Multiple sequence alignment - TraesCS1B01G414700

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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 TraesCS1B01G414700 chr1B 100.000 6985 0 0 1 6985 639560389 639567373 0.000000e+00 12899.0
1 TraesCS1B01G414700 chr6A 95.706 2189 90 3 2028 4215 535148390 535146205 0.000000e+00 3518.0
2 TraesCS1B01G414700 chr6A 93.408 1790 93 8 4309 6075 535146072 535144285 0.000000e+00 2628.0
3 TraesCS1B01G414700 chr6A 92.689 1190 59 8 869 2030 535150998 535149809 0.000000e+00 1690.0
4 TraesCS1B01G414700 chr6A 94.761 878 41 3 1 877 535151897 535151024 0.000000e+00 1362.0
5 TraesCS1B01G414700 chr6A 85.663 558 47 18 2550 3078 74244596 74244043 2.200000e-154 556.0
6 TraesCS1B01G414700 chr6A 85.766 555 46 18 2550 3075 498536821 498537371 2.200000e-154 556.0
7 TraesCS1B01G414700 chr6A 93.846 130 7 1 6855 6984 559122809 559122681 1.990000e-45 195.0
8 TraesCS1B01G414700 chr7A 93.978 2192 125 6 2028 4215 112936370 112934182 0.000000e+00 3310.0
9 TraesCS1B01G414700 chr7A 93.836 1736 85 7 4309 6024 26782254 26780521 0.000000e+00 2593.0
10 TraesCS1B01G414700 chr7A 93.230 1743 89 10 4307 6023 112933966 112932227 0.000000e+00 2538.0
11 TraesCS1B01G414700 chr7A 92.521 1190 61 8 869 2030 26784470 26783281 0.000000e+00 1679.0
12 TraesCS1B01G414700 chr7A 90.472 1186 80 11 876 2030 112938972 112937789 0.000000e+00 1533.0
13 TraesCS1B01G414700 chr7A 89.610 385 40 0 2812 3196 14180972 14180588 2.260000e-134 490.0
14 TraesCS1B01G414700 chr7A 96.186 236 9 0 642 877 26784731 26784496 3.060000e-103 387.0
15 TraesCS1B01G414700 chr7A 96.682 211 7 0 4005 4215 26782597 26782387 1.110000e-92 351.0
16 TraesCS1B01G414700 chr7A 92.063 63 5 0 815 877 112939067 112939005 9.650000e-14 89.8
17 TraesCS1B01G414700 chr4D 94.006 2169 122 5 2046 4212 489790740 489788578 0.000000e+00 3278.0
18 TraesCS1B01G414700 chr4D 94.193 1791 80 8 4307 6075 489788330 489786542 0.000000e+00 2710.0
19 TraesCS1B01G414700 chr4D 95.361 582 24 2 296 877 489876285 489875707 0.000000e+00 922.0
20 TraesCS1B01G414700 chr3B 91.074 2207 169 12 2030 4212 493202727 493204929 0.000000e+00 2959.0
21 TraesCS1B01G414700 chr3B 93.276 1279 64 11 4300 5560 493204985 493206259 0.000000e+00 1866.0
22 TraesCS1B01G414700 chr3B 90.802 1185 76 11 876 2030 493200126 493201307 0.000000e+00 1554.0
23 TraesCS1B01G414700 chr3B 93.520 895 31 13 6104 6984 493272254 493273135 0.000000e+00 1306.0
24 TraesCS1B01G414700 chr3B 94.891 548 23 3 5556 6100 493271514 493272059 0.000000e+00 852.0
25 TraesCS1B01G414700 chr3D 93.764 1796 106 5 2028 3820 535432724 535434516 0.000000e+00 2691.0
26 TraesCS1B01G414700 chr3D 94.175 1322 54 12 4299 5601 535443816 535445133 0.000000e+00 1993.0
27 TraesCS1B01G414700 chr3D 93.233 399 27 0 3816 4214 535443178 535443576 7.800000e-164 588.0
28 TraesCS1B01G414700 chr4B 93.499 1815 76 22 4300 6075 662393143 662394954 0.000000e+00 2660.0
29 TraesCS1B01G414700 chr4B 90.360 1193 81 12 869 2030 662390354 662391543 0.000000e+00 1535.0
30 TraesCS1B01G414700 chr4B 95.855 941 35 3 3277 4215 662391994 662392932 0.000000e+00 1519.0
31 TraesCS1B01G414700 chr4B 94.185 877 45 2 1 877 662389458 662390328 0.000000e+00 1332.0
32 TraesCS1B01G414700 chrUn 93.311 1809 75 22 4307 6075 77277350 77275548 0.000000e+00 2628.0
33 TraesCS1B01G414700 chrUn 90.612 1193 78 12 869 2030 77280143 77278954 0.000000e+00 1552.0
34 TraesCS1B01G414700 chrUn 96.068 941 33 3 3277 4215 77278504 77277566 0.000000e+00 1530.0
35 TraesCS1B01G414700 chrUn 91.448 877 41 11 1 877 77281011 77280169 0.000000e+00 1173.0
36 TraesCS1B01G414700 chr5B 95.377 1060 49 0 869 1928 596893750 596892691 0.000000e+00 1687.0
37 TraesCS1B01G414700 chr5B 93.846 65 4 0 813 877 596893840 596893776 1.600000e-16 99.0
38 TraesCS1B01G414700 chr5B 82.828 99 9 3 6878 6969 596892305 596892208 1.610000e-11 82.4
39 TraesCS1B01G414700 chr7B 90.917 1211 89 6 3013 4212 57838374 57839574 0.000000e+00 1607.0
40 TraesCS1B01G414700 chr7B 91.176 1190 68 12 869 2030 57813047 57814227 0.000000e+00 1581.0
41 TraesCS1B01G414700 chr7B 93.206 1045 50 10 4300 5326 57839630 57840671 0.000000e+00 1517.0
42 TraesCS1B01G414700 chr7B 91.527 897 38 13 6114 6985 57841320 57842203 0.000000e+00 1201.0
43 TraesCS1B01G414700 chr7B 94.021 669 40 0 2028 2696 57837665 57838333 0.000000e+00 1014.0
44 TraesCS1B01G414700 chr7B 94.819 637 30 2 5388 6024 57840688 57841321 0.000000e+00 990.0
45 TraesCS1B01G414700 chr7B 93.548 62 4 0 813 874 57812957 57813018 7.460000e-15 93.5
46 TraesCS1B01G414700 chr5A 90.295 1185 83 10 876 2030 632599306 632600488 0.000000e+00 1522.0
47 TraesCS1B01G414700 chr4A 89.238 892 83 12 5159 6046 661670274 661671156 0.000000e+00 1103.0
48 TraesCS1B01G414700 chr6B 85.766 555 46 18 2550 3075 13855158 13855708 2.200000e-154 556.0
49 TraesCS1B01G414700 chr7D 85.584 437 55 4 2812 3240 14872982 14872546 1.070000e-122 451.0
50 TraesCS1B01G414700 chr2D 98.305 59 1 0 6855 6913 560513159 560513101 3.450000e-18 104.0
51 TraesCS1B01G414700 chr3A 90.909 66 6 0 815 880 617309965 617309900 9.650000e-14 89.8


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 TraesCS1B01G414700 chr1B 639560389 639567373 6984 False 12899.000000 12899 100.000000 1 6985 1 chr1B.!!$F1 6984
1 TraesCS1B01G414700 chr6A 535144285 535151897 7612 True 2299.500000 3518 94.141000 1 6075 4 chr6A.!!$R3 6074
2 TraesCS1B01G414700 chr6A 74244043 74244596 553 True 556.000000 556 85.663000 2550 3078 1 chr6A.!!$R1 528
3 TraesCS1B01G414700 chr6A 498536821 498537371 550 False 556.000000 556 85.766000 2550 3075 1 chr6A.!!$F1 525
4 TraesCS1B01G414700 chr7A 112932227 112939067 6840 True 1867.700000 3310 92.435750 815 6023 4 chr7A.!!$R3 5208
5 TraesCS1B01G414700 chr7A 26780521 26784731 4210 True 1252.500000 2593 94.806250 642 6024 4 chr7A.!!$R2 5382
6 TraesCS1B01G414700 chr4D 489786542 489790740 4198 True 2994.000000 3278 94.099500 2046 6075 2 chr4D.!!$R2 4029
7 TraesCS1B01G414700 chr4D 489875707 489876285 578 True 922.000000 922 95.361000 296 877 1 chr4D.!!$R1 581
8 TraesCS1B01G414700 chr3B 493200126 493206259 6133 False 2126.333333 2959 91.717333 876 5560 3 chr3B.!!$F1 4684
9 TraesCS1B01G414700 chr3B 493271514 493273135 1621 False 1079.000000 1306 94.205500 5556 6984 2 chr3B.!!$F2 1428
10 TraesCS1B01G414700 chr3D 535432724 535434516 1792 False 2691.000000 2691 93.764000 2028 3820 1 chr3D.!!$F1 1792
11 TraesCS1B01G414700 chr3D 535443178 535445133 1955 False 1290.500000 1993 93.704000 3816 5601 2 chr3D.!!$F2 1785
12 TraesCS1B01G414700 chr4B 662389458 662394954 5496 False 1761.500000 2660 93.474750 1 6075 4 chr4B.!!$F1 6074
13 TraesCS1B01G414700 chrUn 77275548 77281011 5463 True 1720.750000 2628 92.859750 1 6075 4 chrUn.!!$R1 6074
14 TraesCS1B01G414700 chr5B 596892208 596893840 1632 True 622.800000 1687 90.683667 813 6969 3 chr5B.!!$R1 6156
15 TraesCS1B01G414700 chr7B 57837665 57842203 4538 False 1265.800000 1607 92.898000 2028 6985 5 chr7B.!!$F2 4957
16 TraesCS1B01G414700 chr7B 57812957 57814227 1270 False 837.250000 1581 92.362000 813 2030 2 chr7B.!!$F1 1217
17 TraesCS1B01G414700 chr5A 632599306 632600488 1182 False 1522.000000 1522 90.295000 876 2030 1 chr5A.!!$F1 1154
18 TraesCS1B01G414700 chr4A 661670274 661671156 882 False 1103.000000 1103 89.238000 5159 6046 1 chr4A.!!$F1 887
19 TraesCS1B01G414700 chr6B 13855158 13855708 550 False 556.000000 556 85.766000 2550 3075 1 chr6B.!!$F1 525

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
93 95 0.506080 GCTCAACGCATCTATCGCTG 59.494 55.000 0.00 0.00 38.92 5.18 F
656 658 0.713883 GATGTAGTGTGCAACGACGG 59.286 55.000 0.00 0.00 42.39 4.79 F
673 675 2.293399 GACGGCAAGGAACAACTGAAAT 59.707 45.455 0.00 0.00 0.00 2.17 F
2056 3542 0.949105 ATCAGCGGGTCGACACAAAC 60.949 55.000 19.62 6.49 0.00 2.93 F
3520 5067 0.318699 GGCGCTTTTGGAAGGAACAC 60.319 55.000 7.64 0.00 33.34 3.32 F
4313 6050 3.084039 GGTGTCATCTGCATTTCAGGAA 58.916 45.455 0.00 0.00 43.06 3.36 F
5129 6906 1.472878 CAGCACTACCTAGTCTTGCGA 59.527 52.381 0.00 0.00 33.46 5.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1232 1269 0.391793 GCAACCTGGGTACAGCTCTC 60.392 60.000 0.00 0.00 43.53 3.20 R
1573 1610 0.834612 TGACGGACCACCTTTTGAGT 59.165 50.000 0.00 0.00 0.00 3.41 R
2324 3810 1.135972 CGCTTCTTTTCCGTCACCATG 60.136 52.381 0.00 0.00 0.00 3.66 R
3952 5519 1.149101 ACTCCCACTGTCCAATTGGT 58.851 50.000 23.76 1.54 36.34 3.67 R
4322 6059 0.034477 CACGCCCAATTTCCCTACCT 60.034 55.000 0.00 0.00 0.00 3.08 R
5473 7256 0.179234 TTCCCTTGTGCACGAGACAA 59.821 50.000 31.88 20.86 0.00 3.18 R
6501 8482 1.543642 TGAGAATTGCCCCCTCCCA 60.544 57.895 0.00 0.00 0.00 4.37 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
19 20 0.838122 ACCCTCCCACCTCTGTCTTG 60.838 60.000 0.00 0.00 0.00 3.02
24 25 3.385111 CCTCCCACCTCTGTCTTGTATAC 59.615 52.174 0.00 0.00 0.00 1.47
34 35 4.703093 TCTGTCTTGTATACGTGACCATCA 59.297 41.667 18.94 6.00 0.00 3.07
80 82 2.483583 ATCGACTCGATCTGCTCAAC 57.516 50.000 8.18 0.00 43.45 3.18
93 95 0.506080 GCTCAACGCATCTATCGCTG 59.494 55.000 0.00 0.00 38.92 5.18
231 233 2.242452 TCTTCTCTCCTTCCCGATCTCA 59.758 50.000 0.00 0.00 0.00 3.27
287 289 0.796255 AGGAGAGGGGATATCCAGGG 59.204 60.000 23.27 0.00 42.19 4.45
308 310 2.754658 GGAGAGGAGGCGACGGAA 60.755 66.667 0.00 0.00 0.00 4.30
313 315 3.069318 GGAGGCGACGGAAGAGGT 61.069 66.667 0.00 0.00 0.00 3.85
355 357 4.695993 TGGCCTCGCACGCATCAA 62.696 61.111 3.32 0.00 0.00 2.57
360 362 1.016130 CCTCGCACGCATCAACTTCT 61.016 55.000 0.00 0.00 0.00 2.85
391 393 1.592400 CCAGACTCGCCCACGTTCTA 61.592 60.000 0.00 0.00 41.18 2.10
400 402 2.352388 GCCCACGTTCTATTGCTGTTA 58.648 47.619 0.00 0.00 0.00 2.41
411 413 7.413988 CGTTCTATTGCTGTTATTGATCCAACA 60.414 37.037 5.00 5.00 33.76 3.33
539 541 2.013400 ACGACATTGTGCAGTTTGACA 58.987 42.857 0.00 0.00 0.00 3.58
554 556 4.646492 AGTTTGACAATTGTTGGAGAAGCT 59.354 37.500 13.36 5.82 34.12 3.74
619 621 3.855689 ATTACTGGCACTTGCACAATC 57.144 42.857 3.15 0.00 44.36 2.67
639 641 3.982516 TCAGCTAGTTGTACTCCCAGAT 58.017 45.455 6.47 0.00 0.00 2.90
652 654 1.078709 CCCAGATGTAGTGTGCAACG 58.921 55.000 0.00 0.00 42.39 4.10
656 658 0.713883 GATGTAGTGTGCAACGACGG 59.286 55.000 0.00 0.00 42.39 4.79
673 675 2.293399 GACGGCAAGGAACAACTGAAAT 59.707 45.455 0.00 0.00 0.00 2.17
735 737 7.009179 TCTAGAAATTCCTCTTTGCTTCTGA 57.991 36.000 0.00 0.00 0.00 3.27
836 838 7.607250 TCATGTTGTAGAACTTGGTTTTGTTT 58.393 30.769 15.76 0.00 37.66 2.83
843 845 8.794553 TGTAGAACTTGGTTTTGTTTAGTTGAA 58.205 29.630 0.00 0.00 0.00 2.69
886 923 5.163513 CGAGCAGCAAGGTCATAAAATTTT 58.836 37.500 8.75 8.75 44.97 1.82
907 944 4.446857 TCTTTTCGTACGTCAGCAAAAG 57.553 40.909 23.01 23.01 36.02 2.27
909 946 3.847037 TTTCGTACGTCAGCAAAAGAC 57.153 42.857 16.05 0.00 0.00 3.01
951 988 5.109210 TGCAAGATATGTGTAAACTCTCGG 58.891 41.667 0.00 0.00 0.00 4.63
953 990 5.581085 GCAAGATATGTGTAAACTCTCGGTT 59.419 40.000 0.00 0.00 40.28 4.44
1043 1080 5.766670 GGATTCATCATGGAGAAAGTATGCA 59.233 40.000 0.00 0.00 0.00 3.96
1070 1107 5.026038 TCCGAAACAACTTCAAGTCCTAA 57.974 39.130 0.00 0.00 33.17 2.69
1128 1165 2.703007 GGATGAGATGCTACTGGAAGGT 59.297 50.000 0.00 0.00 39.30 3.50
1155 1192 6.745116 TGGGATGTATGATACTCGTACTTTG 58.255 40.000 4.03 0.00 39.11 2.77
1232 1269 4.307432 AGATTAGTTAATGATGGACGCCG 58.693 43.478 0.00 0.00 0.00 6.46
1263 1300 3.160269 CCCAGGTTGCAAAAGATTCTCT 58.840 45.455 0.00 0.00 0.00 3.10
1280 1317 4.178545 TCTCTAAGCTGCAATTTTTGGC 57.821 40.909 1.02 0.00 0.00 4.52
1308 1345 7.776969 AGGTTGCTTCACATCAATAATATGAGT 59.223 33.333 0.00 0.00 31.76 3.41
1418 1455 3.070878 GGGGCCAAAAATTTTGTGAGAGA 59.929 43.478 16.15 0.00 0.00 3.10
1464 1501 7.870954 AGTATAGATGCATGCAAAAATGATTGG 59.129 33.333 26.68 0.00 0.00 3.16
1487 1524 7.872138 TGGATTCTATTTAGGAAGGAACATGT 58.128 34.615 0.00 0.00 0.00 3.21
1573 1610 1.978455 AAGGCGTGTCCACAAGGTGA 61.978 55.000 0.00 0.00 35.23 4.02
1587 1624 2.618709 CAAGGTGACTCAAAAGGTGGTC 59.381 50.000 0.00 0.00 42.68 4.02
1634 1671 3.811083 TCCAAAGGTTGTTCGCTTCTAA 58.189 40.909 0.00 0.00 0.00 2.10
1643 1680 5.495502 GTTGTTCGCTTCTAAAAAGACGAA 58.504 37.500 10.65 10.65 35.31 3.85
1658 1695 7.778470 AAAAGACGAAATCAGATATGAGGTC 57.222 36.000 0.00 1.41 0.00 3.85
1714 1751 1.555075 GACACCCAGCTGATTCACCTA 59.445 52.381 17.39 0.00 0.00 3.08
1857 1894 4.043596 GGCCTATCATCTTGATCCCCTAT 58.956 47.826 0.00 0.00 38.26 2.57
1936 2001 2.756760 CCTGGTAAAACATGCAGCTGAT 59.243 45.455 20.43 5.31 0.00 2.90
1975 2040 4.141620 GGAGCTTTGGAATGATGGAGTCTA 60.142 45.833 0.00 0.00 0.00 2.59
1992 2057 5.538433 GGAGTCTAGACTTATGATGCCTCTT 59.462 44.000 25.86 0.00 42.66 2.85
2051 3537 1.399714 ATTCTATCAGCGGGTCGACA 58.600 50.000 18.91 0.00 0.00 4.35
2056 3542 0.949105 ATCAGCGGGTCGACACAAAC 60.949 55.000 19.62 6.49 0.00 2.93
2136 3622 6.381133 ACCATGTAAGTGTCTATGATCTCACA 59.619 38.462 0.00 0.00 33.84 3.58
2143 3629 8.764524 AAGTGTCTATGATCTCACACTAAAAC 57.235 34.615 15.39 0.00 46.96 2.43
2176 3662 5.179929 CGCTTCATGTGGAGATATTGCATTA 59.820 40.000 0.00 0.00 0.00 1.90
2264 3750 7.938140 AAAGTCTTAGCACAAAAGCCATATA 57.062 32.000 0.00 0.00 34.23 0.86
2285 3771 9.784531 CATATAGGATGGTGAGAAAGTACAATT 57.215 33.333 0.00 0.00 0.00 2.32
2324 3810 1.318576 CACTTTCCACACAAGGGGAC 58.681 55.000 0.00 0.00 31.59 4.46
2445 3931 6.707440 TGTTGTTTATTATGGCCGAATCAT 57.293 33.333 5.99 0.00 0.00 2.45
2514 4000 3.625853 TCAAGTGTGATTGGGTTGACAA 58.374 40.909 0.00 0.00 34.41 3.18
2560 4046 4.760204 CGAAAGGACCCATATGGAATAACC 59.240 45.833 24.00 16.45 37.39 2.85
2732 4218 8.938883 ACTTCTTTGATATGGAGGCTAGAATTA 58.061 33.333 0.00 0.00 0.00 1.40
2742 4228 3.160269 AGGCTAGAATTAATGGGCATGC 58.840 45.455 9.90 9.90 0.00 4.06
2743 4229 2.095059 GGCTAGAATTAATGGGCATGCG 60.095 50.000 12.44 0.00 0.00 4.73
2764 4268 5.955959 TGCGGAATATTAGGCTAGGATTAGA 59.044 40.000 10.50 0.00 0.00 2.10
2784 4288 7.849804 TTAGATGAGAGCTATTGGTTGTTTC 57.150 36.000 0.00 0.00 0.00 2.78
2870 4384 6.657541 ACCGAGTTTTGAATTGTACATACCAT 59.342 34.615 0.00 0.00 0.00 3.55
2871 4385 7.825270 ACCGAGTTTTGAATTGTACATACCATA 59.175 33.333 0.00 0.00 0.00 2.74
2965 4482 9.775854 AGATTGAATGACCTGAATTATAGAGTG 57.224 33.333 0.00 0.00 0.00 3.51
3028 4545 9.840427 GCTATCAAACAAATTAAAGTAGAAGCA 57.160 29.630 0.00 0.00 0.00 3.91
3041 4558 6.690194 AAGTAGAAGCATCAAACATGGATC 57.310 37.500 0.00 0.00 0.00 3.36
3042 4559 5.999044 AGTAGAAGCATCAAACATGGATCT 58.001 37.500 0.00 0.00 0.00 2.75
3083 4600 9.899226 CTATGGTAAGCTCTTAAAATATTTGGC 57.101 33.333 0.39 2.52 0.00 4.52
3124 4641 1.829849 TCTGATGGTCTTGAGGAGCTG 59.170 52.381 0.00 0.00 42.40 4.24
3210 4727 6.064735 AGAATTCCAGAGCTGAAGAAGATT 57.935 37.500 0.65 0.00 0.00 2.40
3213 4730 8.105829 AGAATTCCAGAGCTGAAGAAGATTTTA 58.894 33.333 0.65 0.00 0.00 1.52
3300 4817 4.578871 ACATGGTGATGAAACTGAATCGA 58.421 39.130 0.00 0.00 33.36 3.59
3341 4858 5.121454 GTCTGGACAAGAAGATGAACATGAC 59.879 44.000 0.00 0.00 36.40 3.06
3364 4881 4.372656 CAAGAAGAGGAAGTTCGACAAGT 58.627 43.478 0.00 0.00 0.00 3.16
3508 5055 1.406069 CCTACTCACATGAGGCGCTTT 60.406 52.381 7.64 0.00 46.13 3.51
3514 5061 0.883833 ACATGAGGCGCTTTTGGAAG 59.116 50.000 7.64 0.00 35.92 3.46
3520 5067 0.318699 GGCGCTTTTGGAAGGAACAC 60.319 55.000 7.64 0.00 33.34 3.32
3592 5139 3.253188 GTGGTTTGAAGACATGCAAGCTA 59.747 43.478 0.00 0.00 0.00 3.32
3620 5167 9.203421 CAAATTTTATTGGAACCCTAGTGAAAC 57.797 33.333 0.00 0.00 0.00 2.78
3767 5316 9.657419 AACAAACAAGTCATTTTCTTCTTCAAT 57.343 25.926 0.00 0.00 0.00 2.57
3786 5353 6.993786 TCAATGAACAAGTTGTCACAACTA 57.006 33.333 23.57 8.09 0.00 2.24
3788 5355 7.639039 TCAATGAACAAGTTGTCACAACTATC 58.361 34.615 23.57 20.08 0.00 2.08
3891 5458 7.283354 AGACTTCAAGGTTGTTTTAAAGAGGAG 59.717 37.037 0.00 0.00 0.00 3.69
4215 5782 7.156876 TGTCCTTGATCAAATGGTAATCAAC 57.843 36.000 9.88 2.48 35.17 3.18
4216 5783 6.128035 TGTCCTTGATCAAATGGTAATCAACG 60.128 38.462 9.88 0.00 35.17 4.10
4218 5785 6.657117 TCCTTGATCAAATGGTAATCAACGAA 59.343 34.615 9.88 0.00 35.17 3.85
4230 5797 9.840427 ATGGTAATCAACGAATAAGTTTTGAAG 57.160 29.630 0.00 0.00 31.96 3.02
4278 6015 6.385649 TTTTTGTCTTGGTGGTAGTCATTC 57.614 37.500 0.00 0.00 0.00 2.67
4279 6016 4.974645 TTGTCTTGGTGGTAGTCATTCT 57.025 40.909 0.00 0.00 0.00 2.40
4280 6017 4.271696 TGTCTTGGTGGTAGTCATTCTG 57.728 45.455 0.00 0.00 0.00 3.02
4281 6018 3.646162 TGTCTTGGTGGTAGTCATTCTGT 59.354 43.478 0.00 0.00 0.00 3.41
4282 6019 4.102524 TGTCTTGGTGGTAGTCATTCTGTT 59.897 41.667 0.00 0.00 0.00 3.16
4283 6020 4.452455 GTCTTGGTGGTAGTCATTCTGTTG 59.548 45.833 0.00 0.00 0.00 3.33
4284 6021 4.102524 TCTTGGTGGTAGTCATTCTGTTGT 59.897 41.667 0.00 0.00 0.00 3.32
4285 6022 5.305902 TCTTGGTGGTAGTCATTCTGTTGTA 59.694 40.000 0.00 0.00 0.00 2.41
4286 6023 4.890088 TGGTGGTAGTCATTCTGTTGTAC 58.110 43.478 0.00 0.00 0.00 2.90
4287 6024 4.591498 TGGTGGTAGTCATTCTGTTGTACT 59.409 41.667 0.00 0.00 0.00 2.73
4288 6025 5.776208 TGGTGGTAGTCATTCTGTTGTACTA 59.224 40.000 0.00 0.00 0.00 1.82
4289 6026 6.268158 TGGTGGTAGTCATTCTGTTGTACTAA 59.732 38.462 0.00 0.00 0.00 2.24
4290 6027 7.038587 TGGTGGTAGTCATTCTGTTGTACTAAT 60.039 37.037 0.00 0.00 0.00 1.73
4291 6028 7.277981 GGTGGTAGTCATTCTGTTGTACTAATG 59.722 40.741 0.00 0.00 0.00 1.90
4292 6029 7.277981 GTGGTAGTCATTCTGTTGTACTAATGG 59.722 40.741 0.00 0.00 31.66 3.16
4293 6030 6.761714 GGTAGTCATTCTGTTGTACTAATGGG 59.238 42.308 0.00 0.00 31.66 4.00
4295 6032 6.173339 AGTCATTCTGTTGTACTAATGGGTG 58.827 40.000 0.00 0.00 31.66 4.61
4302 6039 5.487433 TGTTGTACTAATGGGTGTCATCTG 58.513 41.667 0.00 0.00 34.44 2.90
4303 6040 4.137116 TGTACTAATGGGTGTCATCTGC 57.863 45.455 0.00 0.00 34.44 4.26
4304 6041 3.517500 TGTACTAATGGGTGTCATCTGCA 59.482 43.478 0.00 0.00 34.44 4.41
4305 6042 3.939740 ACTAATGGGTGTCATCTGCAT 57.060 42.857 0.00 0.00 34.44 3.96
4313 6050 3.084039 GGTGTCATCTGCATTTCAGGAA 58.916 45.455 0.00 0.00 43.06 3.36
4373 6110 3.993547 CGTGGTTACGCATACGAAAAAT 58.006 40.909 0.00 0.00 44.11 1.82
4479 6219 5.872070 AGTTAGCTTTCACTTGATACTGCTC 59.128 40.000 0.00 0.00 0.00 4.26
4723 6465 3.937706 AGCTGAACTACATGCTGCTAAAG 59.062 43.478 0.00 0.00 35.49 1.85
4799 6541 5.178096 TCAATAATGGCCAAGAGTGAGAA 57.822 39.130 10.96 0.00 0.00 2.87
4854 6596 3.116746 TGATCATAGCTTCTAGGGGGTCA 60.117 47.826 0.00 0.00 0.00 4.02
4874 6616 2.230992 CAGTTGAAATGGGCGGAATTCA 59.769 45.455 7.93 0.00 0.00 2.57
4922 6666 8.166726 AGATCCTTCTAAGGTGATTCTTGTTTT 58.833 33.333 8.57 0.00 46.54 2.43
4930 6674 6.814506 AGGTGATTCTTGTTTTCATCTCTG 57.185 37.500 0.00 0.00 0.00 3.35
5119 6896 2.026822 CCAACTGGAATCAGCACTACCT 60.027 50.000 0.00 0.00 44.59 3.08
5129 6906 1.472878 CAGCACTACCTAGTCTTGCGA 59.527 52.381 0.00 0.00 33.46 5.10
5149 6927 3.186909 GACTGTGCCAAAACCAAAGAAC 58.813 45.455 0.00 0.00 0.00 3.01
5150 6928 2.192624 CTGTGCCAAAACCAAAGAACG 58.807 47.619 0.00 0.00 0.00 3.95
5158 6939 3.859411 AAACCAAAGAACGCAAAGACA 57.141 38.095 0.00 0.00 0.00 3.41
5292 7075 4.579869 AGTACCATTGCAACTTACAGGAG 58.420 43.478 0.00 0.00 0.00 3.69
5334 7117 3.821033 AGTGTGGCATGGAAGTTAGTTTC 59.179 43.478 0.00 0.00 0.00 2.78
5339 7122 3.252458 GGCATGGAAGTTAGTTTCACGTT 59.748 43.478 0.00 0.00 0.00 3.99
5351 7134 3.880490 AGTTTCACGTTGCCAAATAGTGA 59.120 39.130 7.33 7.33 39.68 3.41
5354 7137 4.902443 TCACGTTGCCAAATAGTGAAAA 57.098 36.364 8.55 0.00 38.66 2.29
5473 7256 3.063997 CGTGCTCAAAGAAACAACTGAGT 59.936 43.478 0.00 0.00 38.05 3.41
5572 7358 8.962884 TGTATGATACATGACACTTTGCTATT 57.037 30.769 0.23 0.00 32.89 1.73
5590 7376 5.105063 GCTATTTCATTTGCCCTGTTCTTC 58.895 41.667 0.00 0.00 0.00 2.87
5783 7569 8.585018 TGTAGTCAGATGTCTTTCAACAATAGA 58.415 33.333 0.00 0.00 31.81 1.98
5795 7581 9.862371 TCTTTCAACAATAGAGAGAATGTAGAC 57.138 33.333 0.00 0.00 0.00 2.59
5810 7596 3.025262 TGTAGACCCCAACAAAACAACC 58.975 45.455 0.00 0.00 0.00 3.77
5829 7615 4.996976 CTGGAACTCAGGTGACCG 57.003 61.111 0.00 0.00 39.76 4.79
5862 7648 3.067833 GGTTGCAGTACTTCAGAAGGTC 58.932 50.000 14.90 6.89 0.00 3.85
5974 7760 3.805207 ACATACTTAGGAATTCGGGCAC 58.195 45.455 0.00 0.00 0.00 5.01
6100 7889 6.293626 GCTGAGAACATTCTTTGCTCTTGTAA 60.294 38.462 10.56 0.00 37.73 2.41
6140 8120 9.574516 ACTTTGATATTGTCCTTCAGTTTAGTT 57.425 29.630 0.00 0.00 0.00 2.24
6202 8182 3.448660 TGCTCTTGCATTCTAGTGAGCTA 59.551 43.478 12.84 0.00 45.31 3.32
6223 8203 6.646240 AGCTAACCATGCAAACACAAAATAAG 59.354 34.615 0.00 0.00 0.00 1.73
6229 8209 7.967303 ACCATGCAAACACAAAATAAGTTTTTG 59.033 29.630 8.77 8.77 43.09 2.44
6344 8324 8.974060 AAGTTGTCCAAGACTAAGAATACAAA 57.026 30.769 0.00 0.00 33.15 2.83
6416 8396 5.761726 AGTTTGCTTGTAGTTGTACTAACCC 59.238 40.000 0.00 0.00 31.62 4.11
6501 8482 7.986553 TTTGAAAGAGAGAGATAGAGGGAAT 57.013 36.000 0.00 0.00 0.00 3.01
6510 8492 0.197145 ATAGAGGGAATGGGAGGGGG 59.803 60.000 0.00 0.00 0.00 5.40
6523 8505 1.213296 GAGGGGGCAATTCTCACCTA 58.787 55.000 0.00 0.00 0.00 3.08
6638 8623 2.304470 TGTACCTGTGCTTGCATTCCTA 59.696 45.455 0.00 0.00 0.00 2.94
6642 8627 4.599041 ACCTGTGCTTGCATTCCTATTTA 58.401 39.130 0.00 0.00 0.00 1.40
6661 8646 9.113838 CCTATTTATACATTGCTGAGAACAAGT 57.886 33.333 0.00 0.00 0.00 3.16
6819 8812 2.105477 AGTCAAGCTGAAGGTGACACAT 59.895 45.455 15.87 0.00 32.46 3.21
6844 8837 2.356135 ACTGGAGTGTGTGACAACAAC 58.644 47.619 0.00 0.00 38.27 3.32
6847 8840 2.502130 TGGAGTGTGTGACAACAACCTA 59.498 45.455 0.00 0.00 38.27 3.08
6853 8846 4.270325 GTGTGTGACAACAACCTAGAGTTC 59.730 45.833 0.00 0.00 38.27 3.01
6966 8979 9.425893 GTTTCATTGATGTACAATATTCGACAG 57.574 33.333 0.00 0.00 46.01 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
287 289 3.519930 GTCGCCTCCTCTCCGGTC 61.520 72.222 0.00 0.00 0.00 4.79
308 310 1.589399 CCTCCTCCTCCTCCACCTCT 61.589 65.000 0.00 0.00 0.00 3.69
313 315 1.230650 TCCTCCTCCTCCTCCTCCA 60.231 63.158 0.00 0.00 0.00 3.86
355 357 3.519913 GTCTGGTATGGGAAGGAAGAAGT 59.480 47.826 0.00 0.00 0.00 3.01
360 362 2.108168 CGAGTCTGGTATGGGAAGGAA 58.892 52.381 0.00 0.00 0.00 3.36
400 402 0.323360 CACCGGGGTGTTGGATCAAT 60.323 55.000 6.32 0.00 40.91 2.57
411 413 4.579384 CCTTGTGTGCACCGGGGT 62.579 66.667 15.69 0.00 0.00 4.95
539 541 4.518211 CAGTTCAGAGCTTCTCCAACAATT 59.482 41.667 0.00 0.00 30.60 2.32
619 621 3.449018 ACATCTGGGAGTACAACTAGCTG 59.551 47.826 0.00 0.00 0.00 4.24
639 641 1.952133 GCCGTCGTTGCACACTACA 60.952 57.895 0.00 0.00 0.00 2.74
652 654 1.305201 TTCAGTTGTTCCTTGCCGTC 58.695 50.000 0.00 0.00 0.00 4.79
656 658 5.754890 ACATCAAATTTCAGTTGTTCCTTGC 59.245 36.000 0.00 0.00 0.00 4.01
836 838 9.177608 CATCCAACTCTTATCCATTTTCAACTA 57.822 33.333 0.00 0.00 0.00 2.24
843 845 4.780815 TCGCATCCAACTCTTATCCATTT 58.219 39.130 0.00 0.00 0.00 2.32
873 909 8.718047 ACGTACGAAAAGAAAATTTTATGACC 57.282 30.769 24.41 0.00 0.00 4.02
874 910 9.372541 TGACGTACGAAAAGAAAATTTTATGAC 57.627 29.630 24.41 0.00 0.00 3.06
886 923 4.026310 GTCTTTTGCTGACGTACGAAAAGA 60.026 41.667 25.59 25.59 39.27 2.52
907 944 4.133078 CAAGGGCAGAGAATCCTATTGTC 58.867 47.826 0.00 0.00 33.66 3.18
909 946 2.883386 GCAAGGGCAGAGAATCCTATTG 59.117 50.000 0.00 0.00 40.72 1.90
951 988 7.656137 TCATAGACTTCAAGTTCACCTAACAAC 59.344 37.037 0.00 0.00 40.83 3.32
953 990 7.297936 TCATAGACTTCAAGTTCACCTAACA 57.702 36.000 0.00 0.00 40.83 2.41
1043 1080 0.472471 TGAAGTTGTTTCGGAGGGCT 59.528 50.000 0.00 0.00 38.71 5.19
1090 1127 6.550163 TCTCATCCATCTCATCACTATCAGA 58.450 40.000 0.00 0.00 0.00 3.27
1128 1165 7.356089 AGTACGAGTATCATACATCCCAAAA 57.644 36.000 0.00 0.00 33.17 2.44
1155 1192 0.823460 CAGACTCTTGCTCCTCTCCC 59.177 60.000 0.00 0.00 0.00 4.30
1232 1269 0.391793 GCAACCTGGGTACAGCTCTC 60.392 60.000 0.00 0.00 43.53 3.20
1263 1300 2.352617 CCTCGCCAAAAATTGCAGCTTA 60.353 45.455 0.00 0.00 0.00 3.09
1280 1317 4.944962 TTATTGATGTGAAGCAACCTCG 57.055 40.909 0.00 0.00 0.00 4.63
1407 1444 6.303054 TCCAATACCAATGTCTCTCACAAAA 58.697 36.000 0.00 0.00 38.97 2.44
1464 1501 9.396022 TCAACATGTTCCTTCCTAAATAGAATC 57.604 33.333 8.48 0.00 0.00 2.52
1487 1524 4.139038 CACTGGACATGATATGGCATCAA 58.861 43.478 1.65 0.00 41.20 2.57
1573 1610 0.834612 TGACGGACCACCTTTTGAGT 59.165 50.000 0.00 0.00 0.00 3.41
1587 1624 2.018542 TCTTTAGCGGGAAATGACGG 57.981 50.000 0.00 0.00 0.00 4.79
1634 1671 6.477033 CGACCTCATATCTGATTTCGTCTTTT 59.523 38.462 0.00 0.00 33.80 2.27
1643 1680 3.801638 GCTGTGCGACCTCATATCTGATT 60.802 47.826 0.00 0.00 0.00 2.57
1668 1705 2.124109 TTGTCCTTTGTGCGGCCA 60.124 55.556 2.24 0.00 0.00 5.36
1684 1721 1.623811 AGCTGGGTGTCGTATCTTGTT 59.376 47.619 0.00 0.00 0.00 2.83
1714 1751 6.209192 TCAATAGCATCAAAGTGTTTCCATGT 59.791 34.615 0.00 0.00 0.00 3.21
1829 1866 5.104193 GGGATCAAGATGATAGGCCATATGT 60.104 44.000 5.01 0.00 37.20 2.29
1936 2001 6.464039 CCAAAGCTCCAGAAGATCATCTATGA 60.464 42.308 0.00 0.25 41.70 2.15
1975 2040 7.508636 TCTTAGATCAAGAGGCATCATAAGTCT 59.491 37.037 0.00 0.08 38.39 3.24
2012 2077 2.145958 ATCATAGTAGTGCAGCGCAG 57.854 50.000 11.47 1.31 40.08 5.18
2013 2078 3.942130 ATATCATAGTAGTGCAGCGCA 57.058 42.857 11.47 0.00 35.60 6.09
2056 3542 4.383052 GGAGCATTCTACATCACGTATTCG 59.617 45.833 0.00 0.00 43.34 3.34
2136 3622 6.204882 ACATGAAGCGCTTTAAGAGTTTTAGT 59.795 34.615 25.84 7.20 0.00 2.24
2143 3629 3.002791 TCCACATGAAGCGCTTTAAGAG 58.997 45.455 25.84 15.34 0.00 2.85
2264 3750 6.380079 AGAATTGTACTTTCTCACCATCCT 57.620 37.500 5.99 0.00 0.00 3.24
2285 3771 9.547753 GAAAGTGCATCCATTTATAGAGTAAGA 57.452 33.333 0.00 0.00 0.00 2.10
2324 3810 1.135972 CGCTTCTTTTCCGTCACCATG 60.136 52.381 0.00 0.00 0.00 3.66
2367 3853 6.426328 ACTTGAGAAACTAGATGTCTTTGCAG 59.574 38.462 0.00 0.00 0.00 4.41
2514 4000 1.452651 CCAGCATCAGGGCGAACAT 60.453 57.895 0.00 0.00 39.27 2.71
2560 4046 5.469479 AGCAAATGGTTAAAATTCACCTCG 58.531 37.500 0.00 0.00 33.76 4.63
2732 4218 3.091545 CCTAATATTCCGCATGCCCATT 58.908 45.455 13.15 7.06 0.00 3.16
2742 4228 8.239038 TCATCTAATCCTAGCCTAATATTCCG 57.761 38.462 0.00 0.00 0.00 4.30
2743 4229 9.427821 TCTCATCTAATCCTAGCCTAATATTCC 57.572 37.037 0.00 0.00 0.00 3.01
2764 4268 5.809001 TCAGAAACAACCAATAGCTCTCAT 58.191 37.500 0.00 0.00 0.00 2.90
2784 4288 8.909708 TCAACAACACTTCAAATTTAGTTCAG 57.090 30.769 0.00 0.00 0.00 3.02
2887 4402 9.350951 TGAATAAATGCATCAGATCTTGATCTT 57.649 29.630 10.14 0.00 44.76 2.40
2965 4482 8.478877 TCCATTTGAGGTAGATTAACTTCTCTC 58.521 37.037 0.00 0.00 32.77 3.20
3028 4545 9.911788 AAGTGTTCTAATAGATCCATGTTTGAT 57.088 29.630 0.00 0.00 0.00 2.57
3036 4553 8.642432 CCATAGTGAAGTGTTCTAATAGATCCA 58.358 37.037 0.00 0.00 0.00 3.41
3041 4558 9.250624 GCTTACCATAGTGAAGTGTTCTAATAG 57.749 37.037 0.00 0.00 0.00 1.73
3042 4559 8.978472 AGCTTACCATAGTGAAGTGTTCTAATA 58.022 33.333 0.00 0.00 0.00 0.98
3083 4600 8.018677 TCAGAAGTAATAAAAACAAGAGCTCG 57.981 34.615 8.37 0.00 0.00 5.03
3124 4641 7.425606 ACAAGTGTTCAAAGTTATCCATGTTC 58.574 34.615 0.00 0.00 0.00 3.18
3210 4727 4.538490 TCCCTCATGGCTCCTTAAGTTAAA 59.462 41.667 0.97 0.00 0.00 1.52
3213 4730 2.562296 TCCCTCATGGCTCCTTAAGTT 58.438 47.619 0.97 0.00 0.00 2.66
3300 4817 4.594920 TCCAGACTCACCTTCTTCATCTTT 59.405 41.667 0.00 0.00 0.00 2.52
3341 4858 3.386768 TGTCGAACTTCCTCTTCTTGG 57.613 47.619 0.00 0.00 0.00 3.61
3364 4881 6.182507 ACTAACCATGTGTTTTCTCCTGTA 57.817 37.500 5.12 0.00 38.42 2.74
3408 4927 2.070783 CCCATGCAAAACAAGCACATC 58.929 47.619 0.00 0.00 45.95 3.06
3508 5055 3.201353 TCAACATCGTGTTCCTTCCAA 57.799 42.857 1.17 0.00 38.77 3.53
3514 5061 5.856126 TCTTGTTATCAACATCGTGTTCC 57.144 39.130 1.17 0.00 38.77 3.62
3520 5067 9.558648 TTCAAATTGATCTTGTTATCAACATCG 57.441 29.630 0.00 0.00 45.90 3.84
3592 5139 8.485578 TCACTAGGGTTCCAATAAAATTTGTT 57.514 30.769 0.00 0.00 0.00 2.83
3620 5167 4.154918 AGCAGCTAAGGACATTTCTTTTCG 59.845 41.667 0.00 0.00 0.00 3.46
3767 5316 7.624360 AAAGATAGTTGTGACAACTTGTTCA 57.376 32.000 32.67 17.06 0.00 3.18
3810 5377 7.283807 CCCATCTTTTGTATGACTCATCAATGA 59.716 37.037 0.00 0.00 38.69 2.57
3915 5482 8.145767 CACAACCATTAAGAATATTCCATGCAT 58.854 33.333 11.92 0.00 0.00 3.96
3916 5483 7.341512 TCACAACCATTAAGAATATTCCATGCA 59.658 33.333 11.92 0.00 0.00 3.96
3950 5517 2.039879 ACTCCCACTGTCCAATTGGTAC 59.960 50.000 23.76 19.20 36.34 3.34
3952 5519 1.149101 ACTCCCACTGTCCAATTGGT 58.851 50.000 23.76 1.54 36.34 3.67
4144 5711 2.355115 GGTCCCGTTGCATCCCTT 59.645 61.111 0.00 0.00 0.00 3.95
4215 5782 7.704899 AGACCCAAAAACTTCAAAACTTATTCG 59.295 33.333 0.00 0.00 0.00 3.34
4216 5783 8.942338 AGACCCAAAAACTTCAAAACTTATTC 57.058 30.769 0.00 0.00 0.00 1.75
4218 5785 9.733556 AAAAGACCCAAAAACTTCAAAACTTAT 57.266 25.926 0.00 0.00 0.00 1.73
4227 5794 8.094798 ACAAAAGAAAAAGACCCAAAAACTTC 57.905 30.769 0.00 0.00 0.00 3.01
4229 5796 7.450074 AGACAAAAGAAAAAGACCCAAAAACT 58.550 30.769 0.00 0.00 0.00 2.66
4230 5797 7.667043 AGACAAAAGAAAAAGACCCAAAAAC 57.333 32.000 0.00 0.00 0.00 2.43
4269 6006 7.277981 CACCCATTAGTACAACAGAATGACTAC 59.722 40.741 0.00 0.00 39.69 2.73
4270 6007 7.038587 ACACCCATTAGTACAACAGAATGACTA 60.039 37.037 0.00 0.00 39.69 2.59
4271 6008 6.173339 CACCCATTAGTACAACAGAATGACT 58.827 40.000 0.00 0.00 39.69 3.41
4272 6009 5.938125 ACACCCATTAGTACAACAGAATGAC 59.062 40.000 0.00 0.00 39.69 3.06
4273 6010 6.121776 ACACCCATTAGTACAACAGAATGA 57.878 37.500 0.00 0.00 39.69 2.57
4274 6011 5.937540 TGACACCCATTAGTACAACAGAATG 59.062 40.000 0.00 0.00 46.00 2.67
4276 6013 5.554437 TGACACCCATTAGTACAACAGAA 57.446 39.130 0.00 0.00 0.00 3.02
4277 6014 5.483937 AGATGACACCCATTAGTACAACAGA 59.516 40.000 0.00 0.00 35.17 3.41
4278 6015 5.582269 CAGATGACACCCATTAGTACAACAG 59.418 44.000 0.00 0.00 35.17 3.16
4279 6016 5.487433 CAGATGACACCCATTAGTACAACA 58.513 41.667 0.00 0.00 35.17 3.33
4280 6017 4.332819 GCAGATGACACCCATTAGTACAAC 59.667 45.833 0.00 0.00 35.17 3.32
4281 6018 4.019771 TGCAGATGACACCCATTAGTACAA 60.020 41.667 0.00 0.00 35.17 2.41
4282 6019 3.517500 TGCAGATGACACCCATTAGTACA 59.482 43.478 0.00 0.00 35.17 2.90
4283 6020 4.137116 TGCAGATGACACCCATTAGTAC 57.863 45.455 0.00 0.00 35.17 2.73
4284 6021 5.372343 AATGCAGATGACACCCATTAGTA 57.628 39.130 0.00 0.00 35.17 1.82
4285 6022 3.939740 ATGCAGATGACACCCATTAGT 57.060 42.857 0.00 0.00 35.17 2.24
4286 6023 4.641541 TGAAATGCAGATGACACCCATTAG 59.358 41.667 0.00 0.00 35.17 1.73
4287 6024 4.598022 TGAAATGCAGATGACACCCATTA 58.402 39.130 0.00 0.00 35.17 1.90
4288 6025 3.433343 TGAAATGCAGATGACACCCATT 58.567 40.909 0.00 0.00 35.17 3.16
4289 6026 3.090210 TGAAATGCAGATGACACCCAT 57.910 42.857 0.00 0.00 38.43 4.00
4290 6027 2.583024 TGAAATGCAGATGACACCCA 57.417 45.000 0.00 0.00 0.00 4.51
4304 6041 6.353951 CCCTACCTTCTACCATTTCCTGAAAT 60.354 42.308 0.00 0.00 41.33 2.17
4305 6042 5.045140 CCCTACCTTCTACCATTTCCTGAAA 60.045 44.000 0.00 0.00 34.46 2.69
4313 6050 5.340863 CCCAATTTCCCTACCTTCTACCATT 60.341 44.000 0.00 0.00 0.00 3.16
4322 6059 0.034477 CACGCCCAATTTCCCTACCT 60.034 55.000 0.00 0.00 0.00 3.08
4373 6110 6.320434 TGTTGGTTGACTGGATATCCATTA 57.680 37.500 24.73 11.23 46.46 1.90
4479 6219 7.201410 GCATGAATTTTATGAAGCACTGAACAG 60.201 37.037 5.41 0.00 0.00 3.16
4693 6435 4.453819 AGCATGTAGTTCAGCTTCAACTTC 59.546 41.667 12.12 8.53 35.63 3.01
4723 6465 2.275318 CCGAAGCTCCATGTTCTCTTC 58.725 52.381 0.00 0.00 0.00 2.87
4761 6503 7.761249 GCCATTATTGAAGTTTGATTTGCTACT 59.239 33.333 0.00 0.00 0.00 2.57
4764 6506 5.876460 GGCCATTATTGAAGTTTGATTTGCT 59.124 36.000 0.00 0.00 0.00 3.91
4799 6541 6.006449 AGCTCATTGTACTGTTCTTCCATTT 58.994 36.000 0.00 0.00 0.00 2.32
4854 6596 2.524306 TGAATTCCGCCCATTTCAACT 58.476 42.857 2.27 0.00 0.00 3.16
4874 6616 7.839680 TCTTTATTTGGAAGCTCCTTTTCTT 57.160 32.000 0.00 0.00 37.46 2.52
4930 6674 8.922058 ATGCTCAAATAATGTGACTGAATTTC 57.078 30.769 0.00 0.00 0.00 2.17
4980 6724 3.939592 GGTTTCCAAGTCCTAGTATGTGC 59.060 47.826 0.00 0.00 0.00 4.57
5129 6906 2.416701 CGTTCTTTGGTTTTGGCACAGT 60.417 45.455 0.00 0.00 42.39 3.55
5149 6927 5.746245 TGGTTTCTTATGTTTTGTCTTTGCG 59.254 36.000 0.00 0.00 0.00 4.85
5150 6928 6.200854 CCTGGTTTCTTATGTTTTGTCTTTGC 59.799 38.462 0.00 0.00 0.00 3.68
5292 7075 7.661847 CCACACTTTATGGTATCTTCTAATCCC 59.338 40.741 0.00 0.00 32.08 3.85
5334 7117 4.981674 ACATTTTCACTATTTGGCAACGTG 59.018 37.500 14.06 14.06 42.51 4.49
5339 7122 4.262377 CCACCACATTTTCACTATTTGGCA 60.262 41.667 0.00 0.00 0.00 4.92
5351 7134 1.727062 TCCCATTGCCACCACATTTT 58.273 45.000 0.00 0.00 0.00 1.82
5354 7137 0.904394 GGTTCCCATTGCCACCACAT 60.904 55.000 0.00 0.00 0.00 3.21
5473 7256 0.179234 TTCCCTTGTGCACGAGACAA 59.821 50.000 31.88 20.86 0.00 3.18
5476 7259 2.270352 ATTTTCCCTTGTGCACGAGA 57.730 45.000 31.88 14.48 0.00 4.04
5572 7358 6.039717 GCATATAGAAGAACAGGGCAAATGAA 59.960 38.462 0.00 0.00 0.00 2.57
5741 7527 8.418597 TCTGACTACAAACACTAGAAACCTAT 57.581 34.615 0.00 0.00 0.00 2.57
5783 7569 4.993705 TTTGTTGGGGTCTACATTCTCT 57.006 40.909 0.00 0.00 0.00 3.10
5792 7578 1.828595 GTGGTTGTTTTGTTGGGGTCT 59.171 47.619 0.00 0.00 0.00 3.85
5795 7581 1.134551 CCAGTGGTTGTTTTGTTGGGG 60.135 52.381 0.00 0.00 0.00 4.96
5810 7596 0.319900 CGGTCACCTGAGTTCCAGTG 60.320 60.000 0.00 0.00 41.33 3.66
5862 7648 7.397892 TTCTCTTCAGTGTATTCCTCACTAG 57.602 40.000 0.00 0.00 43.14 2.57
5974 7760 4.970662 ATGACCATCTTTCATGTTTCCG 57.029 40.909 0.00 0.00 32.26 4.30
6140 8120 8.956446 TCACCTGAAGATATGGATACTTATGA 57.044 34.615 0.00 0.00 37.08 2.15
6202 8182 7.622893 AAACTTATTTTGTGTTTGCATGGTT 57.377 28.000 0.00 0.00 33.36 3.67
6416 8396 2.526304 TCCACAGAAAACAGAGTCCG 57.474 50.000 0.00 0.00 0.00 4.79
6501 8482 1.543642 TGAGAATTGCCCCCTCCCA 60.544 57.895 0.00 0.00 0.00 4.37
6510 8492 3.126000 GCACTGAACTAGGTGAGAATTGC 59.874 47.826 0.00 0.00 35.69 3.56
6523 8505 6.940739 AGACTAACAATAGATGCACTGAACT 58.059 36.000 0.00 0.00 33.15 3.01
6642 8627 6.183360 GGCATTACTTGTTCTCAGCAATGTAT 60.183 38.462 0.00 0.00 0.00 2.29
6700 8692 5.996513 AGCATCTAAGATGCATGTTCTTAGG 59.003 40.000 28.42 20.86 46.65 2.69
6703 8695 6.132791 CAAGCATCTAAGATGCATGTTCTT 57.867 37.500 13.03 9.28 46.77 2.52
6755 8747 4.697352 GGACAGTCATGTAAGAATGCAAGT 59.303 41.667 2.17 0.00 40.68 3.16
6819 8812 1.760029 TGTCACACACTCCAGTAGCAA 59.240 47.619 0.00 0.00 0.00 3.91
6844 8837 5.698545 CACCTCTTGTCAAAAGAACTCTAGG 59.301 44.000 0.00 0.00 0.00 3.02
6847 8840 5.104259 ACACCTCTTGTCAAAAGAACTCT 57.896 39.130 0.00 0.00 29.79 3.24
6853 8846 5.296780 ACACATGTACACCTCTTGTCAAAAG 59.703 40.000 0.00 0.00 39.91 2.27


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

AutoCloner maintained by Alex Coulton.