Multiple sequence alignment - TraesCS7A01G474800

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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 TraesCS7A01G474800 chr7A 100.000 2705 0 0 1 2705 670166434 670169138 0.000000e+00 4996
1 TraesCS7A01G474800 chr7A 78.520 419 39 22 471 842 670342841 670342427 7.530000e-56 228
2 TraesCS7A01G474800 chr3D 91.297 2413 145 28 1 2409 55155507 55157858 0.000000e+00 3232
3 TraesCS7A01G474800 chr3D 92.308 91 4 1 1982 2069 55157345 55157435 2.830000e-25 126
4 TraesCS7A01G474800 chr7B 89.566 2463 135 48 1 2410 641367962 641370355 0.000000e+00 3013
5 TraesCS7A01G474800 chr7B 91.284 1962 123 25 54 1979 641742986 641741037 0.000000e+00 2632
6 TraesCS7A01G474800 chr7B 86.913 298 20 11 1988 2276 641741149 641740862 1.560000e-82 316
7 TraesCS7A01G474800 chr7B 78.817 524 65 24 15 533 641459786 641460268 7.270000e-81 311
8 TraesCS7A01G474800 chr7B 75.202 371 56 17 471 813 642077476 642077114 2.810000e-30 143
9 TraesCS7A01G474800 chr7D 92.090 2086 119 25 1 2060 577920978 577923043 0.000000e+00 2896
10 TraesCS7A01G474800 chr7D 78.555 872 112 36 15 838 577962448 577963292 3.110000e-139 505
11 TraesCS7A01G474800 chr7D 76.788 685 84 34 247 882 578164349 578163691 5.620000e-82 315
12 TraesCS7A01G474800 chr7D 90.129 233 19 3 151 383 577884852 577885080 1.570000e-77 300
13 TraesCS7A01G474800 chr7D 96.503 143 2 3 15 156 577882980 577883120 1.620000e-57 233
14 TraesCS7A01G474800 chr7D 91.617 167 11 2 2095 2261 577923390 577923553 7.530000e-56 228
15 TraesCS7A01G474800 chr7D 94.505 91 4 1 423 513 577885265 577885354 3.630000e-29 139


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 TraesCS7A01G474800 chr7A 670166434 670169138 2704 False 4996 4996 100.000000 1 2705 1 chr7A.!!$F1 2704
1 TraesCS7A01G474800 chr3D 55155507 55157858 2351 False 1679 3232 91.802500 1 2409 2 chr3D.!!$F1 2408
2 TraesCS7A01G474800 chr7B 641367962 641370355 2393 False 3013 3013 89.566000 1 2410 1 chr7B.!!$F1 2409
3 TraesCS7A01G474800 chr7B 641740862 641742986 2124 True 1474 2632 89.098500 54 2276 2 chr7B.!!$R2 2222
4 TraesCS7A01G474800 chr7D 577920978 577923553 2575 False 1562 2896 91.853500 1 2261 2 chr7D.!!$F3 2260
5 TraesCS7A01G474800 chr7D 577962448 577963292 844 False 505 505 78.555000 15 838 1 chr7D.!!$F1 823
6 TraesCS7A01G474800 chr7D 578163691 578164349 658 True 315 315 76.788000 247 882 1 chr7D.!!$R1 635
7 TraesCS7A01G474800 chr7D 577882980 577885354 2374 False 224 300 93.712333 15 513 3 chr7D.!!$F2 498

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
844 2781 2.447429 ACCTAGAGGCTAGCACTATCCA 59.553 50.0 18.24 0.0 39.32 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2454 4774 0.032678 CGGACTGCTCGAGCCATATT 59.967 55.0 33.23 13.5 41.18 1.28 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
530 2422 4.864247 GCTAATTTTGTGGTGGCTTACATG 59.136 41.667 0.00 0.00 0.00 3.21
662 2591 5.483685 TTTAACTATGTCTGCTCTGGTGT 57.516 39.130 0.00 0.00 0.00 4.16
688 2617 9.832445 TTGTTACTCAGAACTGATCTTAGTTTT 57.168 29.630 7.02 0.00 39.11 2.43
689 2618 9.261180 TGTTACTCAGAACTGATCTTAGTTTTG 57.739 33.333 7.02 9.13 39.11 2.44
735 2669 5.652014 TCATTTTGCGAGGATCCTAACAAAT 59.348 36.000 28.98 20.76 33.73 2.32
843 2780 3.163616 ACCTAGAGGCTAGCACTATCC 57.836 52.381 18.24 0.00 39.32 2.59
844 2781 2.447429 ACCTAGAGGCTAGCACTATCCA 59.553 50.000 18.24 0.00 39.32 3.41
845 2782 3.117093 ACCTAGAGGCTAGCACTATCCAA 60.117 47.826 18.24 0.00 39.32 3.53
846 2783 3.257127 CCTAGAGGCTAGCACTATCCAAC 59.743 52.174 18.24 0.00 0.00 3.77
887 2839 8.742777 TCTTACTTTATGATTGAGCTGCAATTT 58.257 29.630 1.02 6.66 46.90 1.82
1027 2981 1.004440 ACTTCGCAACCTCAGCCTC 60.004 57.895 0.00 0.00 0.00 4.70
1069 3023 0.029300 CGGTTCACAGCCAACACAAG 59.971 55.000 0.00 0.00 0.00 3.16
1070 3024 1.388547 GGTTCACAGCCAACACAAGA 58.611 50.000 0.00 0.00 0.00 3.02
1214 3168 1.380403 CGGTCAGAGATCGAGCAGGT 61.380 60.000 2.38 0.00 38.59 4.00
1341 3295 0.723414 AAGCATGCGAGATGTTCACG 59.277 50.000 13.01 0.00 33.67 4.35
1355 3309 0.109272 TTCACGCTGGAGATGACGAC 60.109 55.000 0.00 0.00 0.00 4.34
1375 3329 0.179073 GAGGTCATGGATGGTCACCG 60.179 60.000 0.00 0.00 31.92 4.94
1386 3340 0.761323 TGGTCACCGAGGAGGACAAA 60.761 55.000 16.04 5.62 45.00 2.83
1419 3373 4.498520 AGGAGTGACATCGCCGCG 62.499 66.667 6.39 6.39 32.66 6.46
1438 3392 1.153745 GCTGTGGCTAGGACTGACG 60.154 63.158 0.00 0.00 35.22 4.35
1439 3393 1.595993 GCTGTGGCTAGGACTGACGA 61.596 60.000 0.00 0.00 35.22 4.20
1450 3404 2.422832 AGGACTGACGATTACGACTTCC 59.577 50.000 0.00 0.00 42.66 3.46
1461 3415 1.813513 ACGACTTCCTGCTGGATTTG 58.186 50.000 13.72 9.81 42.81 2.32
1485 3439 2.175202 ACCAGAGAAGAGACGAAGCAT 58.825 47.619 0.00 0.00 0.00 3.79
1492 3446 1.153349 GAGACGAAGCATGGGGTCC 60.153 63.158 0.00 0.00 0.00 4.46
1499 3453 2.825836 GCATGGGGTCCTGCTTCG 60.826 66.667 0.00 0.00 35.49 3.79
1593 3553 1.227263 AGGTGCGTCGATGGCATAC 60.227 57.895 15.73 12.21 43.19 2.39
1648 3608 0.749454 GGTACAAGAGCAGGGCCATG 60.749 60.000 14.45 14.45 0.00 3.66
1697 3657 0.397941 CCTCAGCAACAACAGGAGGA 59.602 55.000 0.00 0.00 46.38 3.71
1735 3695 3.516615 CAGATTCAGAGTCCTCGTTTCC 58.483 50.000 0.00 0.00 34.09 3.13
1740 3700 1.153804 GAGTCCTCGTTTCCGCCTC 60.154 63.158 0.00 0.00 0.00 4.70
1777 3741 0.509499 TGGTTTCGCGTTAGCTTTCG 59.491 50.000 5.77 0.00 42.32 3.46
1793 3760 4.743151 AGCTTTCGCATTATCGTTATTCGA 59.257 37.500 0.00 0.00 45.48 3.71
1820 3789 2.202932 CGGGCGGTTCTGATCAGG 60.203 66.667 22.42 7.57 0.00 3.86
1865 3858 5.466728 TGCTGTTGTCATTTGAGAAGTACTC 59.533 40.000 0.00 0.00 45.11 2.59
1887 3880 8.545229 ACTCTGAATTTGTGATTTGAGACTAG 57.455 34.615 0.00 0.00 0.00 2.57
1913 3906 4.854839 GGTCGAATTTTACCATTCCAAACG 59.145 41.667 5.51 0.00 35.73 3.60
1921 3914 3.092334 ACCATTCCAAACGCAAAAGTC 57.908 42.857 0.00 0.00 0.00 3.01
1937 3931 4.147449 TCGGCCTCTGGTGATGCG 62.147 66.667 0.00 0.00 35.17 4.73
1941 3935 1.672356 GCCTCTGGTGATGCGTTGT 60.672 57.895 0.00 0.00 0.00 3.32
1946 3940 3.252215 CCTCTGGTGATGCGTTGTTTTTA 59.748 43.478 0.00 0.00 0.00 1.52
1947 3941 4.082787 CCTCTGGTGATGCGTTGTTTTTAT 60.083 41.667 0.00 0.00 0.00 1.40
1955 3949 9.562583 GGTGATGCGTTGTTTTTATTTTCTATA 57.437 29.630 0.00 0.00 0.00 1.31
2016 4010 6.480524 TTGTGATTTGAGACTAATTGGTCG 57.519 37.500 15.34 0.00 40.76 4.79
2022 4016 8.450964 TGATTTGAGACTAATTGGTCGAATTTC 58.549 33.333 15.34 11.60 40.76 2.17
2064 4061 2.629617 CCTCTGGTGATGCCTTGTTTTT 59.370 45.455 0.00 0.00 38.35 1.94
2122 4431 5.431420 TGTGGTTGTTAAGCTGTATTGTG 57.569 39.130 0.00 0.00 0.00 3.33
2246 4563 3.308323 GCTGAAGCATGACAAGTAGTAGC 59.692 47.826 0.00 0.00 41.59 3.58
2287 4606 4.764172 AGTTGTAGAGCATCATCAAGTCC 58.236 43.478 0.00 0.00 37.82 3.85
2291 4610 5.809001 TGTAGAGCATCATCAAGTCCTTTT 58.191 37.500 0.00 0.00 37.82 2.27
2292 4611 5.645067 TGTAGAGCATCATCAAGTCCTTTTG 59.355 40.000 0.00 0.00 37.82 2.44
2307 4627 1.946768 CTTTTGGACGACAGGAAAGCA 59.053 47.619 0.00 0.00 0.00 3.91
2319 4639 1.239347 GGAAAGCACTGTTCCTCACC 58.761 55.000 0.00 0.00 41.25 4.02
2322 4642 0.249911 AAGCACTGTTCCTCACCGAC 60.250 55.000 0.00 0.00 0.00 4.79
2326 4646 3.934391 CTGTTCCTCACCGACCCGC 62.934 68.421 0.00 0.00 0.00 6.13
2349 4669 1.065926 TGTCACTGGGTGATGCAGATC 60.066 52.381 3.67 0.00 44.63 2.75
2410 4730 1.219124 CCACGCCTGCTATCACAGT 59.781 57.895 0.00 0.00 35.83 3.55
2411 4731 0.391661 CCACGCCTGCTATCACAGTT 60.392 55.000 0.00 0.00 35.83 3.16
2412 4732 1.442769 CACGCCTGCTATCACAGTTT 58.557 50.000 0.00 0.00 35.83 2.66
2413 4733 1.806542 CACGCCTGCTATCACAGTTTT 59.193 47.619 0.00 0.00 35.83 2.43
2414 4734 1.806542 ACGCCTGCTATCACAGTTTTG 59.193 47.619 0.00 0.00 35.83 2.44
2415 4735 1.806542 CGCCTGCTATCACAGTTTTGT 59.193 47.619 0.00 0.00 38.31 2.83
2427 4747 3.067106 ACAGTTTTGTGAGTAGCCATCG 58.933 45.455 0.00 0.00 35.83 3.84
2428 4748 3.244078 ACAGTTTTGTGAGTAGCCATCGA 60.244 43.478 0.00 0.00 35.83 3.59
2429 4749 3.935203 CAGTTTTGTGAGTAGCCATCGAT 59.065 43.478 0.00 0.00 0.00 3.59
2430 4750 3.935203 AGTTTTGTGAGTAGCCATCGATG 59.065 43.478 18.76 18.76 0.00 3.84
2444 4764 4.069869 GATGGCCATCGATGTGGG 57.930 61.111 29.34 10.14 39.73 4.61
2445 4765 1.601759 GATGGCCATCGATGTGGGG 60.602 63.158 29.34 9.77 39.73 4.96
2446 4766 2.343475 GATGGCCATCGATGTGGGGT 62.343 60.000 29.34 0.00 39.73 4.95
2447 4767 1.059584 ATGGCCATCGATGTGGGGTA 61.060 55.000 23.27 4.81 39.73 3.69
2448 4768 1.275421 TGGCCATCGATGTGGGGTAA 61.275 55.000 23.27 0.00 39.73 2.85
2449 4769 0.110486 GGCCATCGATGTGGGGTAAT 59.890 55.000 23.27 0.00 39.73 1.89
2450 4770 1.523758 GCCATCGATGTGGGGTAATC 58.476 55.000 23.27 0.00 39.73 1.75
2451 4771 1.202758 GCCATCGATGTGGGGTAATCA 60.203 52.381 23.27 0.00 39.73 2.57
2452 4772 2.748132 GCCATCGATGTGGGGTAATCAA 60.748 50.000 23.27 0.00 39.73 2.57
2453 4773 3.754965 CCATCGATGTGGGGTAATCAAT 58.245 45.455 23.27 0.00 35.55 2.57
2454 4774 4.805947 GCCATCGATGTGGGGTAATCAATA 60.806 45.833 23.27 0.00 39.73 1.90
2455 4775 5.312895 CCATCGATGTGGGGTAATCAATAA 58.687 41.667 23.27 0.00 35.55 1.40
2456 4776 5.945784 CCATCGATGTGGGGTAATCAATAAT 59.054 40.000 23.27 0.00 35.55 1.28
2457 4777 7.109501 CCATCGATGTGGGGTAATCAATAATA 58.890 38.462 23.27 0.00 35.55 0.98
2458 4778 7.775093 CCATCGATGTGGGGTAATCAATAATAT 59.225 37.037 23.27 0.00 35.55 1.28
2459 4779 8.615211 CATCGATGTGGGGTAATCAATAATATG 58.385 37.037 17.50 0.00 0.00 1.78
2460 4780 7.109501 TCGATGTGGGGTAATCAATAATATGG 58.890 38.462 0.00 0.00 0.00 2.74
2461 4781 6.183360 CGATGTGGGGTAATCAATAATATGGC 60.183 42.308 0.00 0.00 0.00 4.40
2462 4782 6.212840 TGTGGGGTAATCAATAATATGGCT 57.787 37.500 0.00 0.00 0.00 4.75
2463 4783 6.245408 TGTGGGGTAATCAATAATATGGCTC 58.755 40.000 0.00 0.00 0.00 4.70
2464 4784 5.354234 GTGGGGTAATCAATAATATGGCTCG 59.646 44.000 0.00 0.00 0.00 5.03
2465 4785 5.249622 TGGGGTAATCAATAATATGGCTCGA 59.750 40.000 0.00 0.00 0.00 4.04
2466 4786 5.817816 GGGGTAATCAATAATATGGCTCGAG 59.182 44.000 8.45 8.45 0.00 4.04
2467 4787 5.294552 GGGTAATCAATAATATGGCTCGAGC 59.705 44.000 29.38 29.38 41.14 5.03
2468 4788 5.874810 GGTAATCAATAATATGGCTCGAGCA 59.125 40.000 36.27 23.25 44.36 4.26
2469 4789 6.036517 GGTAATCAATAATATGGCTCGAGCAG 59.963 42.308 36.27 14.80 44.36 4.24
2470 4790 4.607293 TCAATAATATGGCTCGAGCAGT 57.393 40.909 36.27 25.76 44.36 4.40
2471 4791 4.560128 TCAATAATATGGCTCGAGCAGTC 58.440 43.478 36.27 20.97 44.36 3.51
2472 4792 3.601443 ATAATATGGCTCGAGCAGTCC 57.399 47.619 36.27 20.61 44.36 3.85
2473 4793 0.032678 AATATGGCTCGAGCAGTCCG 59.967 55.000 36.27 0.00 44.36 4.79
2474 4794 1.109920 ATATGGCTCGAGCAGTCCGT 61.110 55.000 36.27 22.51 44.36 4.69
2475 4795 1.725557 TATGGCTCGAGCAGTCCGTC 61.726 60.000 36.27 18.81 44.36 4.79
2476 4796 4.838486 GGCTCGAGCAGTCCGTCG 62.838 72.222 36.27 0.00 44.36 5.12
2478 4798 4.838486 CTCGAGCAGTCCGTCGCC 62.838 72.222 0.00 0.00 36.11 5.54
2481 4801 4.357947 GAGCAGTCCGTCGCCACA 62.358 66.667 0.00 0.00 0.00 4.17
2482 4802 3.858868 GAGCAGTCCGTCGCCACAA 62.859 63.158 0.00 0.00 0.00 3.33
2483 4803 2.970324 GCAGTCCGTCGCCACAAA 60.970 61.111 0.00 0.00 0.00 2.83
2484 4804 2.954753 GCAGTCCGTCGCCACAAAG 61.955 63.158 0.00 0.00 0.00 2.77
2485 4805 2.030562 AGTCCGTCGCCACAAAGG 59.969 61.111 0.00 0.00 41.84 3.11
2486 4806 3.047877 GTCCGTCGCCACAAAGGG 61.048 66.667 0.00 0.00 38.09 3.95
2493 4813 4.986467 GCCACAAAGGGGATCGAT 57.014 55.556 0.00 0.00 38.09 3.59
2494 4814 2.707902 GCCACAAAGGGGATCGATC 58.292 57.895 17.36 17.36 38.09 3.69
2495 4815 0.107214 GCCACAAAGGGGATCGATCA 60.107 55.000 25.93 0.00 38.09 2.92
2496 4816 1.668419 CCACAAAGGGGATCGATCAC 58.332 55.000 25.93 23.05 0.00 3.06
2497 4817 1.065491 CCACAAAGGGGATCGATCACA 60.065 52.381 28.03 0.00 0.00 3.58
2498 4818 2.421952 CCACAAAGGGGATCGATCACAT 60.422 50.000 28.03 19.91 0.00 3.21
2499 4819 2.615447 CACAAAGGGGATCGATCACATG 59.385 50.000 28.03 23.23 0.00 3.21
2500 4820 1.605710 CAAAGGGGATCGATCACATGC 59.394 52.381 28.03 11.81 0.00 4.06
2501 4821 0.250038 AAGGGGATCGATCACATGCG 60.250 55.000 28.03 0.00 0.00 4.73
2502 4822 2.320587 GGGGATCGATCACATGCGC 61.321 63.158 28.03 13.81 0.00 6.09
2503 4823 2.661566 GGGATCGATCACATGCGCG 61.662 63.158 25.93 0.00 0.00 6.86
2504 4824 2.169563 GATCGATCACATGCGCGC 59.830 61.111 27.26 27.26 0.00 6.86
2505 4825 3.287121 GATCGATCACATGCGCGCC 62.287 63.158 30.77 11.42 0.00 6.53
2508 4828 4.580044 GATCACATGCGCGCCGTG 62.580 66.667 32.92 32.92 36.50 4.94
2529 4849 4.927782 TGCTGTGCCGGTGGTGTC 62.928 66.667 1.90 0.00 0.00 3.67
2530 4850 4.626081 GCTGTGCCGGTGGTGTCT 62.626 66.667 1.90 0.00 0.00 3.41
2531 4851 2.357517 CTGTGCCGGTGGTGTCTC 60.358 66.667 1.90 0.00 0.00 3.36
2532 4852 2.842462 TGTGCCGGTGGTGTCTCT 60.842 61.111 1.90 0.00 0.00 3.10
2533 4853 2.357517 GTGCCGGTGGTGTCTCTG 60.358 66.667 1.90 0.00 0.00 3.35
2534 4854 2.842462 TGCCGGTGGTGTCTCTGT 60.842 61.111 1.90 0.00 0.00 3.41
2535 4855 2.048127 GCCGGTGGTGTCTCTGTC 60.048 66.667 1.90 0.00 0.00 3.51
2536 4856 2.258591 CCGGTGGTGTCTCTGTCG 59.741 66.667 0.00 0.00 0.00 4.35
2537 4857 2.561956 CCGGTGGTGTCTCTGTCGT 61.562 63.158 0.00 0.00 0.00 4.34
2538 4858 1.371758 CGGTGGTGTCTCTGTCGTG 60.372 63.158 0.00 0.00 0.00 4.35
2539 4859 1.664965 GGTGGTGTCTCTGTCGTGC 60.665 63.158 0.00 0.00 0.00 5.34
2540 4860 2.016704 GTGGTGTCTCTGTCGTGCG 61.017 63.158 0.00 0.00 0.00 5.34
2541 4861 3.106407 GGTGTCTCTGTCGTGCGC 61.106 66.667 0.00 0.00 0.00 6.09
2542 4862 3.106407 GTGTCTCTGTCGTGCGCC 61.106 66.667 4.18 0.00 0.00 6.53
2543 4863 3.601685 TGTCTCTGTCGTGCGCCA 61.602 61.111 4.18 0.00 0.00 5.69
2544 4864 3.106407 GTCTCTGTCGTGCGCCAC 61.106 66.667 4.18 1.96 0.00 5.01
2545 4865 3.601685 TCTCTGTCGTGCGCCACA 61.602 61.111 4.18 4.15 33.40 4.17
2546 4866 3.108289 CTCTGTCGTGCGCCACAG 61.108 66.667 17.69 17.69 41.32 3.66
2547 4867 3.558099 CTCTGTCGTGCGCCACAGA 62.558 63.158 23.46 23.46 45.45 3.41
2548 4868 3.108289 CTGTCGTGCGCCACAGAG 61.108 66.667 18.81 2.87 42.37 3.35
2549 4869 4.662961 TGTCGTGCGCCACAGAGG 62.663 66.667 4.18 0.00 41.84 3.69
2558 4878 2.047844 CCACAGAGGCACAGACGG 60.048 66.667 0.00 0.00 0.00 4.79
2559 4879 2.740055 CACAGAGGCACAGACGGC 60.740 66.667 0.00 0.00 0.00 5.68
2560 4880 4.363990 ACAGAGGCACAGACGGCG 62.364 66.667 4.80 4.80 36.37 6.46
2561 4881 4.056125 CAGAGGCACAGACGGCGA 62.056 66.667 16.62 0.00 36.37 5.54
2562 4882 4.057428 AGAGGCACAGACGGCGAC 62.057 66.667 16.62 7.87 36.37 5.19
2566 4886 4.357947 GCACAGACGGCGACCTGA 62.358 66.667 29.30 0.00 34.65 3.86
2567 4887 2.126307 CACAGACGGCGACCTGAG 60.126 66.667 29.30 21.67 34.65 3.35
2568 4888 2.282251 ACAGACGGCGACCTGAGA 60.282 61.111 29.30 0.00 34.65 3.27
2569 4889 2.179517 CAGACGGCGACCTGAGAC 59.820 66.667 16.62 0.00 32.37 3.36
2570 4890 3.432588 AGACGGCGACCTGAGACG 61.433 66.667 16.62 0.00 0.00 4.18
2571 4891 4.477975 GACGGCGACCTGAGACGG 62.478 72.222 16.62 0.00 0.00 4.79
2576 4896 3.461773 CGACCTGAGACGGGGCAT 61.462 66.667 3.29 0.00 37.93 4.40
2577 4897 2.187946 GACCTGAGACGGGGCATG 59.812 66.667 0.00 0.00 37.97 4.06
2578 4898 3.391665 GACCTGAGACGGGGCATGG 62.392 68.421 0.00 0.00 37.97 3.66
2579 4899 3.402681 CCTGAGACGGGGCATGGT 61.403 66.667 0.00 0.00 0.00 3.55
2580 4900 2.187946 CTGAGACGGGGCATGGTC 59.812 66.667 0.00 0.00 0.00 4.02
2581 4901 3.391665 CTGAGACGGGGCATGGTCC 62.392 68.421 0.00 0.00 33.66 4.46
2582 4902 3.399181 GAGACGGGGCATGGTCCA 61.399 66.667 0.00 0.00 33.66 4.02
2583 4903 3.391665 GAGACGGGGCATGGTCCAG 62.392 68.421 0.00 0.00 33.66 3.86
2609 4929 2.667473 GCTTTGCCAAGATCAGCATT 57.333 45.000 0.86 0.00 39.11 3.56
2610 4930 2.268298 GCTTTGCCAAGATCAGCATTG 58.732 47.619 0.86 4.18 39.11 2.82
2611 4931 2.268298 CTTTGCCAAGATCAGCATTGC 58.732 47.619 0.00 0.00 39.11 3.56
2612 4932 1.258676 TTGCCAAGATCAGCATTGCA 58.741 45.000 11.91 0.00 39.11 4.08
2613 4933 0.815095 TGCCAAGATCAGCATTGCAG 59.185 50.000 11.91 2.57 33.08 4.41
2614 4934 1.100510 GCCAAGATCAGCATTGCAGA 58.899 50.000 11.91 8.97 0.00 4.26
2615 4935 1.681793 GCCAAGATCAGCATTGCAGAT 59.318 47.619 15.48 15.48 37.49 2.90
2616 4936 2.100916 GCCAAGATCAGCATTGCAGATT 59.899 45.455 16.46 1.56 35.03 2.40
2617 4937 3.706698 CCAAGATCAGCATTGCAGATTG 58.293 45.455 16.46 12.50 35.03 2.67
2618 4938 3.116300 CAAGATCAGCATTGCAGATTGC 58.884 45.455 16.46 9.58 45.29 3.56
2627 4947 2.359850 GCAGATTGCACCACGGGA 60.360 61.111 0.00 0.00 44.26 5.14
2628 4948 2.401766 GCAGATTGCACCACGGGAG 61.402 63.158 0.00 0.00 44.26 4.30
2629 4949 1.746615 CAGATTGCACCACGGGAGG 60.747 63.158 0.00 0.00 0.00 4.30
2630 4950 2.224159 AGATTGCACCACGGGAGGT 61.224 57.895 0.00 0.00 44.48 3.85
2638 4958 3.387716 CACGGGAGGTGGATCACA 58.612 61.111 0.00 0.00 43.16 3.58
2651 4971 4.987832 GTGGATCACACTACTCACTACTG 58.012 47.826 0.00 0.00 46.72 2.74
2652 4972 4.459685 GTGGATCACACTACTCACTACTGT 59.540 45.833 0.00 0.00 46.72 3.55
2653 4973 5.646793 GTGGATCACACTACTCACTACTGTA 59.353 44.000 0.00 0.00 46.72 2.74
2654 4974 5.880887 TGGATCACACTACTCACTACTGTAG 59.119 44.000 13.13 13.13 41.18 2.74
2655 4975 6.114089 GGATCACACTACTCACTACTGTAGA 58.886 44.000 21.01 0.00 39.36 2.59
2656 4976 6.768861 GGATCACACTACTCACTACTGTAGAT 59.231 42.308 21.01 3.27 39.36 1.98
2657 4977 7.932491 GGATCACACTACTCACTACTGTAGATA 59.068 40.741 21.01 7.60 39.36 1.98
2658 4978 8.896320 ATCACACTACTCACTACTGTAGATAG 57.104 38.462 21.01 17.43 39.36 2.08
2659 4979 6.762187 TCACACTACTCACTACTGTAGATAGC 59.238 42.308 21.01 0.00 39.36 2.97
2660 4980 6.764085 CACACTACTCACTACTGTAGATAGCT 59.236 42.308 21.01 10.12 39.36 3.32
2661 4981 7.927092 CACACTACTCACTACTGTAGATAGCTA 59.073 40.741 21.01 0.00 39.36 3.32
2662 4982 8.653191 ACACTACTCACTACTGTAGATAGCTAT 58.347 37.037 21.01 5.76 39.36 2.97
2666 4986 8.500753 ACTCACTACTGTAGATAGCTATATGC 57.499 38.462 21.01 10.16 43.29 3.14
2667 4987 8.103935 ACTCACTACTGTAGATAGCTATATGCA 58.896 37.037 21.01 16.70 45.94 3.96
2668 4988 8.270080 TCACTACTGTAGATAGCTATATGCAC 57.730 38.462 21.01 4.89 45.94 4.57
2669 4989 7.337184 TCACTACTGTAGATAGCTATATGCACC 59.663 40.741 21.01 0.00 45.94 5.01
2670 4990 7.121315 CACTACTGTAGATAGCTATATGCACCA 59.879 40.741 21.01 5.36 45.94 4.17
2671 4991 6.522625 ACTGTAGATAGCTATATGCACCAG 57.477 41.667 14.18 13.59 45.94 4.00
2672 4992 6.249192 ACTGTAGATAGCTATATGCACCAGA 58.751 40.000 14.18 0.00 45.94 3.86
2673 4993 6.721668 ACTGTAGATAGCTATATGCACCAGAA 59.278 38.462 14.18 0.00 45.94 3.02
2674 4994 7.233553 ACTGTAGATAGCTATATGCACCAGAAA 59.766 37.037 14.18 0.00 45.94 2.52
2675 4995 8.138928 TGTAGATAGCTATATGCACCAGAAAT 57.861 34.615 14.18 0.00 45.94 2.17
2676 4996 8.597167 TGTAGATAGCTATATGCACCAGAAATT 58.403 33.333 14.18 0.00 45.94 1.82
2677 4997 9.442047 GTAGATAGCTATATGCACCAGAAATTT 57.558 33.333 11.16 0.00 45.94 1.82
2679 4999 9.664332 AGATAGCTATATGCACCAGAAATTTAG 57.336 33.333 6.13 0.00 45.94 1.85
2680 5000 9.658799 GATAGCTATATGCACCAGAAATTTAGA 57.341 33.333 6.13 0.00 45.94 2.10
2681 5001 7.736447 AGCTATATGCACCAGAAATTTAGAC 57.264 36.000 0.00 0.00 45.94 2.59
2682 5002 6.425114 AGCTATATGCACCAGAAATTTAGACG 59.575 38.462 0.00 0.00 45.94 4.18
2683 5003 3.764885 ATGCACCAGAAATTTAGACGC 57.235 42.857 0.00 0.00 0.00 5.19
2684 5004 2.778299 TGCACCAGAAATTTAGACGCT 58.222 42.857 0.00 0.00 0.00 5.07
2685 5005 2.483877 TGCACCAGAAATTTAGACGCTG 59.516 45.455 0.00 0.00 0.00 5.18
2686 5006 2.742053 GCACCAGAAATTTAGACGCTGA 59.258 45.455 5.61 0.00 0.00 4.26
2687 5007 3.188460 GCACCAGAAATTTAGACGCTGAA 59.812 43.478 5.61 0.00 0.00 3.02
2688 5008 4.320202 GCACCAGAAATTTAGACGCTGAAA 60.320 41.667 5.61 0.00 0.00 2.69
2689 5009 5.619981 GCACCAGAAATTTAGACGCTGAAAT 60.620 40.000 5.61 0.00 0.00 2.17
2690 5010 5.796935 CACCAGAAATTTAGACGCTGAAATG 59.203 40.000 5.61 0.00 0.00 2.32
2691 5011 5.473504 ACCAGAAATTTAGACGCTGAAATGT 59.526 36.000 5.61 0.00 0.00 2.71
2692 5012 6.016276 ACCAGAAATTTAGACGCTGAAATGTT 60.016 34.615 5.61 0.00 0.00 2.71
2693 5013 6.863126 CCAGAAATTTAGACGCTGAAATGTTT 59.137 34.615 5.61 0.00 0.00 2.83
2694 5014 7.382218 CCAGAAATTTAGACGCTGAAATGTTTT 59.618 33.333 5.61 0.00 0.00 2.43
2695 5015 8.755018 CAGAAATTTAGACGCTGAAATGTTTTT 58.245 29.630 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
129 133 2.352651 CGAATACCAGCAGTGAACATGG 59.647 50.000 0.00 0.00 38.83 3.66
356 2100 2.460662 CTATCTCCAGGCATGCCCCG 62.461 65.000 33.14 23.59 36.58 5.73
438 2330 9.646427 GAATGACCTCTGGATAACATATAAGAC 57.354 37.037 0.00 0.00 0.00 3.01
530 2422 2.012673 CAACTGAGCCATTCTACAGCC 58.987 52.381 0.00 0.00 34.25 4.85
662 2591 9.832445 AAAACTAAGATCAGTTCTGAGTAACAA 57.168 29.630 8.47 0.00 44.33 2.83
708 2638 5.106317 TGTTAGGATCCTCGCAAAATGAAAC 60.106 40.000 20.22 13.21 0.00 2.78
735 2669 4.646945 TCAGTTTCAAACAGGGTGCATTTA 59.353 37.500 2.41 0.00 0.00 1.40
1160 3114 3.397439 GCTGGAGCTGCCTCTGGA 61.397 66.667 1.53 0.00 38.21 3.86
1214 3168 2.224523 GGGTGGTTCTTCATGTCAGTCA 60.225 50.000 0.00 0.00 0.00 3.41
1224 3178 2.035783 GGCAGGGGGTGGTTCTTC 59.964 66.667 0.00 0.00 0.00 2.87
1341 3295 1.064946 CCTCGTCGTCATCTCCAGC 59.935 63.158 0.00 0.00 0.00 4.85
1355 3309 0.179073 GGTGACCATCCATGACCTCG 60.179 60.000 0.00 0.00 0.00 4.63
1375 3329 2.434359 CCGGCGTTTGTCCTCCTC 60.434 66.667 6.01 0.00 0.00 3.71
1419 3373 1.219393 GTCAGTCCTAGCCACAGCC 59.781 63.158 0.00 0.00 41.25 4.85
1438 3392 2.961526 TCCAGCAGGAAGTCGTAATC 57.038 50.000 0.00 0.00 42.23 1.75
1450 3404 4.326826 TCTCTGGTAAACAAATCCAGCAG 58.673 43.478 5.67 0.00 45.67 4.24
1461 3415 3.921630 GCTTCGTCTCTTCTCTGGTAAAC 59.078 47.826 0.00 0.00 0.00 2.01
1470 3424 0.539051 CCCCATGCTTCGTCTCTTCT 59.461 55.000 0.00 0.00 0.00 2.85
1485 3439 1.987855 CCTACGAAGCAGGACCCCA 60.988 63.158 0.00 0.00 34.91 4.96
1492 3446 2.494918 CCCGGTCCTACGAAGCAG 59.505 66.667 0.00 0.00 35.47 4.24
1499 3453 4.840005 GCTGCTGCCCGGTCCTAC 62.840 72.222 3.85 0.00 0.00 3.18
1605 3565 2.691409 GCTCTTGCCACACATAGGTA 57.309 50.000 0.00 0.00 0.00 3.08
1648 3608 2.513897 GTAGGTGGACGCATGGGC 60.514 66.667 10.10 2.72 0.00 5.36
1650 3610 1.809619 CACGTAGGTGGACGCATGG 60.810 63.158 7.69 0.00 46.87 3.66
1651 3611 3.780693 CACGTAGGTGGACGCATG 58.219 61.111 7.69 0.00 46.87 4.06
1697 3657 0.835941 CTGGTGATAGCTTCAGGGCT 59.164 55.000 0.00 0.00 45.29 5.19
1758 3722 0.509499 CGAAAGCTAACGCGAAACCA 59.491 50.000 15.93 0.00 42.32 3.67
1793 3760 4.550697 ACCGCCCGTTTCAACCGT 62.551 61.111 0.00 0.00 0.00 4.83
1820 3789 5.299531 AGCAACCAAACTTCCTAAACTTCTC 59.700 40.000 0.00 0.00 0.00 2.87
1865 3858 8.019669 CCAACTAGTCTCAAATCACAAATTCAG 58.980 37.037 0.00 0.00 0.00 3.02
1913 3906 1.600916 ACCAGAGGCCGACTTTTGC 60.601 57.895 0.00 0.00 0.00 3.68
1973 3967 5.008514 CACAAATTCATGGTACTGACACACA 59.991 40.000 0.00 0.00 0.00 3.72
1979 3973 7.665145 TCTCAAATCACAAATTCATGGTACTGA 59.335 33.333 0.00 0.00 0.00 3.41
2079 4076 8.486210 ACCACAAGAAAACATAGCATAGATAGA 58.514 33.333 0.00 0.00 0.00 1.98
2089 4086 7.379529 CAGCTTAACAACCACAAGAAAACATAG 59.620 37.037 0.00 0.00 0.00 2.23
2246 4563 2.620115 ACTCCTGTTGTGCATTCAGTTG 59.380 45.455 12.34 8.33 0.00 3.16
2261 4580 4.397481 TGATGATGCTCTACAACTCCTG 57.603 45.455 0.00 0.00 0.00 3.86
2262 4581 4.469227 ACTTGATGATGCTCTACAACTCCT 59.531 41.667 0.00 0.00 0.00 3.69
2277 4596 3.181459 TGTCGTCCAAAAGGACTTGATGA 60.181 43.478 12.36 0.00 42.13 2.92
2287 4606 1.946768 TGCTTTCCTGTCGTCCAAAAG 59.053 47.619 0.00 0.00 0.00 2.27
2291 4610 0.249868 CAGTGCTTTCCTGTCGTCCA 60.250 55.000 0.00 0.00 0.00 4.02
2292 4611 0.249911 ACAGTGCTTTCCTGTCGTCC 60.250 55.000 0.00 0.00 38.81 4.79
2307 4627 2.571216 CGGGTCGGTGAGGAACAGT 61.571 63.158 0.00 0.00 0.00 3.55
2319 4639 2.738521 CAGTGACAAGGCGGGTCG 60.739 66.667 7.01 0.00 38.10 4.79
2322 4642 3.953775 ACCCAGTGACAAGGCGGG 61.954 66.667 0.00 0.00 43.02 6.13
2326 4646 0.250858 TGCATCACCCAGTGACAAGG 60.251 55.000 0.00 0.00 45.65 3.61
2349 4669 1.185315 AATGCCATCCCCTTTTGACG 58.815 50.000 0.00 0.00 0.00 4.35
2378 4698 2.241880 CGTGGACGGCGACTGTTTT 61.242 57.895 16.62 0.00 35.37 2.43
2410 4730 3.270027 CCATCGATGGCTACTCACAAAA 58.730 45.455 30.53 0.00 41.75 2.44
2411 4731 2.905075 CCATCGATGGCTACTCACAAA 58.095 47.619 30.53 0.00 41.75 2.83
2412 4732 2.602257 CCATCGATGGCTACTCACAA 57.398 50.000 30.53 0.00 41.75 3.33
2427 4747 1.601759 CCCCACATCGATGGCCATC 60.602 63.158 32.34 32.34 38.55 3.51
2428 4748 1.059584 TACCCCACATCGATGGCCAT 61.060 55.000 28.09 20.96 38.55 4.40
2429 4749 1.275421 TTACCCCACATCGATGGCCA 61.275 55.000 28.09 8.56 38.55 5.36
2430 4750 0.110486 ATTACCCCACATCGATGGCC 59.890 55.000 28.09 0.00 38.55 5.36
2431 4751 1.202758 TGATTACCCCACATCGATGGC 60.203 52.381 28.09 7.29 38.55 4.40
2432 4752 2.928801 TGATTACCCCACATCGATGG 57.071 50.000 28.09 14.06 39.71 3.51
2433 4753 8.615211 CATATTATTGATTACCCCACATCGATG 58.385 37.037 23.68 23.68 0.00 3.84
2434 4754 7.775093 CCATATTATTGATTACCCCACATCGAT 59.225 37.037 0.00 0.00 0.00 3.59
2435 4755 7.109501 CCATATTATTGATTACCCCACATCGA 58.890 38.462 0.00 0.00 0.00 3.59
2436 4756 6.183360 GCCATATTATTGATTACCCCACATCG 60.183 42.308 0.00 0.00 0.00 3.84
2437 4757 6.891908 AGCCATATTATTGATTACCCCACATC 59.108 38.462 0.00 0.00 0.00 3.06
2438 4758 6.804083 AGCCATATTATTGATTACCCCACAT 58.196 36.000 0.00 0.00 0.00 3.21
2439 4759 6.212840 AGCCATATTATTGATTACCCCACA 57.787 37.500 0.00 0.00 0.00 4.17
2440 4760 5.354234 CGAGCCATATTATTGATTACCCCAC 59.646 44.000 0.00 0.00 0.00 4.61
2441 4761 5.249622 TCGAGCCATATTATTGATTACCCCA 59.750 40.000 0.00 0.00 0.00 4.96
2442 4762 5.741011 TCGAGCCATATTATTGATTACCCC 58.259 41.667 0.00 0.00 0.00 4.95
2443 4763 5.294552 GCTCGAGCCATATTATTGATTACCC 59.705 44.000 27.22 0.00 34.31 3.69
2444 4764 5.874810 TGCTCGAGCCATATTATTGATTACC 59.125 40.000 33.23 0.99 41.18 2.85
2445 4765 6.591834 ACTGCTCGAGCCATATTATTGATTAC 59.408 38.462 33.23 1.36 41.18 1.89
2446 4766 6.701340 ACTGCTCGAGCCATATTATTGATTA 58.299 36.000 33.23 9.44 41.18 1.75
2447 4767 5.555017 ACTGCTCGAGCCATATTATTGATT 58.445 37.500 33.23 3.05 41.18 2.57
2448 4768 5.157940 ACTGCTCGAGCCATATTATTGAT 57.842 39.130 33.23 3.29 41.18 2.57
2449 4769 4.560128 GACTGCTCGAGCCATATTATTGA 58.440 43.478 33.23 10.63 41.18 2.57
2450 4770 3.681897 GGACTGCTCGAGCCATATTATTG 59.318 47.826 33.23 14.04 41.18 1.90
2451 4771 3.615110 CGGACTGCTCGAGCCATATTATT 60.615 47.826 33.23 8.84 41.18 1.40
2452 4772 2.094494 CGGACTGCTCGAGCCATATTAT 60.094 50.000 33.23 11.44 41.18 1.28
2453 4773 1.269723 CGGACTGCTCGAGCCATATTA 59.730 52.381 33.23 13.67 41.18 0.98
2454 4774 0.032678 CGGACTGCTCGAGCCATATT 59.967 55.000 33.23 13.50 41.18 1.28
2455 4775 1.109920 ACGGACTGCTCGAGCCATAT 61.110 55.000 33.23 16.51 41.18 1.78
2456 4776 1.725557 GACGGACTGCTCGAGCCATA 61.726 60.000 33.23 15.21 41.18 2.74
2457 4777 3.069980 GACGGACTGCTCGAGCCAT 62.070 63.158 33.23 21.76 41.18 4.40
2458 4778 3.749064 GACGGACTGCTCGAGCCA 61.749 66.667 33.23 20.09 41.18 4.75
2459 4779 4.838486 CGACGGACTGCTCGAGCC 62.838 72.222 33.23 18.49 41.18 4.70
2461 4781 4.838486 GGCGACGGACTGCTCGAG 62.838 72.222 8.45 8.45 31.24 4.04
2464 4784 3.858868 TTGTGGCGACGGACTGCTC 62.859 63.158 0.00 0.00 0.00 4.26
2465 4785 3.454587 TTTGTGGCGACGGACTGCT 62.455 57.895 0.00 0.00 0.00 4.24
2466 4786 2.954753 CTTTGTGGCGACGGACTGC 61.955 63.158 0.00 0.00 0.00 4.40
2467 4787 2.317609 CCTTTGTGGCGACGGACTG 61.318 63.158 0.00 0.00 0.00 3.51
2468 4788 2.030562 CCTTTGTGGCGACGGACT 59.969 61.111 0.00 0.00 0.00 3.85
2469 4789 3.047877 CCCTTTGTGGCGACGGAC 61.048 66.667 0.00 0.00 0.00 4.79
2470 4790 4.323477 CCCCTTTGTGGCGACGGA 62.323 66.667 0.00 0.00 0.00 4.69
2471 4791 3.622060 ATCCCCTTTGTGGCGACGG 62.622 63.158 0.00 0.00 0.00 4.79
2472 4792 2.046314 ATCCCCTTTGTGGCGACG 60.046 61.111 0.00 0.00 0.00 5.12
2473 4793 2.106683 CGATCCCCTTTGTGGCGAC 61.107 63.158 0.00 0.00 0.00 5.19
2474 4794 1.622607 ATCGATCCCCTTTGTGGCGA 61.623 55.000 0.00 0.00 32.73 5.54
2475 4795 1.153168 ATCGATCCCCTTTGTGGCG 60.153 57.895 0.00 0.00 0.00 5.69
2476 4796 0.107214 TGATCGATCCCCTTTGTGGC 60.107 55.000 22.31 0.00 0.00 5.01
2477 4797 1.065491 TGTGATCGATCCCCTTTGTGG 60.065 52.381 22.31 0.00 0.00 4.17
2478 4798 2.401583 TGTGATCGATCCCCTTTGTG 57.598 50.000 22.31 0.00 0.00 3.33
2479 4799 2.923121 CATGTGATCGATCCCCTTTGT 58.077 47.619 22.31 0.00 0.00 2.83
2480 4800 1.605710 GCATGTGATCGATCCCCTTTG 59.394 52.381 22.31 13.14 0.00 2.77
2481 4801 1.811558 CGCATGTGATCGATCCCCTTT 60.812 52.381 22.31 0.64 0.00 3.11
2482 4802 0.250038 CGCATGTGATCGATCCCCTT 60.250 55.000 22.31 8.55 0.00 3.95
2483 4803 1.368950 CGCATGTGATCGATCCCCT 59.631 57.895 22.31 1.04 0.00 4.79
2484 4804 2.320587 GCGCATGTGATCGATCCCC 61.321 63.158 22.31 13.25 0.00 4.81
2485 4805 2.661566 CGCGCATGTGATCGATCCC 61.662 63.158 22.31 12.08 0.00 3.85
2486 4806 2.849007 CGCGCATGTGATCGATCC 59.151 61.111 22.31 13.85 0.00 3.36
2487 4807 2.169563 GCGCGCATGTGATCGATC 59.830 61.111 29.10 18.72 0.00 3.69
2488 4808 3.341043 GGCGCGCATGTGATCGAT 61.341 61.111 34.42 0.00 0.00 3.59
2491 4811 4.580044 CACGGCGCGCATGTGATC 62.580 66.667 37.13 18.42 35.66 2.92
2512 4832 4.927782 GACACCACCGGCACAGCA 62.928 66.667 0.00 0.00 0.00 4.41
2513 4833 4.626081 AGACACCACCGGCACAGC 62.626 66.667 0.00 0.00 0.00 4.40
2514 4834 2.357517 GAGACACCACCGGCACAG 60.358 66.667 0.00 0.00 0.00 3.66
2515 4835 2.842462 AGAGACACCACCGGCACA 60.842 61.111 0.00 0.00 0.00 4.57
2516 4836 2.357517 CAGAGACACCACCGGCAC 60.358 66.667 0.00 0.00 0.00 5.01
2517 4837 2.842462 ACAGAGACACCACCGGCA 60.842 61.111 0.00 0.00 0.00 5.69
2518 4838 2.048127 GACAGAGACACCACCGGC 60.048 66.667 0.00 0.00 0.00 6.13
2519 4839 2.258591 CGACAGAGACACCACCGG 59.741 66.667 0.00 0.00 0.00 5.28
2520 4840 1.371758 CACGACAGAGACACCACCG 60.372 63.158 0.00 0.00 0.00 4.94
2521 4841 1.664965 GCACGACAGAGACACCACC 60.665 63.158 0.00 0.00 0.00 4.61
2522 4842 2.016704 CGCACGACAGAGACACCAC 61.017 63.158 0.00 0.00 0.00 4.16
2523 4843 2.335011 CGCACGACAGAGACACCA 59.665 61.111 0.00 0.00 0.00 4.17
2524 4844 3.106407 GCGCACGACAGAGACACC 61.106 66.667 0.30 0.00 0.00 4.16
2525 4845 3.106407 GGCGCACGACAGAGACAC 61.106 66.667 10.83 0.00 0.00 3.67
2526 4846 3.601685 TGGCGCACGACAGAGACA 61.602 61.111 10.83 0.00 0.00 3.41
2527 4847 3.106407 GTGGCGCACGACAGAGAC 61.106 66.667 10.83 0.00 31.40 3.36
2528 4848 3.558099 CTGTGGCGCACGACAGAGA 62.558 63.158 17.39 0.00 46.22 3.10
2529 4849 3.108289 CTGTGGCGCACGACAGAG 61.108 66.667 22.25 8.76 41.90 3.35
2530 4850 3.558099 CTCTGTGGCGCACGACAGA 62.558 63.158 25.50 25.50 44.99 3.41
2531 4851 3.108289 CTCTGTGGCGCACGACAG 61.108 66.667 21.24 21.24 40.89 3.51
2532 4852 4.662961 CCTCTGTGGCGCACGACA 62.663 66.667 10.83 7.90 37.14 4.35
2541 4861 2.047844 CCGTCTGTGCCTCTGTGG 60.048 66.667 0.00 0.00 39.35 4.17
2542 4862 2.740055 GCCGTCTGTGCCTCTGTG 60.740 66.667 0.00 0.00 0.00 3.66
2543 4863 4.363990 CGCCGTCTGTGCCTCTGT 62.364 66.667 0.00 0.00 0.00 3.41
2544 4864 4.056125 TCGCCGTCTGTGCCTCTG 62.056 66.667 0.00 0.00 0.00 3.35
2545 4865 4.057428 GTCGCCGTCTGTGCCTCT 62.057 66.667 0.00 0.00 0.00 3.69
2549 4869 4.357947 TCAGGTCGCCGTCTGTGC 62.358 66.667 9.22 0.00 33.13 4.57
2550 4870 2.126307 CTCAGGTCGCCGTCTGTG 60.126 66.667 9.22 4.67 33.13 3.66
2551 4871 2.282251 TCTCAGGTCGCCGTCTGT 60.282 61.111 9.22 0.00 33.13 3.41
2552 4872 2.179517 GTCTCAGGTCGCCGTCTG 59.820 66.667 4.39 4.39 0.00 3.51
2553 4873 3.432588 CGTCTCAGGTCGCCGTCT 61.433 66.667 0.00 0.00 0.00 4.18
2554 4874 4.477975 CCGTCTCAGGTCGCCGTC 62.478 72.222 0.00 0.00 0.00 4.79
2559 4879 3.461773 ATGCCCCGTCTCAGGTCG 61.462 66.667 0.00 0.00 0.00 4.79
2560 4880 2.187946 CATGCCCCGTCTCAGGTC 59.812 66.667 0.00 0.00 0.00 3.85
2561 4881 3.402681 CCATGCCCCGTCTCAGGT 61.403 66.667 0.00 0.00 0.00 4.00
2562 4882 3.391665 GACCATGCCCCGTCTCAGG 62.392 68.421 0.00 0.00 0.00 3.86
2563 4883 2.187946 GACCATGCCCCGTCTCAG 59.812 66.667 0.00 0.00 0.00 3.35
2564 4884 3.399181 GGACCATGCCCCGTCTCA 61.399 66.667 0.00 0.00 0.00 3.27
2565 4885 3.391665 CTGGACCATGCCCCGTCTC 62.392 68.421 0.00 0.00 0.00 3.36
2566 4886 3.402681 CTGGACCATGCCCCGTCT 61.403 66.667 0.00 0.00 0.00 4.18
2590 4910 2.268298 CAATGCTGATCTTGGCAAAGC 58.732 47.619 13.37 13.37 41.90 3.51
2591 4911 2.268298 GCAATGCTGATCTTGGCAAAG 58.732 47.619 0.00 0.00 41.90 2.77
2592 4912 1.619332 TGCAATGCTGATCTTGGCAAA 59.381 42.857 6.82 0.00 41.90 3.68
2593 4913 1.203758 CTGCAATGCTGATCTTGGCAA 59.796 47.619 6.82 0.00 41.90 4.52
2594 4914 0.815095 CTGCAATGCTGATCTTGGCA 59.185 50.000 6.82 10.03 42.80 4.92
2595 4915 1.100510 TCTGCAATGCTGATCTTGGC 58.899 50.000 10.78 0.00 31.90 4.52
2596 4916 3.706698 CAATCTGCAATGCTGATCTTGG 58.293 45.455 24.16 12.66 44.24 3.61
2597 4917 3.116300 GCAATCTGCAATGCTGATCTTG 58.884 45.455 24.16 20.80 44.24 3.02
2598 4918 3.438297 GCAATCTGCAATGCTGATCTT 57.562 42.857 24.16 10.83 44.24 2.40
2610 4930 2.359850 TCCCGTGGTGCAATCTGC 60.360 61.111 0.00 0.00 45.29 4.26
2611 4931 1.746615 CCTCCCGTGGTGCAATCTG 60.747 63.158 0.00 0.00 0.00 2.90
2612 4932 2.224159 ACCTCCCGTGGTGCAATCT 61.224 57.895 0.00 0.00 39.17 2.40
2613 4933 2.351276 ACCTCCCGTGGTGCAATC 59.649 61.111 0.00 0.00 39.17 2.67
2621 4941 1.079127 GTGTGATCCACCTCCCGTG 60.079 63.158 3.65 0.00 42.62 4.94
2622 4942 0.040646 TAGTGTGATCCACCTCCCGT 59.959 55.000 9.80 0.00 45.74 5.28
2623 4943 0.460311 GTAGTGTGATCCACCTCCCG 59.540 60.000 9.80 0.00 45.74 5.14
2624 4944 1.757699 GAGTAGTGTGATCCACCTCCC 59.242 57.143 9.80 0.00 45.74 4.30
2625 4945 2.166664 GTGAGTAGTGTGATCCACCTCC 59.833 54.545 9.80 1.10 45.74 4.30
2626 4946 3.093057 AGTGAGTAGTGTGATCCACCTC 58.907 50.000 9.80 10.32 45.74 3.85
2627 4947 3.176924 AGTGAGTAGTGTGATCCACCT 57.823 47.619 9.80 2.94 45.74 4.00
2628 4948 4.017808 AGTAGTGAGTAGTGTGATCCACC 58.982 47.826 9.80 0.00 45.74 4.61
2629 4949 4.459685 ACAGTAGTGAGTAGTGTGATCCAC 59.540 45.833 6.97 6.29 42.74 4.02
2630 4950 4.663334 ACAGTAGTGAGTAGTGTGATCCA 58.337 43.478 6.97 0.00 42.74 3.41
2631 4951 6.114089 TCTACAGTAGTGAGTAGTGTGATCC 58.886 44.000 16.10 0.00 43.89 3.36
2632 4952 7.795482 ATCTACAGTAGTGAGTAGTGTGATC 57.205 40.000 16.10 0.00 43.89 2.92
2633 4953 7.442969 GCTATCTACAGTAGTGAGTAGTGTGAT 59.557 40.741 16.10 16.51 43.89 3.06
2634 4954 6.762187 GCTATCTACAGTAGTGAGTAGTGTGA 59.238 42.308 16.10 11.90 43.89 3.58
2635 4955 6.764085 AGCTATCTACAGTAGTGAGTAGTGTG 59.236 42.308 16.10 7.81 43.89 3.82
2636 4956 6.891388 AGCTATCTACAGTAGTGAGTAGTGT 58.109 40.000 12.06 12.06 45.65 3.55
2640 4960 9.602568 GCATATAGCTATCTACAGTAGTGAGTA 57.397 37.037 10.16 3.19 41.15 2.59
2641 4961 8.103935 TGCATATAGCTATCTACAGTAGTGAGT 58.896 37.037 10.16 0.00 45.94 3.41
2642 4962 8.394877 GTGCATATAGCTATCTACAGTAGTGAG 58.605 40.741 10.16 7.19 45.94 3.51
2643 4963 7.337184 GGTGCATATAGCTATCTACAGTAGTGA 59.663 40.741 10.16 0.00 45.94 3.41
2644 4964 7.121315 TGGTGCATATAGCTATCTACAGTAGTG 59.879 40.741 10.16 0.00 45.94 2.74
2645 4965 7.175797 TGGTGCATATAGCTATCTACAGTAGT 58.824 38.462 10.16 0.00 45.94 2.73
2646 4966 7.554476 TCTGGTGCATATAGCTATCTACAGTAG 59.446 40.741 10.16 0.47 45.94 2.57
2647 4967 7.402862 TCTGGTGCATATAGCTATCTACAGTA 58.597 38.462 10.16 0.00 45.94 2.74
2648 4968 6.249192 TCTGGTGCATATAGCTATCTACAGT 58.751 40.000 10.16 0.00 45.94 3.55
2649 4969 6.765915 TCTGGTGCATATAGCTATCTACAG 57.234 41.667 10.16 11.01 45.94 2.74
2650 4970 7.539034 TTTCTGGTGCATATAGCTATCTACA 57.461 36.000 10.16 3.99 45.94 2.74
2651 4971 9.442047 AAATTTCTGGTGCATATAGCTATCTAC 57.558 33.333 10.16 5.40 45.94 2.59
2653 4973 9.664332 CTAAATTTCTGGTGCATATAGCTATCT 57.336 33.333 10.16 0.00 45.94 1.98
2654 4974 9.658799 TCTAAATTTCTGGTGCATATAGCTATC 57.341 33.333 10.16 0.00 45.94 2.08
2655 4975 9.442047 GTCTAAATTTCTGGTGCATATAGCTAT 57.558 33.333 11.77 11.77 45.94 2.97
2656 4976 7.598869 CGTCTAAATTTCTGGTGCATATAGCTA 59.401 37.037 0.00 0.00 45.94 3.32
2657 4977 6.425114 CGTCTAAATTTCTGGTGCATATAGCT 59.575 38.462 0.00 0.00 45.94 3.32
2658 4978 6.593978 CGTCTAAATTTCTGGTGCATATAGC 58.406 40.000 0.00 0.00 45.96 2.97
2659 4979 6.425114 AGCGTCTAAATTTCTGGTGCATATAG 59.575 38.462 0.00 0.00 0.00 1.31
2660 4980 6.202762 CAGCGTCTAAATTTCTGGTGCATATA 59.797 38.462 0.00 0.00 0.00 0.86
2661 4981 5.008019 CAGCGTCTAAATTTCTGGTGCATAT 59.992 40.000 0.00 0.00 0.00 1.78
2662 4982 4.332543 CAGCGTCTAAATTTCTGGTGCATA 59.667 41.667 0.00 0.00 0.00 3.14
2663 4983 3.127548 CAGCGTCTAAATTTCTGGTGCAT 59.872 43.478 0.00 0.00 0.00 3.96
2664 4984 2.483877 CAGCGTCTAAATTTCTGGTGCA 59.516 45.455 0.00 0.00 0.00 4.57
2665 4985 2.742053 TCAGCGTCTAAATTTCTGGTGC 59.258 45.455 0.00 0.00 0.00 5.01
2666 4986 5.356882 TTTCAGCGTCTAAATTTCTGGTG 57.643 39.130 0.00 0.00 0.00 4.17
2667 4987 5.473504 ACATTTCAGCGTCTAAATTTCTGGT 59.526 36.000 0.00 0.00 0.00 4.00
2668 4988 5.942872 ACATTTCAGCGTCTAAATTTCTGG 58.057 37.500 0.00 0.00 0.00 3.86
2669 4989 7.858052 AAACATTTCAGCGTCTAAATTTCTG 57.142 32.000 0.00 0.00 0.00 3.02
2670 4990 8.871686 AAAAACATTTCAGCGTCTAAATTTCT 57.128 26.923 0.00 0.00 0.00 2.52


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

AutoCloner maintained by Alex Coulton.