACGTTTCCT 59.378 52.381 5.91 0.00 0.00 3.36
2188 5333 4.202441 GGTAATCACTGGCATGAACATCT 58.798 43.478 0.00 0.00 30.82 2.90
2196 5341 1.767759 GGCTTGGTAATCACTGGCAT 58.232 50.000 0.00 0.00 0.00 4.40
2357 5503 2.278245 TCACTTTCTCCCCCATGTCAT 58.722 47.619 0.00 0.00 0.00 3.06
2358 5504 1.741028 TCACTTTCTCCCCCATGTCA 58.259 50.000 0.00 0.00 0.00 3.58
2360 5506 2.780010 CCTATCACTTTCTCCCCCATGT 59.220 50.000 0.00 0.00 0.00 3.21
2365 5511 2.973406 CCTACCCTATCACTTTCTCCCC 59.027 54.545 0.00 0.00 0.00 4.81
2375 5521 6.199376 TCTTGTTGTGTATCCTACCCTATCA 58.801 40.000 0.00 0.00 0.00 2.15
2383 5529 5.719563 TCACCATCTCTTGTTGTGTATCCTA 59.280 40.000 0.00 0.00 0.00 2.94
2390 5536 2.775890 AGCTCACCATCTCTTGTTGTG 58.224 47.619 0.00 0.00 0.00 3.33
2418 5564 8.794406 GCATCCGTGTATTTAATGTGTTTAAAG 58.206 33.333 0.00 0.00 41.74 1.85
2429 5576 6.426633 CCATATGTGAGCATCCGTGTATTTAA 59.573 38.462 1.24 0.00 36.58 1.52
2437 5584 2.298446 CTCTCCATATGTGAGCATCCGT 59.702 50.000 13.45 0.00 36.58 4.69
2439 5586 4.822685 ATCTCTCCATATGTGAGCATCC 57.177 45.455 14.54 0.00 36.58 3.51
2477 5626 5.972107 ACCAATGACATTTTCCTCTCTTG 57.028 39.130 0.00 0.00 0.00 3.02
2486 5635 6.019156 CGCTTGTTTTGTACCAATGACATTTT 60.019 34.615 0.00 0.00 0.00 1.82
2490 5639 3.793801 GCGCTTGTTTTGTACCAATGACA 60.794 43.478 0.00 0.00 0.00 3.58
2491 5640 2.724174 GCGCTTGTTTTGTACCAATGAC 59.276 45.455 0.00 0.00 0.00 3.06
2492 5641 2.621055 AGCGCTTGTTTTGTACCAATGA 59.379 40.909 2.64 0.00 0.00 2.57
2493 5642 2.979813 GAGCGCTTGTTTTGTACCAATG 59.020 45.455 13.26 0.00 0.00 2.82
2494 5643 2.621055 TGAGCGCTTGTTTTGTACCAAT 59.379 40.909 13.26 0.00 0.00 3.16
2495 5644 2.017782 TGAGCGCTTGTTTTGTACCAA 58.982 42.857 13.26 0.00 0.00 3.67
2496 5645 1.669604 TGAGCGCTTGTTTTGTACCA 58.330 45.000 13.26 0.00 0.00 3.25
2497 5646 2.989422 ATGAGCGCTTGTTTTGTACC 57.011 45.000 13.26 0.00 0.00 3.34
2499 5648 2.803386 TCGAATGAGCGCTTGTTTTGTA 59.197 40.909 13.26 0.00 0.00 2.41
2500 5649 1.601903 TCGAATGAGCGCTTGTTTTGT 59.398 42.857 13.26 0.00 0.00 2.83
2501 5650 2.314561 TCGAATGAGCGCTTGTTTTG 57.685 45.000 13.26 9.92 0.00 2.44
2537 5688 4.689062 TGTTAGATGAGAGGAGGAAACCT 58.311 43.478 0.00 0.00 43.64 3.50
2561 5712 3.058450 GAGGCAGATGAGAATGATGACG 58.942 50.000 0.00 0.00 0.00 4.35
2565 5716 4.104261 TGATTGGAGGCAGATGAGAATGAT 59.896 41.667 0.00 0.00 0.00 2.45
2577 5728 3.581770 CTCCTAGATGATGATTGGAGGCA 59.418 47.826 0.00 0.00 37.87 4.75
2584 5735 4.219392 TCCCCACTCCTAGATGATGATT 57.781 45.455 0.00 0.00 0.00 2.57
2589 5740 2.682594 CACATCCCCACTCCTAGATGA 58.317 52.381 5.89 0.00 38.72 2.92
2592 5743 1.015609 TCCACATCCCCACTCCTAGA 58.984 55.000 0.00 0.00 0.00 2.43
2619 5770 1.666888 GCACATTGAACAAAGAGCCGG 60.667 52.381 0.00 0.00 0.00 6.13
2639 5790 4.552166 AGACAAACACGAAATGGAACTG 57.448 40.909 0.00 0.00 0.00 3.16
2643 5794 3.283751 ACCAAGACAAACACGAAATGGA 58.716 40.909 0.00 0.00 0.00 3.41
2726 5881 1.759881 CCTGGAGGAGGATGGATGC 59.240 63.158 0.00 0.00 46.33 3.91
2730 5885 3.174265 GGGCCTGGAGGAGGATGG 61.174 72.222 0.84 0.00 46.33 3.51
2752 5907 0.249155 GGCAATGATGGGCGAACATG 60.249 55.000 0.00 0.00 0.00 3.21
2788 5943 1.135721 GCTCAAATTGATGGGACCAGC 59.864 52.381 0.00 0.00 0.00 4.85
2800 5955 5.361857 CCCAATAGATCTGGTTGCTCAAATT 59.638 40.000 5.18 0.00 31.45 1.82
2852 6007 2.762887 CACCATCTAGAGGAGAAGCACA 59.237 50.000 5.84 0.00 37.85 4.57
2918 6073 2.675844 TCCGCAAACCAACAGAATATCG 59.324 45.455 0.00 0.00 0.00 2.92
2922 6077 1.247567 CCTCCGCAAACCAACAGAAT 58.752 50.000 0.00 0.00 0.00 2.40
2957 6112 3.010027 TGACATCCCCAACTAGATTTGCA 59.990 43.478 0.00 0.00 0.00 4.08
2961 6116 4.230502 ACCATTGACATCCCCAACTAGATT 59.769 41.667 0.00 0.00 0.00 2.40
3092 6454 8.188799 CCGACGGAATAAAGCTAATATAGATCA 58.811 37.037 8.64 0.00 0.00 2.92
3117 6479 1.823899 CGGATTGCTTGCCCCTACC 60.824 63.158 0.00 0.00 0.00 3.18
3142 6504 3.143807 TGACAACCGCAAGAAAAACAG 57.856 42.857 0.00 0.00 43.02 3.16
3144 6506 4.912528 TTTTGACAACCGCAAGAAAAAC 57.087 36.364 0.00 0.00 43.02 2.43
3146 6508 3.680458 GGTTTTTGACAACCGCAAGAAAA 59.320 39.130 0.00 0.00 37.07 2.29
3158 6522 0.313672 GCGCCTCATGGTTTTTGACA 59.686 50.000 0.00 0.00 35.27 3.58
3183 6547 4.787135 AAAAACCCATCACCCACAAAAT 57.213 36.364 0.00 0.00 0.00 1.82
3224 6589 3.108376 AGTCACAATAGAGTCCCCTTCC 58.892 50.000 0.00 0.00 0.00 3.46
3498 6982 4.304048 TCAAACGGGCCTTAGGATTTTA 57.696 40.909 0.69 0.00 0.00 1.52
3616 7101 6.968131 TCTTCTGTGAATATTAGTGCACAC 57.032 37.500 21.04 6.23 36.44 3.82
3663 7148 5.261209 TGTTTGATTGGACCAGAAAACAG 57.739 39.130 19.54 0.00 33.80 3.16
3665 7150 5.262588 ACTGTTTGATTGGACCAGAAAAC 57.737 39.130 16.22 16.22 0.00 2.43
3670 7155 4.810491 CCAAAAACTGTTTGATTGGACCAG 59.190 41.667 23.19 4.54 42.46 4.00
3675 7160 7.602517 TTTACACCAAAAACTGTTTGATTGG 57.397 32.000 24.74 24.74 44.75 3.16
3724 7209 3.198068 ACACAGGATTACGATGTCATGC 58.802 45.455 0.00 0.00 29.82 4.06
3758 7243 3.886123 CTCCTCCAAAATAACGGTGGAT 58.114 45.455 0.00 0.00 42.52 3.41
3841 7326 8.584157 AGGTAGATTTGCTCTAGATATGTCAAG 58.416 37.037 0.00 0.00 37.14 3.02
3849 7334 7.398024 ACACAAAAGGTAGATTTGCTCTAGAT 58.602 34.615 0.00 0.00 40.58 1.98
3851 7336 7.389053 AGAACACAAAAGGTAGATTTGCTCTAG 59.611 37.037 0.00 0.00 40.58 2.43
3852 7337 7.224297 AGAACACAAAAGGTAGATTTGCTCTA 58.776 34.615 0.00 0.00 40.58 2.43
3855 7340 6.431234 CCTAGAACACAAAAGGTAGATTTGCT 59.569 38.462 0.00 0.00 40.58 3.91
3856 7341 6.430000 TCCTAGAACACAAAAGGTAGATTTGC 59.570 38.462 0.00 0.00 40.58 3.68
3857 7342 7.979444 TCCTAGAACACAAAAGGTAGATTTG 57.021 36.000 0.00 0.00 42.18 2.32
3877 7362 9.764363 CAAGTAAACTGCTGATGTTATATCCTA 57.236 33.333 0.00 0.00 0.00 2.94
3892 7377 9.490663 CATAAAGCAATACTACAAGTAAACTGC 57.509 33.333 9.44 9.44 36.20 4.40
3951 7437 1.545582 AGGTTGTCGGCCAAATTGATG 59.454 47.619 2.24 0.00 34.07 3.07
3964 7450 7.798596 ATATTGAGTTGATCATCAGGTTGTC 57.201 36.000 6.55 0.00 37.89 3.18
3996 7482 9.692749 TGAATGTGTTTGTACTGTGTTTTTAAA 57.307 25.926 0.00 0.00 0.00 1.52
4147 7633 7.624360 TTGTCTTCTCTTTTTGTGTGTGTAT 57.376 32.000 0.00 0.00 0.00 2.29
4253 7739 0.040204 CATGTTCCCAGGGGCTTCTT 59.960 55.000 5.33 0.00 34.68 2.52
4288 7774 7.414436 TGTGTATGCTAAACTTTGTTCTGTTC 58.586 34.615 0.00 0.00 0.00 3.18
4319 7805 7.276218 CACTTCATGACAATGACAAAACTGTTT 59.724 33.333 0.00 0.00 42.60 2.83
4369 7856 6.258507 GTGTTCCATTCAAATGAAAGCAACTT 59.741 34.615 4.30 0.00 38.70 2.66
4387 7874 3.222173 AGGCAAGTACAATGTGTTCCA 57.778 42.857 0.00 0.00 0.00 3.53
4464 8113 7.959651 CCGTTCTATTTCTGAATTTGAGAACAG 59.040 37.037 21.23 16.59 37.79 3.16
4584 8234 0.909623 CCCCGGACTCCAACACTAAT 59.090 55.000 0.73 0.00 0.00 1.73
4681 8331 1.506493 CAGCAGTGAACAGAGGACAC 58.494 55.000 0.00 0.00 35.15 3.67
4802 8459 6.542005 CCTGCAACATAAGTACCACATATCAA 59.458 38.462 0.00 0.00 0.00 2.57
4808 8465 2.224646 TGCCTGCAACATAAGTACCACA 60.225 45.455 0.00 0.00 0.00 4.17
4809 8466 2.432444 TGCCTGCAACATAAGTACCAC 58.568 47.619 0.00 0.00 0.00 4.16
4951 9005 9.434420 GGTGAAAATGGATTGTGAATGAAAATA 57.566 29.630 0.00 0.00 0.00 1.40
4955 9009 5.468592 CGGTGAAAATGGATTGTGAATGAA 58.531 37.500 0.00 0.00 0.00 2.57
4956 9010 4.617995 GCGGTGAAAATGGATTGTGAATGA 60.618 41.667 0.00 0.00 0.00 2.57
5040 10027 6.680378 GCGTGGTAGCAAAATAATCTGGATTT 60.680 38.462 0.00 0.00 37.05 2.17
5068 10055 7.280876 ACATACAAGATGGTAACTAGTGCATTG 59.719 37.037 0.00 0.00 37.61 2.82
5072 10059 8.765219 CATTACATACAAGATGGTAACTAGTGC 58.235 37.037 0.00 0.00 37.61 4.40
5214 10327 5.532557 TGCGACTCTTATCATGGAGTATTG 58.467 41.667 2.76 0.00 42.06 1.90
5345 10475 1.606994 GCCCGACCAAAAACAATTCCC 60.607 52.381 0.00 0.00 0.00 3.97
5361 10491 0.250553 TGTGGTTCTAACTTGGCCCG 60.251 55.000 0.00 0.00 0.00 6.13
5426 10556 1.672356 CACTCTTCCAACAGCCGGG 60.672 63.158 2.18 0.00 0.00 5.73
5568 10698 3.434299 CCAAAGCATGAAAGCAAATCACC 59.566 43.478 0.00 0.00 36.85 4.02
5764 10897 2.578021 AGTACTTGGGTCGTAGGGAGTA 59.422 50.000 0.00 0.00 0.00 2.59
5765 10898 1.357079 AGTACTTGGGTCGTAGGGAGT 59.643 52.381 0.00 0.00 0.00 3.85
5766 10899 1.749634 CAGTACTTGGGTCGTAGGGAG 59.250 57.143 0.00 0.00 0.00 4.30
5767 10900 1.076024 ACAGTACTTGGGTCGTAGGGA 59.924 52.381 0.00 0.00 0.00 4.20
5768 10901 1.553706 ACAGTACTTGGGTCGTAGGG 58.446 55.000 0.00 0.00 0.00 3.53
5769 10902 5.128919 ACTATACAGTACTTGGGTCGTAGG 58.871 45.833 0.00 0.00 31.45 3.18
5770 10903 6.054295 AGACTATACAGTACTTGGGTCGTAG 58.946 44.000 0.00 0.00 34.21 3.51
5771 10904 5.994250 AGACTATACAGTACTTGGGTCGTA 58.006 41.667 0.00 0.00 34.21 3.43
5772 10905 4.853007 AGACTATACAGTACTTGGGTCGT 58.147 43.478 0.00 0.00 34.21 4.34
5773 10906 8.666573 CATATAGACTATACAGTACTTGGGTCG 58.333 40.741 4.27 0.00 34.21 4.79
5774 10907 8.958506 CCATATAGACTATACAGTACTTGGGTC 58.041 40.741 4.27 0.00 34.21 4.46
5775 10908 8.676020 TCCATATAGACTATACAGTACTTGGGT 58.324 37.037 4.27 0.00 34.21 4.51
5776 10909 8.958506 GTCCATATAGACTATACAGTACTTGGG 58.041 40.741 4.27 0.00 34.21 4.12
5777 10910 8.958506 GGTCCATATAGACTATACAGTACTTGG 58.041 40.741 4.27 6.95 36.95 3.61
5778 10911 8.958506 GGGTCCATATAGACTATACAGTACTTG 58.041 40.741 4.27 0.00 36.95 3.16
5779 10912 8.902881 AGGGTCCATATAGACTATACAGTACTT 58.097 37.037 4.27 0.00 36.95 2.24
5780 10913 8.465798 AGGGTCCATATAGACTATACAGTACT 57.534 38.462 4.27 0.00 36.95 2.73
5781 10914 9.612066 GTAGGGTCCATATAGACTATACAGTAC 57.388 40.741 4.27 2.05 36.95 2.73
5835 10968 1.320344 TAGCCCGTGGTGAGCTGTAG 61.320 60.000 0.00 0.00 37.45 2.74
5856 10989 9.520515 ACCATATGTTGACTTCTGTAGAAAAAT 57.479 29.630 1.24 0.00 33.07 1.82
5877 11010 8.875803 CAAATGTTTAAGTTAGCGACTACCATA 58.124 33.333 0.00 0.00 37.72 2.74
5897 11457 3.832527 AGTACTTCCCTGCAACAAATGT 58.167 40.909 0.00 0.00 0.00 2.71
5931 11491 5.344743 TGGTCTTCCTCAGTAATGCTTAG 57.655 43.478 0.00 0.00 34.23 2.18
6055 11615 3.731867 GCCCACTGCGTTAAGAATGAATG 60.732 47.826 0.00 0.00 0.00 2.67
6135 11696 8.446599 AGACTTAGAGATGTAGCTTCTAACTC 57.553 38.462 0.00 0.00 0.00 3.01
6154 11715 6.018507 GCAACTCCGTGTTTTTAGAAGACTTA 60.019 38.462 0.00 0.00 36.63 2.24
6162 11723 5.581085 AGCTATAGCAACTCCGTGTTTTTAG 59.419 40.000 26.07 0.00 45.16 1.85
6167 11728 4.621991 CATAGCTATAGCAACTCCGTGTT 58.378 43.478 26.07 4.37 45.16 3.32
6225 11789 9.237187 ACAAACACATACACATGGTGATAAATA 57.763 29.630 2.98 0.00 36.96 1.40
6289 11855 4.831107 ACGCAAAATTAATGCCTTCCATT 58.169 34.783 9.76 0.00 45.75 3.16
6290 11856 4.470334 ACGCAAAATTAATGCCTTCCAT 57.530 36.364 9.76 0.00 40.72 3.41
6303 11869 0.318614 CTCCGGCACAAACGCAAAAT 60.319 50.000 0.00 0.00 0.00 1.82
6324 11890 2.168384 CTATGCAATCACACGTTTGCG 58.832 47.619 15.69 1.13 46.43 4.85
6478 12044 9.502091 TGGATTATACCATGCTAATTCTAACAC 57.498 33.333 0.00 0.00 34.77 3.32
6481 12047 8.605947 AGCTGGATTATACCATGCTAATTCTAA 58.394 33.333 0.00 0.00 40.10 2.10
6491 12057 5.977635 TCCGAATAGCTGGATTATACCATG 58.022 41.667 0.00 0.00 39.34 3.66
6561 12127 2.049156 GCAACCCCAAAGAAGCGC 60.049 61.111 0.00 0.00 0.00 5.92
6586 12152 0.328258 CAGGGTTGGATCCGTCCTTT 59.672 55.000 19.84 9.62 45.32 3.11
6768 12334 4.908601 AATATTCATCATCGTAGGCCCA 57.091 40.909 0.00 0.00 0.00 5.36
6820 12386 9.586435 AGATATCGATCGATTGCATATTGTAAA 57.414 29.630 33.46 12.82 37.15 2.01
6884 12450 6.144078 AGAAACTTTGACGGCTTAATTTGT 57.856 33.333 0.00 0.00 0.00 2.83
6921 12487 4.981806 TTCTTTCACAAAGTCAACCTGG 57.018 40.909 0.00 0.00 39.52 4.45
6961 12527 7.395190 TGTTTCATAACAATCATTCAGGGAG 57.605 36.000 0.00 0.00 41.15 4.30
6997 12563 9.190858 CATACTTGTGTCTTATCTAATCTGAGC 57.809 37.037 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.