Multiple sequence alignment - TraesCS2D01G441900

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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 TraesCS2D01G441900 chr2D 100.000 8331 0 0 1 8331 552180852 552189182 0.000000e+00 15385.0
1 TraesCS2D01G441900 chr2D 82.415 853 124 18 7475 8312 552189036 552189877 0.000000e+00 721.0
2 TraesCS2D01G441900 chr2D 83.333 744 93 16 7572 8312 552188795 552189510 0.000000e+00 658.0
3 TraesCS2D01G441900 chr2D 83.130 575 69 10 7588 8161 552190021 552190568 4.490000e-137 499.0
4 TraesCS2D01G441900 chr2D 83.250 400 55 7 7562 7958 552189504 552189894 2.860000e-94 357.0
5 TraesCS2D01G441900 chr2D 84.140 372 53 5 7944 8312 552188423 552188791 1.030000e-93 355.0
6 TraesCS2D01G441900 chr2D 85.467 289 38 4 1711 1999 598725390 598725106 1.760000e-76 298.0
7 TraesCS2D01G441900 chr2D 90.805 87 5 2 1631 1714 552182557 552182643 6.830000e-21 113.0
8 TraesCS2D01G441900 chr2B 96.281 6050 168 28 1631 7663 657813005 657819014 0.000000e+00 9873.0
9 TraesCS2D01G441900 chr2B 94.167 1063 50 8 736 1792 657812035 657813091 0.000000e+00 1609.0
10 TraesCS2D01G441900 chr2B 85.638 745 98 8 7572 8312 657819269 657820008 0.000000e+00 774.0
11 TraesCS2D01G441900 chr2B 84.993 753 107 5 7562 8312 657819631 657820379 0.000000e+00 760.0
12 TraesCS2D01G441900 chr2B 82.735 863 113 25 7475 8312 657838950 657839801 0.000000e+00 736.0
13 TraesCS2D01G441900 chr2B 84.225 748 111 7 7568 8312 657821467 657822210 0.000000e+00 721.0
14 TraesCS2D01G441900 chr2B 83.911 721 111 5 7572 8289 657821842 657822560 0.000000e+00 684.0
15 TraesCS2D01G441900 chr2B 83.444 755 104 17 7572 8311 657839805 657840553 0.000000e+00 682.0
16 TraesCS2D01G441900 chr2B 83.311 743 115 7 7572 8312 657820012 657820747 0.000000e+00 676.0
17 TraesCS2D01G441900 chr2B 85.854 615 82 4 7702 8312 657819024 657819637 0.000000e+00 649.0
18 TraesCS2D01G441900 chr2B 89.691 388 35 3 315 697 657811562 657811949 2.700000e-134 490.0
19 TraesCS2D01G441900 chr2B 89.677 310 32 0 1 310 657811216 657811525 6.060000e-106 396.0
20 TraesCS2D01G441900 chr2B 85.085 295 39 5 1706 1999 126921004 126921294 6.320000e-76 296.0
21 TraesCS2D01G441900 chr2B 87.234 94 12 0 1618 1711 126880980 126881073 3.180000e-19 108.0
22 TraesCS2D01G441900 chr2B 87.234 94 12 0 1618 1711 126920991 126921084 3.180000e-19 108.0
23 TraesCS2D01G441900 chr2A 96.334 4473 147 9 3009 7477 692840262 692844721 0.000000e+00 7336.0
24 TraesCS2D01G441900 chr2A 91.182 1565 69 23 887 2421 692838269 692839794 0.000000e+00 2061.0
25 TraesCS2D01G441900 chr2A 90.728 906 54 14 1 880 692834934 692835835 0.000000e+00 1181.0
26 TraesCS2D01G441900 chr2A 94.964 417 19 2 2521 2935 692839843 692840259 0.000000e+00 652.0
27 TraesCS2D01G441900 chr6A 87.543 289 33 3 1711 1999 350839395 350839680 1.730000e-86 331.0
28 TraesCS2D01G441900 chr6A 86.071 280 36 3 1711 1990 369004313 369004037 1.760000e-76 298.0
29 TraesCS2D01G441900 chr5A 86.505 289 36 3 1711 1999 123979815 123979530 1.750000e-81 315.0
30 TraesCS2D01G441900 chr3A 86.505 289 36 3 1711 1999 303149041 303149326 1.750000e-81 315.0
31 TraesCS2D01G441900 chr1D 87.500 264 30 3 1738 2001 318557536 318557276 1.360000e-77 302.0
32 TraesCS2D01G441900 chr4D 87.629 97 10 2 1616 1711 499482562 499482467 2.460000e-20 111.0
33 TraesCS2D01G441900 chr3D 88.764 89 10 0 1616 1704 123312990 123313078 8.840000e-20 110.0
34 TraesCS2D01G441900 chr3D 96.000 50 2 0 6574 6623 562671543 562671494 1.930000e-11 82.4
35 TraesCS2D01G441900 chr5B 82.353 119 17 4 1595 1711 602935471 602935587 5.320000e-17 100.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G441900 chr2D 552180852 552189182 8330 False 15385.0 15385 100.0000 1 8331 1 chr2D.!!$F1 8330
1 TraesCS2D01G441900 chr2D 552188423 552190568 2145 False 518.0 721 83.2536 7475 8312 5 chr2D.!!$F3 837
2 TraesCS2D01G441900 chr2B 657811216 657822560 11344 False 1663.2 9873 87.7748 1 8312 10 chr2B.!!$F3 8311
3 TraesCS2D01G441900 chr2B 657838950 657840553 1603 False 709.0 736 83.0895 7475 8312 2 chr2B.!!$F4 837
4 TraesCS2D01G441900 chr2A 692834934 692844721 9787 False 2807.5 7336 93.3020 1 7477 4 chr2A.!!$F1 7476

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
467 510 0.524414 CGTCACATGTGGGTCGACTA 59.476 55.000 25.16 1.96 0.00 2.59 F
1093 3616 0.741221 CTTGACCGTGCCCTAGCTTC 60.741 60.000 0.00 0.00 40.80 3.86 F
1456 3982 1.376037 GGGAACTCCGGTCAAGCTG 60.376 63.158 0.00 0.00 36.71 4.24 F
1488 4014 3.737850 AGGATGCTAGCATGTAAGCTTC 58.262 45.455 34.16 17.59 43.70 3.86 F
2700 5351 2.576615 ACCAACCTCAAAGCTCAGTTC 58.423 47.619 0.00 0.00 0.00 3.01 F
2878 5529 3.119495 GGCCGCACTGATAAAAACTCATT 60.119 43.478 0.00 0.00 0.00 2.57 F
4837 7492 1.135689 CGAAGAGCAAACATTTCCGGG 60.136 52.381 0.00 0.00 0.00 5.73 F
5069 7725 1.260297 TCAATTATTGCCGATCGTGCG 59.740 47.619 15.09 0.00 0.00 5.34 F
5607 8263 1.363744 GCGCACTGCAGTAAAGAGAT 58.636 50.000 21.20 0.00 45.45 2.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1998 4614 0.249280 GTTTGGAACGGCAACCCAAG 60.249 55.000 0.00 0.0 40.59 3.61 R
2260 4892 1.758280 GCCATGGCAGAATCCAATCAA 59.242 47.619 32.08 0.0 39.96 2.57 R
2700 5351 2.353579 CCGCCTTATGTTTAGGGTTTCG 59.646 50.000 0.00 0.0 33.19 3.46 R
3361 6016 2.634453 TCTGCTGGACATGAAGAAGTCA 59.366 45.455 0.00 0.0 41.67 3.41 R
4384 7039 1.988107 TGTTCCCTGAAGCTTCCAGAT 59.012 47.619 23.42 0.0 33.65 2.90 R
5065 7721 5.969741 TCACGCATAACTAAATAATCGCAC 58.030 37.500 0.00 0.0 0.00 5.34 R
5968 8624 0.257039 GTCCCCACATGCCTTCTGAT 59.743 55.000 0.00 0.0 0.00 2.90 R
7190 9853 0.971386 GAGGTCGACAAGGTTACCCA 59.029 55.000 18.91 0.0 32.10 4.51 R
7433 10111 0.165944 CAACGTCCAACTGATTCGCC 59.834 55.000 0.00 0.0 0.00 5.54 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
40 41 5.130477 TCACCTCCTTTGGCTTAATACCTAG 59.870 44.000 0.00 0.00 0.00 3.02
254 255 1.117150 ACAACTACCAGGTGTGTCGT 58.883 50.000 0.76 0.00 45.96 4.34
269 270 4.184079 GTGTCGTACACCCTACAAATCT 57.816 45.455 6.82 0.00 43.05 2.40
270 271 3.924686 GTGTCGTACACCCTACAAATCTG 59.075 47.826 6.82 0.00 43.05 2.90
292 293 2.030274 CCCTTGATGTTTGGGTTTCGTC 60.030 50.000 0.00 0.00 36.32 4.20
338 367 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
339 368 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
340 369 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
446 489 2.158986 CCTCAGGTGGTATGAGCTTCTG 60.159 54.545 0.00 0.00 42.36 3.02
467 510 0.524414 CGTCACATGTGGGTCGACTA 59.476 55.000 25.16 1.96 0.00 2.59
478 521 2.280628 GGGTCGACTAATCCAAGCAAG 58.719 52.381 16.46 0.00 0.00 4.01
529 572 9.950680 CTACTTTCACTTGCTTTTGATCTTAAA 57.049 29.630 0.00 0.00 0.00 1.52
536 579 9.033481 CACTTGCTTTTGATCTTAAAACAATGA 57.967 29.630 8.90 0.00 0.00 2.57
545 588 9.474920 TTGATCTTAAAACAATGATGGTTCAAC 57.525 29.630 0.00 0.00 34.67 3.18
564 607 2.045926 GGCCACCAGTTGCTCGAT 60.046 61.111 0.00 0.00 0.00 3.59
662 705 3.281727 TGTTCCAGCAAGTCTCTTTGT 57.718 42.857 0.00 0.00 0.00 2.83
737 827 1.375268 GAGTGTGGGCAGTGAGCTC 60.375 63.158 6.82 6.82 46.89 4.09
749 839 3.529533 CAGTGAGCTCCTCCAAACATAG 58.470 50.000 12.15 0.00 0.00 2.23
787 877 6.881065 TGAACAATATGCAAAAGAGCTACTCT 59.119 34.615 0.00 0.00 43.37 3.24
823 913 9.539194 AAAGATTTTGATTTCTCATAAGGTCCT 57.461 29.630 0.00 0.00 0.00 3.85
846 936 9.892130 TCCTGGTTGCTTTAATAAAAAGAAAAA 57.108 25.926 1.78 0.00 0.00 1.94
872 962 9.665719 AACAAAATACCACATTTTGAGTCTTTT 57.334 25.926 22.56 8.06 46.36 2.27
1092 3615 1.296715 CTTGACCGTGCCCTAGCTT 59.703 57.895 0.00 0.00 40.80 3.74
1093 3616 0.741221 CTTGACCGTGCCCTAGCTTC 60.741 60.000 0.00 0.00 40.80 3.86
1161 3684 4.424430 CCGCGCGAGTTGGTTTCG 62.424 66.667 34.63 6.11 40.85 3.46
1239 3762 2.374170 AGGATTCGGTTAGGTTTGGTGT 59.626 45.455 0.00 0.00 0.00 4.16
1288 3814 2.612251 GGAGAGGGAGGAGGAGGG 59.388 72.222 0.00 0.00 0.00 4.30
1456 3982 1.376037 GGGAACTCCGGTCAAGCTG 60.376 63.158 0.00 0.00 36.71 4.24
1488 4014 3.737850 AGGATGCTAGCATGTAAGCTTC 58.262 45.455 34.16 17.59 43.70 3.86
1564 4096 5.431179 TTGACCTAGGGTTAGTTGATTCC 57.569 43.478 14.81 0.00 35.25 3.01
1633 4169 6.458342 GGGATACTTAGGCACTTTTTGATTCG 60.458 42.308 0.00 0.00 41.75 3.34
1658 4194 6.038271 GCAGGATTCACAAAACGTAGGAATAT 59.962 38.462 0.00 0.00 0.00 1.28
1733 4269 7.196331 GCAGGATTCACAAAATGTAGGAATAC 58.804 38.462 0.00 0.00 28.84 1.89
1798 4414 7.453752 TCCTATAGGATTAGCACGGAGTATTTT 59.546 37.037 18.00 0.00 37.93 1.82
1980 4596 7.797121 ACCCTCCAAAACTCATATGAAATTT 57.203 32.000 6.90 7.70 0.00 1.82
1983 4599 8.534496 CCCTCCAAAACTCATATGAAATTTCTT 58.466 33.333 18.64 14.65 0.00 2.52
1984 4600 9.933723 CCTCCAAAACTCATATGAAATTTCTTT 57.066 29.630 18.64 9.15 0.00 2.52
1997 4613 7.801547 TGAAATTTCTTTGAATCGAATGAGC 57.198 32.000 18.64 0.00 0.00 4.26
1998 4614 6.808212 TGAAATTTCTTTGAATCGAATGAGCC 59.192 34.615 18.64 0.00 0.00 4.70
2104 4736 7.872483 ACTTCCACATGTTTGAATAAATGGTTC 59.128 33.333 0.00 0.00 0.00 3.62
2260 4892 6.985188 AGTATGAAACATAAGTTGATGCGT 57.015 33.333 0.00 0.00 38.17 5.24
2469 5118 4.202141 TGAATCCTTGGCAGAGTTGTTTTG 60.202 41.667 0.00 0.00 0.00 2.44
2546 5195 6.369065 ACAAGCTCTATAACGAAGTGGAAAAG 59.631 38.462 0.00 0.00 45.00 2.27
2571 5220 6.969043 AGTATTGGTGGATGAATTGGTAGAA 58.031 36.000 0.00 0.00 0.00 2.10
2572 5221 7.056635 AGTATTGGTGGATGAATTGGTAGAAG 58.943 38.462 0.00 0.00 0.00 2.85
2700 5351 2.576615 ACCAACCTCAAAGCTCAGTTC 58.423 47.619 0.00 0.00 0.00 3.01
2826 5477 5.593095 CCAGCCTGACTAGTTATAGTGTGTA 59.407 44.000 0.00 0.00 42.46 2.90
2878 5529 3.119495 GGCCGCACTGATAAAAACTCATT 60.119 43.478 0.00 0.00 0.00 2.57
3159 5814 6.414732 TCAAACCGACCAGATCTCATATTTT 58.585 36.000 0.00 0.00 0.00 1.82
3430 6085 7.391554 TCTTCTTGTCACCTTCCTAATCAATTG 59.608 37.037 0.00 0.00 0.00 2.32
3929 6584 5.163447 TGACTGGTATAACCTGGAGAAATCG 60.163 44.000 0.00 0.00 41.00 3.34
4384 7039 5.815233 AGAAACTTGTCAGGATCTCTTGA 57.185 39.130 0.00 0.00 0.00 3.02
4777 7432 7.970061 GCAAACAATATTAACAGAAGCTCATCA 59.030 33.333 0.00 0.00 0.00 3.07
4837 7492 1.135689 CGAAGAGCAAACATTTCCGGG 60.136 52.381 0.00 0.00 0.00 5.73
5065 7721 4.929211 TGTAGGATCAATTATTGCCGATCG 59.071 41.667 8.51 8.51 36.04 3.69
5069 7725 1.260297 TCAATTATTGCCGATCGTGCG 59.740 47.619 15.09 0.00 0.00 5.34
5143 7799 5.524284 ACAGCTCATTTCTACTATGCTACG 58.476 41.667 0.00 0.00 0.00 3.51
5149 7805 7.563888 TCATTTCTACTATGCTACGTAGTGT 57.436 36.000 22.98 17.50 45.73 3.55
5360 8016 2.503765 TCCTTACTTGATCGCATTCCCA 59.496 45.455 0.00 0.00 0.00 4.37
5433 8089 3.459227 TGCATGTGATCCTAATTCCCTCA 59.541 43.478 0.00 0.00 0.00 3.86
5607 8263 1.363744 GCGCACTGCAGTAAAGAGAT 58.636 50.000 21.20 0.00 45.45 2.75
5868 8524 7.972301 AGATTATCCCTTATCTTCAGAACCTG 58.028 38.462 0.00 0.00 0.00 4.00
5968 8624 6.499106 TGGCAATCAGATAACCTCTATTGA 57.501 37.500 0.00 0.00 32.48 2.57
6034 8690 2.778299 TGGCTCACATCTTGGTTACAC 58.222 47.619 0.00 0.00 0.00 2.90
6040 8696 1.423541 ACATCTTGGTTACACTGGGCA 59.576 47.619 0.00 0.00 0.00 5.36
6548 9204 5.250543 TCTGGGTGGTCTATTGAAATCAGAA 59.749 40.000 0.00 0.00 0.00 3.02
6785 9441 2.226437 CCAAAGTCCCAAACTGTCGATG 59.774 50.000 0.00 0.00 38.58 3.84
6794 9450 3.057315 CCAAACTGTCGATGCCTCAAAAT 60.057 43.478 0.00 0.00 0.00 1.82
6798 9454 1.999735 TGTCGATGCCTCAAAATCGTC 59.000 47.619 5.12 0.98 44.63 4.20
6916 9572 3.222603 GAGCTTTCTTCAACAAAGGGGA 58.777 45.455 0.00 0.00 35.54 4.81
7190 9853 5.581126 TGTGAACACAATCAAAGCTTTCT 57.419 34.783 9.23 0.00 38.56 2.52
7191 9854 5.342433 TGTGAACACAATCAAAGCTTTCTG 58.658 37.500 9.23 9.57 38.56 3.02
7192 9855 4.741676 GTGAACACAATCAAAGCTTTCTGG 59.258 41.667 9.23 0.00 0.00 3.86
7193 9856 4.202141 TGAACACAATCAAAGCTTTCTGGG 60.202 41.667 9.23 10.61 0.00 4.45
7194 9857 3.299503 ACACAATCAAAGCTTTCTGGGT 58.700 40.909 9.23 11.25 0.00 4.51
7195 9858 4.469657 ACACAATCAAAGCTTTCTGGGTA 58.530 39.130 15.40 0.00 0.00 3.69
7196 9859 4.892934 ACACAATCAAAGCTTTCTGGGTAA 59.107 37.500 15.40 0.00 0.00 2.85
7197 9860 5.221244 ACACAATCAAAGCTTTCTGGGTAAC 60.221 40.000 15.40 0.00 0.00 2.50
7272 9949 0.822811 TGTGTTGCTGGCATTGTTGT 59.177 45.000 0.00 0.00 0.00 3.32
7336 10013 3.953612 GCCATGGTATTTTCCATCTGTCA 59.046 43.478 14.67 0.00 45.23 3.58
7414 10092 9.788960 GTGGTTATTACATTTCCTTCATCTTTC 57.211 33.333 0.00 0.00 0.00 2.62
7415 10093 9.753674 TGGTTATTACATTTCCTTCATCTTTCT 57.246 29.630 0.00 0.00 0.00 2.52
7436 10114 9.367444 CTTTCTGTAAAATATATACCTAGGGCG 57.633 37.037 14.81 0.00 0.00 6.13
7437 10115 8.654485 TTCTGTAAAATATATACCTAGGGCGA 57.346 34.615 14.81 0.00 0.00 5.54
7438 10116 8.654485 TCTGTAAAATATATACCTAGGGCGAA 57.346 34.615 14.81 0.00 0.00 4.70
7439 10117 9.263446 TCTGTAAAATATATACCTAGGGCGAAT 57.737 33.333 14.81 3.68 0.00 3.34
7440 10118 9.530633 CTGTAAAATATATACCTAGGGCGAATC 57.469 37.037 14.81 0.00 0.00 2.52
7441 10119 9.038072 TGTAAAATATATACCTAGGGCGAATCA 57.962 33.333 14.81 0.00 0.00 2.57
7448 10126 1.473434 CCTAGGGCGAATCAGTTGGAC 60.473 57.143 0.00 0.00 0.00 4.02
7460 10138 5.924475 ATCAGTTGGACGTTGTAAAAGAG 57.076 39.130 0.00 0.00 0.00 2.85
7464 10142 3.188159 TGGACGTTGTAAAAGAGCACT 57.812 42.857 0.00 0.00 0.00 4.40
7477 10155 3.393089 AGAGCACTAGTCTGTGTTTGG 57.607 47.619 0.00 0.00 39.89 3.28
7478 10156 2.965831 AGAGCACTAGTCTGTGTTTGGA 59.034 45.455 0.00 0.00 39.89 3.53
7495 12133 5.712917 TGTTTGGAAGTTGTAAAAGACCACT 59.287 36.000 0.00 0.00 35.58 4.00
7499 12137 6.285990 TGGAAGTTGTAAAAGACCACTAGTC 58.714 40.000 0.00 0.00 46.71 2.59
7523 12163 1.593196 TGTGTAGAGCAGCAAACACC 58.407 50.000 17.44 5.49 41.17 4.16
7526 12166 1.140852 TGTAGAGCAGCAAACACCTGT 59.859 47.619 0.00 0.00 32.93 4.00
7531 12171 3.071023 AGAGCAGCAAACACCTGTAAGTA 59.929 43.478 0.00 0.00 32.93 2.24
7538 12178 3.299340 AACACCTGTAAGTAGCAGACG 57.701 47.619 0.00 0.00 36.12 4.18
7542 12182 2.626743 ACCTGTAAGTAGCAGACGTGTT 59.373 45.455 0.00 0.00 36.12 3.32
7552 12192 1.792949 GCAGACGTGTTCGATCTTGTT 59.207 47.619 0.00 0.00 40.62 2.83
7564 12236 5.107109 TCGATCTTGTTGTTGTCAATTGG 57.893 39.130 5.42 0.00 35.92 3.16
7566 12238 4.676471 CGATCTTGTTGTTGTCAATTGGTG 59.324 41.667 5.42 0.00 35.92 4.17
7570 12242 1.107114 TTGTTGTCAATTGGTGCGGT 58.893 45.000 5.42 0.00 0.00 5.68
7594 12266 7.660208 GGTTAATTACCCGATTATCATGTGACT 59.340 37.037 0.00 0.00 41.43 3.41
7604 12276 7.277760 CCGATTATCATGTGACTGTGAGTAAAA 59.722 37.037 0.00 0.00 0.00 1.52
7608 12280 7.891183 ATCATGTGACTGTGAGTAAAAGTAC 57.109 36.000 0.00 0.00 0.00 2.73
7620 12292 7.713942 TGTGAGTAAAAGTACTTTCCTTTCCTC 59.286 37.037 20.78 17.10 40.82 3.71
7660 12333 5.853572 TGATAACCTAGGGTGTTTTCCTT 57.146 39.130 10.48 0.00 35.34 3.36
7663 12336 1.780919 ACCTAGGGTGTTTTCCTTGCT 59.219 47.619 14.81 0.00 32.98 3.91
7664 12337 2.162681 CCTAGGGTGTTTTCCTTGCTG 58.837 52.381 0.00 0.00 35.92 4.41
7669 12342 2.893489 GGGTGTTTTCCTTGCTGAATCT 59.107 45.455 0.00 0.00 0.00 2.40
7671 12344 3.823304 GGTGTTTTCCTTGCTGAATCTCT 59.177 43.478 0.00 0.00 0.00 3.10
7672 12345 4.320788 GGTGTTTTCCTTGCTGAATCTCTG 60.321 45.833 0.00 0.00 0.00 3.35
7716 12389 3.071312 TGCAAAGTTCCATTTCCATTGCT 59.929 39.130 8.75 0.00 41.53 3.91
7717 12390 4.067192 GCAAAGTTCCATTTCCATTGCTT 58.933 39.130 0.00 0.00 38.79 3.91
7757 12799 0.615331 GGCTCAGTTCACCTCCATGA 59.385 55.000 0.00 0.00 0.00 3.07
7758 12800 1.406614 GGCTCAGTTCACCTCCATGAG 60.407 57.143 0.00 0.00 40.26 2.90
7774 12816 3.668141 ATGAGGGGCATGTGTCATTAA 57.332 42.857 0.00 0.00 35.42 1.40
7793 12835 8.889000 GTCATTAACACAAACGATCTGTAAAAC 58.111 33.333 0.00 0.00 0.00 2.43
7796 12838 9.959749 ATTAACACAAACGATCTGTAAAACATT 57.040 25.926 0.00 0.00 0.00 2.71
7812 13222 1.202698 ACATTCCTAGGCTGAATCGGC 60.203 52.381 15.69 5.30 30.16 5.54
7814 13224 0.465705 TTCCTAGGCTGAATCGGCTG 59.534 55.000 14.30 4.86 40.35 4.85
7818 13228 0.908910 TAGGCTGAATCGGCTGGAAA 59.091 50.000 14.30 0.00 40.35 3.13
7833 13243 4.226761 GCTGGAAATTGTAAAAGACCACG 58.773 43.478 0.00 0.00 0.00 4.94
7837 13247 6.289834 TGGAAATTGTAAAAGACCACGAGTA 58.710 36.000 0.00 0.00 0.00 2.59
7838 13248 6.938030 TGGAAATTGTAAAAGACCACGAGTAT 59.062 34.615 0.00 0.00 0.00 2.12
7850 13260 4.304110 ACCACGAGTATGTGTTTGTGTAG 58.696 43.478 0.00 0.00 38.20 2.74
7851 13261 4.038282 ACCACGAGTATGTGTTTGTGTAGA 59.962 41.667 0.00 0.00 38.20 2.59
7855 13265 4.324669 CGAGTATGTGTTTGTGTAGAGCAG 59.675 45.833 0.00 0.00 0.00 4.24
7866 13276 1.416030 TGTAGAGCAGCAAACACCTGA 59.584 47.619 0.00 0.00 32.03 3.86
7870 13280 0.386838 AGCAGCAAACACCTGAAAGC 59.613 50.000 0.00 0.00 32.03 3.51
7877 13287 0.250901 AACACCTGAAAGCGGCAGAT 60.251 50.000 1.45 0.00 35.39 2.90
7879 13289 2.042831 ACCTGAAAGCGGCAGATGC 61.043 57.895 1.45 0.00 41.14 3.91
7880 13290 2.042259 CCTGAAAGCGGCAGATGCA 61.042 57.895 7.19 0.00 44.36 3.96
7882 13292 0.454600 CTGAAAGCGGCAGATGCATT 59.545 50.000 0.00 0.00 44.36 3.56
7887 13297 1.082300 GCGGCAGATGCATTCGATG 60.082 57.895 0.00 0.00 44.36 3.84
7905 13315 5.645624 TCGATGTTGTTGTTGTCAAAACAT 58.354 33.333 11.42 11.42 41.64 2.71
7907 13317 6.909895 TCGATGTTGTTGTTGTCAAAACATAG 59.090 34.615 11.53 11.60 40.59 2.23
7960 13370 7.703621 TGCTACGACTAATTACTTGATTACCAC 59.296 37.037 0.00 0.00 0.00 4.16
7980 14110 9.865321 TTACCACATGACTATGAGTAAAAGTAC 57.135 33.333 0.00 0.00 35.59 2.73
7994 14124 7.931948 TGAGTAAAAGTACTTTCCTTTCCTCTG 59.068 37.037 20.78 0.00 40.82 3.35
8028 14159 4.166246 CCTTGATAACCTAGGGTTTCCC 57.834 50.000 14.81 0.00 44.33 3.97
8040 14171 1.064003 GGTTTCCCCCTTGCCAAATT 58.936 50.000 0.00 0.00 0.00 1.82
8046 14177 0.614812 CCCCTTGCCAAATTCCCTTG 59.385 55.000 0.00 0.00 0.00 3.61
8058 14189 6.127338 GCCAAATTCCCTTGATATATAAGCCC 60.127 42.308 0.00 0.00 0.00 5.19
8067 14198 8.265055 CCCTTGATATATAAGCCCGAAATCTTA 58.735 37.037 0.00 0.00 0.00 2.10
8081 14212 7.151976 CCCGAAATCTTACAAAGTTCCATTTT 58.848 34.615 0.00 0.00 0.00 1.82
8091 14222 4.450082 AAGTTCCATTTTCATTACCGGC 57.550 40.909 0.00 0.00 0.00 6.13
8098 14229 3.809918 TTTTCATTACCGGCGTAACAC 57.190 42.857 6.01 0.00 37.28 3.32
8104 14235 2.568090 CCGGCGTAACACGGTACT 59.432 61.111 6.01 0.00 44.85 2.73
8105 14236 1.800032 CCGGCGTAACACGGTACTA 59.200 57.895 6.01 0.00 44.85 1.82
8107 14238 1.597937 CCGGCGTAACACGGTACTATC 60.598 57.143 6.01 0.00 44.85 2.08
8109 14240 2.454055 GGCGTAACACGGTACTATCAC 58.546 52.381 0.44 0.00 42.82 3.06
8110 14241 2.159393 GGCGTAACACGGTACTATCACA 60.159 50.000 0.44 0.00 42.82 3.58
8111 14242 3.103738 GCGTAACACGGTACTATCACAG 58.896 50.000 0.44 0.00 42.82 3.66
8128 14259 0.668706 CAGCTCAGTTCACCTCCGTG 60.669 60.000 0.00 0.00 41.72 4.94
8153 14284 2.548480 GGCCTGAGTCACTAACACAAAC 59.452 50.000 0.00 0.00 0.00 2.93
8154 14285 3.202906 GCCTGAGTCACTAACACAAACA 58.797 45.455 0.00 0.00 0.00 2.83
8165 14296 9.730420 GTCACTAACACAAACAATCTGTAAAAT 57.270 29.630 0.00 0.00 0.00 1.82
8187 14318 9.778741 AAAATATATCTAAGCTGAATCGGTTGA 57.221 29.630 0.00 0.00 0.00 3.18
8193 14324 6.460781 TCTAAGCTGAATCGGTTGAAAGTTA 58.539 36.000 0.00 0.00 0.00 2.24
8194 14325 6.932400 TCTAAGCTGAATCGGTTGAAAGTTAA 59.068 34.615 0.00 0.00 0.00 2.01
8222 14724 3.191669 CCACGAGTCTGTGTTTGTGTAA 58.808 45.455 12.11 0.00 38.20 2.41
8243 14745 0.746659 GCAGCAAACACCTGGAAGTT 59.253 50.000 0.00 1.76 0.00 2.66
8247 14749 1.069049 GCAAACACCTGGAAGTTGCAT 59.931 47.619 20.16 2.45 0.00 3.96
8255 14757 2.412870 CTGGAAGTTGCATACGTGTCA 58.587 47.619 0.00 0.00 0.00 3.58
8265 14767 3.193479 TGCATACGTGTCAGATCTTGTCT 59.807 43.478 0.00 0.00 37.80 3.41
8279 14781 8.559536 TCAGATCTTGTCTTTGTCAAAACATAC 58.440 33.333 11.54 4.46 34.00 2.39
8312 14814 4.336993 TGGAATTTTGTGTTCGTTGCTACT 59.663 37.500 0.00 0.00 0.00 2.57
8313 14815 4.909880 GGAATTTTGTGTTCGTTGCTACTC 59.090 41.667 0.00 0.00 0.00 2.59
8314 14816 5.277828 GGAATTTTGTGTTCGTTGCTACTCT 60.278 40.000 0.00 0.00 0.00 3.24
8317 14843 3.173668 TGTGTTCGTTGCTACTCTGTT 57.826 42.857 0.00 0.00 0.00 3.16
8325 14851 7.492020 TGTTCGTTGCTACTCTGTTAGTAAAAA 59.508 33.333 0.00 0.00 40.21 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 4.478686 AGGTATTAAGCCAAAGGAGGTGAT 59.521 41.667 2.28 0.00 0.00 3.06
40 41 6.688813 GTGACAGAAAAGACAAAACACATCTC 59.311 38.462 0.00 0.00 0.00 2.75
187 188 5.653769 CCACTGGATGAAAACCAACTCATAT 59.346 40.000 0.00 0.00 38.79 1.78
254 255 2.557869 AGGGCAGATTTGTAGGGTGTA 58.442 47.619 0.00 0.00 0.00 2.90
265 266 2.181975 CCCAAACATCAAGGGCAGATT 58.818 47.619 0.00 0.00 35.44 2.40
269 270 1.691434 GAAACCCAAACATCAAGGGCA 59.309 47.619 0.00 0.00 46.88 5.36
270 271 1.336795 CGAAACCCAAACATCAAGGGC 60.337 52.381 0.00 0.00 46.88 5.19
338 367 2.167281 CGTGATGTCACCATCTTCCTCT 59.833 50.000 7.51 0.00 46.38 3.69
339 368 2.166459 TCGTGATGTCACCATCTTCCTC 59.834 50.000 7.51 0.00 46.38 3.71
340 369 2.179427 TCGTGATGTCACCATCTTCCT 58.821 47.619 7.51 0.00 46.38 3.36
398 441 1.901464 GGACCACCACGGCACATTT 60.901 57.895 0.00 0.00 39.03 2.32
446 489 3.118454 CGACCCACATGTGACGCC 61.118 66.667 27.46 11.59 0.00 5.68
529 572 2.299867 GGCCAGTTGAACCATCATTGTT 59.700 45.455 0.00 0.00 34.96 2.83
536 579 0.540365 CTGGTGGCCAGTTGAACCAT 60.540 55.000 5.11 0.00 45.82 3.55
564 607 6.547510 TCCTTCATCGATGATCTTGAGAACTA 59.452 38.462 27.75 8.24 36.56 2.24
662 705 2.999355 TGCACGATCGATTTTCATGACA 59.001 40.909 24.34 7.29 0.00 3.58
737 827 9.672673 CATAGGGATATAAACTATGTTTGGAGG 57.327 37.037 6.01 0.00 39.29 4.30
787 877 3.231207 TCAAAATCTTTGGGTTCCGGA 57.769 42.857 0.00 0.00 0.00 5.14
846 936 9.665719 AAAAGACTCAAAATGTGGTATTTTGTT 57.334 25.926 18.89 11.04 44.73 2.83
1224 3747 0.312729 GCCAACACCAAACCTAACCG 59.687 55.000 0.00 0.00 0.00 4.44
1488 4014 4.235372 ACATAGAAGAGGGAATGGTAGGG 58.765 47.826 0.00 0.00 0.00 3.53
1540 4067 6.424032 GGAATCAACTAACCCTAGGTCAATT 58.576 40.000 8.29 0.00 33.12 2.32
1633 4169 3.071479 TCCTACGTTTTGTGAATCCTGC 58.929 45.455 0.00 0.00 0.00 4.85
1658 4194 4.462483 GCCACTCCAATCCTGTATTTTTCA 59.538 41.667 0.00 0.00 0.00 2.69
1743 4280 2.012902 GCATGCCACTCCAATCCTGC 62.013 60.000 6.36 0.00 0.00 4.85
1980 4596 3.691118 CCAAGGCTCATTCGATTCAAAGA 59.309 43.478 0.00 0.00 0.00 2.52
1983 4599 2.290896 ACCCAAGGCTCATTCGATTCAA 60.291 45.455 0.00 0.00 0.00 2.69
1984 4600 1.281867 ACCCAAGGCTCATTCGATTCA 59.718 47.619 0.00 0.00 0.00 2.57
1985 4601 2.044123 ACCCAAGGCTCATTCGATTC 57.956 50.000 0.00 0.00 0.00 2.52
1986 4602 2.094675 CAACCCAAGGCTCATTCGATT 58.905 47.619 0.00 0.00 0.00 3.34
1987 4603 1.755179 CAACCCAAGGCTCATTCGAT 58.245 50.000 0.00 0.00 0.00 3.59
1988 4604 0.960364 GCAACCCAAGGCTCATTCGA 60.960 55.000 0.00 0.00 0.00 3.71
1989 4605 1.508088 GCAACCCAAGGCTCATTCG 59.492 57.895 0.00 0.00 0.00 3.34
1990 4606 1.893062 GGCAACCCAAGGCTCATTC 59.107 57.895 0.00 0.00 0.00 2.67
1991 4607 1.978617 CGGCAACCCAAGGCTCATT 60.979 57.895 0.00 0.00 0.00 2.57
1992 4608 2.361610 CGGCAACCCAAGGCTCAT 60.362 61.111 0.00 0.00 0.00 2.90
1993 4609 3.429372 AACGGCAACCCAAGGCTCA 62.429 57.895 0.00 0.00 0.00 4.26
1994 4610 2.597510 AACGGCAACCCAAGGCTC 60.598 61.111 0.00 0.00 0.00 4.70
1995 4611 2.597510 GAACGGCAACCCAAGGCT 60.598 61.111 0.00 0.00 0.00 4.58
1996 4612 3.680786 GGAACGGCAACCCAAGGC 61.681 66.667 0.00 0.00 0.00 4.35
1997 4613 1.395826 TTTGGAACGGCAACCCAAGG 61.396 55.000 0.00 0.00 40.59 3.61
1998 4614 0.249280 GTTTGGAACGGCAACCCAAG 60.249 55.000 0.00 0.00 40.59 3.61
2104 4736 4.031991 TGAGTAATTGCCGAAATAACGTCG 59.968 41.667 0.00 0.00 38.24 5.12
2248 4880 5.647658 AGAATCCAATCAACGCATCAACTTA 59.352 36.000 0.00 0.00 0.00 2.24
2260 4892 1.758280 GCCATGGCAGAATCCAATCAA 59.242 47.619 32.08 0.00 39.96 2.57
2436 5085 6.763355 TCTGCCAAGGATTCATAGATTAGTC 58.237 40.000 0.00 0.00 0.00 2.59
2546 5195 6.591935 TCTACCAATTCATCCACCAATACTC 58.408 40.000 0.00 0.00 0.00 2.59
2700 5351 2.353579 CCGCCTTATGTTTAGGGTTTCG 59.646 50.000 0.00 0.00 33.19 3.46
2826 5477 2.956333 GGCAAAGTTAAGAGTGTTGGGT 59.044 45.455 0.00 0.00 0.00 4.51
3159 5814 3.769739 TGGTTGCAGCTCTCTAAAAGA 57.230 42.857 0.00 0.00 0.00 2.52
3168 5823 4.078639 AGGATAGTTATGGTTGCAGCTC 57.921 45.455 0.00 0.00 0.00 4.09
3361 6016 2.634453 TCTGCTGGACATGAAGAAGTCA 59.366 45.455 0.00 0.00 41.67 3.41
3401 6056 6.213397 TGATTAGGAAGGTGACAAGAAGATGA 59.787 38.462 0.00 0.00 0.00 2.92
3406 6061 7.004086 ACAATTGATTAGGAAGGTGACAAGAA 58.996 34.615 13.59 0.00 0.00 2.52
3553 6208 7.865706 AAGAAAATGTAATCTGATACGGCTT 57.134 32.000 0.00 0.00 0.00 4.35
3929 6584 5.008316 ACACCTAAATTCCTTGACACGTTTC 59.992 40.000 0.00 0.00 0.00 2.78
4300 6955 2.178912 TTTACCAAGGCGAACAGAGG 57.821 50.000 0.00 0.00 0.00 3.69
4384 7039 1.988107 TGTTCCCTGAAGCTTCCAGAT 59.012 47.619 23.42 0.00 33.65 2.90
5065 7721 5.969741 TCACGCATAACTAAATAATCGCAC 58.030 37.500 0.00 0.00 0.00 5.34
5069 7725 7.345192 CCACACTCACGCATAACTAAATAATC 58.655 38.462 0.00 0.00 0.00 1.75
5143 7799 7.807687 ACAAAATAGATGTACACGACACTAC 57.192 36.000 0.00 0.00 42.17 2.73
5149 7805 5.106869 GCACCAACAAAATAGATGTACACGA 60.107 40.000 0.00 0.00 0.00 4.35
5360 8016 7.309990 GCATACCCTGCCAATAATATCAACAAT 60.310 37.037 0.00 0.00 45.66 2.71
5433 8089 5.179452 TGCCTTGACTTATTAGAAGCCTT 57.821 39.130 0.00 0.00 0.00 4.35
5607 8263 1.227102 CATCCGCCTTCCCCATTGA 59.773 57.895 0.00 0.00 0.00 2.57
5868 8524 6.472808 GTGTAACTTCGTCCAATATCTCTGAC 59.527 42.308 0.00 0.00 0.00 3.51
5968 8624 0.257039 GTCCCCACATGCCTTCTGAT 59.743 55.000 0.00 0.00 0.00 2.90
6034 8690 2.627699 ACATTAAACAACACCTGCCCAG 59.372 45.455 0.00 0.00 0.00 4.45
6040 8696 5.197451 TCAGGTCAACATTAAACAACACCT 58.803 37.500 0.00 0.00 33.07 4.00
6548 9204 1.078143 GACCAGCGGAATTGCTCCT 60.078 57.895 1.50 0.00 45.23 3.69
6785 9441 2.673368 AGATCAACGACGATTTTGAGGC 59.327 45.455 0.00 0.00 35.25 4.70
6794 9450 2.152016 ACAGTCAGAGATCAACGACGA 58.848 47.619 0.00 0.00 33.56 4.20
6798 9454 1.200252 ACGGACAGTCAGAGATCAACG 59.800 52.381 7.80 0.00 0.00 4.10
7092 9752 2.886523 CAGGTGAAGCATGACTCCAAAA 59.113 45.455 0.00 0.00 0.00 2.44
7190 9853 0.971386 GAGGTCGACAAGGTTACCCA 59.029 55.000 18.91 0.00 32.10 4.51
7191 9854 0.971386 TGAGGTCGACAAGGTTACCC 59.029 55.000 18.91 0.00 32.10 3.69
7192 9855 1.617357 ACTGAGGTCGACAAGGTTACC 59.383 52.381 18.91 0.00 0.00 2.85
7193 9856 4.082354 ACATACTGAGGTCGACAAGGTTAC 60.082 45.833 18.91 0.00 0.00 2.50
7194 9857 4.084287 ACATACTGAGGTCGACAAGGTTA 58.916 43.478 18.91 2.94 0.00 2.85
7195 9858 2.897969 ACATACTGAGGTCGACAAGGTT 59.102 45.455 18.91 0.51 0.00 3.50
7196 9859 2.492484 GACATACTGAGGTCGACAAGGT 59.508 50.000 18.91 12.12 0.00 3.50
7197 9860 2.492088 TGACATACTGAGGTCGACAAGG 59.508 50.000 18.91 6.69 39.28 3.61
7198 9861 3.850122 TGACATACTGAGGTCGACAAG 57.150 47.619 18.91 13.61 39.28 3.16
7199 9862 4.801330 ATTGACATACTGAGGTCGACAA 57.199 40.909 18.91 1.00 39.28 3.18
7200 9863 4.948004 ACTATTGACATACTGAGGTCGACA 59.052 41.667 18.91 0.00 39.28 4.35
7201 9864 5.502153 ACTATTGACATACTGAGGTCGAC 57.498 43.478 7.13 7.13 39.28 4.20
7202 9865 8.947115 CATATACTATTGACATACTGAGGTCGA 58.053 37.037 0.00 0.00 39.28 4.20
7203 9866 8.731605 ACATATACTATTGACATACTGAGGTCG 58.268 37.037 0.00 0.00 39.28 4.79
7245 9922 2.051614 CAGCAACACAGCACTGCG 60.052 61.111 0.00 0.00 41.05 5.18
7272 9949 1.842720 ACAAACAACGACGACGATGA 58.157 45.000 22.16 0.00 43.20 2.92
7414 10092 9.530633 GATTCGCCCTAGGTATATATTTTACAG 57.469 37.037 8.29 0.00 0.00 2.74
7415 10093 9.038072 TGATTCGCCCTAGGTATATATTTTACA 57.962 33.333 8.29 0.00 0.00 2.41
7426 10104 1.760613 CCAACTGATTCGCCCTAGGTA 59.239 52.381 8.29 0.00 0.00 3.08
7427 10105 0.541863 CCAACTGATTCGCCCTAGGT 59.458 55.000 8.29 0.00 0.00 3.08
7428 10106 0.830648 TCCAACTGATTCGCCCTAGG 59.169 55.000 0.06 0.06 0.00 3.02
7429 10107 1.802880 CGTCCAACTGATTCGCCCTAG 60.803 57.143 0.00 0.00 0.00 3.02
7430 10108 0.174845 CGTCCAACTGATTCGCCCTA 59.825 55.000 0.00 0.00 0.00 3.53
7431 10109 1.079127 CGTCCAACTGATTCGCCCT 60.079 57.895 0.00 0.00 0.00 5.19
7432 10110 0.953960 AACGTCCAACTGATTCGCCC 60.954 55.000 0.00 0.00 0.00 6.13
7433 10111 0.165944 CAACGTCCAACTGATTCGCC 59.834 55.000 0.00 0.00 0.00 5.54
7434 10112 0.865769 ACAACGTCCAACTGATTCGC 59.134 50.000 0.00 0.00 0.00 4.70
7435 10113 4.718858 TTTACAACGTCCAACTGATTCG 57.281 40.909 0.00 0.00 0.00 3.34
7436 10114 6.295039 TCTTTTACAACGTCCAACTGATTC 57.705 37.500 0.00 0.00 0.00 2.52
7437 10115 5.277828 GCTCTTTTACAACGTCCAACTGATT 60.278 40.000 0.00 0.00 0.00 2.57
7438 10116 4.213482 GCTCTTTTACAACGTCCAACTGAT 59.787 41.667 0.00 0.00 0.00 2.90
7439 10117 3.558418 GCTCTTTTACAACGTCCAACTGA 59.442 43.478 0.00 0.00 0.00 3.41
7440 10118 3.311322 TGCTCTTTTACAACGTCCAACTG 59.689 43.478 0.00 0.00 0.00 3.16
7441 10119 3.311596 GTGCTCTTTTACAACGTCCAACT 59.688 43.478 0.00 0.00 0.00 3.16
7448 10126 4.982916 ACAGACTAGTGCTCTTTTACAACG 59.017 41.667 0.00 0.00 0.00 4.10
7460 10138 3.467803 ACTTCCAAACACAGACTAGTGC 58.532 45.455 0.00 0.00 43.23 4.40
7464 10142 7.825270 TCTTTTACAACTTCCAAACACAGACTA 59.175 33.333 0.00 0.00 0.00 2.59
7495 12133 3.320826 TGCTGCTCTACACAAACAGACTA 59.679 43.478 0.00 0.00 0.00 2.59
7499 12137 3.065233 TGTTTGCTGCTCTACACAAACAG 59.935 43.478 14.22 0.00 45.12 3.16
7508 12148 3.071023 ACTTACAGGTGTTTGCTGCTCTA 59.929 43.478 0.00 0.00 0.00 2.43
7523 12163 2.909244 CGAACACGTCTGCTACTTACAG 59.091 50.000 0.00 0.00 36.44 2.74
7526 12166 3.688185 AGATCGAACACGTCTGCTACTTA 59.312 43.478 0.00 0.00 0.00 2.24
7531 12171 1.000163 ACAAGATCGAACACGTCTGCT 60.000 47.619 0.00 0.00 0.00 4.24
7538 12178 4.530094 TGACAACAACAAGATCGAACAC 57.470 40.909 0.00 0.00 0.00 3.32
7542 12182 4.578516 ACCAATTGACAACAACAAGATCGA 59.421 37.500 7.12 0.00 38.90 3.59
7552 12192 1.107114 AACCGCACCAATTGACAACA 58.893 45.000 7.12 0.00 0.00 3.33
7570 12242 8.208224 ACAGTCACATGATAATCGGGTAATTAA 58.792 33.333 0.00 0.00 0.00 1.40
7585 12257 7.050970 AGTACTTTTACTCACAGTCACATGA 57.949 36.000 0.00 0.00 32.67 3.07
7594 12266 7.571025 AGGAAAGGAAAGTACTTTTACTCACA 58.429 34.615 21.40 0.00 39.09 3.58
7604 12276 4.908481 ACTTGGAGAGGAAAGGAAAGTACT 59.092 41.667 0.00 0.00 0.00 2.73
7608 12280 3.560239 GGGACTTGGAGAGGAAAGGAAAG 60.560 52.174 0.00 0.00 0.00 2.62
7620 12292 0.251341 CAAGGGGTTGGGACTTGGAG 60.251 60.000 0.00 0.00 38.29 3.86
7650 12323 4.276926 ACAGAGATTCAGCAAGGAAAACAC 59.723 41.667 0.00 0.00 0.00 3.32
7652 12325 5.444663 AACAGAGATTCAGCAAGGAAAAC 57.555 39.130 0.00 0.00 0.00 2.43
7671 12344 9.952030 TGCAAGATTTCGGGATTATATATAACA 57.048 29.630 7.34 0.00 0.00 2.41
7683 12356 2.556622 GGAACTTTGCAAGATTTCGGGA 59.443 45.455 0.00 0.00 0.00 5.14
7686 12359 5.119125 GGAAATGGAACTTTGCAAGATTTCG 59.881 40.000 0.00 0.00 30.51 3.46
7716 12389 5.049060 GCCATGACAGTACATTGTTACACAA 60.049 40.000 0.00 0.00 42.95 3.33
7717 12390 4.454161 GCCATGACAGTACATTGTTACACA 59.546 41.667 0.00 0.00 0.00 3.72
7726 12768 3.261643 TGAACTGAGCCATGACAGTACAT 59.738 43.478 16.16 5.71 44.94 2.29
7727 12769 2.632512 TGAACTGAGCCATGACAGTACA 59.367 45.455 16.16 0.00 44.94 2.90
7733 12775 1.677217 GGAGGTGAACTGAGCCATGAC 60.677 57.143 0.00 0.00 0.00 3.06
7757 12799 2.897271 TGTTAATGACACATGCCCCT 57.103 45.000 0.00 0.00 32.00 4.79
7769 12811 8.775220 TGTTTTACAGATCGTTTGTGTTAATG 57.225 30.769 0.00 0.00 0.00 1.90
7771 12813 9.440784 GAATGTTTTACAGATCGTTTGTGTTAA 57.559 29.630 0.00 0.00 0.00 2.01
7774 12816 6.262273 AGGAATGTTTTACAGATCGTTTGTGT 59.738 34.615 0.00 0.00 0.00 3.72
7782 12824 6.349300 TCAGCCTAGGAATGTTTTACAGATC 58.651 40.000 14.75 0.00 0.00 2.75
7785 12827 6.238211 CGATTCAGCCTAGGAATGTTTTACAG 60.238 42.308 14.75 0.00 35.23 2.74
7793 12835 1.071385 AGCCGATTCAGCCTAGGAATG 59.929 52.381 14.75 10.63 35.23 2.67
7796 12838 1.402896 CCAGCCGATTCAGCCTAGGA 61.403 60.000 14.75 0.00 0.00 2.94
7812 13222 5.238650 ACTCGTGGTCTTTTACAATTTCCAG 59.761 40.000 0.00 0.00 0.00 3.86
7814 13224 5.684550 ACTCGTGGTCTTTTACAATTTCC 57.315 39.130 0.00 0.00 0.00 3.13
7818 13228 6.228258 ACACATACTCGTGGTCTTTTACAAT 58.772 36.000 0.00 0.00 41.38 2.71
7833 13243 4.092091 GCTGCTCTACACAAACACATACTC 59.908 45.833 0.00 0.00 0.00 2.59
7837 13247 2.849942 TGCTGCTCTACACAAACACAT 58.150 42.857 0.00 0.00 0.00 3.21
7838 13248 2.323968 TGCTGCTCTACACAAACACA 57.676 45.000 0.00 0.00 0.00 3.72
7850 13260 1.601412 GCTTTCAGGTGTTTGCTGCTC 60.601 52.381 0.00 0.00 0.00 4.26
7851 13261 0.386838 GCTTTCAGGTGTTTGCTGCT 59.613 50.000 0.00 0.00 0.00 4.24
7855 13265 1.661509 GCCGCTTTCAGGTGTTTGC 60.662 57.895 0.00 0.00 0.00 3.68
7866 13276 1.026182 TCGAATGCATCTGCCGCTTT 61.026 50.000 0.00 0.00 41.18 3.51
7870 13280 0.659427 AACATCGAATGCATCTGCCG 59.341 50.000 0.00 1.95 41.18 5.69
7877 13287 3.065925 TGACAACAACAACATCGAATGCA 59.934 39.130 0.00 0.00 0.00 3.96
7879 13289 6.034363 TGTTTTGACAACAACAACATCGAATG 59.966 34.615 11.19 0.00 34.99 2.67
7880 13290 6.096036 TGTTTTGACAACAACAACATCGAAT 58.904 32.000 11.19 0.00 34.99 3.34
7882 13292 5.048153 TGTTTTGACAACAACAACATCGA 57.952 34.783 11.19 0.00 34.99 3.59
7887 13297 9.006215 GTTACTCTATGTTTTGACAACAACAAC 57.994 33.333 15.21 6.73 35.63 3.32
7905 13315 9.959749 GAACACAAAATTCCAAATGTTACTCTA 57.040 29.630 0.00 0.00 30.72 2.43
7907 13317 7.434013 ACGAACACAAAATTCCAAATGTTACTC 59.566 33.333 0.00 0.00 30.72 2.59
7950 13360 9.952030 TTTTACTCATAGTCATGTGGTAATCAA 57.048 29.630 0.00 0.00 34.67 2.57
7951 13361 9.599866 CTTTTACTCATAGTCATGTGGTAATCA 57.400 33.333 0.00 0.00 34.67 2.57
7960 13370 9.877178 AGGAAAGTACTTTTACTCATAGTCATG 57.123 33.333 21.40 0.00 34.78 3.07
7967 13377 8.661345 AGAGGAAAGGAAAGTACTTTTACTCAT 58.339 33.333 23.09 15.42 39.09 2.90
7980 14110 2.816672 GGACTTGCAGAGGAAAGGAAAG 59.183 50.000 0.00 0.00 33.56 2.62
7994 14124 0.251787 ATCAAGGGGTTGGGACTTGC 60.252 55.000 0.00 0.00 40.93 4.01
8026 14157 0.547471 AAGGGAATTTGGCAAGGGGG 60.547 55.000 0.00 0.00 0.00 5.40
8027 14158 0.614812 CAAGGGAATTTGGCAAGGGG 59.385 55.000 0.00 0.00 0.00 4.79
8028 14159 1.643310 TCAAGGGAATTTGGCAAGGG 58.357 50.000 0.00 0.00 0.00 3.95
8035 14166 6.884295 TCGGGCTTATATATCAAGGGAATTTG 59.116 38.462 0.00 0.00 0.00 2.32
8040 14171 6.443849 AGATTTCGGGCTTATATATCAAGGGA 59.556 38.462 0.00 0.00 0.00 4.20
8058 14189 8.795786 TGAAAATGGAACTTTGTAAGATTTCG 57.204 30.769 0.00 0.00 0.00 3.46
8067 14198 5.778862 CCGGTAATGAAAATGGAACTTTGT 58.221 37.500 0.00 0.00 0.00 2.83
8081 14212 0.458197 CCGTGTTACGCCGGTAATGA 60.458 55.000 1.90 0.00 40.53 2.57
8091 14222 3.103738 GCTGTGATAGTACCGTGTTACG 58.896 50.000 0.00 0.00 42.11 3.18
8098 14229 3.128764 TGAACTGAGCTGTGATAGTACCG 59.871 47.826 0.00 0.00 0.00 4.02
8104 14235 2.497675 GGAGGTGAACTGAGCTGTGATA 59.502 50.000 0.00 0.00 0.00 2.15
8105 14236 1.277557 GGAGGTGAACTGAGCTGTGAT 59.722 52.381 0.00 0.00 0.00 3.06
8107 14238 0.668706 CGGAGGTGAACTGAGCTGTG 60.669 60.000 0.00 0.00 0.00 3.66
8109 14240 1.668294 ACGGAGGTGAACTGAGCTG 59.332 57.895 0.00 0.00 0.00 4.24
8110 14241 4.199804 ACGGAGGTGAACTGAGCT 57.800 55.556 0.00 0.00 0.00 4.09
8128 14259 0.108756 GTTAGTGACTCAGGCCCGTC 60.109 60.000 0.00 4.64 0.00 4.79
8137 14268 6.604735 ACAGATTGTTTGTGTTAGTGACTC 57.395 37.500 0.00 0.00 0.00 3.36
8138 14269 8.500753 TTTACAGATTGTTTGTGTTAGTGACT 57.499 30.769 0.00 0.00 0.00 3.41
8165 14296 8.421784 ACTTTCAACCGATTCAGCTTAGATATA 58.578 33.333 0.00 0.00 0.00 0.86
8173 14304 6.385649 TTTTAACTTTCAACCGATTCAGCT 57.614 33.333 0.00 0.00 0.00 4.24
8222 14724 1.035139 CTTCCAGGTGTTTGCTGCTT 58.965 50.000 0.00 0.00 0.00 3.91
8243 14745 3.193479 AGACAAGATCTGACACGTATGCA 59.807 43.478 0.00 0.00 35.81 3.96
8247 14749 5.196341 ACAAAGACAAGATCTGACACGTA 57.804 39.130 0.00 0.00 37.88 3.57
8255 14757 8.450578 TGTATGTTTTGACAAAGACAAGATCT 57.549 30.769 15.21 0.00 40.46 2.75
8265 14767 9.307121 CCAAATGTTACTGTATGTTTTGACAAA 57.693 29.630 13.75 0.00 29.06 2.83
8279 14781 7.221838 ACGAACACAAAATTCCAAATGTTACTG 59.778 33.333 0.00 0.00 30.72 2.74


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

AutoCloner maintained by Alex Coulton.