Multiple sequence alignment - TraesCS7A01G056600

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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 TraesCS7A01G056600 chr7A 100.000 5252 0 0 1 5252 27283559 27278308 0.000000e+00 9699.0
1 TraesCS7A01G056600 chr7A 84.483 3596 393 90 1001 4522 27291807 27288303 0.000000e+00 3397.0
2 TraesCS7A01G056600 chr7A 86.207 319 41 3 3346 3662 27244031 27243714 5.040000e-90 342.0
3 TraesCS7A01G056600 chr7A 84.865 185 24 2 3892 4075 27243471 27243290 3.230000e-42 183.0
4 TraesCS7A01G056600 chr7A 78.146 302 39 14 1003 1304 27233959 27233685 3.250000e-37 167.0
5 TraesCS7A01G056600 chr7A 95.714 70 3 0 3593 3662 27233266 27233197 4.300000e-21 113.0
6 TraesCS7A01G056600 chr4A 90.521 4009 285 55 823 4796 704648255 704644307 0.000000e+00 5210.0
7 TraesCS7A01G056600 chr4A 92.941 1105 73 4 3693 4796 704629332 704628232 0.000000e+00 1604.0
8 TraesCS7A01G056600 chr4A 90.115 1133 62 14 4033 5158 704576388 704575299 0.000000e+00 1426.0
9 TraesCS7A01G056600 chr4A 90.026 1133 63 14 4033 5158 704596252 704595163 0.000000e+00 1421.0
10 TraesCS7A01G056600 chr4A 91.124 1014 73 5 3707 4720 704598241 704597245 0.000000e+00 1358.0
11 TraesCS7A01G056600 chr4A 90.927 1014 75 5 3707 4720 704578376 704577380 0.000000e+00 1347.0
12 TraesCS7A01G056600 chr4A 85.168 1281 122 30 1 1238 704657987 704656732 0.000000e+00 1251.0
13 TraesCS7A01G056600 chr4A 94.675 338 15 3 4822 5158 704628035 704627700 6.030000e-144 521.0
14 TraesCS7A01G056600 chr4A 89.268 410 41 3 3707 4116 704601262 704600856 1.300000e-140 510.0
15 TraesCS7A01G056600 chr4A 94.328 335 16 3 4822 5155 704644099 704643767 1.300000e-140 510.0
16 TraesCS7A01G056600 chr4A 86.194 268 31 5 2262 2526 710853316 710853052 8.610000e-73 285.0
17 TraesCS7A01G056600 chr4A 94.175 103 4 2 5150 5252 427330784 427330884 7.040000e-34 156.0
18 TraesCS7A01G056600 chr4A 92.523 107 6 2 5147 5252 686119142 686119247 9.110000e-33 152.0
19 TraesCS7A01G056600 chr4A 84.828 145 22 0 1147 1291 710853723 710853579 4.240000e-31 147.0
20 TraesCS7A01G056600 chr4A 97.101 69 2 0 3593 3661 704578454 704578386 3.320000e-22 117.0
21 TraesCS7A01G056600 chr7D 93.571 2100 78 26 2874 4961 26819628 26817574 0.000000e+00 3077.0
22 TraesCS7A01G056600 chr7D 85.738 2980 320 51 1572 4505 27096202 27093282 0.000000e+00 3051.0
23 TraesCS7A01G056600 chr7D 88.904 2172 155 41 816 2977 27050558 27048463 0.000000e+00 2597.0
24 TraesCS7A01G056600 chr7D 88.507 2010 125 36 904 2882 26821654 26819720 0.000000e+00 2335.0
25 TraesCS7A01G056600 chr7D 92.092 1176 75 15 2782 3950 27048583 27047419 0.000000e+00 1640.0
26 TraesCS7A01G056600 chr7D 90.419 668 60 3 4 671 26826639 26825976 0.000000e+00 876.0
27 TraesCS7A01G056600 chr7D 91.906 593 41 6 3964 4553 27047372 27046784 0.000000e+00 822.0
28 TraesCS7A01G056600 chr7D 84.380 685 79 14 3892 4550 26833930 26833248 0.000000e+00 647.0
29 TraesCS7A01G056600 chr7D 81.010 832 99 32 2883 3662 26834996 26834172 1.620000e-169 606.0
30 TraesCS7A01G056600 chr7D 84.142 618 70 18 1001 1602 27096828 27096223 1.640000e-159 573.0
31 TraesCS7A01G056600 chr7D 85.185 351 48 3 3313 3662 26982394 26982047 1.800000e-94 357.0
32 TraesCS7A01G056600 chr7D 83.166 398 55 9 2010 2402 26983146 26982756 2.330000e-93 353.0
33 TraesCS7A01G056600 chr7D 82.913 357 47 11 2010 2361 27037342 27036995 5.110000e-80 309.0
34 TraesCS7A01G056600 chr7D 83.092 207 28 6 2008 2209 26792070 26791866 1.160000e-41 182.0
35 TraesCS7A01G056600 chr7D 78.716 296 36 14 1009 1304 26792381 26792113 6.990000e-39 172.0
36 TraesCS7A01G056600 chr7D 98.571 70 1 0 3593 3662 26791690 26791621 1.990000e-24 124.0
37 TraesCS7A01G056600 chr7D 97.101 69 2 0 840 908 26825562 26825494 3.320000e-22 117.0
38 TraesCS7A01G056600 chrUn 83.089 615 86 12 1870 2476 296087788 296088392 1.290000e-150 544.0
39 TraesCS7A01G056600 chrUn 83.089 615 86 12 1870 2476 296092890 296093494 1.290000e-150 544.0
40 TraesCS7A01G056600 chrUn 83.089 615 86 12 1870 2476 352685284 352685888 1.290000e-150 544.0
41 TraesCS7A01G056600 chr2A 90.196 153 13 1 4575 4727 765527815 765527965 1.150000e-46 198.0
42 TraesCS7A01G056600 chr2A 97.619 42 1 0 5003 5044 567733339 567733380 7.300000e-09 73.1
43 TraesCS7A01G056600 chr3D 89.677 155 14 1 4573 4727 479626911 479627063 4.150000e-46 196.0
44 TraesCS7A01G056600 chr3D 97.727 44 1 0 5000 5043 423392167 423392210 5.640000e-10 76.8
45 TraesCS7A01G056600 chr3D 93.478 46 3 0 4998 5043 191101026 191101071 9.440000e-08 69.4
46 TraesCS7A01G056600 chr1A 82.773 238 21 13 4763 4992 588950161 588950386 1.490000e-45 195.0
47 TraesCS7A01G056600 chr1A 96.842 95 3 0 5158 5252 477663977 477663883 5.440000e-35 159.0
48 TraesCS7A01G056600 chr1A 93.478 46 3 0 4998 5043 372237203 372237158 9.440000e-08 69.4
49 TraesCS7A01G056600 chr1B 82.949 217 21 10 4782 4992 625096382 625096588 1.160000e-41 182.0
50 TraesCS7A01G056600 chr6B 96.875 96 3 0 5157 5252 81252614 81252709 1.510000e-35 161.0
51 TraesCS7A01G056600 chr7B 96.842 95 3 0 5158 5252 312816314 312816408 5.440000e-35 159.0
52 TraesCS7A01G056600 chr5D 96.842 95 3 0 5158 5252 390681946 390681852 5.440000e-35 159.0
53 TraesCS7A01G056600 chr5B 96.842 95 3 0 5158 5252 389469217 389469123 5.440000e-35 159.0
54 TraesCS7A01G056600 chr5B 93.396 106 5 2 5147 5252 578240172 578240275 7.040000e-34 156.0
55 TraesCS7A01G056600 chr5B 93.458 107 4 2 5147 5252 666212170 666212274 7.040000e-34 156.0
56 TraesCS7A01G056600 chr2B 97.619 42 1 0 5003 5044 493985604 493985645 7.300000e-09 73.1


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 TraesCS7A01G056600 chr7A 27278308 27283559 5251 True 9699.000000 9699 100.000000 1 5252 1 chr7A.!!$R1 5251
1 TraesCS7A01G056600 chr7A 27288303 27291807 3504 True 3397.000000 3397 84.483000 1001 4522 1 chr7A.!!$R2 3521
2 TraesCS7A01G056600 chr7A 27243290 27244031 741 True 262.500000 342 85.536000 3346 4075 2 chr7A.!!$R4 729
3 TraesCS7A01G056600 chr4A 704643767 704648255 4488 True 2860.000000 5210 92.424500 823 5155 2 chr4A.!!$R5 4332
4 TraesCS7A01G056600 chr4A 704656732 704657987 1255 True 1251.000000 1251 85.168000 1 1238 1 chr4A.!!$R1 1237
5 TraesCS7A01G056600 chr4A 704595163 704601262 6099 True 1096.333333 1421 90.139333 3707 5158 3 chr4A.!!$R3 1451
6 TraesCS7A01G056600 chr4A 704627700 704629332 1632 True 1062.500000 1604 93.808000 3693 5158 2 chr4A.!!$R4 1465
7 TraesCS7A01G056600 chr4A 704575299 704578454 3155 True 963.333333 1426 92.714333 3593 5158 3 chr4A.!!$R2 1565
8 TraesCS7A01G056600 chr4A 710853052 710853723 671 True 216.000000 285 85.511000 1147 2526 2 chr4A.!!$R6 1379
9 TraesCS7A01G056600 chr7D 27093282 27096828 3546 True 1812.000000 3051 84.940000 1001 4505 2 chr7D.!!$R7 3504
10 TraesCS7A01G056600 chr7D 27046784 27050558 3774 True 1686.333333 2597 90.967333 816 4553 3 chr7D.!!$R6 3737
11 TraesCS7A01G056600 chr7D 26817574 26826639 9065 True 1601.250000 3077 92.399500 4 4961 4 chr7D.!!$R3 4957
12 TraesCS7A01G056600 chr7D 26833248 26834996 1748 True 626.500000 647 82.695000 2883 4550 2 chr7D.!!$R4 1667
13 TraesCS7A01G056600 chr7D 26982047 26983146 1099 True 355.000000 357 84.175500 2010 3662 2 chr7D.!!$R5 1652
14 TraesCS7A01G056600 chrUn 296087788 296088392 604 False 544.000000 544 83.089000 1870 2476 1 chrUn.!!$F1 606
15 TraesCS7A01G056600 chrUn 296092890 296093494 604 False 544.000000 544 83.089000 1870 2476 1 chrUn.!!$F2 606
16 TraesCS7A01G056600 chrUn 352685284 352685888 604 False 544.000000 544 83.089000 1870 2476 1 chrUn.!!$F3 606

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
507 508 0.174162 GCGCCAATGCCAAAGAAGAT 59.826 50.0 0.00 0.0 0.00 2.40 F
1566 5775 0.303493 GTCGCGCAAAGAAGTGTGAA 59.697 50.0 8.75 0.0 39.86 3.18 F
1675 5946 0.235144 CGGTATCACTAGTCTCCGCG 59.765 60.0 0.00 0.0 0.00 6.46 F
2778 7098 0.251742 TGTTTCCTGGCAAGATGGGG 60.252 55.0 0.00 0.0 0.00 4.96 F
3198 7714 1.089978 TCCTGACAGGGTCCTTCCTA 58.910 55.0 21.56 0.0 35.59 2.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1632 5903 0.460811 TCTGCACATCACAGGATCGC 60.461 55.00 0.00 0.0 35.78 4.58 R
3201 7717 0.178990 ACAAACACAGGGAAGGAGCC 60.179 55.00 0.00 0.0 0.00 4.70 R
3422 7980 3.866910 ACAAAGCATCAACTTTTGCACAG 59.133 39.13 0.00 0.0 41.35 3.66 R
3705 8269 0.039437 ACTGGTAGCACACGAGAACG 60.039 55.00 7.36 0.0 45.75 3.95 R
5178 11732 0.034089 GGCTTGGGACTGGCTATGTT 60.034 55.00 0.00 0.0 0.00 2.71 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
36 37 5.621193 AGTGCTCATAAGTTGTGTACCTTT 58.379 37.500 0.00 0.00 35.73 3.11
66 67 7.829725 TCATACTTGCTACATGCTTTCATTTT 58.170 30.769 0.00 0.00 43.37 1.82
67 68 7.970061 TCATACTTGCTACATGCTTTCATTTTC 59.030 33.333 0.00 0.00 43.37 2.29
90 91 2.098934 TGTCATGTTTCTTGGTGTGTGC 59.901 45.455 0.00 0.00 0.00 4.57
173 174 5.582269 TCTCTGATTGCTTACTCGGAAATTG 59.418 40.000 0.00 0.00 0.00 2.32
190 191 6.237542 CGGAAATTGGAATGCAACTTTTATCG 60.238 38.462 0.00 0.00 0.00 2.92
218 219 7.984050 CCACATATCATCTATTAAGCTAGGGTG 59.016 40.741 0.00 0.00 0.00 4.61
244 245 1.463056 GTTGTTTCGTCATGGCATCGA 59.537 47.619 7.13 7.13 0.00 3.59
350 351 2.840651 AGCAGGAGGGCCATACATATAC 59.159 50.000 6.18 0.00 36.29 1.47
383 384 1.131126 GGATTGGTTCTCACACATGCG 59.869 52.381 0.00 0.00 0.00 4.73
385 386 1.960417 TTGGTTCTCACACATGCGAA 58.040 45.000 0.00 0.00 0.00 4.70
388 389 1.461127 GGTTCTCACACATGCGAAGTC 59.539 52.381 0.00 0.00 30.28 3.01
443 444 2.027745 TGGCTTTTCTGCACAACCAAAA 60.028 40.909 0.00 0.00 34.04 2.44
458 459 2.006991 AAAAGGGGCTAGCCGGGAT 61.007 57.895 27.24 11.11 36.85 3.85
466 467 0.972883 GCTAGCCGGGATGAAGAGAT 59.027 55.000 2.29 0.00 0.00 2.75
507 508 0.174162 GCGCCAATGCCAAAGAAGAT 59.826 50.000 0.00 0.00 0.00 2.40
531 532 2.608090 GCCGATGTACCAAGAACTAAGC 59.392 50.000 0.00 0.00 0.00 3.09
536 537 5.625721 CGATGTACCAAGAACTAAGCGATAG 59.374 44.000 0.00 0.00 37.66 2.08
545 546 7.095187 CCAAGAACTAAGCGATAGACAAGTTTT 60.095 37.037 6.59 0.00 35.47 2.43
699 735 7.528996 TTGGATCATTTCAAGATGAGTTTGT 57.471 32.000 0.00 0.00 39.26 2.83
715 751 9.267096 GATGAGTTTGTCGAGATATTTTGTTTC 57.733 33.333 0.00 0.00 0.00 2.78
807 1073 9.901724 CACTACGTCTCACAATATAAAATTGTC 57.098 33.333 0.00 0.00 39.94 3.18
815 1081 9.199184 CTCACAATATAAAATTGTCTTTCGACG 57.801 33.333 0.51 0.00 43.21 5.12
829 1105 6.183360 TGTCTTTCGACGTATAGGAGTACAAG 60.183 42.308 0.00 0.00 43.21 3.16
919 5044 0.965866 TCCCTCAGCTACACTCCACG 60.966 60.000 0.00 0.00 0.00 4.94
1304 5445 1.677637 GGCCTCTTCGTCCTAGGGTG 61.678 65.000 9.46 1.50 0.00 4.61
1305 5446 1.677637 GCCTCTTCGTCCTAGGGTGG 61.678 65.000 9.46 3.88 0.00 4.61
1306 5447 1.043673 CCTCTTCGTCCTAGGGTGGG 61.044 65.000 9.46 0.00 0.00 4.61
1307 5448 0.324460 CTCTTCGTCCTAGGGTGGGT 60.324 60.000 9.46 0.00 0.00 4.51
1331 5472 2.105649 GTCTCCTCCAATCAATCCTCCC 59.894 54.545 0.00 0.00 0.00 4.30
1374 5518 3.296628 CAAATCTGTTTCGTTTCACCCG 58.703 45.455 0.00 0.00 0.00 5.28
1417 5561 4.985409 GGAATCTCGGTGTATTCATCTGTC 59.015 45.833 0.00 0.00 34.44 3.51
1421 5565 4.336713 TCTCGGTGTATTCATCTGTCTCTG 59.663 45.833 0.00 0.00 0.00 3.35
1430 5580 2.757314 TCATCTGTCTCTGCTTCGATGT 59.243 45.455 0.00 0.00 32.36 3.06
1445 5595 5.739752 TTCGATGTTATCCAAATGAGCTG 57.260 39.130 0.00 0.00 0.00 4.24
1464 5614 3.486542 GCTGCTGCTTCAGTAATTAGCAC 60.487 47.826 8.53 0.00 39.79 4.40
1481 5678 8.671384 AATTAGCACTGTGTAGTTTACTTTGA 57.329 30.769 9.86 0.00 34.07 2.69
1502 5699 9.309516 CTTTGATGTCAATTAATTAGCAATGCT 57.690 29.630 13.92 13.92 37.96 3.79
1532 5733 5.049405 ACTTTGGTGTCAATGATTCGAGAAC 60.049 40.000 0.00 0.00 33.73 3.01
1544 5745 2.194800 TCGAGAACATTAGCTCAGCG 57.805 50.000 0.00 0.00 0.00 5.18
1563 5772 2.594962 CCGTCGCGCAAAGAAGTGT 61.595 57.895 8.75 0.00 0.00 3.55
1564 5773 1.437089 CGTCGCGCAAAGAAGTGTG 60.437 57.895 8.75 0.00 0.00 3.82
1565 5774 1.817217 CGTCGCGCAAAGAAGTGTGA 61.817 55.000 8.75 0.00 36.30 3.58
1566 5775 0.303493 GTCGCGCAAAGAAGTGTGAA 59.697 50.000 8.75 0.00 39.86 3.18
1567 5776 1.069906 GTCGCGCAAAGAAGTGTGAAT 60.070 47.619 8.75 0.00 39.86 2.57
1568 5777 1.601903 TCGCGCAAAGAAGTGTGAATT 59.398 42.857 8.75 0.00 35.78 2.17
1569 5778 1.710249 CGCGCAAAGAAGTGTGAATTG 59.290 47.619 8.75 0.00 0.00 2.32
1570 5779 2.053627 GCGCAAAGAAGTGTGAATTGG 58.946 47.619 0.30 0.00 0.00 3.16
1607 5878 5.276726 CGTCTCACATTGAGCTGTATTCATG 60.277 44.000 0.00 0.00 43.95 3.07
1630 5901 5.043248 GTCTTGTGGTTGGTTTCTCATTTG 58.957 41.667 0.00 0.00 0.00 2.32
1632 5903 4.383850 TGTGGTTGGTTTCTCATTTGTG 57.616 40.909 0.00 0.00 0.00 3.33
1635 5906 2.034053 GGTTGGTTTCTCATTTGTGCGA 59.966 45.455 0.00 0.00 0.00 5.10
1636 5907 3.305335 GGTTGGTTTCTCATTTGTGCGAT 60.305 43.478 0.00 0.00 0.00 4.58
1675 5946 0.235144 CGGTATCACTAGTCTCCGCG 59.765 60.000 0.00 0.00 0.00 6.46
1720 5991 5.930837 ACTCTCTGGAATTTCTAGGTGAG 57.069 43.478 20.56 20.56 34.76 3.51
1750 6021 5.859205 AATTCCCCATTTTTGCTAGCTAG 57.141 39.130 16.84 16.84 0.00 3.42
1783 6054 5.365403 TTTTACTTGTTCGGTGCCTATTG 57.635 39.130 0.00 0.00 0.00 1.90
1900 6175 5.874810 TCGACCAGAAAAACCTATTGAGATG 59.125 40.000 0.00 0.00 0.00 2.90
1932 6207 3.320673 AGGGTACGAGCTTTCTTTCAG 57.679 47.619 0.00 0.00 0.00 3.02
1989 6265 5.181245 CACTCCCTGCGTATTTATAATTGGG 59.819 44.000 0.00 0.00 0.00 4.12
1993 6269 5.250200 CCTGCGTATTTATAATTGGGCCTA 58.750 41.667 4.53 0.00 0.00 3.93
2060 6341 7.470900 TGATTTTCTTTGTTTCAATTGTTGGC 58.529 30.769 5.13 0.00 0.00 4.52
2152 6447 3.848019 GCATTGTGTAGCTGTCATTTTCG 59.152 43.478 0.00 0.00 0.00 3.46
2160 6455 3.568538 AGCTGTCATTTTCGATGTTTGC 58.431 40.909 0.00 0.00 0.00 3.68
2171 6466 3.316283 TCGATGTTTGCAAAATCTTGGC 58.684 40.909 14.67 0.00 32.76 4.52
2277 6572 2.348104 GGGGCCAACATTTCGTCCC 61.348 63.158 4.39 0.00 0.00 4.46
2301 6596 3.660669 AGGTTTTAGAGATGGGTGGGAAA 59.339 43.478 0.00 0.00 0.00 3.13
2349 6645 6.176183 CAAGAATTCCTCACCAGTTCTATGT 58.824 40.000 0.65 0.00 0.00 2.29
2456 6756 1.634973 TGATCCCAGCAGAATCACCAA 59.365 47.619 0.00 0.00 0.00 3.67
2534 6850 7.232127 AGTCAATCTTCTTCATGTTTGACCAAT 59.768 33.333 9.31 0.00 42.29 3.16
2778 7098 0.251742 TGTTTCCTGGCAAGATGGGG 60.252 55.000 0.00 0.00 0.00 4.96
2827 7148 3.846744 GCTGCAATGCAATGTGTTTTGTG 60.847 43.478 9.92 0.00 38.41 3.33
2889 7311 2.613730 CAGTTCTCTGCTGCAATGTG 57.386 50.000 3.02 0.00 34.79 3.21
2890 7312 1.878088 CAGTTCTCTGCTGCAATGTGT 59.122 47.619 3.02 0.00 34.79 3.72
2905 7396 6.436261 TGCAATGTGTTTTTGCCATTAATTG 58.564 32.000 5.99 0.00 46.97 2.32
3010 7511 9.827411 GTTAGTTCTTCTATGTTGCCTAAAAAG 57.173 33.333 0.00 0.00 0.00 2.27
3198 7714 1.089978 TCCTGACAGGGTCCTTCCTA 58.910 55.000 21.56 0.00 35.59 2.94
3201 7717 2.171448 CCTGACAGGGTCCTTCCTATTG 59.829 54.545 14.26 0.00 34.92 1.90
3256 7772 4.262463 GGAACTGTCCCGATTATGCTATCA 60.262 45.833 0.00 0.00 38.08 2.15
3390 7947 6.915300 TCATGATTTTGTTACCGTTTGACTTG 59.085 34.615 0.00 0.00 0.00 3.16
3398 7955 5.693104 TGTTACCGTTTGACTTGAGTATGAC 59.307 40.000 0.00 0.00 0.00 3.06
3422 7980 8.813643 ACGGTTCATTATTAGTAGTAATCAGC 57.186 34.615 6.08 0.00 31.04 4.26
3433 7991 5.308825 AGTAGTAATCAGCTGTGCAAAAGT 58.691 37.500 14.67 0.00 0.00 2.66
3467 8028 8.630054 TGTGGCTTATTTTGTAGACAATAACT 57.370 30.769 0.00 0.00 35.55 2.24
3705 8269 6.681368 GCATCTGGGGTCATTATTTTCTTGTC 60.681 42.308 0.00 0.00 0.00 3.18
3717 8281 1.205657 TTCTTGTCGTTCTCGTGTGC 58.794 50.000 0.00 0.00 38.33 4.57
3751 8315 5.995282 CAGAACCTGACCAGTACATGTTTTA 59.005 40.000 2.30 0.00 32.44 1.52
3830 8394 2.413837 CCACACTTGCTACACAGGTAC 58.586 52.381 0.00 0.00 36.23 3.34
4123 8783 3.933332 GGCCTAGTAGTGTGTGACATTTC 59.067 47.826 0.00 0.00 0.00 2.17
4308 8978 4.624024 TCTTTACAATAAACCGCTGAGTCG 59.376 41.667 0.00 0.00 0.00 4.18
4323 8995 3.820689 TGAGTCGCAAATGCAATGTAAC 58.179 40.909 6.18 0.00 42.21 2.50
4385 9069 7.072076 GGGGTTATATGGTAGAGAAGGAAGAAA 59.928 40.741 0.00 0.00 0.00 2.52
4479 9170 5.452356 GGAGATGAAATTTTGTAGCATGGGG 60.452 44.000 0.00 0.00 0.00 4.96
4572 9265 9.565090 GGTAGTATTCCCTCCGTTTTAAATATT 57.435 33.333 0.00 0.00 0.00 1.28
4857 11404 8.049117 AGATGAGCTCCATAAATTACAGTGAAA 58.951 33.333 12.15 0.00 35.17 2.69
4911 11458 2.362717 AGAGGTTAGGCAATACTCGAGC 59.637 50.000 13.61 0.00 33.58 5.03
5051 11604 4.304939 GAACAGCGGGAGTATATGGTAAC 58.695 47.826 0.00 0.00 0.00 2.50
5158 11712 7.466455 GCACTATGTACAACTTACTACTCGCTA 60.466 40.741 0.00 0.00 0.00 4.26
5159 11713 8.393366 CACTATGTACAACTTACTACTCGCTAA 58.607 37.037 0.00 0.00 0.00 3.09
5160 11714 8.394121 ACTATGTACAACTTACTACTCGCTAAC 58.606 37.037 0.00 0.00 0.00 2.34
5161 11715 6.808008 TGTACAACTTACTACTCGCTAACT 57.192 37.500 0.00 0.00 0.00 2.24
5162 11716 6.835914 TGTACAACTTACTACTCGCTAACTC 58.164 40.000 0.00 0.00 0.00 3.01
5163 11717 5.307926 ACAACTTACTACTCGCTAACTCC 57.692 43.478 0.00 0.00 0.00 3.85
5164 11718 4.142730 ACAACTTACTACTCGCTAACTCCG 60.143 45.833 0.00 0.00 0.00 4.63
5165 11719 2.354199 ACTTACTACTCGCTAACTCCGC 59.646 50.000 0.00 0.00 0.00 5.54
5166 11720 1.303309 TACTACTCGCTAACTCCGCC 58.697 55.000 0.00 0.00 0.00 6.13
5167 11721 0.394080 ACTACTCGCTAACTCCGCCT 60.394 55.000 0.00 0.00 0.00 5.52
5168 11722 1.134280 ACTACTCGCTAACTCCGCCTA 60.134 52.381 0.00 0.00 0.00 3.93
5169 11723 2.152830 CTACTCGCTAACTCCGCCTAT 58.847 52.381 0.00 0.00 0.00 2.57
5170 11724 0.669077 ACTCGCTAACTCCGCCTATG 59.331 55.000 0.00 0.00 0.00 2.23
5171 11725 0.669077 CTCGCTAACTCCGCCTATGT 59.331 55.000 0.00 0.00 0.00 2.29
5172 11726 1.067212 CTCGCTAACTCCGCCTATGTT 59.933 52.381 0.00 0.00 0.00 2.71
5173 11727 1.202371 TCGCTAACTCCGCCTATGTTG 60.202 52.381 0.00 0.00 0.00 3.33
5174 11728 1.470979 CGCTAACTCCGCCTATGTTGT 60.471 52.381 0.00 0.00 0.00 3.32
5175 11729 2.202566 GCTAACTCCGCCTATGTTGTC 58.797 52.381 0.00 0.00 0.00 3.18
5176 11730 2.159085 GCTAACTCCGCCTATGTTGTCT 60.159 50.000 0.00 0.00 0.00 3.41
5177 11731 2.674796 AACTCCGCCTATGTTGTCTC 57.325 50.000 0.00 0.00 0.00 3.36
5178 11732 1.557099 ACTCCGCCTATGTTGTCTCA 58.443 50.000 0.00 0.00 0.00 3.27
5179 11733 1.899814 ACTCCGCCTATGTTGTCTCAA 59.100 47.619 0.00 0.00 0.00 3.02
5180 11734 2.271800 CTCCGCCTATGTTGTCTCAAC 58.728 52.381 5.78 5.78 0.00 3.18
5181 11735 1.621317 TCCGCCTATGTTGTCTCAACA 59.379 47.619 15.83 15.83 34.31 3.33
5182 11736 2.236146 TCCGCCTATGTTGTCTCAACAT 59.764 45.455 24.50 24.50 42.82 2.71
5183 11737 3.449377 TCCGCCTATGTTGTCTCAACATA 59.551 43.478 24.21 24.21 40.87 2.29
5189 11743 3.769739 TGTTGTCTCAACATAGCCAGT 57.230 42.857 10.63 0.00 34.73 4.00
5190 11744 3.664107 TGTTGTCTCAACATAGCCAGTC 58.336 45.455 10.63 0.00 34.73 3.51
5191 11745 3.003480 GTTGTCTCAACATAGCCAGTCC 58.997 50.000 7.60 0.00 34.73 3.85
5192 11746 1.555075 TGTCTCAACATAGCCAGTCCC 59.445 52.381 0.00 0.00 0.00 4.46
5193 11747 1.555075 GTCTCAACATAGCCAGTCCCA 59.445 52.381 0.00 0.00 0.00 4.37
5194 11748 2.027192 GTCTCAACATAGCCAGTCCCAA 60.027 50.000 0.00 0.00 0.00 4.12
5195 11749 2.237143 TCTCAACATAGCCAGTCCCAAG 59.763 50.000 0.00 0.00 0.00 3.61
5196 11750 1.098050 CAACATAGCCAGTCCCAAGC 58.902 55.000 0.00 0.00 0.00 4.01
5197 11751 0.034089 AACATAGCCAGTCCCAAGCC 60.034 55.000 0.00 0.00 0.00 4.35
5198 11752 1.524621 CATAGCCAGTCCCAAGCCG 60.525 63.158 0.00 0.00 0.00 5.52
5199 11753 2.746375 ATAGCCAGTCCCAAGCCGG 61.746 63.158 0.00 0.00 0.00 6.13
5208 11762 3.083386 CCAAGCCGGGGTAAAGGA 58.917 61.111 2.18 0.00 0.00 3.36
5209 11763 1.077716 CCAAGCCGGGGTAAAGGAG 60.078 63.158 2.18 0.00 0.00 3.69
5210 11764 1.077716 CAAGCCGGGGTAAAGGAGG 60.078 63.158 2.18 0.00 0.00 4.30
5211 11765 1.229723 AAGCCGGGGTAAAGGAGGA 60.230 57.895 2.18 0.00 0.00 3.71
5212 11766 1.272554 AAGCCGGGGTAAAGGAGGAG 61.273 60.000 2.18 0.00 0.00 3.69
5213 11767 2.743179 GCCGGGGTAAAGGAGGAGG 61.743 68.421 2.18 0.00 0.00 4.30
5214 11768 2.070650 CCGGGGTAAAGGAGGAGGG 61.071 68.421 0.00 0.00 0.00 4.30
5215 11769 1.306739 CGGGGTAAAGGAGGAGGGT 60.307 63.158 0.00 0.00 0.00 4.34
5216 11770 0.912968 CGGGGTAAAGGAGGAGGGTT 60.913 60.000 0.00 0.00 0.00 4.11
5217 11771 0.624254 GGGGTAAAGGAGGAGGGTTG 59.376 60.000 0.00 0.00 0.00 3.77
5218 11772 1.369403 GGGTAAAGGAGGAGGGTTGT 58.631 55.000 0.00 0.00 0.00 3.32
5219 11773 1.004394 GGGTAAAGGAGGAGGGTTGTG 59.996 57.143 0.00 0.00 0.00 3.33
5220 11774 1.982958 GGTAAAGGAGGAGGGTTGTGA 59.017 52.381 0.00 0.00 0.00 3.58
5221 11775 2.576648 GGTAAAGGAGGAGGGTTGTGAT 59.423 50.000 0.00 0.00 0.00 3.06
5222 11776 3.778629 GGTAAAGGAGGAGGGTTGTGATA 59.221 47.826 0.00 0.00 0.00 2.15
5223 11777 4.141688 GGTAAAGGAGGAGGGTTGTGATAG 60.142 50.000 0.00 0.00 0.00 2.08
5224 11778 2.182516 AGGAGGAGGGTTGTGATAGG 57.817 55.000 0.00 0.00 0.00 2.57
5225 11779 0.470341 GGAGGAGGGTTGTGATAGGC 59.530 60.000 0.00 0.00 0.00 3.93
5226 11780 1.501582 GAGGAGGGTTGTGATAGGCT 58.498 55.000 0.00 0.00 0.00 4.58
5227 11781 1.840635 GAGGAGGGTTGTGATAGGCTT 59.159 52.381 0.00 0.00 0.00 4.35
5228 11782 1.561542 AGGAGGGTTGTGATAGGCTTG 59.438 52.381 0.00 0.00 0.00 4.01
5229 11783 1.408822 GGAGGGTTGTGATAGGCTTGG 60.409 57.143 0.00 0.00 0.00 3.61
5230 11784 0.034089 AGGGTTGTGATAGGCTTGGC 60.034 55.000 0.00 0.00 0.00 4.52
5231 11785 1.376609 GGGTTGTGATAGGCTTGGCG 61.377 60.000 0.00 0.00 0.00 5.69
5232 11786 0.392461 GGTTGTGATAGGCTTGGCGA 60.392 55.000 0.00 0.00 0.00 5.54
5233 11787 1.009829 GTTGTGATAGGCTTGGCGAG 58.990 55.000 0.00 0.00 0.00 5.03
5246 11800 2.785713 TGGCGAGCCAACTTTAAAAC 57.214 45.000 15.24 0.00 44.12 2.43
5247 11801 2.303175 TGGCGAGCCAACTTTAAAACT 58.697 42.857 15.24 0.00 44.12 2.66
5248 11802 2.292292 TGGCGAGCCAACTTTAAAACTC 59.708 45.455 15.24 0.00 44.12 3.01
5249 11803 2.292292 GGCGAGCCAACTTTAAAACTCA 59.708 45.455 9.58 0.00 35.81 3.41
5250 11804 3.555518 GCGAGCCAACTTTAAAACTCAG 58.444 45.455 0.00 0.00 0.00 3.35
5251 11805 3.555518 CGAGCCAACTTTAAAACTCAGC 58.444 45.455 0.00 0.00 0.00 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 5.551305 AGCATGTAGCAAGTATGATACCA 57.449 39.130 0.00 0.00 45.63 3.25
66 67 4.096231 CACACACCAAGAAACATGACAAGA 59.904 41.667 0.00 0.00 0.00 3.02
67 68 4.353737 CACACACCAAGAAACATGACAAG 58.646 43.478 0.00 0.00 0.00 3.16
119 120 4.458989 TGGATCTTGCAAACATCAACTACC 59.541 41.667 16.27 3.50 0.00 3.18
120 121 5.182001 AGTGGATCTTGCAAACATCAACTAC 59.818 40.000 19.88 12.41 30.27 2.73
173 174 4.083003 TGTGGTCGATAAAAGTTGCATTCC 60.083 41.667 0.00 0.00 0.00 3.01
190 191 8.200792 CCCTAGCTTAATAGATGATATGTGGTC 58.799 40.741 0.00 0.00 0.00 4.02
218 219 4.047822 TGCCATGACGAAACAACAATTTC 58.952 39.130 0.00 0.00 35.59 2.17
222 223 2.350293 CGATGCCATGACGAAACAACAA 60.350 45.455 0.00 0.00 0.00 2.83
244 245 8.848182 CAGGTTAGTTTCCTCTAATATCTACGT 58.152 37.037 0.00 0.00 33.39 3.57
299 300 9.136323 AGGTATTGAAAACCCATTGAAGATATC 57.864 33.333 0.00 0.00 37.77 1.63
413 414 6.398234 TGTGCAGAAAAGCCAGTTAATTAA 57.602 33.333 0.00 0.00 0.00 1.40
418 419 2.360801 GGTTGTGCAGAAAAGCCAGTTA 59.639 45.455 0.00 0.00 0.00 2.24
443 444 3.714078 TTCATCCCGGCTAGCCCCT 62.714 63.158 28.09 7.18 0.00 4.79
458 459 1.117994 AGCTCGATGCCATCTCTTCA 58.882 50.000 2.75 0.00 44.23 3.02
466 467 1.003476 TTGAGCAAGCTCGATGCCA 60.003 52.632 16.45 1.32 44.91 4.92
507 508 1.346395 AGTTCTTGGTACATCGGCACA 59.654 47.619 0.00 0.00 39.30 4.57
531 532 9.530633 AGGCTAAGTATTAAAACTTGTCTATCG 57.469 33.333 0.00 0.00 39.95 2.92
536 537 8.396390 GGCTAAGGCTAAGTATTAAAACTTGTC 58.604 37.037 0.00 0.00 37.18 3.18
545 546 6.126883 TGCAAGAAGGCTAAGGCTAAGTATTA 60.127 38.462 0.00 0.00 37.50 0.98
551 552 3.433306 TTGCAAGAAGGCTAAGGCTAA 57.567 42.857 0.00 0.00 37.50 3.09
626 634 7.124573 ACACTACACCTTGATTGCTATGATA 57.875 36.000 0.00 0.00 0.00 2.15
807 1073 6.183360 TGTCTTGTACTCCTATACGTCGAAAG 60.183 42.308 0.00 0.00 0.00 2.62
815 1081 5.221283 GCCTCCTTGTCTTGTACTCCTATAC 60.221 48.000 0.00 0.00 0.00 1.47
818 1084 3.097614 GCCTCCTTGTCTTGTACTCCTA 58.902 50.000 0.00 0.00 0.00 2.94
819 1085 1.903183 GCCTCCTTGTCTTGTACTCCT 59.097 52.381 0.00 0.00 0.00 3.69
829 1105 1.142097 GGTAGCTCGCCTCCTTGTC 59.858 63.158 0.00 0.00 0.00 3.18
919 5044 3.403558 GAGTGGACAGGGAGGGGC 61.404 72.222 0.00 0.00 0.00 5.80
988 5117 2.223618 CCGTGGCCATTTAATTTACCCG 60.224 50.000 9.72 2.30 0.00 5.28
989 5118 2.482316 GCCGTGGCCATTTAATTTACCC 60.482 50.000 9.72 0.00 34.56 3.69
992 5121 1.405821 CCGCCGTGGCCATTTAATTTA 59.594 47.619 9.72 0.00 37.98 1.40
993 5122 0.174617 CCGCCGTGGCCATTTAATTT 59.825 50.000 9.72 0.00 37.98 1.82
994 5123 1.813192 CCGCCGTGGCCATTTAATT 59.187 52.632 9.72 0.00 37.98 1.40
995 5124 3.520402 CCGCCGTGGCCATTTAAT 58.480 55.556 9.72 0.00 37.98 1.40
1304 5445 0.902531 TGATTGGAGGAGACGAACCC 59.097 55.000 0.00 0.00 0.00 4.11
1305 5446 2.762535 TTGATTGGAGGAGACGAACC 57.237 50.000 0.00 0.00 0.00 3.62
1306 5447 3.118592 AGGATTGATTGGAGGAGACGAAC 60.119 47.826 0.00 0.00 0.00 3.95
1307 5448 3.107601 AGGATTGATTGGAGGAGACGAA 58.892 45.455 0.00 0.00 0.00 3.85
1343 5484 8.816640 AAACGAAACAGATTTGCATCTTTATT 57.183 26.923 0.00 0.00 37.71 1.40
1374 5518 0.675633 ACTGTGGTGCTCAATTTGGC 59.324 50.000 0.00 0.14 0.00 4.52
1417 5561 5.525012 TCATTTGGATAACATCGAAGCAGAG 59.475 40.000 0.00 0.00 0.00 3.35
1421 5565 4.274459 AGCTCATTTGGATAACATCGAAGC 59.726 41.667 0.00 0.00 0.00 3.86
1445 5595 3.686726 ACAGTGCTAATTACTGAAGCAGC 59.313 43.478 12.70 0.24 46.26 5.25
1502 5699 6.514212 CGAATCATTGACACCAAAGTAACCAA 60.514 38.462 0.00 0.00 35.67 3.67
1544 5745 3.712881 ACTTCTTTGCGCGACGGC 61.713 61.111 12.10 0.00 0.00 5.68
1553 5762 7.545265 TCTTCAAAACCAATTCACACTTCTTTG 59.455 33.333 0.00 0.00 0.00 2.77
1555 5764 7.169158 TCTTCAAAACCAATTCACACTTCTT 57.831 32.000 0.00 0.00 0.00 2.52
1557 5766 8.968242 GTAATCTTCAAAACCAATTCACACTTC 58.032 33.333 0.00 0.00 0.00 3.01
1559 5768 7.138736 CGTAATCTTCAAAACCAATTCACACT 58.861 34.615 0.00 0.00 0.00 3.55
1563 5772 7.227711 TGAGACGTAATCTTCAAAACCAATTCA 59.772 33.333 0.00 0.00 38.00 2.57
1564 5773 7.534239 GTGAGACGTAATCTTCAAAACCAATTC 59.466 37.037 0.00 0.00 38.00 2.17
1565 5774 7.012894 TGTGAGACGTAATCTTCAAAACCAATT 59.987 33.333 0.00 0.00 38.00 2.32
1566 5775 6.485313 TGTGAGACGTAATCTTCAAAACCAAT 59.515 34.615 0.00 0.00 38.00 3.16
1567 5776 5.818336 TGTGAGACGTAATCTTCAAAACCAA 59.182 36.000 0.00 0.00 38.00 3.67
1568 5777 5.361427 TGTGAGACGTAATCTTCAAAACCA 58.639 37.500 0.00 0.00 38.00 3.67
1569 5778 5.917541 TGTGAGACGTAATCTTCAAAACC 57.082 39.130 0.00 0.00 38.00 3.27
1570 5779 7.572759 TCAATGTGAGACGTAATCTTCAAAAC 58.427 34.615 0.00 0.00 38.00 2.43
1607 5878 4.918810 AATGAGAAACCAACCACAAGAC 57.081 40.909 0.00 0.00 0.00 3.01
1630 5901 1.020861 TGCACATCACAGGATCGCAC 61.021 55.000 0.00 0.00 35.25 5.34
1632 5903 0.460811 TCTGCACATCACAGGATCGC 60.461 55.000 0.00 0.00 35.78 4.58
1635 5906 3.243670 CGAGTATCTGCACATCACAGGAT 60.244 47.826 0.00 0.00 35.78 3.24
1636 5907 2.099756 CGAGTATCTGCACATCACAGGA 59.900 50.000 0.00 0.00 35.78 3.86
1675 5946 7.746703 AGTATTGGTCTGAGGGTATTTTATCC 58.253 38.462 0.00 0.00 0.00 2.59
1720 5991 6.701340 AGCAAAAATGGGGAATTAGAGAAAC 58.299 36.000 0.00 0.00 0.00 2.78
1750 6021 9.072294 CACCGAACAAGTAAAATAAAATGATCC 57.928 33.333 0.00 0.00 0.00 3.36
1773 6044 8.503196 CCTTTAAATTGAAAAACAATAGGCACC 58.497 33.333 0.00 0.00 46.90 5.01
1900 6175 3.496155 CTCGTACCCTTCAAACTCGTAC 58.504 50.000 0.00 0.00 0.00 3.67
1932 6207 8.924511 TTCATAGGAAAGATATGAATCCCAAC 57.075 34.615 4.67 0.00 42.09 3.77
1963 6238 6.262273 CCAATTATAAATACGCAGGGAGTGTT 59.738 38.462 0.00 0.00 42.05 3.32
2060 6341 5.122396 AGCTGAAAGTTTTAGCCAGAATACG 59.878 40.000 24.24 0.00 38.18 3.06
2135 6430 4.928661 ACATCGAAAATGACAGCTACAC 57.071 40.909 0.00 0.00 0.00 2.90
2152 6447 3.059166 ACGCCAAGATTTTGCAAACATC 58.941 40.909 12.39 16.55 32.79 3.06
2160 6455 4.143137 GCAACCATAAACGCCAAGATTTTG 60.143 41.667 0.00 0.00 0.00 2.44
2171 6466 6.959671 AATTTTACATGGCAACCATAAACG 57.040 33.333 0.00 0.00 43.15 3.60
2277 6572 3.010138 TCCCACCCATCTCTAAAACCTTG 59.990 47.826 0.00 0.00 0.00 3.61
2301 6596 5.185056 GCATACCATGTAAGGGAACTGTTTT 59.815 40.000 0.00 0.00 43.46 2.43
2349 6645 7.466725 GCAGCGATCACATATAACCTAACAAAA 60.467 37.037 0.00 0.00 0.00 2.44
2675 6995 7.492994 GTCCTAAGTCAATCTGTATCAAGTTCC 59.507 40.741 0.00 0.00 0.00 3.62
2676 6996 8.035394 TGTCCTAAGTCAATCTGTATCAAGTTC 58.965 37.037 0.00 0.00 0.00 3.01
2778 7098 7.698836 AAGACTGCAACAATATGACAAAAAC 57.301 32.000 0.00 0.00 0.00 2.43
2905 7396 3.329929 AACACCCGATGTCTTCTTACC 57.670 47.619 0.00 0.00 42.31 2.85
2911 7402 2.925724 TGACAAAACACCCGATGTCTT 58.074 42.857 6.35 0.00 42.31 3.01
3198 7714 0.779997 AACACAGGGAAGGAGCCAAT 59.220 50.000 0.00 0.00 0.00 3.16
3201 7717 0.178990 ACAAACACAGGGAAGGAGCC 60.179 55.000 0.00 0.00 0.00 4.70
3256 7772 8.127150 AGTTACTTACCGTAAATAGACCAAGT 57.873 34.615 0.00 0.00 39.65 3.16
3342 7899 8.207521 TGAACATATGACAAATAAAGATCGCA 57.792 30.769 10.38 0.00 0.00 5.10
3357 7914 8.275015 ACGGTAACAAAATCATGAACATATGA 57.725 30.769 10.38 0.00 41.00 2.15
3398 7955 8.916654 CAGCTGATTACTACTAATAATGAACCG 58.083 37.037 8.42 0.00 0.00 4.44
3422 7980 3.866910 ACAAAGCATCAACTTTTGCACAG 59.133 39.130 0.00 0.00 41.35 3.66
3433 7991 5.609423 ACAAAATAAGCCACAAAGCATCAA 58.391 33.333 0.00 0.00 34.23 2.57
3705 8269 0.039437 ACTGGTAGCACACGAGAACG 60.039 55.000 7.36 0.00 45.75 3.95
3717 8281 2.028020 GGTCAGGTTCTGGAACTGGTAG 60.028 54.545 0.14 0.98 40.94 3.18
3830 8394 2.821546 TGTGAAGTTTCCAGTGTCGAG 58.178 47.619 0.00 0.00 0.00 4.04
4123 8783 1.004610 CGCCTGCAATGACAATACGAG 60.005 52.381 0.00 0.00 0.00 4.18
4227 8887 7.113658 TCAGAGATTTTGGTACTGAGGATAC 57.886 40.000 0.00 0.00 33.57 2.24
4282 8952 7.448748 ACTCAGCGGTTTATTGTAAAGAATT 57.551 32.000 0.00 0.00 0.00 2.17
4308 8978 6.949578 ATACAACTGTTACATTGCATTTGC 57.050 33.333 0.00 0.00 42.50 3.68
4323 8995 6.932356 ATAGCAAGTGGATGAATACAACTG 57.068 37.500 0.00 0.00 0.00 3.16
4385 9069 0.460311 CTCGAGAATACTTGGCCCGT 59.540 55.000 6.58 0.00 0.00 5.28
4479 9170 7.010738 CCTTTGCATCATAAATCCAACATGTTC 59.989 37.037 8.48 0.00 0.00 3.18
4663 9363 8.173542 TCCAATATAGACTACATACGAAGCAA 57.826 34.615 0.00 0.00 0.00 3.91
4664 9364 7.754851 TCCAATATAGACTACATACGAAGCA 57.245 36.000 0.00 0.00 0.00 3.91
4747 11112 8.770438 AGTATTTCTAGTTTCTCTCTGCAAAG 57.230 34.615 0.00 0.00 0.00 2.77
4834 11381 7.994425 TTTTCACTGTAATTTATGGAGCTCA 57.006 32.000 17.19 1.87 0.00 4.26
4882 11429 5.911766 AGTATTGCCTAACCTCTATTTCCCT 59.088 40.000 0.00 0.00 0.00 4.20
4911 11458 6.817765 ACAACTTCACAGTATAATGTTGGG 57.182 37.500 2.43 0.00 37.99 4.12
5006 11559 7.490962 TCCTAAATATATGACGTTTTGGCAG 57.509 36.000 0.00 0.00 30.97 4.85
5051 11604 8.693504 CATTTGTGCAACTAGTTTTATCTTGTG 58.306 33.333 5.07 0.00 38.04 3.33
5086 11639 4.924305 ATAATTTGCAGTGTGGCCATAG 57.076 40.909 9.72 0.00 0.00 2.23
5158 11712 1.899814 TGAGACAACATAGGCGGAGTT 59.100 47.619 0.00 0.00 0.00 3.01
5159 11713 1.557099 TGAGACAACATAGGCGGAGT 58.443 50.000 0.00 0.00 0.00 3.85
5160 11714 2.271800 GTTGAGACAACATAGGCGGAG 58.728 52.381 9.32 0.00 0.00 4.63
5161 11715 1.621317 TGTTGAGACAACATAGGCGGA 59.379 47.619 12.32 0.00 31.49 5.54
5162 11716 2.093306 TGTTGAGACAACATAGGCGG 57.907 50.000 12.32 0.00 31.49 6.13
5167 11721 5.419542 GACTGGCTATGTTGAGACAACATA 58.580 41.667 25.32 25.32 40.87 2.29
5168 11722 4.256920 GACTGGCTATGTTGAGACAACAT 58.743 43.478 25.70 25.70 42.82 2.71
5169 11723 3.557054 GGACTGGCTATGTTGAGACAACA 60.557 47.826 17.39 17.39 39.66 3.33
5170 11724 3.003480 GGACTGGCTATGTTGAGACAAC 58.997 50.000 7.55 7.55 39.66 3.32
5171 11725 2.027192 GGGACTGGCTATGTTGAGACAA 60.027 50.000 0.00 0.00 39.66 3.18
5172 11726 1.555075 GGGACTGGCTATGTTGAGACA 59.445 52.381 0.00 0.00 40.71 3.41
5173 11727 1.555075 TGGGACTGGCTATGTTGAGAC 59.445 52.381 0.00 0.00 0.00 3.36
5174 11728 1.951209 TGGGACTGGCTATGTTGAGA 58.049 50.000 0.00 0.00 0.00 3.27
5175 11729 2.636830 CTTGGGACTGGCTATGTTGAG 58.363 52.381 0.00 0.00 0.00 3.02
5176 11730 1.340017 GCTTGGGACTGGCTATGTTGA 60.340 52.381 0.00 0.00 0.00 3.18
5177 11731 1.098050 GCTTGGGACTGGCTATGTTG 58.902 55.000 0.00 0.00 0.00 3.33
5178 11732 0.034089 GGCTTGGGACTGGCTATGTT 60.034 55.000 0.00 0.00 0.00 2.71
5179 11733 1.609783 GGCTTGGGACTGGCTATGT 59.390 57.895 0.00 0.00 0.00 2.29
5180 11734 1.524621 CGGCTTGGGACTGGCTATG 60.525 63.158 0.00 0.00 0.00 2.23
5181 11735 2.746375 CCGGCTTGGGACTGGCTAT 61.746 63.158 0.00 0.00 0.00 2.97
5182 11736 3.399181 CCGGCTTGGGACTGGCTA 61.399 66.667 0.00 0.00 0.00 3.93
5191 11745 1.077716 CTCCTTTACCCCGGCTTGG 60.078 63.158 0.00 0.00 37.55 3.61
5192 11746 1.077716 CCTCCTTTACCCCGGCTTG 60.078 63.158 0.00 0.00 0.00 4.01
5193 11747 1.229723 TCCTCCTTTACCCCGGCTT 60.230 57.895 0.00 0.00 0.00 4.35
5194 11748 1.689582 CTCCTCCTTTACCCCGGCT 60.690 63.158 0.00 0.00 0.00 5.52
5195 11749 2.743179 CCTCCTCCTTTACCCCGGC 61.743 68.421 0.00 0.00 0.00 6.13
5196 11750 2.070650 CCCTCCTCCTTTACCCCGG 61.071 68.421 0.00 0.00 0.00 5.73
5197 11751 0.912968 AACCCTCCTCCTTTACCCCG 60.913 60.000 0.00 0.00 0.00 5.73
5198 11752 0.624254 CAACCCTCCTCCTTTACCCC 59.376 60.000 0.00 0.00 0.00 4.95
5199 11753 1.004394 CACAACCCTCCTCCTTTACCC 59.996 57.143 0.00 0.00 0.00 3.69
5200 11754 1.982958 TCACAACCCTCCTCCTTTACC 59.017 52.381 0.00 0.00 0.00 2.85
5201 11755 4.141688 CCTATCACAACCCTCCTCCTTTAC 60.142 50.000 0.00 0.00 0.00 2.01
5202 11756 4.037927 CCTATCACAACCCTCCTCCTTTA 58.962 47.826 0.00 0.00 0.00 1.85
5203 11757 2.846827 CCTATCACAACCCTCCTCCTTT 59.153 50.000 0.00 0.00 0.00 3.11
5204 11758 2.482494 CCTATCACAACCCTCCTCCTT 58.518 52.381 0.00 0.00 0.00 3.36
5205 11759 1.972207 GCCTATCACAACCCTCCTCCT 60.972 57.143 0.00 0.00 0.00 3.69
5206 11760 0.470341 GCCTATCACAACCCTCCTCC 59.530 60.000 0.00 0.00 0.00 4.30
5207 11761 1.501582 AGCCTATCACAACCCTCCTC 58.498 55.000 0.00 0.00 0.00 3.71
5208 11762 1.561542 CAAGCCTATCACAACCCTCCT 59.438 52.381 0.00 0.00 0.00 3.69
5209 11763 1.408822 CCAAGCCTATCACAACCCTCC 60.409 57.143 0.00 0.00 0.00 4.30
5210 11764 2.019156 GCCAAGCCTATCACAACCCTC 61.019 57.143 0.00 0.00 0.00 4.30
5211 11765 0.034089 GCCAAGCCTATCACAACCCT 60.034 55.000 0.00 0.00 0.00 4.34
5212 11766 1.376609 CGCCAAGCCTATCACAACCC 61.377 60.000 0.00 0.00 0.00 4.11
5213 11767 0.392461 TCGCCAAGCCTATCACAACC 60.392 55.000 0.00 0.00 0.00 3.77
5214 11768 1.009829 CTCGCCAAGCCTATCACAAC 58.990 55.000 0.00 0.00 0.00 3.32
5215 11769 0.744414 GCTCGCCAAGCCTATCACAA 60.744 55.000 0.00 0.00 45.92 3.33
5216 11770 1.153369 GCTCGCCAAGCCTATCACA 60.153 57.895 0.00 0.00 45.92 3.58
5217 11771 3.724494 GCTCGCCAAGCCTATCAC 58.276 61.111 0.00 0.00 45.92 3.06
5227 11781 2.292292 GAGTTTTAAAGTTGGCTCGCCA 59.708 45.455 6.52 6.52 45.63 5.69
5228 11782 2.292292 TGAGTTTTAAAGTTGGCTCGCC 59.708 45.455 0.00 0.00 0.00 5.54
5229 11783 3.555518 CTGAGTTTTAAAGTTGGCTCGC 58.444 45.455 0.00 0.00 0.00 5.03
5230 11784 3.555518 GCTGAGTTTTAAAGTTGGCTCG 58.444 45.455 0.00 0.00 0.00 5.03


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

AutoCloner maintained by Alex Coulton.