Multiple sequence alignment - TraesCS6D01G192900

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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 TraesCS6D01G192900 chr6D 100.000 5994 0 0 1 5994 266960524 266954531 0.000000e+00 11069.0
1 TraesCS6D01G192900 chr6D 77.193 114 20 5 5649 5756 78788955 78789068 1.800000e-05 62.1
2 TraesCS6D01G192900 chr6D 97.143 35 1 0 5692 5726 100520423 100520457 6.490000e-05 60.2
3 TraesCS6D01G192900 chr6D 100.000 28 0 0 5698 5725 382350185 382350158 1.100000e-02 52.8
4 TraesCS6D01G192900 chr6A 93.836 2531 87 18 1 2492 379663642 379661142 0.000000e+00 3746.0
5 TraesCS6D01G192900 chr6A 96.735 2205 56 10 2489 4687 379660837 379658643 0.000000e+00 3659.0
6 TraesCS6D01G192900 chr6A 95.117 983 28 9 4684 5654 379658403 379657429 0.000000e+00 1531.0
7 TraesCS6D01G192900 chr6A 95.146 103 5 0 5843 5945 379656389 379656287 4.810000e-36 163.0
8 TraesCS6D01G192900 chr6B 95.116 2191 59 18 3429 5589 415038238 415036066 0.000000e+00 3410.0
9 TraesCS6D01G192900 chr6B 93.345 1773 77 12 38 1777 415041759 415039995 0.000000e+00 2582.0
10 TraesCS6D01G192900 chr6B 95.609 1002 40 3 2405 3404 415039230 415038231 0.000000e+00 1604.0
11 TraesCS6D01G192900 chr6B 98.173 602 10 1 1769 2369 415039829 415039228 0.000000e+00 1050.0
12 TraesCS6D01G192900 chr6B 88.889 108 7 2 5843 5945 415036060 415035953 1.750000e-25 128.0
13 TraesCS6D01G192900 chr6B 82.955 88 5 6 5648 5725 702267836 702267749 3.000000e-08 71.3
14 TraesCS6D01G192900 chr6B 95.238 42 1 1 5652 5692 479166734 479166775 1.390000e-06 65.8
15 TraesCS6D01G192900 chr6B 93.333 45 2 1 5652 5695 551542714 551542670 1.390000e-06 65.8
16 TraesCS6D01G192900 chr6B 91.304 46 2 2 5649 5692 13978242 13978287 1.800000e-05 62.1
17 TraesCS6D01G192900 chr6B 94.595 37 2 0 5720 5756 429677458 429677422 2.330000e-04 58.4
18 TraesCS6D01G192900 chr2D 86.704 534 64 7 998 1527 430464748 430464218 2.410000e-163 586.0
19 TraesCS6D01G192900 chr2D 84.892 278 42 0 4717 4994 430462313 430462036 1.270000e-71 281.0
20 TraesCS6D01G192900 chr2D 92.424 66 5 0 3112 3177 443323981 443323916 1.780000e-15 95.3
21 TraesCS6D01G192900 chr2D 94.444 36 2 0 5721 5756 416512231 416512196 8.390000e-04 56.5
22 TraesCS6D01G192900 chr2A 86.654 532 61 8 1001 1527 555821306 555821832 1.120000e-161 580.0
23 TraesCS6D01G192900 chr2A 84.694 294 42 3 4704 4994 555823663 555823956 2.110000e-74 291.0
24 TraesCS6D01G192900 chr2A 85.200 250 37 0 3803 4052 555822966 555823215 2.140000e-64 257.0
25 TraesCS6D01G192900 chr2A 83.871 62 9 1 5590 5650 648342700 648342639 2.330000e-04 58.4
26 TraesCS6D01G192900 chr2A 97.059 34 1 0 5692 5725 666029907 666029874 2.330000e-04 58.4
27 TraesCS6D01G192900 chr2B 86.304 533 65 6 999 1527 508251076 508250548 1.870000e-159 573.0
28 TraesCS6D01G192900 chr2B 84.642 293 43 2 4704 4994 508248326 508248034 2.110000e-74 291.0
29 TraesCS6D01G192900 chr2B 91.667 48 3 1 5646 5692 497850165 497850212 1.390000e-06 65.8
30 TraesCS6D01G192900 chr2B 90.000 50 3 2 5648 5695 541103669 541103620 5.020000e-06 63.9
31 TraesCS6D01G192900 chr7D 92.424 66 5 0 3112 3177 625964534 625964469 1.780000e-15 95.3
32 TraesCS6D01G192900 chr7D 94.444 36 2 0 5721 5756 57036288 57036253 8.390000e-04 56.5
33 TraesCS6D01G192900 chr7D 94.444 36 2 0 5721 5756 181702006 181701971 8.390000e-04 56.5
34 TraesCS6D01G192900 chr3A 88.312 77 7 2 3112 3188 15707903 15707829 2.300000e-14 91.6
35 TraesCS6D01G192900 chr3A 89.831 59 5 1 5591 5648 13542774 13542832 2.320000e-09 75.0
36 TraesCS6D01G192900 chr7A 85.227 88 11 2 3112 3198 411006702 411006616 8.270000e-14 89.8
37 TraesCS6D01G192900 chr7A 97.059 34 1 0 5692 5725 13052839 13052806 2.330000e-04 58.4
38 TraesCS6D01G192900 chr5B 85.882 85 10 2 3112 3195 133583890 133583807 8.270000e-14 89.8
39 TraesCS6D01G192900 chr5B 92.000 50 3 1 5788 5837 466652510 466652558 1.080000e-07 69.4
40 TraesCS6D01G192900 chr5B 83.582 67 11 0 5588 5654 486364664 486364730 5.020000e-06 63.9
41 TraesCS6D01G192900 chr5B 88.235 51 4 1 5792 5842 619924273 619924225 6.490000e-05 60.2
42 TraesCS6D01G192900 chr5A 90.909 66 6 0 3112 3177 244051748 244051813 8.270000e-14 89.8
43 TraesCS6D01G192900 chr5A 87.671 73 8 1 5583 5654 6521356 6521428 3.850000e-12 84.2
44 TraesCS6D01G192900 chr5A 90.741 54 4 1 5785 5837 491240776 491240829 3.000000e-08 71.3
45 TraesCS6D01G192900 chr5A 97.059 34 1 0 5692 5725 514460086 514460053 2.330000e-04 58.4
46 TraesCS6D01G192900 chr5A 94.444 36 0 2 5692 5726 386180444 386180478 3.000000e-03 54.7
47 TraesCS6D01G192900 chr1D 85.882 85 10 2 3112 3195 439321360 439321277 8.270000e-14 89.8
48 TraesCS6D01G192900 chr7B 89.855 69 6 1 5586 5654 290954640 290954707 2.980000e-13 87.9
49 TraesCS6D01G192900 chr7B 95.238 42 0 2 5652 5691 516293755 516293796 1.390000e-06 65.8
50 TraesCS6D01G192900 chr7B 97.059 34 1 0 5692 5725 31131696 31131663 2.330000e-04 58.4
51 TraesCS6D01G192900 chr3B 89.855 69 6 1 5586 5654 452907224 452907157 2.980000e-13 87.9
52 TraesCS6D01G192900 chr3B 89.552 67 7 0 5588 5654 644308531 644308465 1.070000e-12 86.1
53 TraesCS6D01G192900 chr3B 94.340 53 2 1 5942 5994 561025523 561025574 4.980000e-11 80.5
54 TraesCS6D01G192900 chr3B 100.000 30 0 0 5804 5833 502646175 502646204 8.390000e-04 56.5
55 TraesCS6D01G192900 chr3B 94.444 36 2 0 5721 5756 666171590 666171625 8.390000e-04 56.5
56 TraesCS6D01G192900 chr4D 84.848 66 8 2 5587 5650 474951820 474951755 1.390000e-06 65.8
57 TraesCS6D01G192900 chr4D 94.595 37 2 0 5720 5756 61237870 61237834 2.330000e-04 58.4
58 TraesCS6D01G192900 chr4D 94.444 36 2 0 5721 5756 14170043 14170078 8.390000e-04 56.5
59 TraesCS6D01G192900 chr4B 93.182 44 2 1 5650 5692 27766942 27766985 5.020000e-06 63.9
60 TraesCS6D01G192900 chr4A 97.222 36 1 0 5721 5756 52607275 52607240 1.800000e-05 62.1
61 TraesCS6D01G192900 chr3D 100.000 32 0 0 5802 5833 429086092 429086061 6.490000e-05 60.2
62 TraesCS6D01G192900 chr1A 91.111 45 2 2 5650 5692 131523055 131523099 6.490000e-05 60.2


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 TraesCS6D01G192900 chr6D 266954531 266960524 5993 True 11069.00 11069 100.0000 1 5994 1 chr6D.!!$R1 5993
1 TraesCS6D01G192900 chr6A 379656287 379663642 7355 True 2274.75 3746 95.2085 1 5945 4 chr6A.!!$R1 5944
2 TraesCS6D01G192900 chr6B 415035953 415041759 5806 True 1754.80 3410 94.2264 38 5945 5 chr6B.!!$R4 5907
3 TraesCS6D01G192900 chr2D 430462036 430464748 2712 True 433.50 586 85.7980 998 4994 2 chr2D.!!$R3 3996
4 TraesCS6D01G192900 chr2A 555821306 555823956 2650 False 376.00 580 85.5160 1001 4994 3 chr2A.!!$F1 3993
5 TraesCS6D01G192900 chr2B 508248034 508251076 3042 True 432.00 573 85.4730 999 4994 2 chr2B.!!$R2 3995

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
347 351 1.139095 CGAAGTAGAGGACCACCGC 59.861 63.158 0.00 0.00 41.83 5.68 F
567 571 1.257750 ACGAGTGGCTATGGCTGACA 61.258 55.000 0.00 0.00 38.73 3.58 F
2228 3133 0.258774 ACAGCCCCACTTTGTCAACT 59.741 50.000 0.00 0.00 0.00 3.16 F
2572 3787 1.032014 GATGGGCGCACATTAACCAT 58.968 50.000 28.64 19.03 44.16 3.55 F
2902 4117 2.158608 AGCCCACTTGTAGAAAGCAGTT 60.159 45.455 0.00 0.00 0.00 3.16 F
3708 4929 3.407424 TGCACTGTATTCTGCTTCTGT 57.593 42.857 0.00 0.00 34.29 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2228 3133 9.234827 CAGATGGCCAAACTTGAATATATATGA 57.765 33.333 10.96 0.00 0.00 2.15 R
2402 3308 0.930310 GAGTGAATTATGCGCGCTGA 59.070 50.000 33.29 17.37 0.00 4.26 R
4157 5378 3.236816 CAGCGTGCTCAAGGTTAAAATG 58.763 45.455 0.00 0.00 0.00 2.32 R
4310 5532 8.747538 AGACAACCTTTAGAATGTAAAACAGT 57.252 30.769 0.00 0.00 0.00 3.55 R
4704 6742 3.788937 ACATTGCCTGAAATAATGCAGC 58.211 40.909 0.00 0.00 35.71 5.25 R
5447 7515 0.597568 TCTCGTTTCGTCCGGCTTTA 59.402 50.000 0.00 0.00 0.00 1.85 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
72 73 2.438434 AATACTGCAGCACCCCGC 60.438 61.111 15.27 0.00 42.91 6.13
173 174 2.026636 TCCCAAAACCGTGAATCCCTAG 60.027 50.000 0.00 0.00 0.00 3.02
181 182 3.070018 CCGTGAATCCCTAGCATGAATC 58.930 50.000 0.00 0.00 0.00 2.52
211 215 1.557099 ACTTGGAGATGCGTACCTCA 58.443 50.000 0.00 0.00 0.00 3.86
228 232 3.513912 ACCTCAAATATGTGTCGTCTCCA 59.486 43.478 0.00 0.00 0.00 3.86
234 238 2.579207 ATGTGTCGTCTCCATTACCG 57.421 50.000 0.00 0.00 0.00 4.02
321 325 2.313317 GCCATCATCCATCAATGTGGT 58.687 47.619 2.70 0.00 40.27 4.16
347 351 1.139095 CGAAGTAGAGGACCACCGC 59.861 63.158 0.00 0.00 41.83 5.68
438 442 2.439701 CGACCTCCTGGCCTCGTA 60.440 66.667 3.32 0.00 36.63 3.43
473 477 2.806745 CGATCCATTGACGCCCTAATGT 60.807 50.000 0.00 0.00 33.52 2.71
527 531 4.499188 CCTCGGTAGATTAGTTCATTCGCA 60.499 45.833 0.00 0.00 0.00 5.10
558 562 2.483745 CGAGCGAACGAGTGGCTA 59.516 61.111 0.00 0.00 37.10 3.93
567 571 1.257750 ACGAGTGGCTATGGCTGACA 61.258 55.000 0.00 0.00 38.73 3.58
574 578 1.408683 GGCTATGGCTGACATGGAACA 60.409 52.381 11.44 0.00 40.21 3.18
592 596 4.442192 GGAACACTCCATCGCTCTAAGATT 60.442 45.833 0.00 0.00 41.96 2.40
622 626 2.031870 TCATCCGACGACCATCAAGAT 58.968 47.619 0.00 0.00 0.00 2.40
656 660 2.667473 ATGTTCCTAGGGAAACGTCG 57.333 50.000 9.46 0.00 43.86 5.12
671 675 5.007332 GGAAACGTCGGCTAAATGACATTAT 59.993 40.000 0.00 0.00 34.78 1.28
673 677 4.945246 ACGTCGGCTAAATGACATTATCT 58.055 39.130 0.00 0.00 34.78 1.98
756 760 1.757764 GCCAACCAGAAGGAAAAGGGT 60.758 52.381 0.00 0.00 38.69 4.34
757 761 2.490168 GCCAACCAGAAGGAAAAGGGTA 60.490 50.000 0.00 0.00 38.69 3.69
791 796 4.228010 TGAGTCGGATGGGGAATATACAA 58.772 43.478 0.00 0.00 0.00 2.41
792 797 4.844085 TGAGTCGGATGGGGAATATACAAT 59.156 41.667 0.00 0.00 0.00 2.71
793 798 5.309543 TGAGTCGGATGGGGAATATACAATT 59.690 40.000 0.00 0.00 0.00 2.32
794 799 6.499000 TGAGTCGGATGGGGAATATACAATTA 59.501 38.462 0.00 0.00 0.00 1.40
795 800 7.182026 TGAGTCGGATGGGGAATATACAATTAT 59.818 37.037 0.00 0.00 0.00 1.28
796 801 8.618240 AGTCGGATGGGGAATATACAATTATA 57.382 34.615 0.00 0.00 0.00 0.98
797 802 8.483758 AGTCGGATGGGGAATATACAATTATAC 58.516 37.037 0.00 0.00 0.00 1.47
799 804 8.998814 TCGGATGGGGAATATACAATTATACAT 58.001 33.333 0.00 0.00 0.00 2.29
801 806 9.574516 GGATGGGGAATATACAATTATACATCC 57.425 37.037 0.00 0.00 41.57 3.51
802 807 9.574516 GATGGGGAATATACAATTATACATCCC 57.425 37.037 12.22 12.22 42.64 3.85
805 810 7.571025 GGGAATATACAATTATACATCCCCGT 58.429 38.462 10.64 0.00 40.30 5.28
930 939 2.092158 CCTTTCCTTCTCCTTCCCCATC 60.092 54.545 0.00 0.00 0.00 3.51
931 940 2.668850 TTCCTTCTCCTTCCCCATCT 57.331 50.000 0.00 0.00 0.00 2.90
1749 2162 7.714703 AGTTTGTTTTATTTACTGCGGGTTAA 58.285 30.769 0.00 0.00 0.00 2.01
1903 2624 6.813152 ACAAAACTGTAGGCATTTATGATTGC 59.187 34.615 0.00 0.00 38.14 3.56
2228 3133 0.258774 ACAGCCCCACTTTGTCAACT 59.741 50.000 0.00 0.00 0.00 3.16
2402 3308 5.463154 ACTCTCCTCCTAGTATGAAGCATT 58.537 41.667 0.00 0.00 0.00 3.56
2572 3787 1.032014 GATGGGCGCACATTAACCAT 58.968 50.000 28.64 19.03 44.16 3.55
2669 3884 9.082313 GGGTTCATGATATCCATCACTAATTTT 57.918 33.333 0.00 0.00 43.89 1.82
2692 3907 6.727824 TCTTGTAAATAGAAAGTCTGCTGC 57.272 37.500 0.00 0.00 0.00 5.25
2762 3977 7.592938 TCTAGAACTAACAATGCCACAATTTG 58.407 34.615 0.00 0.00 0.00 2.32
2801 4016 6.186785 TCGAACTTTTGTTACATTCGTTCAC 58.813 36.000 15.32 0.00 43.66 3.18
2854 4069 2.693074 GAGGAATCTCTGTCCTGTCCTC 59.307 54.545 0.00 1.98 45.87 3.71
2902 4117 2.158608 AGCCCACTTGTAGAAAGCAGTT 60.159 45.455 0.00 0.00 0.00 3.16
2905 4120 4.095036 GCCCACTTGTAGAAAGCAGTTATC 59.905 45.833 0.00 0.00 0.00 1.75
2998 4213 7.951347 AAAAATCTCCATGAGAAGCTAATGT 57.049 32.000 0.00 0.00 42.27 2.71
2999 4214 7.951347 AAAATCTCCATGAGAAGCTAATGTT 57.049 32.000 0.00 0.00 42.27 2.71
3177 4392 4.700213 TCAAACTTGCCTAACCTTAGATGC 59.300 41.667 0.00 0.00 32.47 3.91
3328 4545 8.726068 CATGTTACACAAGTTATGGTTATGTCA 58.274 33.333 0.00 0.00 0.00 3.58
3349 4566 8.421249 TGTCACCCTCTCAATTATCAATTTTT 57.579 30.769 0.00 0.00 0.00 1.94
3708 4929 3.407424 TGCACTGTATTCTGCTTCTGT 57.593 42.857 0.00 0.00 34.29 3.41
3709 4930 3.743521 TGCACTGTATTCTGCTTCTGTT 58.256 40.909 0.00 0.00 34.29 3.16
4134 5355 6.643360 TCAATGTTCATCAAGCTGAAATGTTG 59.357 34.615 0.00 0.00 36.92 3.33
4157 5378 6.275335 TGTCGTGGTTATACAATAAGCTACC 58.725 40.000 9.50 0.00 0.00 3.18
4310 5532 6.094719 GCAATCTCATGTTTCTTTGTATGCA 58.905 36.000 0.00 0.00 0.00 3.96
4365 5587 7.878127 TGTCCCAAAGTTTACAAAACAATTTCA 59.122 29.630 5.42 0.00 0.00 2.69
4446 5668 4.032960 TGGCAATCTGGTGTCTAATGTT 57.967 40.909 0.00 0.00 0.00 2.71
4666 6461 7.859325 ATGCATAAATACCGAACTTGTTAGT 57.141 32.000 0.00 0.00 35.68 2.24
4681 6476 7.079451 ACTTGTTAGTATATGGGGATGGAAG 57.921 40.000 0.00 0.00 31.21 3.46
4704 6742 8.918961 AAGATTAGTCTCTAAATCTTCGTGTG 57.081 34.615 4.83 0.00 45.02 3.82
5248 7308 7.430441 TCATTTGCATCCATCAGATATGTTTG 58.570 34.615 0.00 0.00 32.37 2.93
5406 7466 3.312421 CGTGCTTATAAGGGGTTCATGTG 59.688 47.826 14.28 0.00 0.00 3.21
5408 7468 4.096382 GTGCTTATAAGGGGTTCATGTGTG 59.904 45.833 14.28 0.00 0.00 3.82
5411 7471 2.465860 TAAGGGGTTCATGTGTGTCG 57.534 50.000 0.00 0.00 0.00 4.35
5413 7473 0.472471 AGGGGTTCATGTGTGTCGTT 59.528 50.000 0.00 0.00 0.00 3.85
5414 7474 1.695242 AGGGGTTCATGTGTGTCGTTA 59.305 47.619 0.00 0.00 0.00 3.18
5415 7475 2.105134 AGGGGTTCATGTGTGTCGTTAA 59.895 45.455 0.00 0.00 0.00 2.01
5419 7479 4.214545 GGGTTCATGTGTGTCGTTAATTGA 59.785 41.667 0.00 0.00 0.00 2.57
5523 7592 3.882888 TGTTGCACCCTTTAGTTCAGAAG 59.117 43.478 0.00 0.00 0.00 2.85
5600 7669 8.242729 TCATGCACATATATATACTCCCTCTG 57.757 38.462 0.00 0.00 0.00 3.35
5648 7718 8.307483 AGAGATTTCAACATGGACTATATACGG 58.693 37.037 0.00 0.00 0.00 4.02
5649 7719 8.190326 AGATTTCAACATGGACTATATACGGA 57.810 34.615 0.00 0.00 0.00 4.69
5650 7720 8.816894 AGATTTCAACATGGACTATATACGGAT 58.183 33.333 0.00 0.00 0.00 4.18
5651 7721 8.777865 ATTTCAACATGGACTATATACGGATG 57.222 34.615 0.00 0.00 0.00 3.51
5652 7722 6.911250 TCAACATGGACTATATACGGATGT 57.089 37.500 0.00 0.00 0.00 3.06
5653 7723 8.411991 TTCAACATGGACTATATACGGATGTA 57.588 34.615 0.00 0.00 34.45 2.29
5654 7724 7.823665 TCAACATGGACTATATACGGATGTAC 58.176 38.462 0.00 0.00 32.26 2.90
5655 7725 7.668469 TCAACATGGACTATATACGGATGTACT 59.332 37.037 0.00 0.00 32.26 2.73
5656 7726 7.627298 ACATGGACTATATACGGATGTACTC 57.373 40.000 0.00 0.00 32.26 2.59
5657 7727 6.602406 ACATGGACTATATACGGATGTACTCC 59.398 42.308 0.00 3.91 41.07 3.85
5658 7728 5.503927 TGGACTATATACGGATGTACTCCC 58.496 45.833 7.36 0.00 41.49 4.30
5659 7729 5.252397 TGGACTATATACGGATGTACTCCCT 59.748 44.000 7.36 0.00 41.49 4.20
5660 7730 5.821995 GGACTATATACGGATGTACTCCCTC 59.178 48.000 0.00 0.00 41.49 4.30
5661 7731 5.753716 ACTATATACGGATGTACTCCCTCC 58.246 45.833 0.00 0.00 41.49 4.30
5663 7733 4.254721 CGGATGTACTCCCTCCGT 57.745 61.111 14.50 0.00 45.30 4.69
5664 7734 2.501492 CGGATGTACTCCCTCCGTT 58.499 57.895 14.50 0.00 45.30 4.44
5665 7735 0.822164 CGGATGTACTCCCTCCGTTT 59.178 55.000 14.50 0.00 45.30 3.60
5666 7736 1.202382 CGGATGTACTCCCTCCGTTTC 60.202 57.143 14.50 0.00 45.30 2.78
5667 7737 1.829222 GGATGTACTCCCTCCGTTTCA 59.171 52.381 0.00 0.00 38.19 2.69
5668 7738 2.434702 GGATGTACTCCCTCCGTTTCAT 59.565 50.000 0.00 0.00 38.19 2.57
5669 7739 3.640029 GGATGTACTCCCTCCGTTTCATA 59.360 47.826 0.00 0.00 38.19 2.15
5670 7740 4.100498 GGATGTACTCCCTCCGTTTCATAA 59.900 45.833 0.00 0.00 38.19 1.90
5671 7741 5.221661 GGATGTACTCCCTCCGTTTCATAAT 60.222 44.000 0.00 0.00 38.19 1.28
5672 7742 5.018539 TGTACTCCCTCCGTTTCATAATG 57.981 43.478 0.00 0.00 0.00 1.90
5673 7743 4.468510 TGTACTCCCTCCGTTTCATAATGT 59.531 41.667 0.00 0.00 0.00 2.71
5674 7744 5.657745 TGTACTCCCTCCGTTTCATAATGTA 59.342 40.000 0.00 0.00 0.00 2.29
5675 7745 5.687166 ACTCCCTCCGTTTCATAATGTAA 57.313 39.130 0.00 0.00 0.00 2.41
5676 7746 5.671493 ACTCCCTCCGTTTCATAATGTAAG 58.329 41.667 0.00 0.00 0.00 2.34
5677 7747 5.424252 ACTCCCTCCGTTTCATAATGTAAGA 59.576 40.000 0.00 0.00 0.00 2.10
5678 7748 5.667466 TCCCTCCGTTTCATAATGTAAGAC 58.333 41.667 0.00 0.00 0.00 3.01
5679 7749 5.424252 TCCCTCCGTTTCATAATGTAAGACT 59.576 40.000 0.00 0.00 0.00 3.24
5680 7750 6.070424 TCCCTCCGTTTCATAATGTAAGACTT 60.070 38.462 0.00 0.00 0.00 3.01
5681 7751 6.598064 CCCTCCGTTTCATAATGTAAGACTTT 59.402 38.462 0.00 0.00 0.00 2.66
5682 7752 7.120726 CCCTCCGTTTCATAATGTAAGACTTTT 59.879 37.037 0.00 0.00 0.00 2.27
5683 7753 8.512138 CCTCCGTTTCATAATGTAAGACTTTTT 58.488 33.333 0.00 0.00 0.00 1.94
5707 7777 9.828852 TTTTTACACTAAACGCCTTACATTATG 57.171 29.630 0.00 0.00 0.00 1.90
5708 7778 7.542534 TTACACTAAACGCCTTACATTATGG 57.457 36.000 0.00 0.00 0.00 2.74
5709 7779 4.879545 ACACTAAACGCCTTACATTATGGG 59.120 41.667 0.00 0.00 0.00 4.00
5710 7780 5.120399 CACTAAACGCCTTACATTATGGGA 58.880 41.667 0.00 0.00 0.00 4.37
5711 7781 5.007332 CACTAAACGCCTTACATTATGGGAC 59.993 44.000 0.00 0.00 0.00 4.46
5712 7782 2.234300 ACGCCTTACATTATGGGACG 57.766 50.000 0.00 0.30 0.00 4.79
5713 7783 1.758280 ACGCCTTACATTATGGGACGA 59.242 47.619 0.00 0.00 0.00 4.20
5714 7784 2.168936 ACGCCTTACATTATGGGACGAA 59.831 45.455 0.00 0.00 0.00 3.85
5715 7785 2.800544 CGCCTTACATTATGGGACGAAG 59.199 50.000 0.00 0.00 0.00 3.79
5716 7786 3.139077 GCCTTACATTATGGGACGAAGG 58.861 50.000 0.00 3.06 35.99 3.46
5717 7787 3.740115 CCTTACATTATGGGACGAAGGG 58.260 50.000 0.00 0.00 0.00 3.95
5718 7788 3.389983 CCTTACATTATGGGACGAAGGGA 59.610 47.826 0.00 0.00 0.00 4.20
5726 7796 3.343941 TGGGACGAAGGGAGTATTTTG 57.656 47.619 0.00 0.00 0.00 2.44
5727 7797 2.907696 TGGGACGAAGGGAGTATTTTGA 59.092 45.455 0.00 0.00 0.00 2.69
5734 7804 6.164176 ACGAAGGGAGTATTTTGAAGTGTAG 58.836 40.000 0.00 0.00 0.00 2.74
5751 7821 6.047511 AGTGTAGATTCACTCATTCTGCTT 57.952 37.500 0.00 0.00 44.07 3.91
5753 7823 5.005203 GTGTAGATTCACTCATTCTGCTTCG 59.995 44.000 0.00 0.00 35.68 3.79
5757 7827 3.934457 TCACTCATTCTGCTTCGTACA 57.066 42.857 0.00 0.00 0.00 2.90
5758 7828 4.456280 TCACTCATTCTGCTTCGTACAT 57.544 40.909 0.00 0.00 0.00 2.29
5759 7829 4.820897 TCACTCATTCTGCTTCGTACATT 58.179 39.130 0.00 0.00 0.00 2.71
5760 7830 4.864806 TCACTCATTCTGCTTCGTACATTC 59.135 41.667 0.00 0.00 0.00 2.67
5761 7831 4.627035 CACTCATTCTGCTTCGTACATTCA 59.373 41.667 0.00 0.00 0.00 2.57
5762 7832 4.627467 ACTCATTCTGCTTCGTACATTCAC 59.373 41.667 0.00 0.00 0.00 3.18
5763 7833 4.820897 TCATTCTGCTTCGTACATTCACT 58.179 39.130 0.00 0.00 0.00 3.41
5764 7834 4.864806 TCATTCTGCTTCGTACATTCACTC 59.135 41.667 0.00 0.00 0.00 3.51
5765 7835 3.934457 TCTGCTTCGTACATTCACTCA 57.066 42.857 0.00 0.00 0.00 3.41
5766 7836 4.456280 TCTGCTTCGTACATTCACTCAT 57.544 40.909 0.00 0.00 0.00 2.90
5767 7837 4.820897 TCTGCTTCGTACATTCACTCATT 58.179 39.130 0.00 0.00 0.00 2.57
5768 7838 4.864806 TCTGCTTCGTACATTCACTCATTC 59.135 41.667 0.00 0.00 0.00 2.67
5769 7839 4.820897 TGCTTCGTACATTCACTCATTCT 58.179 39.130 0.00 0.00 0.00 2.40
5770 7840 4.627035 TGCTTCGTACATTCACTCATTCTG 59.373 41.667 0.00 0.00 0.00 3.02
5771 7841 4.493220 GCTTCGTACATTCACTCATTCTGC 60.493 45.833 0.00 0.00 0.00 4.26
5772 7842 4.456280 TCGTACATTCACTCATTCTGCT 57.544 40.909 0.00 0.00 0.00 4.24
5773 7843 4.424626 TCGTACATTCACTCATTCTGCTC 58.575 43.478 0.00 0.00 0.00 4.26
5774 7844 3.553511 CGTACATTCACTCATTCTGCTCC 59.446 47.826 0.00 0.00 0.00 4.70
5775 7845 2.625737 ACATTCACTCATTCTGCTCCG 58.374 47.619 0.00 0.00 0.00 4.63
5776 7846 2.027745 ACATTCACTCATTCTGCTCCGT 60.028 45.455 0.00 0.00 0.00 4.69
5777 7847 3.195610 ACATTCACTCATTCTGCTCCGTA 59.804 43.478 0.00 0.00 0.00 4.02
5778 7848 2.941453 TCACTCATTCTGCTCCGTAC 57.059 50.000 0.00 0.00 0.00 3.67
5779 7849 2.447443 TCACTCATTCTGCTCCGTACT 58.553 47.619 0.00 0.00 0.00 2.73
5784 7854 4.463186 ACTCATTCTGCTCCGTACTTAGTT 59.537 41.667 0.00 0.00 0.00 2.24
5786 7856 3.863142 TTCTGCTCCGTACTTAGTTCC 57.137 47.619 0.00 0.00 0.00 3.62
5788 7858 4.226427 TCTGCTCCGTACTTAGTTCCTA 57.774 45.455 0.00 0.00 0.00 2.94
5791 7861 6.359804 TCTGCTCCGTACTTAGTTCCTATTA 58.640 40.000 0.00 0.00 0.00 0.98
5792 7862 6.830324 TCTGCTCCGTACTTAGTTCCTATTAA 59.170 38.462 0.00 0.00 0.00 1.40
5830 7900 9.743581 AAGAACTTATATTTAAAAACGGAGGGA 57.256 29.630 0.00 0.00 0.00 4.20
5831 7901 9.392259 AGAACTTATATTTAAAAACGGAGGGAG 57.608 33.333 0.00 0.00 0.00 4.30
5832 7902 9.170734 GAACTTATATTTAAAAACGGAGGGAGT 57.829 33.333 0.00 0.00 0.00 3.85
5834 7904 7.555195 ACTTATATTTAAAAACGGAGGGAGTGG 59.445 37.037 0.00 0.00 0.00 4.00
5835 7905 3.581265 TTTAAAAACGGAGGGAGTGGT 57.419 42.857 0.00 0.00 0.00 4.16
5836 7906 4.703379 TTTAAAAACGGAGGGAGTGGTA 57.297 40.909 0.00 0.00 0.00 3.25
5838 7908 1.725803 AAAACGGAGGGAGTGGTACT 58.274 50.000 0.00 0.00 0.00 2.73
5839 7909 1.264295 AAACGGAGGGAGTGGTACTC 58.736 55.000 0.39 0.39 44.32 2.59
5840 7910 0.408700 AACGGAGGGAGTGGTACTCT 59.591 55.000 8.68 0.00 44.46 3.24
5841 7911 1.293062 ACGGAGGGAGTGGTACTCTA 58.707 55.000 8.68 0.00 44.46 2.43
5945 8961 8.389603 ACAACTTTTCATGCACTATTTGTTTTG 58.610 29.630 0.00 0.00 0.00 2.44
5946 8962 7.481275 ACTTTTCATGCACTATTTGTTTTGG 57.519 32.000 0.00 0.00 0.00 3.28
5947 8963 6.482973 ACTTTTCATGCACTATTTGTTTTGGG 59.517 34.615 0.00 0.00 0.00 4.12
5948 8964 4.533919 TCATGCACTATTTGTTTTGGGG 57.466 40.909 0.00 0.00 0.00 4.96
5949 8965 2.829741 TGCACTATTTGTTTTGGGGC 57.170 45.000 0.00 0.00 0.00 5.80
5950 8966 1.000283 TGCACTATTTGTTTTGGGGCG 60.000 47.619 0.00 0.00 0.00 6.13
5951 8967 1.000394 GCACTATTTGTTTTGGGGCGT 60.000 47.619 0.00 0.00 0.00 5.68
5952 8968 2.671596 CACTATTTGTTTTGGGGCGTG 58.328 47.619 0.00 0.00 0.00 5.34
5953 8969 1.000394 ACTATTTGTTTTGGGGCGTGC 60.000 47.619 0.00 0.00 0.00 5.34
5954 8970 1.272212 CTATTTGTTTTGGGGCGTGCT 59.728 47.619 0.00 0.00 0.00 4.40
5955 8971 1.333177 ATTTGTTTTGGGGCGTGCTA 58.667 45.000 0.00 0.00 0.00 3.49
5956 8972 0.386113 TTTGTTTTGGGGCGTGCTAC 59.614 50.000 0.00 0.00 0.00 3.58
5957 8973 1.787057 TTGTTTTGGGGCGTGCTACG 61.787 55.000 4.61 4.61 45.88 3.51
5966 8982 3.312504 CGTGCTACGCATCCGTCG 61.313 66.667 0.00 0.00 46.39 5.12
5967 8983 2.954868 GTGCTACGCATCCGTCGG 60.955 66.667 4.39 4.39 46.39 4.79
5968 8984 4.865761 TGCTACGCATCCGTCGGC 62.866 66.667 6.34 0.00 46.39 5.54
5969 8985 4.570663 GCTACGCATCCGTCGGCT 62.571 66.667 6.34 0.00 46.39 5.52
5970 8986 2.655364 CTACGCATCCGTCGGCTG 60.655 66.667 10.79 10.79 46.39 4.85
5971 8987 3.120979 CTACGCATCCGTCGGCTGA 62.121 63.158 19.00 0.00 46.39 4.26
5972 8988 2.407846 CTACGCATCCGTCGGCTGAT 62.408 60.000 19.00 8.23 46.39 2.90
5973 8989 2.011741 TACGCATCCGTCGGCTGATT 62.012 55.000 19.00 6.71 46.39 2.57
5974 8990 2.173669 CGCATCCGTCGGCTGATTT 61.174 57.895 19.00 0.00 0.00 2.17
5975 8991 1.705337 CGCATCCGTCGGCTGATTTT 61.705 55.000 19.00 0.00 0.00 1.82
5976 8992 0.451783 GCATCCGTCGGCTGATTTTT 59.548 50.000 19.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 3.658757 TGTAGCCATTTTGTTGAAGCC 57.341 42.857 0.00 0.00 0.00 4.35
19 20 4.445385 CAGTTGTAGCCATTTTGTTGAAGC 59.555 41.667 0.00 0.00 0.00 3.86
72 73 2.551912 GGGCGTTGGCATTATCGGG 61.552 63.158 0.00 0.00 42.47 5.14
77 78 1.228583 TGTTGGGGCGTTGGCATTA 60.229 52.632 0.00 0.00 42.47 1.90
173 174 2.019984 GTTCTGGTCCTGGATTCATGC 58.980 52.381 0.00 0.00 0.00 4.06
181 182 1.352083 TCTCCAAGTTCTGGTCCTGG 58.648 55.000 0.00 0.00 46.51 4.45
211 215 5.047847 CGGTAATGGAGACGACACATATTT 58.952 41.667 0.00 0.00 0.00 1.40
228 232 5.630415 TTTCATCCATTCTCTCCGGTAAT 57.370 39.130 0.00 0.00 0.00 1.89
234 238 3.549625 GCGCATTTTCATCCATTCTCTCC 60.550 47.826 0.30 0.00 0.00 3.71
321 325 2.681848 GGTCCTCTACTTCGATTCGTCA 59.318 50.000 5.89 0.00 0.00 4.35
412 416 1.320344 CCAGGAGGTCGTCGAATCCA 61.320 60.000 22.96 0.00 34.08 3.41
473 477 3.220999 CTCCGTCGCCACTCCACAA 62.221 63.158 0.00 0.00 0.00 3.33
527 531 3.947173 CTCGGAGTGAGCCCTCAT 58.053 61.111 0.77 0.00 42.18 2.90
558 562 1.340405 GGAGTGTTCCATGTCAGCCAT 60.340 52.381 0.00 0.00 43.45 4.40
574 578 3.118629 TGCAAATCTTAGAGCGATGGAGT 60.119 43.478 0.00 0.00 0.00 3.85
592 596 2.032634 GTCGGATGAAGGCGTGCAA 61.033 57.895 0.00 0.00 0.00 4.08
642 646 0.819582 TTAGCCGACGTTTCCCTAGG 59.180 55.000 0.06 0.06 0.00 3.02
691 695 2.671396 GCAACCATCGTCGTTTACATCT 59.329 45.455 0.00 0.00 0.00 2.90
745 749 8.778059 TCATACATATTCTGTACCCTTTTCCTT 58.222 33.333 0.00 0.00 43.01 3.36
756 760 6.152831 CCCATCCGACTCATACATATTCTGTA 59.847 42.308 0.00 0.00 44.29 2.74
757 761 5.047021 CCCATCCGACTCATACATATTCTGT 60.047 44.000 0.00 0.00 42.13 3.41
791 796 6.480763 TGCAATCATTACGGGGATGTATAAT 58.519 36.000 0.00 0.00 0.00 1.28
792 797 5.870706 TGCAATCATTACGGGGATGTATAA 58.129 37.500 0.00 0.00 0.00 0.98
793 798 5.491323 TGCAATCATTACGGGGATGTATA 57.509 39.130 0.00 0.00 0.00 1.47
794 799 4.365514 TGCAATCATTACGGGGATGTAT 57.634 40.909 0.00 0.00 0.00 2.29
795 800 3.847671 TGCAATCATTACGGGGATGTA 57.152 42.857 0.00 0.00 0.00 2.29
796 801 2.727123 TGCAATCATTACGGGGATGT 57.273 45.000 0.00 0.00 0.00 3.06
797 802 4.071423 TGTATGCAATCATTACGGGGATG 58.929 43.478 0.00 0.00 34.22 3.51
799 804 3.847671 TGTATGCAATCATTACGGGGA 57.152 42.857 0.00 0.00 34.22 4.81
801 806 4.261155 CCTGTTGTATGCAATCATTACGGG 60.261 45.833 0.00 0.25 36.92 5.28
802 807 4.261155 CCCTGTTGTATGCAATCATTACGG 60.261 45.833 0.00 0.00 36.92 4.02
803 808 4.574421 TCCCTGTTGTATGCAATCATTACG 59.426 41.667 0.00 0.00 36.92 3.18
804 809 6.262944 TCATCCCTGTTGTATGCAATCATTAC 59.737 38.462 0.00 0.00 36.92 1.89
805 810 6.262944 GTCATCCCTGTTGTATGCAATCATTA 59.737 38.462 0.00 0.00 36.92 1.90
853 861 9.434420 CATATTTTGCTCCCTTTTCAACATTAA 57.566 29.630 0.00 0.00 0.00 1.40
871 879 9.807649 CTTTACCCTTTCTCATTCCATATTTTG 57.192 33.333 0.00 0.00 0.00 2.44
2228 3133 9.234827 CAGATGGCCAAACTTGAATATATATGA 57.765 33.333 10.96 0.00 0.00 2.15
2402 3308 0.930310 GAGTGAATTATGCGCGCTGA 59.070 50.000 33.29 17.37 0.00 4.26
2669 3884 5.348724 CGCAGCAGACTTTCTATTTACAAGA 59.651 40.000 0.00 0.00 0.00 3.02
2692 3907 6.829229 TCAGTATGGTGGTCCTATTATACG 57.171 41.667 0.00 0.00 36.16 3.06
2762 3977 0.164217 TTCGATAACAAACGTGCGGC 59.836 50.000 0.00 0.00 0.00 6.53
2801 4016 4.270808 GCCAACTTGTGTCTTCAATTTTGG 59.729 41.667 11.96 11.96 40.05 3.28
2854 4069 0.462759 GAGCAGATTTGGGACGGGAG 60.463 60.000 0.00 0.00 0.00 4.30
2902 4117 7.183112 TCCAGGTTTACCCTTTTACATGAGATA 59.817 37.037 0.00 0.00 42.73 1.98
2905 4120 5.566469 TCCAGGTTTACCCTTTTACATGAG 58.434 41.667 0.00 0.00 42.73 2.90
2998 4213 3.568007 GCCCAATTAGAGTTGTGTCACAA 59.432 43.478 14.48 14.48 35.42 3.33
2999 4214 3.146066 GCCCAATTAGAGTTGTGTCACA 58.854 45.455 0.18 0.18 0.00 3.58
3177 4392 6.307155 GCTAGTGCTTTGGTAAATATATGCG 58.693 40.000 0.00 0.00 36.03 4.73
3267 4484 4.454504 GCTCACTTCGTCCATTAAAAAGGA 59.545 41.667 0.00 0.00 0.00 3.36
3349 4566 9.689976 CATAATCAACCACAAGAACAAATACAA 57.310 29.630 0.00 0.00 0.00 2.41
3393 4610 5.354842 AGGGCAAAGGTACTACTATTCAC 57.645 43.478 0.00 0.00 38.49 3.18
3444 4662 3.253955 GGCACCACAAGCTGTACG 58.746 61.111 0.00 0.00 0.00 3.67
3715 4936 8.608844 AGAGAGAACAGTTGTAATTGTAAAGG 57.391 34.615 0.00 0.00 0.00 3.11
3912 5133 4.724399 TCCAAGAACAAACCATCAGCTAA 58.276 39.130 0.00 0.00 0.00 3.09
4134 5355 6.275335 TGGTAGCTTATTGTATAACCACGAC 58.725 40.000 0.00 0.00 30.84 4.34
4157 5378 3.236816 CAGCGTGCTCAAGGTTAAAATG 58.763 45.455 0.00 0.00 0.00 2.32
4310 5532 8.747538 AGACAACCTTTAGAATGTAAAACAGT 57.252 30.769 0.00 0.00 0.00 3.55
4666 6461 7.723382 AGAGACTAATCTTCCATCCCCATATA 58.277 38.462 0.00 0.00 34.34 0.86
4681 6476 6.975772 AGCACACGAAGATTTAGAGACTAATC 59.024 38.462 0.00 0.00 0.00 1.75
4704 6742 3.788937 ACATTGCCTGAAATAATGCAGC 58.211 40.909 0.00 0.00 35.71 5.25
5038 7076 1.354506 CGGACTAACGGCCTAGTCG 59.645 63.158 20.29 14.07 45.95 4.18
5225 7285 6.325545 ACCAAACATATCTGATGGATGCAAAT 59.674 34.615 12.28 0.00 36.79 2.32
5248 7308 7.861176 TTTAACTCAAATGCGTAAATTCACC 57.139 32.000 0.00 0.00 0.00 4.02
5380 7440 3.008157 TGAACCCCTTATAAGCACGAACA 59.992 43.478 6.99 0.68 0.00 3.18
5382 7442 3.985019 TGAACCCCTTATAAGCACGAA 57.015 42.857 6.99 0.00 0.00 3.85
5406 7466 9.607285 ACATTTTCTGTTATCAATTAACGACAC 57.393 29.630 0.00 0.00 42.68 3.67
5408 7468 9.061610 CCACATTTTCTGTTATCAATTAACGAC 57.938 33.333 0.00 0.00 42.68 4.34
5411 7471 8.647226 GCACCACATTTTCTGTTATCAATTAAC 58.353 33.333 0.00 0.00 40.59 2.01
5413 7473 7.812191 GTGCACCACATTTTCTGTTATCAATTA 59.188 33.333 5.22 0.00 35.29 1.40
5414 7474 6.646240 GTGCACCACATTTTCTGTTATCAATT 59.354 34.615 5.22 0.00 35.29 2.32
5415 7475 6.158598 GTGCACCACATTTTCTGTTATCAAT 58.841 36.000 5.22 0.00 35.29 2.57
5419 7479 4.870363 GTGTGCACCACATTTTCTGTTAT 58.130 39.130 15.69 0.00 46.32 1.89
5447 7515 0.597568 TCTCGTTTCGTCCGGCTTTA 59.402 50.000 0.00 0.00 0.00 1.85
5591 7660 9.668497 GAACTTATATTTACAAACAGAGGGAGT 57.332 33.333 0.00 0.00 0.00 3.85
5631 7701 7.122353 GGAGTACATCCGTATATAGTCCATGTT 59.878 40.741 0.00 0.00 38.67 2.71
5648 7718 3.821421 ATGAAACGGAGGGAGTACATC 57.179 47.619 0.00 0.00 0.00 3.06
5649 7719 5.130477 ACATTATGAAACGGAGGGAGTACAT 59.870 40.000 0.00 0.00 0.00 2.29
5650 7720 4.468510 ACATTATGAAACGGAGGGAGTACA 59.531 41.667 0.00 0.00 0.00 2.90
5651 7721 5.019785 ACATTATGAAACGGAGGGAGTAC 57.980 43.478 0.00 0.00 0.00 2.73
5652 7722 6.608405 TCTTACATTATGAAACGGAGGGAGTA 59.392 38.462 0.00 0.00 0.00 2.59
5653 7723 5.424252 TCTTACATTATGAAACGGAGGGAGT 59.576 40.000 0.00 0.00 0.00 3.85
5654 7724 5.753921 GTCTTACATTATGAAACGGAGGGAG 59.246 44.000 0.00 0.00 0.00 4.30
5655 7725 5.424252 AGTCTTACATTATGAAACGGAGGGA 59.576 40.000 0.00 0.00 0.00 4.20
5656 7726 5.671493 AGTCTTACATTATGAAACGGAGGG 58.329 41.667 0.00 0.00 0.00 4.30
5657 7727 7.611213 AAAGTCTTACATTATGAAACGGAGG 57.389 36.000 0.00 0.00 0.00 4.30
5681 7751 9.828852 CATAATGTAAGGCGTTTAGTGTAAAAA 57.171 29.630 0.00 0.00 0.00 1.94
5682 7752 8.452534 CCATAATGTAAGGCGTTTAGTGTAAAA 58.547 33.333 0.00 0.00 0.00 1.52
5683 7753 7.066043 CCCATAATGTAAGGCGTTTAGTGTAAA 59.934 37.037 0.00 0.00 0.00 2.01
5684 7754 6.539464 CCCATAATGTAAGGCGTTTAGTGTAA 59.461 38.462 0.00 0.00 0.00 2.41
5685 7755 6.050432 CCCATAATGTAAGGCGTTTAGTGTA 58.950 40.000 0.00 0.00 0.00 2.90
5686 7756 4.879545 CCCATAATGTAAGGCGTTTAGTGT 59.120 41.667 0.00 0.00 0.00 3.55
5687 7757 5.007332 GTCCCATAATGTAAGGCGTTTAGTG 59.993 44.000 0.00 0.00 0.00 2.74
5688 7758 5.121105 GTCCCATAATGTAAGGCGTTTAGT 58.879 41.667 0.00 0.00 0.00 2.24
5689 7759 4.210537 CGTCCCATAATGTAAGGCGTTTAG 59.789 45.833 0.00 0.00 0.00 1.85
5690 7760 4.121317 CGTCCCATAATGTAAGGCGTTTA 58.879 43.478 0.00 0.00 0.00 2.01
5691 7761 2.940410 CGTCCCATAATGTAAGGCGTTT 59.060 45.455 0.00 0.00 0.00 3.60
5692 7762 2.168936 TCGTCCCATAATGTAAGGCGTT 59.831 45.455 0.00 0.00 0.00 4.84
5693 7763 1.758280 TCGTCCCATAATGTAAGGCGT 59.242 47.619 0.00 0.00 0.00 5.68
5694 7764 2.519377 TCGTCCCATAATGTAAGGCG 57.481 50.000 0.00 0.00 0.00 5.52
5695 7765 3.139077 CCTTCGTCCCATAATGTAAGGC 58.861 50.000 0.00 0.00 0.00 4.35
5696 7766 3.389983 TCCCTTCGTCCCATAATGTAAGG 59.610 47.826 0.00 0.00 33.37 2.69
5697 7767 4.101119 ACTCCCTTCGTCCCATAATGTAAG 59.899 45.833 0.00 0.00 0.00 2.34
5698 7768 4.035112 ACTCCCTTCGTCCCATAATGTAA 58.965 43.478 0.00 0.00 0.00 2.41
5699 7769 3.649843 ACTCCCTTCGTCCCATAATGTA 58.350 45.455 0.00 0.00 0.00 2.29
5700 7770 2.478292 ACTCCCTTCGTCCCATAATGT 58.522 47.619 0.00 0.00 0.00 2.71
5701 7771 4.891992 ATACTCCCTTCGTCCCATAATG 57.108 45.455 0.00 0.00 0.00 1.90
5702 7772 5.906772 AAATACTCCCTTCGTCCCATAAT 57.093 39.130 0.00 0.00 0.00 1.28
5703 7773 5.190132 TCAAAATACTCCCTTCGTCCCATAA 59.810 40.000 0.00 0.00 0.00 1.90
5704 7774 4.717778 TCAAAATACTCCCTTCGTCCCATA 59.282 41.667 0.00 0.00 0.00 2.74
5705 7775 3.521937 TCAAAATACTCCCTTCGTCCCAT 59.478 43.478 0.00 0.00 0.00 4.00
5706 7776 2.907696 TCAAAATACTCCCTTCGTCCCA 59.092 45.455 0.00 0.00 0.00 4.37
5707 7777 3.622166 TCAAAATACTCCCTTCGTCCC 57.378 47.619 0.00 0.00 0.00 4.46
5708 7778 4.392138 CACTTCAAAATACTCCCTTCGTCC 59.608 45.833 0.00 0.00 0.00 4.79
5709 7779 4.995487 ACACTTCAAAATACTCCCTTCGTC 59.005 41.667 0.00 0.00 0.00 4.20
5710 7780 4.969484 ACACTTCAAAATACTCCCTTCGT 58.031 39.130 0.00 0.00 0.00 3.85
5711 7781 6.395629 TCTACACTTCAAAATACTCCCTTCG 58.604 40.000 0.00 0.00 0.00 3.79
5712 7782 8.794335 AATCTACACTTCAAAATACTCCCTTC 57.206 34.615 0.00 0.00 0.00 3.46
5713 7783 8.383175 TGAATCTACACTTCAAAATACTCCCTT 58.617 33.333 0.00 0.00 29.96 3.95
5714 7784 7.824779 GTGAATCTACACTTCAAAATACTCCCT 59.175 37.037 0.00 0.00 37.73 4.20
5715 7785 7.975750 GTGAATCTACACTTCAAAATACTCCC 58.024 38.462 0.00 0.00 37.73 4.30
5734 7804 4.864806 TGTACGAAGCAGAATGAGTGAATC 59.135 41.667 0.00 0.00 39.69 2.52
5746 7816 4.867047 AGAATGAGTGAATGTACGAAGCAG 59.133 41.667 0.00 0.00 0.00 4.24
5751 7821 4.424626 GAGCAGAATGAGTGAATGTACGA 58.575 43.478 0.00 0.00 39.69 3.43
5753 7823 3.553511 CGGAGCAGAATGAGTGAATGTAC 59.446 47.826 0.00 0.00 39.69 2.90
5757 7827 3.449018 AGTACGGAGCAGAATGAGTGAAT 59.551 43.478 0.00 0.00 39.69 2.57
5758 7828 2.826128 AGTACGGAGCAGAATGAGTGAA 59.174 45.455 0.00 0.00 39.69 3.18
5759 7829 2.447443 AGTACGGAGCAGAATGAGTGA 58.553 47.619 0.00 0.00 39.69 3.41
5760 7830 2.949451 AGTACGGAGCAGAATGAGTG 57.051 50.000 0.00 0.00 39.69 3.51
5761 7831 4.017808 ACTAAGTACGGAGCAGAATGAGT 58.982 43.478 0.00 0.00 39.69 3.41
5762 7832 4.640789 ACTAAGTACGGAGCAGAATGAG 57.359 45.455 0.00 0.00 39.69 2.90
5763 7833 4.142227 GGAACTAAGTACGGAGCAGAATGA 60.142 45.833 0.00 0.00 39.69 2.57
5764 7834 4.113354 GGAACTAAGTACGGAGCAGAATG 58.887 47.826 0.00 0.00 40.87 2.67
5765 7835 4.024670 AGGAACTAAGTACGGAGCAGAAT 58.975 43.478 0.00 0.00 36.02 2.40
5766 7836 3.428532 AGGAACTAAGTACGGAGCAGAA 58.571 45.455 0.00 0.00 36.02 3.02
5767 7837 3.083122 AGGAACTAAGTACGGAGCAGA 57.917 47.619 0.00 0.00 36.02 4.26
5807 7877 8.953313 CACTCCCTCCGTTTTTAAATATAAGTT 58.047 33.333 0.00 0.00 0.00 2.66
5817 7887 3.242011 AGTACCACTCCCTCCGTTTTTA 58.758 45.455 0.00 0.00 0.00 1.52
5818 7888 2.038164 GAGTACCACTCCCTCCGTTTTT 59.962 50.000 0.00 0.00 39.28 1.94
5819 7889 1.622312 GAGTACCACTCCCTCCGTTTT 59.378 52.381 0.00 0.00 39.28 2.43
5820 7890 1.203149 AGAGTACCACTCCCTCCGTTT 60.203 52.381 2.74 0.00 46.18 3.60
5821 7891 0.408700 AGAGTACCACTCCCTCCGTT 59.591 55.000 2.74 0.00 46.18 4.44
5822 7892 1.293062 TAGAGTACCACTCCCTCCGT 58.707 55.000 2.74 0.00 46.18 4.69
5826 7896 9.802210 AGTAGTATATATAGAGTACCACTCCCT 57.198 37.037 15.60 0.00 46.18 4.20
5827 7897 9.835389 CAGTAGTATATATAGAGTACCACTCCC 57.165 40.741 15.60 0.00 46.18 4.30
5828 7898 9.328845 GCAGTAGTATATATAGAGTACCACTCC 57.671 40.741 15.60 0.00 46.18 3.85
5829 7899 9.887629 TGCAGTAGTATATATAGAGTACCACTC 57.112 37.037 15.60 0.00 45.38 3.51
5878 8889 6.791303 TCTTGCAGTTTTTAAGAACACGAAT 58.209 32.000 11.10 0.00 31.94 3.34
5881 8892 7.449934 AATTCTTGCAGTTTTTAAGAACACG 57.550 32.000 11.10 3.40 41.57 4.49
5895 8906 5.603170 ATTCCACCCATTAATTCTTGCAG 57.397 39.130 0.00 0.00 0.00 4.41
5953 8969 2.407846 ATCAGCCGACGGATGCGTAG 62.408 60.000 26.87 13.18 39.19 3.51
5954 8970 2.011741 AATCAGCCGACGGATGCGTA 62.012 55.000 26.87 10.95 39.19 4.42
5955 8971 2.852495 AAATCAGCCGACGGATGCGT 62.852 55.000 26.87 13.64 39.19 5.24
5956 8972 1.705337 AAAATCAGCCGACGGATGCG 61.705 55.000 26.87 4.58 39.19 4.73
5957 8973 0.451783 AAAAATCAGCCGACGGATGC 59.548 50.000 26.87 6.88 39.19 3.91


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

AutoCloner maintained by Alex Coulton.