Multiple sequence alignment - TraesCS7A01G403200

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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 TraesCS7A01G403200 chr7A 100.000 5180 0 0 1 5180 583160681 583165860 0.000000e+00 9566.0
1 TraesCS7A01G403200 chr7A 84.407 2142 217 52 842 2931 579796101 579798177 0.000000e+00 1997.0
2 TraesCS7A01G403200 chr7A 82.246 2084 286 45 869 2899 584038013 584040065 0.000000e+00 1722.0
3 TraesCS7A01G403200 chr7A 100.000 105 0 0 5076 5180 13105263 13105367 1.470000e-45 195.0
4 TraesCS7A01G403200 chr7A 93.548 124 8 0 4830 4953 583198612 583198735 8.860000e-43 185.0
5 TraesCS7A01G403200 chr7A 92.742 124 9 0 4830 4953 583185527 583185650 4.120000e-41 180.0
6 TraesCS7A01G403200 chr7A 98.148 54 1 0 4983 5036 583170288 583170235 1.540000e-15 95.3
7 TraesCS7A01G403200 chr7D 95.996 3272 76 10 1 3237 511220563 511223814 0.000000e+00 5265.0
8 TraesCS7A01G403200 chr7D 85.607 2140 213 40 842 2931 509239247 509241341 0.000000e+00 2158.0
9 TraesCS7A01G403200 chr7D 97.097 1068 26 3 3434 4499 511223812 511224876 0.000000e+00 1796.0
10 TraesCS7A01G403200 chr7D 82.413 1774 232 38 824 2571 511534717 511536436 0.000000e+00 1474.0
11 TraesCS7A01G403200 chr7D 86.918 558 43 11 1 549 510424997 510424461 2.670000e-167 599.0
12 TraesCS7A01G403200 chr7D 79.625 746 123 24 869 1592 511530274 511531012 4.630000e-140 508.0
13 TraesCS7A01G403200 chr7D 93.443 244 14 2 4588 4830 511225705 511225947 1.370000e-95 361.0
14 TraesCS7A01G403200 chr7D 98.684 76 0 1 4880 4954 511226290 511226365 3.250000e-27 134.0
15 TraesCS7A01G403200 chr7B 95.799 2285 58 17 756 3013 540045941 540048214 0.000000e+00 3653.0
16 TraesCS7A01G403200 chr7B 85.156 2149 214 58 844 2931 537457310 537459414 0.000000e+00 2104.0
17 TraesCS7A01G403200 chr7B 94.331 882 31 10 3444 4314 540048724 540049597 0.000000e+00 1334.0
18 TraesCS7A01G403200 chr7B 80.665 1624 231 38 1326 2899 540706501 540708091 0.000000e+00 1182.0
19 TraesCS7A01G403200 chr7B 96.561 378 10 2 3070 3445 540048213 540048589 1.580000e-174 623.0
20 TraesCS7A01G403200 chr7B 91.065 291 24 2 1 291 538738313 538738025 4.860000e-105 392.0
21 TraesCS7A01G403200 chr7B 79.412 238 43 6 4 238 538720962 538720728 4.150000e-36 163.0
22 TraesCS7A01G403200 chr7B 86.441 118 16 0 4312 4429 428838055 428837938 4.210000e-26 130.0
23 TraesCS7A01G403200 chr7B 85.124 121 18 0 4312 4432 43676876 43676756 1.960000e-24 124.0
24 TraesCS7A01G403200 chr7B 75.385 260 59 4 1 259 514062636 514062891 2.530000e-23 121.0
25 TraesCS7A01G403200 chr7B 77.059 170 19 9 2527 2695 537538499 537538349 4.300000e-11 80.5
26 TraesCS7A01G403200 chr3B 82.818 291 50 0 1742 2032 166284536 166284246 1.430000e-65 261.0
27 TraesCS7A01G403200 chr3B 73.985 542 107 29 866 1390 237502937 237503461 6.850000e-44 189.0
28 TraesCS7A01G403200 chr3D 95.385 130 6 0 4951 5080 604828274 604828403 1.890000e-49 207.0
29 TraesCS7A01G403200 chr3D 95.181 83 4 0 4954 5036 604832521 604832439 1.170000e-26 132.0
30 TraesCS7A01G403200 chr1A 96.063 127 5 0 4954 5080 4306523 4306397 1.890000e-49 207.0
31 TraesCS7A01G403200 chr1A 85.833 120 16 1 4313 4431 534874233 534874114 5.450000e-25 126.0
32 TraesCS7A01G403200 chr1A 85.000 120 17 1 4313 4431 534912206 534912087 2.530000e-23 121.0
33 TraesCS7A01G403200 chr3A 83.654 208 34 0 1742 1949 110471834 110472041 4.090000e-46 196.0
34 TraesCS7A01G403200 chr3A 85.714 119 16 1 4313 4431 593999136 593999019 1.960000e-24 124.0
35 TraesCS7A01G403200 chr4B 100.000 105 0 0 5076 5180 66167676 66167572 1.470000e-45 195.0
36 TraesCS7A01G403200 chr4B 89.744 117 12 0 4313 4429 79478898 79479014 3.230000e-32 150.0
37 TraesCS7A01G403200 chr4B 97.561 41 1 0 3687 3727 172735767 172735807 2.590000e-08 71.3
38 TraesCS7A01G403200 chr5B 100.000 104 0 0 5077 5180 63848590 63848487 5.290000e-45 193.0
39 TraesCS7A01G403200 chr2B 100.000 104 0 0 5077 5180 556659200 556659097 5.290000e-45 193.0
40 TraesCS7A01G403200 chr2B 97.273 110 2 1 5071 5180 69640839 69640731 8.860000e-43 185.0
41 TraesCS7A01G403200 chr2B 94.215 121 6 1 5060 5180 52628583 52628464 3.190000e-42 183.0
42 TraesCS7A01G403200 chr2B 88.983 118 12 1 4311 4428 594838049 594838165 1.500000e-30 145.0
43 TraesCS7A01G403200 chr2A 100.000 104 0 0 5077 5180 632622278 632622175 5.290000e-45 193.0
44 TraesCS7A01G403200 chr2A 100.000 104 0 0 5077 5180 653280857 653280960 5.290000e-45 193.0
45 TraesCS7A01G403200 chr2A 93.701 127 8 0 4954 5080 95896219 95896345 1.900000e-44 191.0
46 TraesCS7A01G403200 chrUn 99.065 107 0 1 5072 5178 67389390 67389285 1.900000e-44 191.0
47 TraesCS7A01G403200 chr1D 86.325 117 16 0 4312 4428 313295265 313295149 1.510000e-25 128.0
48 TraesCS7A01G403200 chr6B 78.571 140 30 0 961 1100 599770495 599770356 5.520000e-15 93.5
49 TraesCS7A01G403200 chr4D 97.561 41 1 0 3687 3727 112074265 112074305 2.590000e-08 71.3
50 TraesCS7A01G403200 chr5D 72.917 192 46 5 4644 4830 501092519 501092709 1.560000e-05 62.1


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 TraesCS7A01G403200 chr7A 583160681 583165860 5179 False 9566 9566 100.000000 1 5180 1 chr7A.!!$F3 5179
1 TraesCS7A01G403200 chr7A 579796101 579798177 2076 False 1997 1997 84.407000 842 2931 1 chr7A.!!$F2 2089
2 TraesCS7A01G403200 chr7A 584038013 584040065 2052 False 1722 1722 82.246000 869 2899 1 chr7A.!!$F6 2030
3 TraesCS7A01G403200 chr7D 509239247 509241341 2094 False 2158 2158 85.607000 842 2931 1 chr7D.!!$F1 2089
4 TraesCS7A01G403200 chr7D 511220563 511226365 5802 False 1889 5265 96.305000 1 4954 4 chr7D.!!$F2 4953
5 TraesCS7A01G403200 chr7D 511530274 511536436 6162 False 991 1474 81.019000 824 2571 2 chr7D.!!$F3 1747
6 TraesCS7A01G403200 chr7D 510424461 510424997 536 True 599 599 86.918000 1 549 1 chr7D.!!$R1 548
7 TraesCS7A01G403200 chr7B 537457310 537459414 2104 False 2104 2104 85.156000 844 2931 1 chr7B.!!$F2 2087
8 TraesCS7A01G403200 chr7B 540045941 540049597 3656 False 1870 3653 95.563667 756 4314 3 chr7B.!!$F4 3558
9 TraesCS7A01G403200 chr7B 540706501 540708091 1590 False 1182 1182 80.665000 1326 2899 1 chr7B.!!$F3 1573

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
632 650 0.030638 CGCCGGCAAATCCTATTTGG 59.969 55.0 28.98 0.12 37.10 3.28 F
1394 5032 0.174845 CGAGATCGTAACAAGGGGCA 59.825 55.0 0.00 0.00 34.11 5.36 F
2655 6338 0.463474 GGATGCCCTCTTCTGCTGTC 60.463 60.0 0.00 0.00 0.00 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2498 6176 0.448197 TTGCTGAGAGTAGTCGCTCG 59.552 55.0 2.86 0.0 42.09 5.03 R
3284 6999 2.358322 ACCGGAGAACAAAATGGTGT 57.642 45.0 9.46 0.0 0.00 4.16 R
4603 9208 0.321210 CCAACCACGCATCACCACTA 60.321 55.0 0.00 0.0 0.00 2.74 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
186 187 1.979693 GAGGTCTGGGCACTCGAGT 60.980 63.158 13.58 13.58 0.00 4.18
255 256 1.609072 CGATCTCGAGCTTCCATGGTA 59.391 52.381 12.58 0.02 43.02 3.25
256 257 2.351253 CGATCTCGAGCTTCCATGGTAG 60.351 54.545 13.79 13.79 43.02 3.18
257 258 2.437085 TCTCGAGCTTCCATGGTAGA 57.563 50.000 21.61 2.82 0.00 2.59
258 259 2.950781 TCTCGAGCTTCCATGGTAGAT 58.049 47.619 21.61 15.87 0.00 1.98
259 260 2.887783 TCTCGAGCTTCCATGGTAGATC 59.112 50.000 22.70 22.70 0.00 2.75
261 262 1.967066 CGAGCTTCCATGGTAGATCCT 59.033 52.381 25.37 12.56 37.07 3.24
343 348 0.267960 ATAGATCCTTCCCACCCCGT 59.732 55.000 0.00 0.00 0.00 5.28
396 404 0.241481 GTACCAGATCGAGCCGGATC 59.759 60.000 10.51 10.41 42.52 3.36
508 526 3.554716 TCCAGATCCATGGAGCCG 58.445 61.111 26.11 16.48 44.56 5.52
609 627 3.633094 GAACGCTGCTCCGAGCTGA 62.633 63.158 26.39 5.91 41.94 4.26
630 648 1.021968 GTCGCCGGCAAATCCTATTT 58.978 50.000 28.98 0.00 0.00 1.40
631 649 1.021202 TCGCCGGCAAATCCTATTTG 58.979 50.000 28.98 5.10 0.00 2.32
632 650 0.030638 CGCCGGCAAATCCTATTTGG 59.969 55.000 28.98 0.12 37.10 3.28
825 851 2.203280 CACCCACGCCCACAAGAA 60.203 61.111 0.00 0.00 0.00 2.52
826 852 1.826054 CACCCACGCCCACAAGAAA 60.826 57.895 0.00 0.00 0.00 2.52
827 853 1.826487 ACCCACGCCCACAAGAAAC 60.826 57.895 0.00 0.00 0.00 2.78
1184 4822 3.033909 TCTCCAAGATCATCACCGACAT 58.966 45.455 0.00 0.00 0.00 3.06
1390 5028 1.063616 TCGAGCGAGATCGTAACAAGG 59.936 52.381 10.54 0.00 43.20 3.61
1394 5032 0.174845 CGAGATCGTAACAAGGGGCA 59.825 55.000 0.00 0.00 34.11 5.36
1515 5159 1.008309 GACTATGGCCTCTCGCGAC 60.008 63.158 3.71 0.00 38.94 5.19
1630 5277 7.166851 GGATCTCATCAACATATCACTGGATT 58.833 38.462 0.00 0.00 34.89 3.01
1859 5535 3.446570 GCATCACCACTGCAGCCC 61.447 66.667 15.27 0.00 39.46 5.19
2028 5704 1.195115 TCGAGTGCTGCTCCCTTTAT 58.805 50.000 0.00 0.00 41.10 1.40
2129 5805 1.212935 GGATGTACACAAGGCCATCCT 59.787 52.381 5.01 0.00 46.39 3.24
2168 5844 2.093869 GTCATCATGTGCCTGGCAATTT 60.094 45.455 25.23 8.25 41.47 1.82
2498 6176 2.093658 TCAGAAAGGTCAAGGCGGTATC 60.094 50.000 0.00 0.00 0.00 2.24
2655 6338 0.463474 GGATGCCCTCTTCTGCTGTC 60.463 60.000 0.00 0.00 0.00 3.51
2978 6692 6.937886 TTTCTGAAAACTCAAACGGAAAAC 57.062 33.333 0.00 0.00 35.58 2.43
3282 6997 3.193691 ACCATCTCGTAGTTCAGACCTTG 59.806 47.826 0.00 0.00 0.00 3.61
3284 6999 4.082190 CCATCTCGTAGTTCAGACCTTGAA 60.082 45.833 0.00 0.00 43.40 2.69
3295 7010 4.277476 TCAGACCTTGAACACCATTTTGT 58.723 39.130 0.00 0.00 31.34 2.83
3319 7034 1.272807 CGGTTCTTAGTTCCCAGGGA 58.727 55.000 3.01 3.01 0.00 4.20
3400 7117 4.684242 TGTATCATCGGCGTTGACATATTC 59.316 41.667 21.55 6.00 0.00 1.75
3460 7313 7.054751 GTCTCTTATATAACCCAAGGCTTTGT 58.945 38.462 7.87 0.00 32.21 2.83
4045 7909 4.020218 TCCTTACCAGTTCCTGTCATTCTG 60.020 45.833 0.00 0.00 0.00 3.02
4347 8212 6.822170 GTCCGGAAATACTTGTCCTAGAAATT 59.178 38.462 5.23 0.00 0.00 1.82
4477 8342 6.529125 GTGGAAGCATCATTTATCAACACAAG 59.471 38.462 0.00 0.00 0.00 3.16
4499 8364 7.653713 ACAAGCATAATAGAACGGTAGAATCTG 59.346 37.037 0.00 0.00 0.00 2.90
4500 8365 7.291411 AGCATAATAGAACGGTAGAATCTGT 57.709 36.000 0.00 0.00 0.00 3.41
4501 8366 8.405418 AGCATAATAGAACGGTAGAATCTGTA 57.595 34.615 0.00 0.00 0.00 2.74
4502 8367 8.298140 AGCATAATAGAACGGTAGAATCTGTAC 58.702 37.037 0.00 0.00 0.00 2.90
4503 8368 7.270793 GCATAATAGAACGGTAGAATCTGTACG 59.729 40.741 0.00 0.00 0.00 3.67
4504 8369 5.686159 ATAGAACGGTAGAATCTGTACGG 57.314 43.478 0.00 0.00 0.00 4.02
4505 8370 2.098770 AGAACGGTAGAATCTGTACGGC 59.901 50.000 0.00 0.00 0.00 5.68
4531 8420 2.241160 AGCTGATGTGCATTGGTTTCA 58.759 42.857 0.00 0.00 34.99 2.69
4536 8425 5.408880 TGATGTGCATTGGTTTCATTGAT 57.591 34.783 0.00 0.00 0.00 2.57
4566 8463 8.746052 TTCAGTTCCAATTTTATATCCACGAT 57.254 30.769 0.00 0.00 0.00 3.73
4579 8476 3.179443 TCCACGATGTTTAGGCATCTC 57.821 47.619 0.00 0.00 42.14 2.75
4580 8477 2.499693 TCCACGATGTTTAGGCATCTCA 59.500 45.455 0.00 0.00 42.14 3.27
4623 9228 1.896660 GTGGTGATGCGTGGTTGGT 60.897 57.895 0.00 0.00 0.00 3.67
4624 9229 1.152860 TGGTGATGCGTGGTTGGTT 60.153 52.632 0.00 0.00 0.00 3.67
4629 9234 3.004171 GTGATGCGTGGTTGGTTGTATA 58.996 45.455 0.00 0.00 0.00 1.47
4634 9239 2.162608 GCGTGGTTGGTTGTATATGCAA 59.837 45.455 1.68 1.68 0.00 4.08
4635 9240 3.366476 GCGTGGTTGGTTGTATATGCAAA 60.366 43.478 7.88 0.00 0.00 3.68
4653 9258 3.485743 GCAAACTTTGAACTTTGTAGGCG 59.514 43.478 5.65 0.00 31.20 5.52
4655 9260 3.963383 ACTTTGAACTTTGTAGGCGTG 57.037 42.857 0.00 0.00 0.00 5.34
4777 9382 1.197910 GCGCTTACACATCGGTAGTC 58.802 55.000 0.00 0.00 0.00 2.59
4778 9383 1.468565 GCGCTTACACATCGGTAGTCA 60.469 52.381 0.00 0.00 0.00 3.41
4779 9384 2.798499 GCGCTTACACATCGGTAGTCAT 60.798 50.000 0.00 0.00 0.00 3.06
4780 9385 3.043586 CGCTTACACATCGGTAGTCATC 58.956 50.000 0.00 0.00 0.00 2.92
4781 9386 3.488553 CGCTTACACATCGGTAGTCATCA 60.489 47.826 0.00 0.00 0.00 3.07
4782 9387 4.621991 GCTTACACATCGGTAGTCATCAT 58.378 43.478 0.00 0.00 0.00 2.45
4793 9399 4.201753 CGGTAGTCATCATTTGCAACTCTG 60.202 45.833 0.00 0.00 0.00 3.35
4842 9769 3.743584 CGAGTGGAGGAGATTGCATTCAT 60.744 47.826 10.98 0.00 0.00 2.57
4868 9795 6.474140 TGTAGAATACACCCATACATCGTT 57.526 37.500 0.00 0.00 46.14 3.85
4869 9796 6.277605 TGTAGAATACACCCATACATCGTTG 58.722 40.000 0.00 0.00 46.14 4.10
4870 9797 5.607939 AGAATACACCCATACATCGTTGA 57.392 39.130 0.00 0.00 0.00 3.18
4871 9798 6.174720 AGAATACACCCATACATCGTTGAT 57.825 37.500 0.00 0.00 0.00 2.57
4872 9799 5.991606 AGAATACACCCATACATCGTTGATG 59.008 40.000 5.29 5.29 44.71 3.07
4873 9800 2.917933 ACACCCATACATCGTTGATGG 58.082 47.619 11.17 13.61 43.60 3.51
4879 9806 4.893608 CCATACATCGTTGATGGGATACA 58.106 43.478 11.17 0.00 43.60 2.29
4880 9807 5.491070 CCATACATCGTTGATGGGATACAT 58.509 41.667 11.17 0.00 43.60 2.29
4881 9808 6.639563 CCATACATCGTTGATGGGATACATA 58.360 40.000 11.17 0.00 43.60 2.29
4956 9883 2.990967 CATGCGCCCACCAAGGTT 60.991 61.111 4.18 0.00 34.66 3.50
4957 9884 2.676471 ATGCGCCCACCAAGGTTC 60.676 61.111 4.18 0.00 34.66 3.62
4961 9888 4.660938 GCCCACCAAGGTTCGGCT 62.661 66.667 16.36 0.00 37.75 5.52
4962 9889 2.359975 CCCACCAAGGTTCGGCTC 60.360 66.667 0.00 0.00 34.66 4.70
4963 9890 2.359975 CCACCAAGGTTCGGCTCC 60.360 66.667 0.00 0.00 0.00 4.70
4964 9891 2.750350 CACCAAGGTTCGGCTCCT 59.250 61.111 0.00 0.00 36.81 3.69
4965 9892 1.376037 CACCAAGGTTCGGCTCCTC 60.376 63.158 0.00 0.00 33.76 3.71
4966 9893 1.536662 ACCAAGGTTCGGCTCCTCT 60.537 57.895 0.00 0.00 33.76 3.69
4967 9894 1.078848 CCAAGGTTCGGCTCCTCTG 60.079 63.158 0.00 0.00 33.76 3.35
4968 9895 1.743252 CAAGGTTCGGCTCCTCTGC 60.743 63.158 0.00 0.00 33.76 4.26
4969 9896 2.217038 AAGGTTCGGCTCCTCTGCA 61.217 57.895 0.00 0.00 33.76 4.41
4970 9897 2.125350 GGTTCGGCTCCTCTGCAG 60.125 66.667 7.63 7.63 34.04 4.41
4971 9898 2.659610 GTTCGGCTCCTCTGCAGT 59.340 61.111 14.67 0.00 34.04 4.40
4972 9899 1.605058 GGTTCGGCTCCTCTGCAGTA 61.605 60.000 14.67 0.00 34.04 2.74
4973 9900 0.246635 GTTCGGCTCCTCTGCAGTAA 59.753 55.000 14.67 0.00 34.04 2.24
4974 9901 0.973632 TTCGGCTCCTCTGCAGTAAA 59.026 50.000 14.67 0.00 34.04 2.01
4975 9902 0.532573 TCGGCTCCTCTGCAGTAAAG 59.467 55.000 14.67 10.25 34.04 1.85
4976 9903 1.086634 CGGCTCCTCTGCAGTAAAGC 61.087 60.000 20.98 20.98 34.04 3.51
4977 9904 0.251634 GGCTCCTCTGCAGTAAAGCT 59.748 55.000 25.04 0.00 34.99 3.74
4978 9905 1.482593 GGCTCCTCTGCAGTAAAGCTA 59.517 52.381 25.04 3.52 34.99 3.32
4979 9906 2.103941 GGCTCCTCTGCAGTAAAGCTAT 59.896 50.000 25.04 0.00 34.99 2.97
4980 9907 3.432890 GGCTCCTCTGCAGTAAAGCTATT 60.433 47.826 25.04 0.00 34.99 1.73
4981 9908 4.202264 GGCTCCTCTGCAGTAAAGCTATTA 60.202 45.833 25.04 1.65 34.99 0.98
4982 9909 4.747605 GCTCCTCTGCAGTAAAGCTATTAC 59.252 45.833 21.49 9.46 34.99 1.89
4983 9910 5.452636 GCTCCTCTGCAGTAAAGCTATTACT 60.453 44.000 21.49 12.65 35.76 2.24
4992 9919 7.205950 CAGTAAAGCTATTACTGTACACGTG 57.794 40.000 25.13 15.48 44.05 4.49
4993 9920 5.803967 AGTAAAGCTATTACTGTACACGTGC 59.196 40.000 17.22 0.00 33.46 5.34
4994 9921 4.451629 AAGCTATTACTGTACACGTGCT 57.548 40.909 17.22 5.64 0.00 4.40
4995 9922 3.770666 AGCTATTACTGTACACGTGCTG 58.229 45.455 17.22 6.98 0.00 4.41
4996 9923 3.192844 AGCTATTACTGTACACGTGCTGT 59.807 43.478 17.22 12.63 36.82 4.40
4997 9924 4.397103 AGCTATTACTGTACACGTGCTGTA 59.603 41.667 17.22 11.63 33.91 2.74
4998 9925 4.733887 GCTATTACTGTACACGTGCTGTAG 59.266 45.833 17.22 11.47 35.93 2.74
4999 9926 2.624316 TACTGTACACGTGCTGTAGC 57.376 50.000 17.22 0.00 35.93 3.58
5000 9927 0.386858 ACTGTACACGTGCTGTAGCG 60.387 55.000 17.22 0.29 45.83 4.26
5001 9928 0.386858 CTGTACACGTGCTGTAGCGT 60.387 55.000 17.22 0.00 45.83 5.07
5002 9929 0.386352 TGTACACGTGCTGTAGCGTC 60.386 55.000 17.22 0.00 45.83 5.19
5003 9930 0.109873 GTACACGTGCTGTAGCGTCT 60.110 55.000 17.22 0.00 45.83 4.18
5004 9931 1.129251 GTACACGTGCTGTAGCGTCTA 59.871 52.381 17.22 0.00 45.83 2.59
5005 9932 0.168348 ACACGTGCTGTAGCGTCTAG 59.832 55.000 17.22 0.00 45.83 2.43
5006 9933 1.134530 CACGTGCTGTAGCGTCTAGC 61.135 60.000 0.82 0.00 45.83 3.42
5016 9943 4.814900 CGTCTAGCATCTGCCGTT 57.185 55.556 0.00 0.00 43.38 4.44
5017 9944 3.050703 CGTCTAGCATCTGCCGTTT 57.949 52.632 0.00 0.00 43.38 3.60
5018 9945 2.203800 CGTCTAGCATCTGCCGTTTA 57.796 50.000 0.00 0.00 43.38 2.01
5019 9946 2.743938 CGTCTAGCATCTGCCGTTTAT 58.256 47.619 0.00 0.00 43.38 1.40
5020 9947 3.123804 CGTCTAGCATCTGCCGTTTATT 58.876 45.455 0.00 0.00 43.38 1.40
5021 9948 3.555956 CGTCTAGCATCTGCCGTTTATTT 59.444 43.478 0.00 0.00 43.38 1.40
5022 9949 4.034048 CGTCTAGCATCTGCCGTTTATTTT 59.966 41.667 0.00 0.00 43.38 1.82
5023 9950 5.233476 CGTCTAGCATCTGCCGTTTATTTTA 59.767 40.000 0.00 0.00 43.38 1.52
5024 9951 6.237996 CGTCTAGCATCTGCCGTTTATTTTAA 60.238 38.462 0.00 0.00 43.38 1.52
5025 9952 7.518370 CGTCTAGCATCTGCCGTTTATTTTAAT 60.518 37.037 0.00 0.00 43.38 1.40
5026 9953 7.798982 GTCTAGCATCTGCCGTTTATTTTAATC 59.201 37.037 0.00 0.00 43.38 1.75
5027 9954 5.510671 AGCATCTGCCGTTTATTTTAATCG 58.489 37.500 0.00 0.00 43.38 3.34
5028 9955 4.675114 GCATCTGCCGTTTATTTTAATCGG 59.325 41.667 10.83 10.83 43.37 4.18
5029 9956 5.504994 GCATCTGCCGTTTATTTTAATCGGA 60.505 40.000 16.81 5.44 43.22 4.55
5030 9957 6.668323 CATCTGCCGTTTATTTTAATCGGAT 58.332 36.000 16.81 3.53 43.22 4.18
5031 9958 6.055231 TCTGCCGTTTATTTTAATCGGATG 57.945 37.500 16.81 10.11 43.22 3.51
5032 9959 5.008217 TCTGCCGTTTATTTTAATCGGATGG 59.992 40.000 16.81 8.36 43.22 3.51
5033 9960 3.978855 GCCGTTTATTTTAATCGGATGGC 59.021 43.478 16.81 3.51 43.22 4.40
5034 9961 4.261447 GCCGTTTATTTTAATCGGATGGCT 60.261 41.667 16.81 0.00 43.22 4.75
5035 9962 5.449304 CCGTTTATTTTAATCGGATGGCTC 58.551 41.667 9.96 0.00 43.22 4.70
5036 9963 5.449304 CGTTTATTTTAATCGGATGGCTCC 58.551 41.667 0.00 0.00 38.29 4.70
5037 9964 5.008217 CGTTTATTTTAATCGGATGGCTCCA 59.992 40.000 0.00 0.00 42.19 3.86
5038 9965 6.459024 CGTTTATTTTAATCGGATGGCTCCAA 60.459 38.462 0.00 0.00 42.19 3.53
5039 9966 4.918810 ATTTTAATCGGATGGCTCCAAC 57.081 40.909 0.00 0.00 42.19 3.77
5040 9967 3.358111 TTTAATCGGATGGCTCCAACA 57.642 42.857 0.00 0.00 42.19 3.33
5041 9968 3.358111 TTAATCGGATGGCTCCAACAA 57.642 42.857 0.00 0.00 42.19 2.83
5042 9969 2.214376 AATCGGATGGCTCCAACAAA 57.786 45.000 0.00 0.00 42.19 2.83
5043 9970 1.755179 ATCGGATGGCTCCAACAAAG 58.245 50.000 0.00 0.00 42.19 2.77
5044 9971 0.690192 TCGGATGGCTCCAACAAAGA 59.310 50.000 0.00 0.00 42.19 2.52
5045 9972 1.073125 TCGGATGGCTCCAACAAAGAA 59.927 47.619 0.00 0.00 42.19 2.52
5046 9973 2.094675 CGGATGGCTCCAACAAAGAAT 58.905 47.619 0.00 0.00 42.19 2.40
5047 9974 2.098117 CGGATGGCTCCAACAAAGAATC 59.902 50.000 0.00 0.00 42.19 2.52
5048 9975 2.098117 GGATGGCTCCAACAAAGAATCG 59.902 50.000 0.00 0.00 41.64 3.34
5049 9976 0.881118 TGGCTCCAACAAAGAATCGC 59.119 50.000 0.00 0.00 0.00 4.58
5050 9977 1.168714 GGCTCCAACAAAGAATCGCT 58.831 50.000 0.00 0.00 0.00 4.93
5051 9978 1.135575 GGCTCCAACAAAGAATCGCTG 60.136 52.381 0.00 0.00 0.00 5.18
5052 9979 1.135575 GCTCCAACAAAGAATCGCTGG 60.136 52.381 0.00 0.00 0.00 4.85
5053 9980 1.470098 CTCCAACAAAGAATCGCTGGG 59.530 52.381 0.00 0.00 0.00 4.45
5054 9981 0.109132 CCAACAAAGAATCGCTGGGC 60.109 55.000 0.00 0.00 0.00 5.36
5055 9982 0.883833 CAACAAAGAATCGCTGGGCT 59.116 50.000 0.00 0.00 0.00 5.19
5056 9983 1.135575 CAACAAAGAATCGCTGGGCTC 60.136 52.381 0.00 0.00 0.00 4.70
5057 9984 0.036732 ACAAAGAATCGCTGGGCTCA 59.963 50.000 0.00 0.00 0.00 4.26
5058 9985 1.340405 ACAAAGAATCGCTGGGCTCAT 60.340 47.619 0.00 0.00 0.00 2.90
5059 9986 2.092968 ACAAAGAATCGCTGGGCTCATA 60.093 45.455 0.00 0.00 0.00 2.15
5060 9987 3.144506 CAAAGAATCGCTGGGCTCATAT 58.855 45.455 0.00 0.00 0.00 1.78
5061 9988 4.202357 ACAAAGAATCGCTGGGCTCATATA 60.202 41.667 0.00 0.00 0.00 0.86
5062 9989 4.623932 AAGAATCGCTGGGCTCATATAA 57.376 40.909 0.00 0.00 0.00 0.98
5063 9990 4.623932 AGAATCGCTGGGCTCATATAAA 57.376 40.909 0.00 0.00 0.00 1.40
5064 9991 4.973168 AGAATCGCTGGGCTCATATAAAA 58.027 39.130 0.00 0.00 0.00 1.52
5065 9992 5.376625 AGAATCGCTGGGCTCATATAAAAA 58.623 37.500 0.00 0.00 0.00 1.94
5087 10014 5.758790 AAGTAAAGGAAACTACTCCCTCC 57.241 43.478 0.00 0.00 42.68 4.30
5088 10015 3.768215 AGTAAAGGAAACTACTCCCTCCG 59.232 47.826 0.00 0.00 42.68 4.63
5089 10016 2.322339 AAGGAAACTACTCCCTCCGT 57.678 50.000 0.00 0.00 42.68 4.69
5090 10017 2.322339 AGGAAACTACTCCCTCCGTT 57.678 50.000 0.00 0.00 40.61 4.44
5091 10018 2.177734 AGGAAACTACTCCCTCCGTTC 58.822 52.381 0.00 0.00 40.61 3.95
5092 10019 1.206610 GGAAACTACTCCCTCCGTTCC 59.793 57.143 0.00 0.00 0.00 3.62
5093 10020 2.177734 GAAACTACTCCCTCCGTTCCT 58.822 52.381 0.00 0.00 0.00 3.36
5094 10021 3.359950 GAAACTACTCCCTCCGTTCCTA 58.640 50.000 0.00 0.00 0.00 2.94
5095 10022 3.463048 AACTACTCCCTCCGTTCCTAA 57.537 47.619 0.00 0.00 0.00 2.69
5096 10023 3.463048 ACTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
5097 10024 3.991683 ACTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
5098 10025 5.134725 ACTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
5099 10026 4.892345 ACTACTCCCTCCGTTCCTAAATAC 59.108 45.833 0.00 0.00 0.00 1.89
5100 10027 3.991683 ACTCCCTCCGTTCCTAAATACT 58.008 45.455 0.00 0.00 0.00 2.12
5101 10028 4.359996 ACTCCCTCCGTTCCTAAATACTT 58.640 43.478 0.00 0.00 0.00 2.24
5102 10029 4.161754 ACTCCCTCCGTTCCTAAATACTTG 59.838 45.833 0.00 0.00 0.00 3.16
5103 10030 4.098894 TCCCTCCGTTCCTAAATACTTGT 58.901 43.478 0.00 0.00 0.00 3.16
5104 10031 4.161001 TCCCTCCGTTCCTAAATACTTGTC 59.839 45.833 0.00 0.00 0.00 3.18
5105 10032 4.161754 CCCTCCGTTCCTAAATACTTGTCT 59.838 45.833 0.00 0.00 0.00 3.41
5106 10033 5.338137 CCCTCCGTTCCTAAATACTTGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
5107 10034 6.171213 CCTCCGTTCCTAAATACTTGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
5108 10035 6.313164 CCTCCGTTCCTAAATACTTGTCTTTC 59.687 42.308 0.00 0.00 0.00 2.62
5109 10036 7.001099 TCCGTTCCTAAATACTTGTCTTTCT 57.999 36.000 0.00 0.00 0.00 2.52
5110 10037 8.125978 TCCGTTCCTAAATACTTGTCTTTCTA 57.874 34.615 0.00 0.00 0.00 2.10
5111 10038 8.248945 TCCGTTCCTAAATACTTGTCTTTCTAG 58.751 37.037 0.00 0.00 0.00 2.43
5112 10039 8.248945 CCGTTCCTAAATACTTGTCTTTCTAGA 58.751 37.037 0.00 0.00 0.00 2.43
5113 10040 9.291664 CGTTCCTAAATACTTGTCTTTCTAGAG 57.708 37.037 0.00 0.00 0.00 2.43
5123 10050 8.964476 ACTTGTCTTTCTAGAGATTTCAACAA 57.036 30.769 0.00 0.00 0.00 2.83
5124 10051 9.050601 ACTTGTCTTTCTAGAGATTTCAACAAG 57.949 33.333 18.42 18.42 32.73 3.16
5125 10052 8.964476 TTGTCTTTCTAGAGATTTCAACAAGT 57.036 30.769 0.00 0.00 0.00 3.16
5126 10053 8.370493 TGTCTTTCTAGAGATTTCAACAAGTG 57.630 34.615 0.00 0.00 0.00 3.16
5127 10054 8.204160 TGTCTTTCTAGAGATTTCAACAAGTGA 58.796 33.333 0.00 0.00 0.00 3.41
5128 10055 8.491950 GTCTTTCTAGAGATTTCAACAAGTGAC 58.508 37.037 0.00 0.00 35.39 3.67
5129 10056 8.424918 TCTTTCTAGAGATTTCAACAAGTGACT 58.575 33.333 0.00 0.00 35.39 3.41
5130 10057 9.698309 CTTTCTAGAGATTTCAACAAGTGACTA 57.302 33.333 0.00 0.00 35.39 2.59
5131 10058 9.477484 TTTCTAGAGATTTCAACAAGTGACTAC 57.523 33.333 0.00 0.00 35.39 2.73
5132 10059 8.178313 TCTAGAGATTTCAACAAGTGACTACA 57.822 34.615 0.00 0.00 35.39 2.74
5133 10060 8.807118 TCTAGAGATTTCAACAAGTGACTACAT 58.193 33.333 0.00 0.00 35.39 2.29
5135 10062 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
5136 10063 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
5137 10064 6.590292 AGATTTCAACAAGTGACTACATACGG 59.410 38.462 0.00 0.00 35.39 4.02
5138 10065 3.581755 TCAACAAGTGACTACATACGGC 58.418 45.455 0.00 0.00 0.00 5.68
5139 10066 2.273370 ACAAGTGACTACATACGGCG 57.727 50.000 4.80 4.80 0.00 6.46
5140 10067 0.921347 CAAGTGACTACATACGGCGC 59.079 55.000 6.90 0.00 0.00 6.53
5141 10068 0.528924 AAGTGACTACATACGGCGCA 59.471 50.000 10.83 0.00 0.00 6.09
5142 10069 0.528924 AGTGACTACATACGGCGCAA 59.471 50.000 10.83 0.00 0.00 4.85
5143 10070 1.067425 AGTGACTACATACGGCGCAAA 60.067 47.619 10.83 0.00 0.00 3.68
5144 10071 1.727880 GTGACTACATACGGCGCAAAA 59.272 47.619 10.83 0.00 0.00 2.44
5145 10072 2.350498 GTGACTACATACGGCGCAAAAT 59.650 45.455 10.83 0.00 0.00 1.82
5146 10073 2.350192 TGACTACATACGGCGCAAAATG 59.650 45.455 10.83 11.57 0.00 2.32
5147 10074 2.605818 GACTACATACGGCGCAAAATGA 59.394 45.455 10.83 0.00 0.00 2.57
5148 10075 2.607635 ACTACATACGGCGCAAAATGAG 59.392 45.455 10.83 10.39 0.00 2.90
5149 10076 1.448985 ACATACGGCGCAAAATGAGT 58.551 45.000 10.83 0.00 0.00 3.41
5150 10077 1.130373 ACATACGGCGCAAAATGAGTG 59.870 47.619 10.83 0.00 0.00 3.51
5151 10078 1.396648 CATACGGCGCAAAATGAGTGA 59.603 47.619 10.83 0.00 0.00 3.41
5152 10079 1.514003 TACGGCGCAAAATGAGTGAA 58.486 45.000 10.83 0.00 0.00 3.18
5153 10080 0.881118 ACGGCGCAAAATGAGTGAAT 59.119 45.000 10.83 0.00 0.00 2.57
5154 10081 1.135689 ACGGCGCAAAATGAGTGAATC 60.136 47.619 10.83 0.00 0.00 2.52
5155 10082 1.131126 CGGCGCAAAATGAGTGAATCT 59.869 47.619 10.83 0.00 0.00 2.40
5156 10083 2.351418 CGGCGCAAAATGAGTGAATCTA 59.649 45.455 10.83 0.00 0.00 1.98
5157 10084 3.685058 GGCGCAAAATGAGTGAATCTAC 58.315 45.455 10.83 0.00 0.00 2.59
5158 10085 3.126858 GGCGCAAAATGAGTGAATCTACA 59.873 43.478 10.83 0.00 0.00 2.74
5159 10086 4.091424 GCGCAAAATGAGTGAATCTACAC 58.909 43.478 0.30 0.00 40.60 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
60 61 6.709397 CACCATGTCTACTCTATTGCAATGAT 59.291 38.462 22.27 6.95 0.00 2.45
64 65 5.420725 ACACCATGTCTACTCTATTGCAA 57.579 39.130 0.00 0.00 0.00 4.08
186 187 0.249114 TGTGCGACGTGCTCAAGTTA 60.249 50.000 0.00 0.00 43.59 2.24
257 258 8.760541 GCTGTAAGTTTGTTCATCCATCAGGAT 61.761 40.741 0.00 0.00 46.89 3.24
258 259 7.518697 GCTGTAAGTTTGTTCATCCATCAGGA 61.519 42.308 0.00 0.00 42.76 3.86
259 260 5.392380 GCTGTAAGTTTGTTCATCCATCAGG 60.392 44.000 0.00 0.00 35.30 3.86
261 262 5.069318 TGCTGTAAGTTTGTTCATCCATCA 58.931 37.500 0.00 0.00 35.30 3.07
343 348 1.065782 TCTTTCCGGATCGAATTGGCA 60.066 47.619 4.15 0.00 0.00 4.92
590 608 4.443266 AGCTCGGAGCAGCGTTCC 62.443 66.667 29.88 0.00 45.56 3.62
609 627 0.108585 ATAGGATTTGCCGGCGACAT 59.891 50.000 23.90 15.79 43.43 3.06
618 636 0.249447 GCCGGCCAAATAGGATTTGC 60.249 55.000 18.11 3.16 41.22 3.68
630 648 4.504596 CTAAGCATGGGCCGGCCA 62.505 66.667 44.46 30.82 42.56 5.36
825 851 2.515057 TGCCTTGTTCGTGCGGTT 60.515 55.556 0.00 0.00 0.00 4.44
826 852 3.276846 GTGCCTTGTTCGTGCGGT 61.277 61.111 0.00 0.00 0.00 5.68
827 853 2.443957 GAAGTGCCTTGTTCGTGCGG 62.444 60.000 0.00 0.00 0.00 5.69
1120 4749 2.186903 CACCCCCTCGTCGGATTG 59.813 66.667 0.00 0.00 33.16 2.67
1390 5028 2.185004 ATACTGAACACACTGTGCCC 57.815 50.000 9.20 2.13 36.98 5.36
1394 5032 4.838986 AGGAGGTAATACTGAACACACTGT 59.161 41.667 0.00 0.00 0.00 3.55
1515 5159 1.466167 CCAGTCAAAAGCATGGAGACG 59.534 52.381 0.00 0.00 34.60 4.18
1569 5213 2.657944 CTGAGCAGCTCGGCGATC 60.658 66.667 18.56 6.27 39.27 3.69
1630 5277 7.165460 TGTCCTTCTCATTAACACGAAGATA 57.835 36.000 9.72 0.00 35.97 1.98
1779 5455 1.380246 GTGCCCATGGATCTTGCCA 60.380 57.895 15.22 0.00 43.23 4.92
2028 5704 1.874739 CGAAGGAACGTAACAAGGCCA 60.875 52.381 5.01 0.00 0.00 5.36
2129 5805 4.365514 TGACCATGCTTCTTTACCTCAA 57.634 40.909 0.00 0.00 0.00 3.02
2168 5844 1.344438 CTTGCATATAGGCGTCCTGGA 59.656 52.381 4.73 0.00 34.61 3.86
2498 6176 0.448197 TTGCTGAGAGTAGTCGCTCG 59.552 55.000 2.86 0.00 42.09 5.03
2978 6692 9.077674 GTATATTGGCTAATCGACTGTGATAAG 57.922 37.037 0.00 0.00 0.00 1.73
3034 6748 3.754965 ACGTGGCTCCATATAAATGCAT 58.245 40.909 0.00 0.00 0.00 3.96
3258 6973 3.018149 GGTCTGAACTACGAGATGGTCT 58.982 50.000 0.00 0.00 0.00 3.85
3284 6999 2.358322 ACCGGAGAACAAAATGGTGT 57.642 45.000 9.46 0.00 0.00 4.16
3285 7000 2.884639 AGAACCGGAGAACAAAATGGTG 59.115 45.455 9.46 0.00 0.00 4.17
3286 7001 3.223674 AGAACCGGAGAACAAAATGGT 57.776 42.857 9.46 0.00 0.00 3.55
3287 7002 4.760204 ACTAAGAACCGGAGAACAAAATGG 59.240 41.667 9.46 0.00 0.00 3.16
3288 7003 5.941948 ACTAAGAACCGGAGAACAAAATG 57.058 39.130 9.46 0.00 0.00 2.32
3295 7010 2.565834 CTGGGAACTAAGAACCGGAGAA 59.434 50.000 9.46 0.00 0.00 2.87
3319 7034 7.721399 AGTGTTCTCTCACATACCAATTTCTTT 59.279 33.333 0.00 0.00 40.37 2.52
3690 7544 4.322804 CGTCATATATTTCGTAACGGAGGC 59.677 45.833 0.00 0.00 0.00 4.70
3956 7820 2.026915 TCCTCGTAGCGCCCATAGTATA 60.027 50.000 2.29 0.00 0.00 1.47
4045 7909 5.300034 TCATTGTGGCCATTACATCAGAATC 59.700 40.000 9.72 0.00 0.00 2.52
4302 8167 5.050769 CGGACAGATGGAGTATTCATTTTCG 60.051 44.000 0.00 0.00 31.38 3.46
4412 8277 4.837093 AACAAATACTCCCTCCATCGAA 57.163 40.909 0.00 0.00 0.00 3.71
4414 8279 6.994221 ACTATAACAAATACTCCCTCCATCG 58.006 40.000 0.00 0.00 0.00 3.84
4477 8342 7.270793 CGTACAGATTCTACCGTTCTATTATGC 59.729 40.741 0.00 0.00 0.00 3.14
4488 8353 1.948145 AGAGCCGTACAGATTCTACCG 59.052 52.381 0.00 0.00 0.00 4.02
4505 8370 3.693085 ACCAATGCACATCAGCTAAAGAG 59.307 43.478 0.00 0.00 34.99 2.85
4518 8407 3.929094 ACCATCAATGAAACCAATGCAC 58.071 40.909 0.00 0.00 0.00 4.57
4536 8425 9.928618 TGGATATAAAATTGGAACTGAATACCA 57.071 29.630 0.00 0.00 0.00 3.25
4563 8460 5.065090 TCATGTTTGAGATGCCTAAACATCG 59.935 40.000 10.56 7.80 46.36 3.84
4566 8463 6.038603 GCTATCATGTTTGAGATGCCTAAACA 59.961 38.462 0.00 0.00 45.12 2.83
4571 8468 3.136763 CGCTATCATGTTTGAGATGCCT 58.863 45.455 0.00 0.00 34.73 4.75
4603 9208 0.321210 CCAACCACGCATCACCACTA 60.321 55.000 0.00 0.00 0.00 2.74
4604 9209 1.600636 CCAACCACGCATCACCACT 60.601 57.895 0.00 0.00 0.00 4.00
4634 9239 3.942748 TCACGCCTACAAAGTTCAAAGTT 59.057 39.130 0.00 0.00 0.00 2.66
4635 9240 3.537580 TCACGCCTACAAAGTTCAAAGT 58.462 40.909 0.00 0.00 0.00 2.66
4653 9258 2.991540 GGCCAGGCCCTTGTTCAC 60.992 66.667 21.62 0.00 44.06 3.18
4666 9271 0.179051 CAAGCTTTGCCAAAAGGCCA 60.179 50.000 5.01 0.00 42.66 5.36
4793 9399 2.023223 CACCGCAAAACTGCATGGC 61.023 57.895 0.00 0.00 34.41 4.40
4794 9400 2.023223 GCACCGCAAAACTGCATGG 61.023 57.895 0.00 0.00 34.41 3.66
4800 9406 1.658686 TTCAACCGCACCGCAAAACT 61.659 50.000 0.00 0.00 0.00 2.66
4810 9416 1.300620 CTCCACTCGTTCAACCGCA 60.301 57.895 0.00 0.00 0.00 5.69
4857 9784 4.893608 TGTATCCCATCAACGATGTATGG 58.106 43.478 13.52 13.52 38.28 2.74
4858 9785 7.819415 AGTTATGTATCCCATCAACGATGTATG 59.181 37.037 3.47 0.00 38.28 2.39
4859 9786 7.907389 AGTTATGTATCCCATCAACGATGTAT 58.093 34.615 3.47 0.20 38.28 2.29
4860 9787 7.014808 TGAGTTATGTATCCCATCAACGATGTA 59.985 37.037 3.47 0.00 38.28 2.29
4861 9788 6.174720 AGTTATGTATCCCATCAACGATGT 57.825 37.500 3.47 0.00 38.28 3.06
4862 9789 6.146184 GTGAGTTATGTATCCCATCAACGATG 59.854 42.308 0.00 0.00 39.52 3.84
4863 9790 6.183360 TGTGAGTTATGTATCCCATCAACGAT 60.183 38.462 0.00 0.00 34.86 3.73
4864 9791 5.128008 TGTGAGTTATGTATCCCATCAACGA 59.872 40.000 0.00 0.00 34.86 3.85
4865 9792 5.356426 TGTGAGTTATGTATCCCATCAACG 58.644 41.667 0.00 0.00 34.86 4.10
4866 9793 7.552687 TCTTTGTGAGTTATGTATCCCATCAAC 59.447 37.037 0.00 0.00 34.86 3.18
4867 9794 7.629157 TCTTTGTGAGTTATGTATCCCATCAA 58.371 34.615 0.00 0.00 34.86 2.57
4868 9795 7.125659 TCTCTTTGTGAGTTATGTATCCCATCA 59.874 37.037 0.00 0.00 43.13 3.07
4869 9796 7.500992 TCTCTTTGTGAGTTATGTATCCCATC 58.499 38.462 0.00 0.00 43.13 3.51
4870 9797 7.437713 TCTCTTTGTGAGTTATGTATCCCAT 57.562 36.000 0.00 0.00 43.13 4.00
4871 9798 6.867519 TCTCTTTGTGAGTTATGTATCCCA 57.132 37.500 0.00 0.00 43.13 4.37
4872 9799 6.931840 GGATCTCTTTGTGAGTTATGTATCCC 59.068 42.308 0.00 0.00 43.13 3.85
4873 9800 7.500992 TGGATCTCTTTGTGAGTTATGTATCC 58.499 38.462 0.00 0.00 43.13 2.59
4874 9801 9.553064 AATGGATCTCTTTGTGAGTTATGTATC 57.447 33.333 0.00 0.00 43.13 2.24
4875 9802 9.553064 GAATGGATCTCTTTGTGAGTTATGTAT 57.447 33.333 0.00 0.00 43.13 2.29
4876 9803 8.539544 TGAATGGATCTCTTTGTGAGTTATGTA 58.460 33.333 0.00 0.00 43.13 2.29
4877 9804 7.335422 GTGAATGGATCTCTTTGTGAGTTATGT 59.665 37.037 0.00 0.00 43.13 2.29
4878 9805 7.201679 GGTGAATGGATCTCTTTGTGAGTTATG 60.202 40.741 0.00 0.00 43.13 1.90
4879 9806 6.825721 GGTGAATGGATCTCTTTGTGAGTTAT 59.174 38.462 0.00 0.00 43.13 1.89
4880 9807 6.173339 GGTGAATGGATCTCTTTGTGAGTTA 58.827 40.000 0.00 0.00 43.13 2.24
4881 9808 5.006386 GGTGAATGGATCTCTTTGTGAGTT 58.994 41.667 0.00 0.00 43.13 3.01
4954 9881 0.246635 TTACTGCAGAGGAGCCGAAC 59.753 55.000 23.35 0.00 0.00 3.95
4955 9882 0.973632 TTTACTGCAGAGGAGCCGAA 59.026 50.000 23.35 0.07 0.00 4.30
4956 9883 0.532573 CTTTACTGCAGAGGAGCCGA 59.467 55.000 23.35 0.00 0.00 5.54
4957 9884 1.086634 GCTTTACTGCAGAGGAGCCG 61.087 60.000 23.35 2.86 0.00 5.52
4958 9885 0.251634 AGCTTTACTGCAGAGGAGCC 59.748 55.000 23.35 10.13 34.99 4.70
4959 9886 2.969628 TAGCTTTACTGCAGAGGAGC 57.030 50.000 23.35 23.09 34.99 4.70
4960 9887 5.982516 CAGTAATAGCTTTACTGCAGAGGAG 59.017 44.000 23.35 14.81 43.40 3.69
4961 9888 5.907207 CAGTAATAGCTTTACTGCAGAGGA 58.093 41.667 23.35 1.69 43.40 3.71
4969 9896 5.803967 GCACGTGTACAGTAATAGCTTTACT 59.196 40.000 18.38 12.65 35.76 2.24
4970 9897 5.803967 AGCACGTGTACAGTAATAGCTTTAC 59.196 40.000 18.38 0.89 0.00 2.01
4971 9898 5.803461 CAGCACGTGTACAGTAATAGCTTTA 59.197 40.000 18.38 0.00 0.00 1.85
4972 9899 4.625742 CAGCACGTGTACAGTAATAGCTTT 59.374 41.667 18.38 0.00 0.00 3.51
4973 9900 4.174009 CAGCACGTGTACAGTAATAGCTT 58.826 43.478 18.38 0.00 0.00 3.74
4974 9901 3.192844 ACAGCACGTGTACAGTAATAGCT 59.807 43.478 18.38 0.00 37.75 3.32
4975 9902 3.508762 ACAGCACGTGTACAGTAATAGC 58.491 45.455 18.38 0.00 37.75 2.97
4976 9903 4.733887 GCTACAGCACGTGTACAGTAATAG 59.266 45.833 18.38 8.87 40.94 1.73
4977 9904 4.665212 GCTACAGCACGTGTACAGTAATA 58.335 43.478 18.38 0.00 40.94 0.98
4978 9905 3.508762 GCTACAGCACGTGTACAGTAAT 58.491 45.455 18.38 0.00 40.94 1.89
4979 9906 2.666344 CGCTACAGCACGTGTACAGTAA 60.666 50.000 18.38 0.00 40.94 2.24
4980 9907 1.135888 CGCTACAGCACGTGTACAGTA 60.136 52.381 18.38 13.06 40.94 2.74
4981 9908 0.386858 CGCTACAGCACGTGTACAGT 60.387 55.000 18.38 12.63 40.94 3.55
4982 9909 0.386858 ACGCTACAGCACGTGTACAG 60.387 55.000 18.38 10.38 41.76 2.74
4983 9910 0.386352 GACGCTACAGCACGTGTACA 60.386 55.000 18.38 0.00 43.71 2.90
4984 9911 0.109873 AGACGCTACAGCACGTGTAC 60.110 55.000 18.38 0.57 43.71 2.90
4985 9912 1.395954 CTAGACGCTACAGCACGTGTA 59.604 52.381 18.38 0.42 43.71 2.90
4986 9913 0.168348 CTAGACGCTACAGCACGTGT 59.832 55.000 18.38 0.00 43.71 4.49
4987 9914 1.134530 GCTAGACGCTACAGCACGTG 61.135 60.000 12.28 12.28 43.71 4.49
4988 9915 1.136984 GCTAGACGCTACAGCACGT 59.863 57.895 1.61 0.00 46.91 4.49
4989 9916 1.136774 TGCTAGACGCTACAGCACG 59.863 57.895 1.61 0.00 40.26 5.34
4992 9919 1.764851 CAGATGCTAGACGCTACAGC 58.235 55.000 0.00 0.00 40.11 4.40
4993 9920 1.601663 GGCAGATGCTAGACGCTACAG 60.602 57.143 4.59 0.00 41.70 2.74
4994 9921 0.385751 GGCAGATGCTAGACGCTACA 59.614 55.000 4.59 0.00 41.70 2.74
4995 9922 0.661780 CGGCAGATGCTAGACGCTAC 60.662 60.000 4.59 0.00 41.70 3.58
4996 9923 1.101635 ACGGCAGATGCTAGACGCTA 61.102 55.000 4.59 0.00 41.70 4.26
4997 9924 1.949847 AACGGCAGATGCTAGACGCT 61.950 55.000 4.59 0.00 41.70 5.07
4998 9925 1.084370 AAACGGCAGATGCTAGACGC 61.084 55.000 4.59 0.00 41.70 5.19
4999 9926 2.203800 TAAACGGCAGATGCTAGACG 57.796 50.000 4.59 2.37 41.70 4.18
5000 9927 5.485662 AAAATAAACGGCAGATGCTAGAC 57.514 39.130 4.59 0.00 41.70 2.59
5001 9928 7.307160 CGATTAAAATAAACGGCAGATGCTAGA 60.307 37.037 4.59 0.00 41.70 2.43
5002 9929 6.792250 CGATTAAAATAAACGGCAGATGCTAG 59.208 38.462 4.59 2.32 41.70 3.42
5003 9930 6.293190 CCGATTAAAATAAACGGCAGATGCTA 60.293 38.462 4.59 0.00 41.70 3.49
5004 9931 5.505654 CCGATTAAAATAAACGGCAGATGCT 60.506 40.000 4.59 0.00 41.70 3.79
5005 9932 4.675114 CCGATTAAAATAAACGGCAGATGC 59.325 41.667 5.99 0.00 37.32 3.91
5006 9933 6.055231 TCCGATTAAAATAAACGGCAGATG 57.945 37.500 12.32 0.00 42.73 2.90
5007 9934 6.293955 CCATCCGATTAAAATAAACGGCAGAT 60.294 38.462 12.32 1.39 42.73 2.90
5008 9935 5.008217 CCATCCGATTAAAATAAACGGCAGA 59.992 40.000 12.32 0.00 42.73 4.26
5009 9936 5.212194 CCATCCGATTAAAATAAACGGCAG 58.788 41.667 12.32 8.03 42.73 4.85
5010 9937 4.498345 GCCATCCGATTAAAATAAACGGCA 60.498 41.667 12.32 4.49 42.73 5.69
5011 9938 3.978855 GCCATCCGATTAAAATAAACGGC 59.021 43.478 12.32 0.00 42.73 5.68
5012 9939 5.432885 AGCCATCCGATTAAAATAAACGG 57.567 39.130 11.26 11.26 44.09 4.44
5013 9940 5.449304 GGAGCCATCCGATTAAAATAAACG 58.551 41.667 0.00 0.00 35.37 3.60
5027 9954 2.098117 CGATTCTTTGTTGGAGCCATCC 59.902 50.000 0.00 0.00 46.87 3.51
5028 9955 2.478539 GCGATTCTTTGTTGGAGCCATC 60.479 50.000 0.00 0.00 0.00 3.51
5029 9956 1.474077 GCGATTCTTTGTTGGAGCCAT 59.526 47.619 0.00 0.00 0.00 4.40
5030 9957 0.881118 GCGATTCTTTGTTGGAGCCA 59.119 50.000 0.00 0.00 0.00 4.75
5031 9958 1.135575 CAGCGATTCTTTGTTGGAGCC 60.136 52.381 0.00 0.00 0.00 4.70
5032 9959 1.135575 CCAGCGATTCTTTGTTGGAGC 60.136 52.381 0.00 0.00 39.41 4.70
5033 9960 1.470098 CCCAGCGATTCTTTGTTGGAG 59.530 52.381 0.00 0.00 39.41 3.86
5034 9961 1.533625 CCCAGCGATTCTTTGTTGGA 58.466 50.000 0.00 0.00 39.41 3.53
5035 9962 0.109132 GCCCAGCGATTCTTTGTTGG 60.109 55.000 0.00 0.00 37.36 3.77
5036 9963 0.883833 AGCCCAGCGATTCTTTGTTG 59.116 50.000 0.00 0.00 0.00 3.33
5037 9964 1.168714 GAGCCCAGCGATTCTTTGTT 58.831 50.000 0.00 0.00 0.00 2.83
5038 9965 0.036732 TGAGCCCAGCGATTCTTTGT 59.963 50.000 0.00 0.00 0.00 2.83
5039 9966 1.386533 ATGAGCCCAGCGATTCTTTG 58.613 50.000 0.00 0.00 0.00 2.77
5040 9967 3.498774 ATATGAGCCCAGCGATTCTTT 57.501 42.857 0.00 0.00 0.00 2.52
5041 9968 4.623932 TTATATGAGCCCAGCGATTCTT 57.376 40.909 0.00 0.00 0.00 2.52
5042 9969 4.623932 TTTATATGAGCCCAGCGATTCT 57.376 40.909 0.00 0.00 0.00 2.40
5043 9970 5.689383 TTTTTATATGAGCCCAGCGATTC 57.311 39.130 0.00 0.00 0.00 2.52
5062 9989 7.002879 GGAGGGAGTAGTTTCCTTTACTTTTT 58.997 38.462 0.00 0.00 37.40 1.94
5063 9990 6.540995 GGAGGGAGTAGTTTCCTTTACTTTT 58.459 40.000 0.00 0.00 37.40 2.27
5064 9991 5.279859 CGGAGGGAGTAGTTTCCTTTACTTT 60.280 44.000 0.00 0.00 37.40 2.66
5065 9992 4.222366 CGGAGGGAGTAGTTTCCTTTACTT 59.778 45.833 0.00 0.00 37.40 2.24
5066 9993 3.768215 CGGAGGGAGTAGTTTCCTTTACT 59.232 47.826 0.00 0.00 37.40 2.24
5067 9994 3.513119 ACGGAGGGAGTAGTTTCCTTTAC 59.487 47.826 0.00 0.00 37.40 2.01
5068 9995 3.782992 ACGGAGGGAGTAGTTTCCTTTA 58.217 45.455 0.00 0.00 37.40 1.85
5069 9996 2.617658 ACGGAGGGAGTAGTTTCCTTT 58.382 47.619 0.00 0.00 37.40 3.11
5070 9997 2.322339 ACGGAGGGAGTAGTTTCCTT 57.678 50.000 0.00 0.00 37.40 3.36
5071 9998 2.177734 GAACGGAGGGAGTAGTTTCCT 58.822 52.381 0.00 0.00 37.40 3.36
5072 9999 1.206610 GGAACGGAGGGAGTAGTTTCC 59.793 57.143 0.00 0.00 36.46 3.13
5073 10000 2.177734 AGGAACGGAGGGAGTAGTTTC 58.822 52.381 0.00 0.00 0.00 2.78
5074 10001 2.322339 AGGAACGGAGGGAGTAGTTT 57.678 50.000 0.00 0.00 0.00 2.66
5075 10002 3.463048 TTAGGAACGGAGGGAGTAGTT 57.537 47.619 0.00 0.00 0.00 2.24
5076 10003 3.463048 TTTAGGAACGGAGGGAGTAGT 57.537 47.619 0.00 0.00 0.00 2.73
5077 10004 5.139001 AGTATTTAGGAACGGAGGGAGTAG 58.861 45.833 0.00 0.00 0.00 2.57
5078 10005 5.134725 AGTATTTAGGAACGGAGGGAGTA 57.865 43.478 0.00 0.00 0.00 2.59
5079 10006 3.991683 AGTATTTAGGAACGGAGGGAGT 58.008 45.455 0.00 0.00 0.00 3.85
5080 10007 4.161754 ACAAGTATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
5081 10008 4.098894 ACAAGTATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
5082 10009 4.161754 AGACAAGTATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
5083 10010 5.340439 AGACAAGTATTTAGGAACGGAGG 57.660 43.478 0.00 0.00 0.00 4.30
5084 10011 7.097834 AGAAAGACAAGTATTTAGGAACGGAG 58.902 38.462 0.00 0.00 0.00 4.63
5085 10012 7.001099 AGAAAGACAAGTATTTAGGAACGGA 57.999 36.000 0.00 0.00 0.00 4.69
5086 10013 8.248945 TCTAGAAAGACAAGTATTTAGGAACGG 58.751 37.037 0.00 0.00 0.00 4.44
5087 10014 9.291664 CTCTAGAAAGACAAGTATTTAGGAACG 57.708 37.037 0.00 0.00 0.00 3.95
5098 10025 8.964476 TTGTTGAAATCTCTAGAAAGACAAGT 57.036 30.769 0.00 0.00 0.00 3.16
5099 10026 9.050601 ACTTGTTGAAATCTCTAGAAAGACAAG 57.949 33.333 17.75 17.75 33.18 3.16
5100 10027 8.830580 CACTTGTTGAAATCTCTAGAAAGACAA 58.169 33.333 0.00 0.00 0.00 3.18
5101 10028 8.204160 TCACTTGTTGAAATCTCTAGAAAGACA 58.796 33.333 0.00 0.00 0.00 3.41
5102 10029 8.491950 GTCACTTGTTGAAATCTCTAGAAAGAC 58.508 37.037 0.00 0.00 35.39 3.01
5103 10030 8.424918 AGTCACTTGTTGAAATCTCTAGAAAGA 58.575 33.333 0.00 0.00 35.39 2.52
5104 10031 8.600449 AGTCACTTGTTGAAATCTCTAGAAAG 57.400 34.615 0.00 0.00 35.39 2.62
5105 10032 9.477484 GTAGTCACTTGTTGAAATCTCTAGAAA 57.523 33.333 0.00 0.00 35.39 2.52
5106 10033 8.638873 TGTAGTCACTTGTTGAAATCTCTAGAA 58.361 33.333 0.00 0.00 35.39 2.10
5107 10034 8.178313 TGTAGTCACTTGTTGAAATCTCTAGA 57.822 34.615 0.00 0.00 35.39 2.43
5108 10035 8.994429 ATGTAGTCACTTGTTGAAATCTCTAG 57.006 34.615 0.00 0.00 35.39 2.43
5109 10036 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
5110 10037 7.542477 CGTATGTAGTCACTTGTTGAAATCTCT 59.458 37.037 0.00 0.00 35.39 3.10
5111 10038 7.201444 CCGTATGTAGTCACTTGTTGAAATCTC 60.201 40.741 0.00 0.00 35.39 2.75
5112 10039 6.590292 CCGTATGTAGTCACTTGTTGAAATCT 59.410 38.462 0.00 0.00 35.39 2.40
5113 10040 6.672357 GCCGTATGTAGTCACTTGTTGAAATC 60.672 42.308 0.00 0.00 35.39 2.17
5114 10041 5.121768 GCCGTATGTAGTCACTTGTTGAAAT 59.878 40.000 0.00 0.00 35.39 2.17
5115 10042 4.449743 GCCGTATGTAGTCACTTGTTGAAA 59.550 41.667 0.00 0.00 35.39 2.69
5116 10043 3.991773 GCCGTATGTAGTCACTTGTTGAA 59.008 43.478 0.00 0.00 35.39 2.69
5117 10044 3.581755 GCCGTATGTAGTCACTTGTTGA 58.418 45.455 0.00 0.00 0.00 3.18
5118 10045 2.344441 CGCCGTATGTAGTCACTTGTTG 59.656 50.000 0.00 0.00 0.00 3.33
5119 10046 2.602878 CGCCGTATGTAGTCACTTGTT 58.397 47.619 0.00 0.00 0.00 2.83
5120 10047 1.734707 GCGCCGTATGTAGTCACTTGT 60.735 52.381 0.00 0.00 0.00 3.16
5121 10048 0.921347 GCGCCGTATGTAGTCACTTG 59.079 55.000 0.00 0.00 0.00 3.16
5122 10049 0.528924 TGCGCCGTATGTAGTCACTT 59.471 50.000 4.18 0.00 0.00 3.16
5123 10050 0.528924 TTGCGCCGTATGTAGTCACT 59.471 50.000 4.18 0.00 0.00 3.41
5124 10051 1.352114 TTTGCGCCGTATGTAGTCAC 58.648 50.000 4.18 0.00 0.00 3.67
5125 10052 2.081725 TTTTGCGCCGTATGTAGTCA 57.918 45.000 4.18 0.00 0.00 3.41
5126 10053 2.605818 TCATTTTGCGCCGTATGTAGTC 59.394 45.455 4.18 0.00 0.00 2.59
5127 10054 2.607635 CTCATTTTGCGCCGTATGTAGT 59.392 45.455 4.18 0.00 0.00 2.73
5128 10055 2.607635 ACTCATTTTGCGCCGTATGTAG 59.392 45.455 4.18 7.56 0.00 2.74
5129 10056 2.350192 CACTCATTTTGCGCCGTATGTA 59.650 45.455 4.18 0.00 0.00 2.29
5130 10057 1.130373 CACTCATTTTGCGCCGTATGT 59.870 47.619 4.18 0.00 0.00 2.29
5131 10058 1.396648 TCACTCATTTTGCGCCGTATG 59.603 47.619 4.18 5.63 0.00 2.39
5132 10059 1.732941 TCACTCATTTTGCGCCGTAT 58.267 45.000 4.18 0.00 0.00 3.06
5133 10060 1.514003 TTCACTCATTTTGCGCCGTA 58.486 45.000 4.18 0.00 0.00 4.02
5134 10061 0.881118 ATTCACTCATTTTGCGCCGT 59.119 45.000 4.18 0.00 0.00 5.68
5135 10062 1.131126 AGATTCACTCATTTTGCGCCG 59.869 47.619 4.18 0.00 0.00 6.46
5136 10063 2.927553 AGATTCACTCATTTTGCGCC 57.072 45.000 4.18 0.00 0.00 6.53
5137 10064 4.091424 GTGTAGATTCACTCATTTTGCGC 58.909 43.478 0.00 0.00 35.68 6.09
5138 10065 5.536554 AGTGTAGATTCACTCATTTTGCG 57.463 39.130 0.00 0.00 44.07 4.85
5139 10066 9.677567 TTTAAAGTGTAGATTCACTCATTTTGC 57.322 29.630 0.00 0.00 46.25 3.68


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

AutoCloner maintained by Alex Coulton.