Multiple sequence alignment - TraesCS6B01G181900

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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 TraesCS6B01G181900 chr6B 100.000 9135 0 0 1 9135 203932073 203922939 0.000000e+00 16870.0
1 TraesCS6B01G181900 chr6B 90.468 1815 156 9 4887 6687 347865043 347866854 0.000000e+00 2377.0
2 TraesCS6B01G181900 chr6B 95.565 248 10 1 6444 6690 203927207 203926960 6.650000e-106 396.0
3 TraesCS6B01G181900 chr6A 93.630 4914 214 46 6 4880 142791135 142786282 0.000000e+00 7249.0
4 TraesCS6B01G181900 chr6A 93.920 1908 62 20 6688 8567 142786291 142784410 0.000000e+00 2832.0
5 TraesCS6B01G181900 chr6A 89.703 573 25 5 8597 9135 142784221 142783649 0.000000e+00 701.0
6 TraesCS6B01G181900 chr6A 94.872 39 2 0 6936 6974 142786103 142786065 2.750000e-05 62.1
7 TraesCS6B01G181900 chr6D 93.043 2803 116 34 2090 4880 114237721 114234986 0.000000e+00 4023.0
8 TraesCS6B01G181900 chr6D 95.154 2497 64 15 6688 9135 114234995 114232507 0.000000e+00 3888.0
9 TraesCS6B01G181900 chr6D 93.046 2114 108 19 1 2094 114240221 114238127 0.000000e+00 3053.0
10 TraesCS6B01G181900 chr6D 94.872 39 2 0 6936 6974 114234805 114234767 2.750000e-05 62.1
11 TraesCS6B01G181900 chr7B 97.035 1821 44 4 4875 6690 13628398 13626583 0.000000e+00 3055.0
12 TraesCS6B01G181900 chr7B 93.063 1701 101 5 5005 6688 240657326 240659026 0.000000e+00 2471.0
13 TraesCS6B01G181900 chr7B 90.695 763 47 10 5938 6693 160479900 160479155 0.000000e+00 994.0
14 TraesCS6B01G181900 chr7B 91.155 407 30 1 6287 6687 285450543 285450949 1.730000e-151 547.0
15 TraesCS6B01G181900 chr7B 96.624 237 8 0 6454 6690 13628395 13628159 2.390000e-105 394.0
16 TraesCS6B01G181900 chr5B 93.388 1815 106 4 4887 6687 94094096 94095910 0.000000e+00 2675.0
17 TraesCS6B01G181900 chr5B 92.869 1823 112 5 4887 6691 699611165 699609343 0.000000e+00 2630.0
18 TraesCS6B01G181900 chr5B 92.754 1725 105 7 4887 6595 216857036 216858756 0.000000e+00 2475.0
19 TraesCS6B01G181900 chr4B 91.956 1815 130 6 4887 6687 409481461 409483273 0.000000e+00 2529.0
20 TraesCS6B01G181900 chr4B 91.235 1814 135 8 4898 6688 324353573 324355385 0.000000e+00 2447.0
21 TraesCS6B01G181900 chr4B 93.590 390 25 0 6287 6676 274682585 274682196 4.750000e-162 582.0
22 TraesCS6B01G181900 chr3B 91.736 1815 120 9 4887 6687 391794025 391792227 0.000000e+00 2494.0
23 TraesCS6B01G181900 chr3B 96.903 226 7 0 4887 5112 671571795 671572020 6.690000e-101 379.0
24 TraesCS6B01G181900 chr3B 88.000 50 3 3 7681 7729 711732393 711732440 1.000000e-03 56.5
25 TraesCS6B01G181900 chr1B 94.915 413 12 2 6287 6690 141119474 141119886 1.000000e-178 638.0
26 TraesCS6B01G181900 chr2B 87.811 402 39 7 6288 6687 760788795 760789188 6.460000e-126 462.0
27 TraesCS6B01G181900 chr2B 94.332 247 13 1 6445 6690 559425181 559424935 2.410000e-100 377.0
28 TraesCS6B01G181900 chr7D 77.225 382 81 5 1020 1398 587833058 587833436 1.540000e-52 219.0
29 TraesCS6B01G181900 chr7A 76.702 382 83 4 1020 1398 679760799 679761177 3.340000e-49 207.0


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 TraesCS6B01G181900 chr6B 203922939 203932073 9134 True 16870.000 16870 100.00000 1 9135 1 chr6B.!!$R1 9134
1 TraesCS6B01G181900 chr6B 347865043 347866854 1811 False 2377.000 2377 90.46800 4887 6687 1 chr6B.!!$F1 1800
2 TraesCS6B01G181900 chr6A 142783649 142791135 7486 True 2711.025 7249 93.03125 6 9135 4 chr6A.!!$R1 9129
3 TraesCS6B01G181900 chr6D 114232507 114240221 7714 True 2756.525 4023 94.02875 1 9135 4 chr6D.!!$R1 9134
4 TraesCS6B01G181900 chr7B 240657326 240659026 1700 False 2471.000 2471 93.06300 5005 6688 1 chr7B.!!$F1 1683
5 TraesCS6B01G181900 chr7B 13626583 13628398 1815 True 1724.500 3055 96.82950 4875 6690 2 chr7B.!!$R2 1815
6 TraesCS6B01G181900 chr7B 160479155 160479900 745 True 994.000 994 90.69500 5938 6693 1 chr7B.!!$R1 755
7 TraesCS6B01G181900 chr5B 94094096 94095910 1814 False 2675.000 2675 93.38800 4887 6687 1 chr5B.!!$F1 1800
8 TraesCS6B01G181900 chr5B 699609343 699611165 1822 True 2630.000 2630 92.86900 4887 6691 1 chr5B.!!$R1 1804
9 TraesCS6B01G181900 chr5B 216857036 216858756 1720 False 2475.000 2475 92.75400 4887 6595 1 chr5B.!!$F2 1708
10 TraesCS6B01G181900 chr4B 409481461 409483273 1812 False 2529.000 2529 91.95600 4887 6687 1 chr4B.!!$F2 1800
11 TraesCS6B01G181900 chr4B 324353573 324355385 1812 False 2447.000 2447 91.23500 4898 6688 1 chr4B.!!$F1 1790
12 TraesCS6B01G181900 chr3B 391792227 391794025 1798 True 2494.000 2494 91.73600 4887 6687 1 chr3B.!!$R1 1800

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
592 613 0.036732 TCGCCTCCTCATGCTTTTGT 59.963 50.000 0.00 0.0 0.00 2.83 F
2228 2675 1.219393 CACGCCTTCCTTCTCTCCC 59.781 63.158 0.00 0.0 0.00 4.30 F
3951 4409 0.108019 AACTGTCCACCTTTCGGTCC 59.892 55.000 0.00 0.0 43.24 4.46 F
3985 4443 0.533755 GATTCATGAGTGGGCCTCGG 60.534 60.000 4.53 0.0 43.64 4.63 F
4332 4815 0.588252 CTTCACCTTCACAAGTGCCG 59.412 55.000 0.00 0.0 0.00 5.69 F
6452 6951 0.535797 GTCTAGGTGGGGTGTAGTGC 59.464 60.000 0.00 0.0 0.00 4.40 F
6692 7210 1.066143 AGCAGCGCCATAACAGTTAGT 60.066 47.619 2.29 0.0 0.00 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2382 2829 1.597742 ACAGCCTCACACATTCACAC 58.402 50.000 0.00 0.00 0.00 3.82 R
3980 4438 0.464036 TGGCTGCTAACATACCGAGG 59.536 55.000 0.00 0.00 0.00 4.63 R
5737 6228 2.017559 GCGGGTAGCGATCCAAGACT 62.018 60.000 0.00 0.00 35.41 3.24 R
6452 6951 8.550710 ACTAATGAGCCTATTACGTACTCTAG 57.449 38.462 10.42 7.74 0.00 2.43 R
6652 7170 2.680352 AAGGAGGGCGCGAGAAGA 60.680 61.111 12.10 0.00 0.00 2.87 R
7573 8098 0.111061 TCAGGCATTCACAGGCAAGT 59.889 50.000 0.00 0.00 0.00 3.16 R
8948 9694 0.181350 AGCAATGCTACTACCAGCCC 59.819 55.000 5.69 0.00 41.04 5.19 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
218 228 4.465446 CTCCCTCCTCCCGCTCCA 62.465 72.222 0.00 0.00 0.00 3.86
248 261 1.456518 AAGTCCTCCTCCTCCCACCT 61.457 60.000 0.00 0.00 0.00 4.00
301 314 2.366301 TAGCATTGGGGAGCGGGA 60.366 61.111 0.00 0.00 35.48 5.14
453 466 0.939106 ATTGCGCGTTTTGTCAAGGC 60.939 50.000 8.43 0.00 0.00 4.35
457 470 3.030652 CGTTTTGTCAAGGCGGCT 58.969 55.556 5.25 5.25 0.00 5.52
466 479 1.451387 CAAGGCGGCTATCGGGTTT 60.451 57.895 13.71 0.00 39.69 3.27
468 481 1.906105 AAGGCGGCTATCGGGTTTGA 61.906 55.000 13.71 0.00 39.69 2.69
481 494 1.275010 GGGTTTGAATTGGGAATGCGT 59.725 47.619 0.00 0.00 0.00 5.24
494 515 2.191786 AATGCGTTCGGTGGGGATCA 62.192 55.000 0.00 0.00 0.00 2.92
504 525 1.217689 GGTGGGGATCATGGGATTTGA 59.782 52.381 0.00 0.00 32.67 2.69
523 544 0.179067 ACCGCGAGTTGACTTTTGGA 60.179 50.000 8.23 0.00 0.00 3.53
530 551 2.620585 GAGTTGACTTTTGGAAGCAGCT 59.379 45.455 0.00 0.00 36.29 4.24
531 552 2.620585 AGTTGACTTTTGGAAGCAGCTC 59.379 45.455 0.00 0.00 36.29 4.09
551 572 1.269012 CCATTTTGACCATGCCCTGT 58.731 50.000 0.00 0.00 0.00 4.00
578 599 0.909610 TTTGGACAGGGAGATCGCCT 60.910 55.000 15.63 0.00 0.00 5.52
591 612 1.332997 GATCGCCTCCTCATGCTTTTG 59.667 52.381 0.00 0.00 0.00 2.44
592 613 0.036732 TCGCCTCCTCATGCTTTTGT 59.963 50.000 0.00 0.00 0.00 2.83
614 636 6.920817 TGTTGTTCTAATCGTCTAGACATGT 58.079 36.000 22.37 0.00 0.00 3.21
640 662 9.015367 TCATTAACTCGAAATGTTTATTTGGGA 57.985 29.630 7.90 0.00 36.66 4.37
649 671 7.362574 CGAAATGTTTATTTGGGACCTACATGT 60.363 37.037 2.69 2.69 36.66 3.21
657 679 3.750371 TGGGACCTACATGTCAAACTTG 58.250 45.455 0.00 0.00 36.97 3.16
680 702 2.701107 TGTCACAACCGAAACAAGTGA 58.299 42.857 0.00 0.00 36.92 3.41
686 708 3.754323 ACAACCGAAACAAGTGACAAAGA 59.246 39.130 0.00 0.00 0.00 2.52
789 812 3.096852 TCCCTTCGTACATGACACATCT 58.903 45.455 0.00 0.00 0.00 2.90
848 871 7.572523 TGAATGTGGTTCATGGATTAATCTC 57.427 36.000 14.95 6.25 41.79 2.75
934 958 1.975660 ACGTGGCATGTAGTTTTGGT 58.024 45.000 11.37 0.00 0.00 3.67
1009 1037 4.340381 GCAATGGCAAGGAGATGAAAGTAT 59.660 41.667 0.00 0.00 40.72 2.12
1012 1040 3.197766 TGGCAAGGAGATGAAAGTATCGT 59.802 43.478 0.00 0.00 32.33 3.73
1272 1300 3.744238 TTTTCGTCTGTGGTCATCAGA 57.256 42.857 0.00 0.00 39.25 3.27
1282 1310 3.754850 TGTGGTCATCAGAGATTTGCTTG 59.245 43.478 0.00 0.00 0.00 4.01
1370 1398 3.265791 CCTTCGAGAAATTGTGGGAGAG 58.734 50.000 0.00 0.00 0.00 3.20
1744 1781 7.012327 TGTTGAGAAAGAAAATCTTGTCATCGT 59.988 33.333 6.36 0.00 36.71 3.73
1746 1783 7.930217 TGAGAAAGAAAATCTTGTCATCGTTT 58.070 30.769 0.00 0.00 36.71 3.60
1837 1874 6.982141 CGCAGTTAGAAATATGTACAAGGGTA 59.018 38.462 0.00 0.00 0.00 3.69
1854 1891 2.666317 GGTATAAGGCTGCATTTGGGT 58.334 47.619 4.39 0.00 0.00 4.51
1963 2000 9.187996 TGATGGAATTTAACTTGATTGCTCATA 57.812 29.630 0.00 0.00 0.00 2.15
2228 2675 1.219393 CACGCCTTCCTTCTCTCCC 59.781 63.158 0.00 0.00 0.00 4.30
2313 2760 7.812648 ACATTGCTAAGCTCGTTTAATAAACA 58.187 30.769 15.19 3.09 41.44 2.83
2382 2829 1.556911 AGAAGCATGACTAGGTGTGGG 59.443 52.381 0.00 0.00 0.00 4.61
2389 2836 2.334977 TGACTAGGTGTGGGTGTGAAT 58.665 47.619 0.00 0.00 0.00 2.57
2416 2863 2.189594 GCTGTAGGCCATGCATGATA 57.810 50.000 28.31 14.18 34.27 2.15
2418 2865 2.551721 GCTGTAGGCCATGCATGATACT 60.552 50.000 28.31 21.90 34.27 2.12
2428 2875 2.806434 TGCATGATACTGGTTTTGGCT 58.194 42.857 0.00 0.00 0.00 4.75
2578 3030 7.838696 ACAGATGTTTTGTGATATTATGGGGAA 59.161 33.333 0.00 0.00 0.00 3.97
2617 3069 8.937634 AATGCATTGAGATAGAAAATTCCAAC 57.062 30.769 12.09 0.00 0.00 3.77
2653 3105 7.797038 AAAATATACCGGTGGAACTCATTAC 57.203 36.000 19.93 0.00 36.74 1.89
2654 3106 6.488769 AATATACCGGTGGAACTCATTACA 57.511 37.500 19.93 0.00 36.74 2.41
2655 3107 2.762535 ACCGGTGGAACTCATTACAG 57.237 50.000 6.12 0.00 36.74 2.74
2656 3108 1.975680 ACCGGTGGAACTCATTACAGT 59.024 47.619 6.12 0.00 36.74 3.55
2660 3112 3.432252 CGGTGGAACTCATTACAGTTGAC 59.568 47.826 0.00 0.00 36.71 3.18
2669 3121 7.615582 ACTCATTACAGTTGACATATTGGTG 57.384 36.000 0.00 0.00 0.00 4.17
2698 3150 9.988815 ACTCATTACAGTTGACATAGGAATATC 57.011 33.333 0.00 0.00 0.00 1.63
2770 3222 5.560953 GCTGTAACTTGCTGTCTTTTGTAGG 60.561 44.000 0.00 0.00 0.00 3.18
2790 3242 1.203994 GCAGGCATGTGAAATGAGCTT 59.796 47.619 0.00 0.00 0.00 3.74
2820 3272 2.360801 GGCTGCAACTTCCTGTGTTTTA 59.639 45.455 0.50 0.00 0.00 1.52
2834 3286 4.978099 TGTGTTTTATACGGGGTTGGTTA 58.022 39.130 0.00 0.00 0.00 2.85
2899 3351 8.661345 AGAACTACTCCCAACTTCTAGAATTTT 58.339 33.333 5.44 0.00 0.00 1.82
2904 3356 7.974504 ACTCCCAACTTCTAGAATTTTACAGA 58.025 34.615 5.44 0.65 0.00 3.41
2905 3357 8.606830 ACTCCCAACTTCTAGAATTTTACAGAT 58.393 33.333 5.44 0.00 0.00 2.90
2922 3374 9.513906 TTTTACAGATATTTGTGATTCCTGTCA 57.486 29.630 9.08 0.00 35.38 3.58
2945 3397 8.400947 GTCATTTTTCTGTATACAGCACATCAT 58.599 33.333 25.31 10.91 43.46 2.45
2946 3398 8.400186 TCATTTTTCTGTATACAGCACATCATG 58.600 33.333 25.31 19.63 43.46 3.07
3076 3530 5.009410 GCTGTTAGGAAATGCATTGCTAGAT 59.991 40.000 17.11 0.00 42.10 1.98
3148 3602 3.486383 TGCAAAAGGGTTCCTTAGTCAG 58.514 45.455 0.00 0.00 43.92 3.51
3301 3756 9.561069 AACTAATATTTGGATACCTGTAAGCAG 57.439 33.333 0.00 0.00 42.22 4.24
3330 3785 8.190784 AGAAAACACAAAAGACAGAAATGTAGG 58.809 33.333 0.00 0.00 0.00 3.18
3343 3798 3.802948 AATGTAGGGTAGCGTCAAGAG 57.197 47.619 0.00 0.00 0.00 2.85
3350 3805 2.224066 GGGTAGCGTCAAGAGCACATAT 60.224 50.000 0.00 0.00 37.01 1.78
3402 3857 8.958506 GTATCGATGACAATACCTATACTCCTT 58.041 37.037 8.54 0.00 0.00 3.36
3440 3896 8.773645 TGCTTATCATCTATTTACATGGAAACG 58.226 33.333 4.90 0.02 0.00 3.60
3487 3943 6.317140 CCACTGTGCATGTTTTATCTCACTAT 59.683 38.462 1.29 0.00 0.00 2.12
3488 3944 7.495606 CCACTGTGCATGTTTTATCTCACTATA 59.504 37.037 1.29 0.00 0.00 1.31
3489 3945 8.882736 CACTGTGCATGTTTTATCTCACTATAA 58.117 33.333 0.00 0.00 0.00 0.98
3490 3946 8.883731 ACTGTGCATGTTTTATCTCACTATAAC 58.116 33.333 0.00 0.00 0.00 1.89
3491 3947 9.102757 CTGTGCATGTTTTATCTCACTATAACT 57.897 33.333 0.00 0.00 0.00 2.24
3492 3948 9.448438 TGTGCATGTTTTATCTCACTATAACTT 57.552 29.630 0.00 0.00 0.00 2.66
3644 4100 8.893727 ACTTTGTATGGCAGAGTAAAATATGTC 58.106 33.333 0.00 0.00 40.27 3.06
3645 4101 9.113838 CTTTGTATGGCAGAGTAAAATATGTCT 57.886 33.333 0.00 0.00 0.00 3.41
3951 4409 0.108019 AACTGTCCACCTTTCGGTCC 59.892 55.000 0.00 0.00 43.24 4.46
3980 4438 1.419387 AGGCTAGATTCATGAGTGGGC 59.581 52.381 0.00 0.00 0.00 5.36
3985 4443 0.533755 GATTCATGAGTGGGCCTCGG 60.534 60.000 4.53 0.00 43.64 4.63
3986 4444 1.274703 ATTCATGAGTGGGCCTCGGT 61.275 55.000 4.53 0.00 43.64 4.69
4124 4582 5.649395 CCCACATCACTGTCATAGAAACATT 59.351 40.000 0.00 0.00 31.62 2.71
4145 4603 7.725251 ACATTTAGTGTCACATCAACCAAAAT 58.275 30.769 5.62 0.00 35.77 1.82
4194 4652 5.104693 TGTTTTGACCAGTTGAGAGGTAAGA 60.105 40.000 0.00 0.00 38.50 2.10
4269 4727 3.883830 AGTTGGTCTCATGTGCTAGAG 57.116 47.619 0.00 0.00 0.00 2.43
4274 4733 3.948473 TGGTCTCATGTGCTAGAGTAGTC 59.052 47.826 0.00 0.00 33.63 2.59
4306 4765 0.930726 TGGGTTTTGAGTTGAGGGGT 59.069 50.000 0.00 0.00 0.00 4.95
4310 4793 3.558033 GGTTTTGAGTTGAGGGGTTACA 58.442 45.455 0.00 0.00 0.00 2.41
4311 4794 3.955551 GGTTTTGAGTTGAGGGGTTACAA 59.044 43.478 0.00 0.00 0.00 2.41
4312 4795 4.202080 GGTTTTGAGTTGAGGGGTTACAAC 60.202 45.833 0.00 0.00 44.27 3.32
4325 4808 3.547746 GGTTACAACCTTCACCTTCACA 58.452 45.455 3.80 0.00 45.75 3.58
4326 4809 3.949113 GGTTACAACCTTCACCTTCACAA 59.051 43.478 3.80 0.00 45.75 3.33
4327 4810 4.036380 GGTTACAACCTTCACCTTCACAAG 59.964 45.833 3.80 0.00 45.75 3.16
4328 4811 3.366052 ACAACCTTCACCTTCACAAGT 57.634 42.857 0.00 0.00 0.00 3.16
4329 4812 3.016736 ACAACCTTCACCTTCACAAGTG 58.983 45.455 0.00 0.00 0.00 3.16
4330 4813 1.680338 ACCTTCACCTTCACAAGTGC 58.320 50.000 0.00 0.00 0.00 4.40
4331 4814 0.954452 CCTTCACCTTCACAAGTGCC 59.046 55.000 0.00 0.00 0.00 5.01
4332 4815 0.588252 CTTCACCTTCACAAGTGCCG 59.412 55.000 0.00 0.00 0.00 5.69
4333 4816 1.444119 TTCACCTTCACAAGTGCCGC 61.444 55.000 0.00 0.00 0.00 6.53
4334 4817 2.186160 CACCTTCACAAGTGCCGCA 61.186 57.895 0.00 0.00 0.00 5.69
4357 4840 1.520666 GCATGCCGGTAGGTACAGT 59.479 57.895 6.36 0.00 40.50 3.55
4475 4958 5.346011 GGAAAGAAAAAGCTTAAGCCGAATG 59.654 40.000 23.71 0.00 43.38 2.67
4479 4962 4.425577 AAAAGCTTAAGCCGAATGTGAG 57.574 40.909 23.71 0.00 43.38 3.51
4591 5074 2.616510 GCACAGACTGCACCTTATCCTT 60.617 50.000 1.25 0.00 46.29 3.36
4597 5080 4.971924 AGACTGCACCTTATCCTTCCTATT 59.028 41.667 0.00 0.00 0.00 1.73
4622 5105 8.523915 TGCAGATATGTAATCACTTGGATTTT 57.476 30.769 0.00 0.00 43.76 1.82
4716 5199 1.816835 TGGCAGACAACCTCTACTACG 59.183 52.381 0.00 0.00 0.00 3.51
4747 5230 7.496529 TCAAGCTATATTGCAAGGTATGTTC 57.503 36.000 11.72 0.00 34.99 3.18
4749 5232 5.316987 AGCTATATTGCAAGGTATGTTCCC 58.683 41.667 11.72 0.00 34.99 3.97
4753 5236 0.623723 TGCAAGGTATGTTCCCCTCC 59.376 55.000 0.00 0.00 0.00 4.30
4754 5237 0.919710 GCAAGGTATGTTCCCCTCCT 59.080 55.000 0.00 0.00 0.00 3.69
4755 5238 1.285078 GCAAGGTATGTTCCCCTCCTT 59.715 52.381 0.00 0.00 38.79 3.36
4810 5293 5.508825 GCATACAGTGATAACTGCTAGCTCT 60.509 44.000 17.23 2.62 41.19 4.09
4824 5307 5.162075 TGCTAGCTCTTTTTCTACGAGAAC 58.838 41.667 17.23 0.00 33.26 3.01
4838 5321 9.768662 TTTCTACGAGAACATAAGTAGGTTTTT 57.231 29.630 0.00 0.00 37.67 1.94
5049 5534 2.840203 ATCCCTTCCCTCTTGCCCGA 62.840 60.000 0.00 0.00 0.00 5.14
5116 5601 1.818060 AGCAGCGCCATAACAATTTGA 59.182 42.857 2.29 0.00 0.00 2.69
5155 5640 1.153369 ATCATGTCTTCACCGCCGG 60.153 57.895 0.00 0.00 0.00 6.13
5215 5704 2.834043 TGACCACCACGACCGTCA 60.834 61.111 0.00 0.00 32.99 4.35
6059 6553 4.662961 TCCTGTGCGGTGCAGACG 62.663 66.667 6.38 6.38 40.08 4.18
6452 6951 0.535797 GTCTAGGTGGGGTGTAGTGC 59.464 60.000 0.00 0.00 0.00 4.40
6691 7209 1.656652 AGCAGCGCCATAACAGTTAG 58.343 50.000 2.29 0.00 0.00 2.34
6692 7210 1.066143 AGCAGCGCCATAACAGTTAGT 60.066 47.619 2.29 0.00 0.00 2.24
6694 7212 2.161609 GCAGCGCCATAACAGTTAGTTT 59.838 45.455 2.29 0.00 41.64 2.66
6695 7213 3.747193 CAGCGCCATAACAGTTAGTTTG 58.253 45.455 2.29 0.00 41.64 2.93
6711 7229 4.790718 AGTTTGGGTCTAAACCTCAAGT 57.209 40.909 6.37 0.00 45.66 3.16
6843 7361 3.678252 CGAATGCTCACAGACCTTCAGAT 60.678 47.826 0.00 0.00 0.00 2.90
7035 7553 3.462483 TCACCTTGCGACTGTTCTTTA 57.538 42.857 0.00 0.00 0.00 1.85
7036 7554 3.799366 TCACCTTGCGACTGTTCTTTAA 58.201 40.909 0.00 0.00 0.00 1.52
7106 7625 1.227176 GGGACGGAACTGTATCGCC 60.227 63.158 3.23 5.55 0.00 5.54
7174 7693 6.761714 TCTTTTGAACCGATATCTAGCTTTCC 59.238 38.462 0.00 0.00 0.00 3.13
7192 7711 5.768317 CTTTCCGTTCTCCATTTGCTTTTA 58.232 37.500 0.00 0.00 0.00 1.52
7233 7752 2.630098 TGTGCAGATAGTAGATCCTGGC 59.370 50.000 0.00 0.00 0.00 4.85
7367 7886 8.981647 GGTATATGCTTTTATCTTGCAAAATGG 58.018 33.333 0.00 0.00 40.24 3.16
7396 7915 8.393671 ACACAATTTTGCCAATTAACATGATT 57.606 26.923 0.00 0.00 0.00 2.57
7570 8095 8.539770 AGTTGATTGTTGTGATCTAGTACTTG 57.460 34.615 0.00 0.00 0.00 3.16
7571 8096 7.604164 AGTTGATTGTTGTGATCTAGTACTTGG 59.396 37.037 0.00 0.00 0.00 3.61
7572 8097 7.004555 TGATTGTTGTGATCTAGTACTTGGT 57.995 36.000 0.00 0.00 0.00 3.67
7573 8098 8.129496 TGATTGTTGTGATCTAGTACTTGGTA 57.871 34.615 0.00 0.00 0.00 3.25
7918 8448 6.127814 GCAGTCATTCTGAAGAATTCCATTCA 60.128 38.462 0.65 5.93 46.93 2.57
8383 8916 6.449698 CATGTTTCTGTTAGCTGTCCATTTT 58.550 36.000 0.00 0.00 0.00 1.82
8472 9006 1.399089 ACAGGGTTTTTGTCACGTTCG 59.601 47.619 0.00 0.00 0.00 3.95
8563 9108 6.704493 GCCGACATGTTTATATTTCTGACCTA 59.296 38.462 0.00 0.00 0.00 3.08
8588 9133 7.790782 TTTTTACTCTGCTGGGGAAATATTT 57.209 32.000 1.14 0.00 0.00 1.40
8589 9134 8.887264 TTTTTACTCTGCTGGGGAAATATTTA 57.113 30.769 1.14 0.00 0.00 1.40
8632 9338 6.751514 TGAAGTTGTACTTGTCATGTTTGT 57.248 33.333 0.00 0.00 38.80 2.83
8634 9340 7.598278 TGAAGTTGTACTTGTCATGTTTGTTT 58.402 30.769 0.00 0.00 38.80 2.83
8635 9341 7.540400 TGAAGTTGTACTTGTCATGTTTGTTTG 59.460 33.333 0.00 0.00 38.80 2.93
8753 9466 8.976353 GTACCCATCTATATTGACTGAGATCAT 58.024 37.037 0.00 0.00 0.00 2.45
8781 9494 0.171903 CCGGGCAATTCAGAGCAAAG 59.828 55.000 0.00 0.00 0.00 2.77
8800 9513 5.970612 GCAAAGTTAAATTGCCTTGTTTTGG 59.029 36.000 13.62 0.00 45.73 3.28
8808 9521 1.260544 GCCTTGTTTTGGAGGAGCAT 58.739 50.000 0.00 0.00 34.91 3.79
8879 9592 2.011548 GCCGGATGCACACAATACTGA 61.012 52.381 5.05 0.00 40.77 3.41
8917 9636 1.078637 GGTGCTGATGCTGCTGAGA 60.079 57.895 0.00 0.00 40.48 3.27
8961 9707 2.506472 GCTGGGGCTGGTAGTAGC 59.494 66.667 0.00 0.00 42.94 3.58
9053 9799 2.981560 CGGCGCAAAGCTGTTGGAT 61.982 57.895 10.83 0.00 46.91 3.41
9063 9809 2.722094 AGCTGTTGGATATGGCGAAAA 58.278 42.857 0.00 0.00 0.00 2.29
9107 9853 2.598394 GCTTGTCCAAGGCTGCCA 60.598 61.111 22.65 0.00 38.80 4.92
9121 9867 1.695893 CTGCCATTGTAGGTCACGCG 61.696 60.000 3.53 3.53 0.00 6.01
9124 9870 1.079405 CATTGTAGGTCACGCGGGT 60.079 57.895 8.89 0.00 0.00 5.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
218 228 0.320697 GGAGGACTTACACGCAAGGT 59.679 55.000 0.00 0.00 46.39 3.50
341 354 1.893808 AAACAGCACGAGCACCAGG 60.894 57.895 7.77 0.00 45.49 4.45
345 358 2.639286 CCCAAACAGCACGAGCAC 59.361 61.111 7.77 0.00 45.49 4.40
453 466 1.333619 CCAATTCAAACCCGATAGCCG 59.666 52.381 0.00 0.00 38.18 5.52
457 470 3.383185 GCATTCCCAATTCAAACCCGATA 59.617 43.478 0.00 0.00 0.00 2.92
466 479 0.808125 CCGAACGCATTCCCAATTCA 59.192 50.000 0.00 0.00 0.00 2.57
468 481 0.525761 CACCGAACGCATTCCCAATT 59.474 50.000 0.00 0.00 0.00 2.32
481 494 0.697511 ATCCCATGATCCCCACCGAA 60.698 55.000 0.00 0.00 0.00 4.30
494 515 0.035439 AACTCGCGGTCAAATCCCAT 60.035 50.000 6.13 0.00 0.00 4.00
504 525 0.179067 TCCAAAAGTCAACTCGCGGT 60.179 50.000 6.13 0.00 0.00 5.68
523 544 1.260544 GGTCAAAATGGGAGCTGCTT 58.739 50.000 2.53 0.00 0.00 3.91
530 551 0.413037 AGGGCATGGTCAAAATGGGA 59.587 50.000 0.00 0.00 0.00 4.37
531 552 0.538118 CAGGGCATGGTCAAAATGGG 59.462 55.000 0.00 0.00 0.00 4.00
551 572 4.656100 TCTCCCTGTCCAAATCAAATCA 57.344 40.909 0.00 0.00 0.00 2.57
578 599 6.348458 CGATTAGAACAACAAAAGCATGAGGA 60.348 38.462 0.00 0.00 0.00 3.71
591 612 7.027760 TGACATGTCTAGACGATTAGAACAAC 58.972 38.462 25.55 0.00 31.80 3.32
592 613 7.153217 TGACATGTCTAGACGATTAGAACAA 57.847 36.000 25.55 0.00 31.80 2.83
614 636 9.015367 TCCCAAATAAACATTTCGAGTTAATGA 57.985 29.630 13.80 0.00 36.67 2.57
640 662 4.532834 ACAACCAAGTTTGACATGTAGGT 58.467 39.130 0.00 0.00 0.00 3.08
649 671 2.162608 CGGTTGTGACAACCAAGTTTGA 59.837 45.455 37.56 0.00 40.28 2.69
657 679 2.162809 ACTTGTTTCGGTTGTGACAACC 59.837 45.455 32.13 32.13 36.96 3.77
715 738 6.145338 TCGTCCTGAACCTTCTTATATGTC 57.855 41.667 0.00 0.00 0.00 3.06
789 812 1.372582 GCAATGGCGATCACTCAAGA 58.627 50.000 0.00 0.00 0.00 3.02
848 871 1.535028 TCTGCAATGCAAGGTTACACG 59.465 47.619 9.92 0.00 38.41 4.49
934 958 3.069586 CCCTCCGCATATACTTCAGAACA 59.930 47.826 0.00 0.00 0.00 3.18
1266 1294 3.551890 GCATTGCAAGCAAATCTCTGATG 59.448 43.478 11.89 4.19 39.55 3.07
1272 1300 3.740141 GCATAGGCATTGCAAGCAAATCT 60.740 43.478 11.89 11.24 39.55 2.40
1282 1310 2.063541 GACACGGGCATAGGCATTGC 62.064 60.000 0.15 0.00 43.71 3.56
1370 1398 3.054878 CAGCACAGAACCTGCAAAAATC 58.945 45.455 0.00 0.00 37.08 2.17
1610 1644 5.586643 GGAGAAAAGAAGCATACTAAGTGGG 59.413 44.000 0.00 0.00 0.00 4.61
1612 1646 5.869888 ACGGAGAAAAGAAGCATACTAAGTG 59.130 40.000 0.00 0.00 0.00 3.16
1713 1747 6.747280 ACAAGATTTTCTTTCTCAACAACGTG 59.253 34.615 0.00 0.00 33.78 4.49
1714 1748 6.852664 ACAAGATTTTCTTTCTCAACAACGT 58.147 32.000 0.00 0.00 33.78 3.99
1715 1749 6.966632 TGACAAGATTTTCTTTCTCAACAACG 59.033 34.615 0.00 0.00 33.78 4.10
1744 1781 8.963130 CAATTAAGAATGTAGCGAAAACACAAA 58.037 29.630 0.00 0.00 0.00 2.83
1746 1783 7.866729 TCAATTAAGAATGTAGCGAAAACACA 58.133 30.769 0.00 0.00 0.00 3.72
1783 1820 8.121305 TGATCCATATTTGTTACTGTTTTGCT 57.879 30.769 0.00 0.00 0.00 3.91
1837 1874 3.669939 ACTACCCAAATGCAGCCTTAT 57.330 42.857 0.00 0.00 0.00 1.73
1854 1891 8.730948 AGTACTCCCTTTATCCATGTACTACTA 58.269 37.037 0.00 0.00 37.79 1.82
1935 1972 8.533657 TGAGCAATCAAGTTAAATTCCATCATT 58.466 29.630 0.00 0.00 0.00 2.57
1936 1973 8.070034 TGAGCAATCAAGTTAAATTCCATCAT 57.930 30.769 0.00 0.00 0.00 2.45
1938 1975 9.455847 GTATGAGCAATCAAGTTAAATTCCATC 57.544 33.333 0.00 0.00 0.00 3.51
1946 1983 9.421806 CCATTTTTGTATGAGCAATCAAGTTAA 57.578 29.630 0.00 0.00 0.00 2.01
1963 2000 1.923356 ATCTCGGCACCCATTTTTGT 58.077 45.000 0.00 0.00 0.00 2.83
2006 2043 4.070716 CAGATTATGAGACTTGGGCATCC 58.929 47.826 0.00 0.00 0.00 3.51
2136 2583 5.221126 GGAAATTCCATAAGGCACATGAGAC 60.221 44.000 7.23 0.00 36.28 3.36
2191 2638 1.710244 TGGATGAACCACCACCATCTT 59.290 47.619 0.00 0.00 44.64 2.40
2260 2707 9.936759 TCATTGAGTTGGTTAGTTTTTCTTTTT 57.063 25.926 0.00 0.00 0.00 1.94
2283 2730 5.376854 AAACGAGCTTAGCAATGTTTCAT 57.623 34.783 7.07 0.00 28.81 2.57
2341 2788 4.222145 TCTTTACGACCCTTGTAGCTCAAT 59.778 41.667 0.00 0.00 35.35 2.57
2382 2829 1.597742 ACAGCCTCACACATTCACAC 58.402 50.000 0.00 0.00 0.00 3.82
2416 2863 2.092429 TCTGAGTTCAGCCAAAACCAGT 60.092 45.455 4.25 0.00 43.46 4.00
2418 2865 2.727123 TCTGAGTTCAGCCAAAACCA 57.273 45.000 4.25 0.00 43.46 3.67
2428 2875 4.341366 TTCTTGTGCTCATCTGAGTTCA 57.659 40.909 8.87 5.89 43.85 3.18
2504 2955 9.632807 AATATTTGTGCTTTGCTACGAAAAATA 57.367 25.926 0.00 0.00 0.00 1.40
2505 2956 8.532977 AATATTTGTGCTTTGCTACGAAAAAT 57.467 26.923 0.00 0.00 0.00 1.82
2567 3019 8.931904 TCTATCATCCAATCTTCCCCATAATA 57.068 34.615 0.00 0.00 0.00 0.98
2578 3030 7.459234 TCTCAATGCATTCTATCATCCAATCT 58.541 34.615 9.53 0.00 0.00 2.40
2632 3084 5.601313 ACTGTAATGAGTTCCACCGGTATAT 59.399 40.000 6.87 0.00 0.00 0.86
2633 3085 4.957954 ACTGTAATGAGTTCCACCGGTATA 59.042 41.667 6.87 0.00 0.00 1.47
2635 3087 3.167485 ACTGTAATGAGTTCCACCGGTA 58.833 45.455 6.87 0.00 0.00 4.02
2636 3088 1.975680 ACTGTAATGAGTTCCACCGGT 59.024 47.619 0.00 0.00 0.00 5.28
2637 3089 2.742053 CAACTGTAATGAGTTCCACCGG 59.258 50.000 0.00 0.00 33.75 5.28
2639 3091 4.385825 TGTCAACTGTAATGAGTTCCACC 58.614 43.478 0.00 0.00 33.75 4.61
2640 3092 7.849804 ATATGTCAACTGTAATGAGTTCCAC 57.150 36.000 0.00 0.00 33.75 4.02
2641 3093 7.336679 CCAATATGTCAACTGTAATGAGTTCCA 59.663 37.037 0.00 0.00 33.75 3.53
2642 3094 7.336931 ACCAATATGTCAACTGTAATGAGTTCC 59.663 37.037 0.00 0.00 33.75 3.62
2643 3095 8.177663 CACCAATATGTCAACTGTAATGAGTTC 58.822 37.037 0.00 0.00 33.75 3.01
2644 3096 7.121168 CCACCAATATGTCAACTGTAATGAGTT 59.879 37.037 0.00 0.00 36.58 3.01
2645 3097 6.599244 CCACCAATATGTCAACTGTAATGAGT 59.401 38.462 0.00 0.00 0.00 3.41
2646 3098 6.823182 TCCACCAATATGTCAACTGTAATGAG 59.177 38.462 0.00 0.00 0.00 2.90
2647 3099 6.716284 TCCACCAATATGTCAACTGTAATGA 58.284 36.000 0.00 0.00 0.00 2.57
2648 3100 7.121168 AGTTCCACCAATATGTCAACTGTAATG 59.879 37.037 0.00 0.00 0.00 1.90
2649 3101 7.175104 AGTTCCACCAATATGTCAACTGTAAT 58.825 34.615 0.00 0.00 0.00 1.89
2650 3102 6.539173 AGTTCCACCAATATGTCAACTGTAA 58.461 36.000 0.00 0.00 0.00 2.41
2651 3103 6.121776 AGTTCCACCAATATGTCAACTGTA 57.878 37.500 0.00 0.00 0.00 2.74
2652 3104 4.985538 AGTTCCACCAATATGTCAACTGT 58.014 39.130 0.00 0.00 0.00 3.55
2653 3105 5.003160 TGAGTTCCACCAATATGTCAACTG 58.997 41.667 0.00 0.00 0.00 3.16
2654 3106 5.241403 TGAGTTCCACCAATATGTCAACT 57.759 39.130 0.00 0.00 0.00 3.16
2655 3107 6.515272 AATGAGTTCCACCAATATGTCAAC 57.485 37.500 0.00 0.00 0.00 3.18
2656 3108 7.171653 TGTAATGAGTTCCACCAATATGTCAA 58.828 34.615 0.00 0.00 0.00 3.18
2660 3112 7.336679 TCAACTGTAATGAGTTCCACCAATATG 59.663 37.037 0.00 0.00 33.75 1.78
2669 3121 6.640518 TCCTATGTCAACTGTAATGAGTTCC 58.359 40.000 0.00 0.00 33.75 3.62
2698 3150 5.732528 GCATGACTAATCCAGTTGCATTCAG 60.733 44.000 0.00 0.00 39.71 3.02
2770 3222 0.815734 AGCTCATTTCACATGCCTGC 59.184 50.000 0.00 0.00 0.00 4.85
2790 3242 2.159114 GGAAGTTGCAGCCAGACAAAAA 60.159 45.455 0.00 0.00 0.00 1.94
2820 3272 8.716779 TCTTAATTAAGATAACCAACCCCGTAT 58.283 33.333 21.46 0.00 37.40 3.06
2878 3330 9.096823 TCTGTAAAATTCTAGAAGTTGGGAGTA 57.903 33.333 18.12 4.67 0.00 2.59
2899 3351 9.685276 AAATGACAGGAATCACAAATATCTGTA 57.315 29.630 0.00 0.00 34.63 2.74
2904 3356 9.865321 CAGAAAAATGACAGGAATCACAAATAT 57.135 29.630 0.00 0.00 0.00 1.28
2905 3357 8.859090 ACAGAAAAATGACAGGAATCACAAATA 58.141 29.630 0.00 0.00 0.00 1.40
2922 3374 8.284945 ACATGATGTGCTGTATACAGAAAAAT 57.715 30.769 32.39 20.24 46.59 1.82
3299 3754 6.668541 TCTGTCTTTTGTGTTTTCTCTCTG 57.331 37.500 0.00 0.00 0.00 3.35
3300 3755 7.687941 TTTCTGTCTTTTGTGTTTTCTCTCT 57.312 32.000 0.00 0.00 0.00 3.10
3301 3756 7.970614 ACATTTCTGTCTTTTGTGTTTTCTCTC 59.029 33.333 0.00 0.00 0.00 3.20
3330 3785 2.579207 TATGTGCTCTTGACGCTACC 57.421 50.000 0.00 0.00 0.00 3.18
3380 3835 6.802348 CGAAAGGAGTATAGGTATTGTCATCG 59.198 42.308 0.00 0.00 0.00 3.84
3414 3869 8.773645 CGTTTCCATGTAAATAGATGATAAGCA 58.226 33.333 0.00 0.00 0.00 3.91
3440 3896 1.615392 GCATCTGCCATATTCCCAACC 59.385 52.381 0.00 0.00 34.31 3.77
3493 3949 9.567776 TCCTTTGACATAAGAAATACAAGTGAA 57.432 29.630 0.00 0.00 0.00 3.18
3644 4100 9.553064 ACAATCAATAGAAGGCTAAAGACATAG 57.447 33.333 0.00 0.00 0.00 2.23
3645 4101 9.905713 AACAATCAATAGAAGGCTAAAGACATA 57.094 29.630 0.00 0.00 0.00 2.29
3833 4289 5.304686 ACTTGTTCCTTTGTGATACCAGA 57.695 39.130 0.00 0.00 0.00 3.86
3834 4290 4.455877 GGACTTGTTCCTTTGTGATACCAG 59.544 45.833 0.00 0.00 41.95 4.00
3951 4409 4.594920 TCATGAATCTAGCCTAGGGGAAAG 59.405 45.833 11.72 0.00 33.58 2.62
3980 4438 0.464036 TGGCTGCTAACATACCGAGG 59.536 55.000 0.00 0.00 0.00 4.63
3985 4443 3.535561 ACTGATGTGGCTGCTAACATAC 58.464 45.455 17.33 12.76 37.15 2.39
3986 4444 3.912496 ACTGATGTGGCTGCTAACATA 57.088 42.857 17.33 0.00 37.15 2.29
4069 4527 1.864669 ACGGCCCCATCATCATTTTT 58.135 45.000 0.00 0.00 0.00 1.94
4085 4543 1.815613 TGTGGGCATTGATACAAACGG 59.184 47.619 0.00 0.00 0.00 4.44
4145 4603 5.980640 ACCCCCTCTCCCTAAAACATTATAA 59.019 40.000 0.00 0.00 0.00 0.98
4269 4727 0.038526 CACCAGGTCACCACGACTAC 60.039 60.000 0.00 0.00 44.70 2.73
4306 4765 4.638421 CACTTGTGAAGGTGAAGGTTGTAA 59.362 41.667 0.00 0.00 35.69 2.41
4310 4793 2.024414 GCACTTGTGAAGGTGAAGGTT 58.976 47.619 4.79 0.00 35.69 3.50
4311 4794 1.680338 GCACTTGTGAAGGTGAAGGT 58.320 50.000 4.79 0.00 35.69 3.50
4312 4795 0.954452 GGCACTTGTGAAGGTGAAGG 59.046 55.000 4.79 0.00 35.69 3.46
4313 4796 0.588252 CGGCACTTGTGAAGGTGAAG 59.412 55.000 4.79 0.00 35.69 3.02
4314 4797 1.444119 GCGGCACTTGTGAAGGTGAA 61.444 55.000 4.79 0.00 35.69 3.18
4315 4798 1.891919 GCGGCACTTGTGAAGGTGA 60.892 57.895 4.79 0.00 35.69 4.02
4316 4799 1.723608 TTGCGGCACTTGTGAAGGTG 61.724 55.000 0.05 0.00 36.62 4.00
4317 4800 1.034838 TTTGCGGCACTTGTGAAGGT 61.035 50.000 0.05 0.00 0.00 3.50
4318 4801 0.314935 ATTTGCGGCACTTGTGAAGG 59.685 50.000 0.05 0.00 0.00 3.46
4319 4802 1.411394 CATTTGCGGCACTTGTGAAG 58.589 50.000 0.05 0.00 0.00 3.02
4320 4803 0.031857 CCATTTGCGGCACTTGTGAA 59.968 50.000 0.05 0.00 0.00 3.18
4321 4804 1.659233 CCATTTGCGGCACTTGTGA 59.341 52.632 0.05 0.00 0.00 3.58
4322 4805 4.248402 CCATTTGCGGCACTTGTG 57.752 55.556 0.05 0.00 0.00 3.33
4330 4813 4.876828 CCGGCATGCCATTTGCGG 62.877 66.667 34.93 24.47 45.60 5.69
4331 4814 2.666715 CTACCGGCATGCCATTTGCG 62.667 60.000 34.93 19.77 45.60 4.85
4332 4815 1.066257 CTACCGGCATGCCATTTGC 59.934 57.895 34.93 8.45 39.41 3.68
4333 4816 1.037030 ACCTACCGGCATGCCATTTG 61.037 55.000 34.93 21.67 35.37 2.32
4334 4817 0.548989 TACCTACCGGCATGCCATTT 59.451 50.000 34.93 20.56 35.37 2.32
4357 4840 4.368067 AGTATCCAAGCCCTAAGTTACCA 58.632 43.478 0.00 0.00 0.00 3.25
4399 4882 3.760738 TGTGATCCTGATCGAGCTATCT 58.239 45.455 0.90 0.00 40.63 1.98
4475 4958 3.686916 AGTGCTTAACTTCTCCCTCAC 57.313 47.619 0.00 0.00 34.57 3.51
4479 4962 5.763698 AGTTTGTTAGTGCTTAACTTCTCCC 59.236 40.000 11.28 0.00 41.82 4.30
4557 5040 5.998454 CAGTCTGTGCCTTTATATCCAAG 57.002 43.478 0.00 0.00 0.00 3.61
4591 5074 7.879677 CCAAGTGATTACATATCTGCAATAGGA 59.120 37.037 7.30 0.00 0.00 2.94
4597 5080 8.523915 AAAATCCAAGTGATTACATATCTGCA 57.476 30.769 0.00 0.00 42.97 4.41
4622 5105 6.985645 ACAAAATTACTCAGCAAAGCATGAAA 59.014 30.769 0.00 0.00 0.00 2.69
4638 5121 5.240844 ACCACTACAGGAAGCACAAAATTAC 59.759 40.000 0.00 0.00 0.00 1.89
4716 5199 7.716612 ACCTTGCAATATAGCTTGAATTTACC 58.283 34.615 0.00 0.00 34.99 2.85
4743 5226 0.039618 GGCATCAAAGGAGGGGAACA 59.960 55.000 0.00 0.00 0.00 3.18
4747 5230 0.040204 AACTGGCATCAAAGGAGGGG 59.960 55.000 0.00 0.00 0.00 4.79
4749 5232 3.624777 ACATAACTGGCATCAAAGGAGG 58.375 45.455 0.00 0.00 0.00 4.30
4810 5293 9.768662 AAACCTACTTATGTTCTCGTAGAAAAA 57.231 29.630 0.00 0.00 35.75 1.94
5049 5534 3.230990 GGCCTTTTTGCCCACGGT 61.231 61.111 0.00 0.00 46.11 4.83
5116 5601 2.885266 TCGAACCGAAGCTAGCTGATAT 59.115 45.455 20.16 1.15 31.06 1.63
5155 5640 2.815647 CGGAAGAGACGGGCTTGC 60.816 66.667 0.00 0.00 0.00 4.01
5737 6228 2.017559 GCGGGTAGCGATCCAAGACT 62.018 60.000 0.00 0.00 35.41 3.24
6452 6951 8.550710 ACTAATGAGCCTATTACGTACTCTAG 57.449 38.462 10.42 7.74 0.00 2.43
6652 7170 2.680352 AAGGAGGGCGCGAGAAGA 60.680 61.111 12.10 0.00 0.00 2.87
6694 7212 7.016858 AGTTATACAACTTGAGGTTTAGACCCA 59.983 37.037 0.00 0.00 43.73 4.51
6695 7213 7.333672 CAGTTATACAACTTGAGGTTTAGACCC 59.666 40.741 0.00 0.00 43.73 4.46
6755 7273 6.170506 TGAAGCAATCGAAATAAGGTACTGT 58.829 36.000 0.00 0.00 40.86 3.55
6807 7325 4.455533 TGAGCATTCGTTTGAAGCACTATT 59.544 37.500 0.00 0.00 37.57 1.73
6901 7419 1.407299 GGCACCTGTCAGCATGTGATA 60.407 52.381 10.78 0.00 41.68 2.15
7035 7553 9.830975 AACATTGCTTATCTAAAACCAACTTTT 57.169 25.926 0.00 0.00 36.06 2.27
7036 7554 9.830975 AAACATTGCTTATCTAAAACCAACTTT 57.169 25.926 0.00 0.00 0.00 2.66
7215 7734 1.203523 CCGCCAGGATCTACTATCTGC 59.796 57.143 0.00 0.00 41.02 4.26
7233 7752 7.279981 TGTGTCACTGAATAATTAGAAATCCCG 59.720 37.037 4.27 0.00 0.00 5.14
7239 7758 9.500785 TCAACATGTGTCACTGAATAATTAGAA 57.499 29.630 0.00 0.00 0.00 2.10
7367 7886 7.020914 TGTTAATTGGCAAAATTGTGTTTCC 57.979 32.000 3.01 0.00 0.00 3.13
7396 7915 9.850628 GTAGTTGAGTCAGTGTATAACATACAA 57.149 33.333 0.74 0.00 0.00 2.41
7567 8092 2.095059 GCATTCACAGGCAAGTACCAAG 60.095 50.000 0.00 0.00 0.00 3.61
7568 8093 1.885887 GCATTCACAGGCAAGTACCAA 59.114 47.619 0.00 0.00 0.00 3.67
7569 8094 1.533625 GCATTCACAGGCAAGTACCA 58.466 50.000 0.00 0.00 0.00 3.25
7570 8095 0.811281 GGCATTCACAGGCAAGTACC 59.189 55.000 0.00 0.00 0.00 3.34
7571 8096 1.470098 CAGGCATTCACAGGCAAGTAC 59.530 52.381 0.00 0.00 0.00 2.73
7572 8097 1.350684 TCAGGCATTCACAGGCAAGTA 59.649 47.619 0.00 0.00 0.00 2.24
7573 8098 0.111061 TCAGGCATTCACAGGCAAGT 59.889 50.000 0.00 0.00 0.00 3.16
7614 8139 8.552034 GTTAGATTCCTAGTACATGAATGCAAC 58.448 37.037 0.00 8.38 0.00 4.17
7686 8211 2.072366 GGTTTCCCCTCCTTTCGGA 58.928 57.895 0.00 0.00 37.82 4.55
7707 8232 2.930385 ATCAACCGATGCAGAGGCCG 62.930 60.000 9.87 2.36 40.13 6.13
7816 8341 5.474876 GGATTAGTGAGGCATAAGGGAAATG 59.525 44.000 0.00 0.00 0.00 2.32
7817 8342 5.373854 AGGATTAGTGAGGCATAAGGGAAAT 59.626 40.000 0.00 0.00 0.00 2.17
8211 8741 5.221422 CCCTGGATCTCTGTTAAGAAGCTAG 60.221 48.000 0.00 0.00 30.03 3.42
8383 8916 9.449719 GAAATACAAGAATGAGAGGAAAAGGTA 57.550 33.333 0.00 0.00 0.00 3.08
8472 9006 1.691434 TGTGTCCAAAAAGAATGGGCC 59.309 47.619 0.00 0.00 42.00 5.80
8563 9108 7.978099 AATATTTCCCCAGCAGAGTAAAAAT 57.022 32.000 0.00 0.00 0.00 1.82
8604 9308 8.633075 AACATGACAAGTACAACTTCATTTTG 57.367 30.769 0.00 0.00 36.03 2.44
8632 9338 6.767456 ACCTTTGCAATATCCACATTTCAAA 58.233 32.000 0.00 0.00 32.57 2.69
8634 9340 5.479724 TGACCTTTGCAATATCCACATTTCA 59.520 36.000 0.00 0.00 0.00 2.69
8635 9341 5.964758 TGACCTTTGCAATATCCACATTTC 58.035 37.500 0.00 0.00 0.00 2.17
8753 9466 0.968393 GAATTGCCCGGCCCTGTTTA 60.968 55.000 7.03 0.00 0.00 2.01
8781 9494 5.606505 TCCTCCAAAACAAGGCAATTTAAC 58.393 37.500 0.00 0.00 32.37 2.01
8800 9513 3.265791 CTTGTAACACTGGATGCTCCTC 58.734 50.000 4.21 0.00 37.46 3.71
8808 9521 3.035363 TCACTGACCTTGTAACACTGGA 58.965 45.455 0.00 0.00 0.00 3.86
8879 9592 0.622665 AGTATTTCCAGCAGCAGCCT 59.377 50.000 0.00 0.00 43.56 4.58
8917 9636 1.004044 AGCAGCAGCAGTATTTCCAGT 59.996 47.619 3.17 0.00 45.49 4.00
8948 9694 0.181350 AGCAATGCTACTACCAGCCC 59.819 55.000 5.69 0.00 41.04 5.19
8961 9707 3.242518 CTCAACAACATCAGCAGCAATG 58.757 45.455 0.00 0.24 0.00 2.82
9063 9809 0.319297 CCCTTCGAAACGAACGACCT 60.319 55.000 0.00 0.00 41.05 3.85
9107 9853 1.079405 CACCCGCGTGACCTACAAT 60.079 57.895 4.92 0.00 43.14 2.71


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

AutoCloner maintained by Alex Coulton.