Multiple sequence alignment - TraesCS2D01G291500

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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 TraesCS2D01G291500 chr2D 100.000 5443 0 0 1 5443 373678969 373673527 0.000000e+00 10052.0
1 TraesCS2D01G291500 chr2D 84.043 188 28 1 5150 5337 201822613 201822798 4.330000e-41 180.0
2 TraesCS2D01G291500 chr2D 76.471 153 25 8 4828 4974 10318501 10318354 7.560000e-09 73.1
3 TraesCS2D01G291500 chr2B 96.335 2128 47 11 1812 3933 443158067 443155965 0.000000e+00 3469.0
4 TraesCS2D01G291500 chr2B 95.687 1855 55 11 1 1850 443159896 443158062 0.000000e+00 2959.0
5 TraesCS2D01G291500 chr2B 90.945 1005 27 14 3916 4868 443155379 443154387 0.000000e+00 1293.0
6 TraesCS2D01G291500 chr2B 91.685 445 24 2 4904 5348 443154387 443153956 6.030000e-169 604.0
7 TraesCS2D01G291500 chr2B 93.939 99 2 2 5347 5441 530131052 530131150 4.390000e-31 147.0
8 TraesCS2D01G291500 chr2B 83.562 146 20 4 4799 4941 77788777 77788633 3.420000e-27 134.0
9 TraesCS2D01G291500 chr2A 93.248 2177 110 25 10 2169 505085889 505083733 0.000000e+00 3171.0
10 TraesCS2D01G291500 chr2A 86.653 974 67 32 3127 4082 505082054 505081126 0.000000e+00 1020.0
11 TraesCS2D01G291500 chr2A 86.482 614 41 23 4196 4794 505081120 505080534 2.140000e-178 636.0
12 TraesCS2D01G291500 chr2A 91.667 216 17 1 2528 2742 505082790 505082575 1.150000e-76 298.0
13 TraesCS2D01G291500 chr2A 91.919 198 11 4 2743 2936 505082546 505082350 6.950000e-69 272.0
14 TraesCS2D01G291500 chr2A 90.503 179 12 5 2961 3138 505082282 505082108 1.180000e-56 231.0
15 TraesCS2D01G291500 chr2A 87.692 195 22 1 5150 5344 565240007 565239815 5.490000e-55 226.0
16 TraesCS2D01G291500 chr7D 91.333 300 24 2 2236 2533 274697441 274697740 5.070000e-110 409.0
17 TraesCS2D01G291500 chr7D 91.346 104 5 2 5342 5441 377632543 377632646 7.350000e-29 139.0
18 TraesCS2D01G291500 chr7D 91.429 105 4 3 5341 5441 584937365 584937468 7.350000e-29 139.0
19 TraesCS2D01G291500 chr7D 90.566 106 4 4 5341 5441 463716736 463716840 9.510000e-28 135.0
20 TraesCS2D01G291500 chr7D 97.222 36 1 0 5110 5145 384987206 384987241 1.640000e-05 62.1
21 TraesCS2D01G291500 chr7A 90.816 294 24 3 2243 2533 307959909 307960202 1.840000e-104 390.0
22 TraesCS2D01G291500 chr7A 80.886 361 51 9 4799 5151 232754748 232754398 8.990000e-68 268.0
23 TraesCS2D01G291500 chr7A 78.445 283 44 8 4874 5151 118162370 118162640 9.380000e-38 169.0
24 TraesCS2D01G291500 chr7A 75.625 160 33 6 4799 4954 100194769 100194612 2.100000e-09 75.0
25 TraesCS2D01G291500 chr4D 90.301 299 27 2 2236 2532 98888409 98888111 1.840000e-104 390.0
26 TraesCS2D01G291500 chr4D 88.710 186 18 3 3578 3762 463340052 463339869 1.970000e-54 224.0
27 TraesCS2D01G291500 chr3D 89.967 299 28 2 2236 2532 469481524 469481226 8.550000e-103 385.0
28 TraesCS2D01G291500 chr3D 77.778 333 49 13 4814 5122 598753172 598753503 1.200000e-41 182.0
29 TraesCS2D01G291500 chr3D 92.929 99 2 3 5347 5441 295898623 295898720 7.350000e-29 139.0
30 TraesCS2D01G291500 chr3D 83.206 131 19 3 4833 4961 467479400 467479529 3.440000e-22 117.0
31 TraesCS2D01G291500 chr3B 90.000 300 26 4 2236 2532 154190618 154190320 8.550000e-103 385.0
32 TraesCS2D01G291500 chr3B 79.412 204 40 1 5150 5353 685877423 685877222 5.680000e-30 143.0
33 TraesCS2D01G291500 chr3B 87.209 86 8 2 5063 5146 4318490 4318406 1.610000e-15 95.3
34 TraesCS2D01G291500 chr3B 78.689 122 23 3 4842 4961 4318683 4318563 1.630000e-10 78.7
35 TraesCS2D01G291500 chr5D 89.109 303 28 5 2234 2531 287426940 287426638 6.660000e-99 372.0
36 TraesCS2D01G291500 chr5D 85.366 205 27 3 3540 3742 189266485 189266282 5.520000e-50 209.0
37 TraesCS2D01G291500 chr5D 78.715 249 49 4 3537 3782 395617442 395617195 4.360000e-36 163.0
38 TraesCS2D01G291500 chr5D 75.148 338 61 19 4828 5147 504814035 504813703 2.640000e-28 137.0
39 TraesCS2D01G291500 chr5D 77.027 148 29 2 5193 5337 388066147 388066002 4.520000e-11 80.5
40 TraesCS2D01G291500 chr7B 88.779 303 31 3 2236 2536 444715341 444715642 8.610000e-98 368.0
41 TraesCS2D01G291500 chr7B 83.051 118 17 1 5153 5270 648389883 648389769 2.680000e-18 104.0
42 TraesCS2D01G291500 chr1B 88.816 304 28 6 2236 2536 50558326 50558626 8.610000e-98 368.0
43 TraesCS2D01G291500 chr1B 94.737 95 1 2 5351 5441 332255455 332255361 1.580000e-30 145.0
44 TraesCS2D01G291500 chr4B 89.286 196 18 3 3568 3762 578675596 578675403 5.450000e-60 243.0
45 TraesCS2D01G291500 chr4B 83.838 198 26 4 3566 3762 578445169 578444977 3.350000e-42 183.0
46 TraesCS2D01G291500 chr4B 83.838 198 26 4 3566 3762 578490702 578490510 3.350000e-42 183.0
47 TraesCS2D01G291500 chr4B 82.828 198 28 4 3566 3762 578360898 578360706 7.250000e-39 172.0
48 TraesCS2D01G291500 chr4B 94.595 37 2 0 2949 2985 646237568 646237604 2.120000e-04 58.4
49 TraesCS2D01G291500 chr4A 88.265 196 20 3 3568 3762 6343120 6343313 1.180000e-56 231.0
50 TraesCS2D01G291500 chr4A 83.857 223 28 7 3542 3762 6489978 6490194 7.150000e-49 206.0
51 TraesCS2D01G291500 chr5A 85.854 205 27 2 3540 3742 231299118 231299322 3.300000e-52 217.0
52 TraesCS2D01G291500 chr5B 82.902 193 23 5 5147 5337 507169899 507170083 1.210000e-36 165.0
53 TraesCS2D01G291500 chr5B 89.815 108 6 3 5339 5441 257052427 257052534 3.420000e-27 134.0
54 TraesCS2D01G291500 chr5B 88.596 114 7 4 5334 5441 290663758 290663645 3.420000e-27 134.0
55 TraesCS2D01G291500 chrUn 81.592 201 29 3 5150 5350 24632507 24632699 5.640000e-35 159.0
56 TraesCS2D01G291500 chr6D 83.230 161 25 1 4989 5147 127468738 127468898 4.390000e-31 147.0
57 TraesCS2D01G291500 chr6D 93.846 65 3 1 4799 4862 108169613 108169677 4.490000e-16 97.1
58 TraesCS2D01G291500 chr6D 77.273 176 30 7 5142 5311 380994722 380994551 1.610000e-15 95.3
59 TraesCS2D01G291500 chr6D 81.197 117 17 5 4828 4941 343137308 343137194 7.510000e-14 89.8
60 TraesCS2D01G291500 chr1D 92.929 99 2 3 5347 5441 254236484 254236581 7.350000e-29 139.0
61 TraesCS2D01G291500 chr1D 79.592 196 23 4 5150 5345 437006412 437006590 2.060000e-24 124.0
62 TraesCS2D01G291500 chr1D 79.688 128 25 1 4828 4954 377956555 377956428 2.090000e-14 91.6
63 TraesCS2D01G291500 chr3A 85.156 128 17 1 5210 5337 369489905 369490030 4.420000e-26 130.0
64 TraesCS2D01G291500 chr3A 80.892 157 22 6 4994 5145 112408168 112408321 3.440000e-22 117.0
65 TraesCS2D01G291500 chr3A 76.471 170 35 5 3573 3739 359662842 359663009 2.700000e-13 87.9
66 TraesCS2D01G291500 chr3A 78.512 121 15 7 4835 4952 23483469 23483357 9.780000e-08 69.4


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 TraesCS2D01G291500 chr2D 373673527 373678969 5442 True 10052.00 10052 100.000000 1 5443 1 chr2D.!!$R2 5442
1 TraesCS2D01G291500 chr2B 443153956 443159896 5940 True 2081.25 3469 93.663000 1 5348 4 chr2B.!!$R2 5347
2 TraesCS2D01G291500 chr2A 505080534 505085889 5355 True 938.00 3171 90.078667 10 4794 6 chr2A.!!$R2 4784

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
280 281 0.036010 CCCAGCCGTTGATCTCAGTT 60.036 55.000 0.00 0.0 0.00 3.16 F
762 783 0.735632 GAGAGTGGCGCTTGAGTCAG 60.736 60.000 7.64 0.0 0.00 3.51 F
769 790 1.302033 CGCTTGAGTCAGGGTGCTT 60.302 57.895 4.22 0.0 0.00 3.91 F
888 909 1.303317 TGCTTCGCTTTCCTTCCCC 60.303 57.895 0.00 0.0 0.00 4.81 F
1403 1431 1.606189 TGCACTTGCGCTTATTTGTGA 59.394 42.857 9.73 0.0 45.83 3.58 F
2900 3882 2.288579 TGTTGTACCTACTGCTTGGTCG 60.289 50.000 0.00 0.0 37.74 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1850 1878 1.001378 CAGGAGCCTTTGGTTTTGTCG 60.001 52.381 0.00 0.0 0.00 4.35 R
1852 1880 2.159179 ACAGGAGCCTTTGGTTTTGT 57.841 45.000 0.00 0.0 0.00 2.83 R
1853 1881 3.541996 AAACAGGAGCCTTTGGTTTTG 57.458 42.857 0.00 0.0 0.00 2.44 R
2746 3697 3.818773 GGCAAGCTTAGACAACCAAGTAA 59.181 43.478 0.00 0.0 0.00 2.24 R
2903 3885 2.517553 TCAGTCCATCCCTCTCTCTCAT 59.482 50.000 0.00 0.0 0.00 2.90 R
4799 6576 1.082104 GAAAACTTGCAGGTCGCCG 60.082 57.895 0.32 0.0 41.33 6.46 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
46 47 1.668919 CGGAAGTACAGAAGCGCAAGA 60.669 52.381 11.47 0.00 43.02 3.02
96 97 2.621556 AGGAAGGAGAGAGCTGAAGT 57.378 50.000 0.00 0.00 0.00 3.01
234 235 1.423845 CGTCCGTGTGCCATTTAGC 59.576 57.895 0.00 0.00 0.00 3.09
279 280 0.904865 TCCCAGCCGTTGATCTCAGT 60.905 55.000 0.00 0.00 0.00 3.41
280 281 0.036010 CCCAGCCGTTGATCTCAGTT 60.036 55.000 0.00 0.00 0.00 3.16
364 367 5.820947 ACTAAAATATTCGGCCCAGTTACAG 59.179 40.000 0.00 0.00 0.00 2.74
369 372 0.978151 TCGGCCCAGTTACAGCTTTA 59.022 50.000 0.00 0.00 0.00 1.85
454 460 4.091509 CACGAGTGTTACTGAGGCATAAAC 59.908 45.833 0.00 0.00 0.00 2.01
482 489 2.108425 GTTCCTCTTGTTCCTCCCCTTT 59.892 50.000 0.00 0.00 0.00 3.11
513 520 1.885850 AGTTGGTTGCCACGACGAC 60.886 57.895 0.00 0.00 30.78 4.34
621 629 1.194121 ATTTCCCCTGGTTTGGCTGC 61.194 55.000 0.00 0.00 0.00 5.25
626 634 2.703798 CCTGGTTTGGCTGCGATGG 61.704 63.158 0.00 0.00 0.00 3.51
631 639 1.540146 GGTTTGGCTGCGATGGTTTTT 60.540 47.619 0.00 0.00 0.00 1.94
635 643 1.250840 GGCTGCGATGGTTTTTCCCT 61.251 55.000 0.00 0.00 34.77 4.20
756 777 2.743928 GGGTGAGAGTGGCGCTTG 60.744 66.667 7.64 0.00 0.00 4.01
757 778 2.343758 GGTGAGAGTGGCGCTTGA 59.656 61.111 7.64 0.00 0.00 3.02
758 779 1.739562 GGTGAGAGTGGCGCTTGAG 60.740 63.158 7.64 0.00 0.00 3.02
759 780 1.005630 GTGAGAGTGGCGCTTGAGT 60.006 57.895 7.64 0.00 0.00 3.41
760 781 1.011451 GTGAGAGTGGCGCTTGAGTC 61.011 60.000 7.64 4.33 0.00 3.36
761 782 1.290324 GAGAGTGGCGCTTGAGTCA 59.710 57.895 7.64 0.00 0.00 3.41
762 783 0.735632 GAGAGTGGCGCTTGAGTCAG 60.736 60.000 7.64 0.00 0.00 3.51
763 784 1.739562 GAGTGGCGCTTGAGTCAGG 60.740 63.158 7.64 0.00 0.00 3.86
764 785 2.743928 GTGGCGCTTGAGTCAGGG 60.744 66.667 7.64 3.72 0.00 4.45
765 786 3.241530 TGGCGCTTGAGTCAGGGT 61.242 61.111 7.64 0.00 0.00 4.34
766 787 2.743928 GGCGCTTGAGTCAGGGTG 60.744 66.667 7.64 4.62 0.00 4.61
767 788 3.426568 GCGCTTGAGTCAGGGTGC 61.427 66.667 14.68 14.68 0.00 5.01
768 789 2.345244 CGCTTGAGTCAGGGTGCT 59.655 61.111 4.22 0.00 0.00 4.40
769 790 1.302033 CGCTTGAGTCAGGGTGCTT 60.302 57.895 4.22 0.00 0.00 3.91
880 901 1.332997 GCATATCTGCTGCTTCGCTTT 59.667 47.619 0.00 0.00 45.32 3.51
888 909 1.303317 TGCTTCGCTTTCCTTCCCC 60.303 57.895 0.00 0.00 0.00 4.81
910 931 2.226674 GCAGAGTGAAACAAGCCTAACC 59.773 50.000 0.00 0.00 41.43 2.85
1061 1082 7.035004 ACTTTATGTTATTGTTACTCGCCGTA 58.965 34.615 0.00 0.00 0.00 4.02
1110 1132 5.069383 TGGATCGGGTTTAATACGAATGAGA 59.931 40.000 0.00 0.00 40.27 3.27
1178 1203 4.806640 CCCTTGTGGCATGTTTATCTTT 57.193 40.909 0.00 0.00 0.00 2.52
1184 1209 4.458989 TGTGGCATGTTTATCTTTGAGGTC 59.541 41.667 0.00 0.00 0.00 3.85
1230 1255 1.700739 ACCACAAATCCAGGGACGTTA 59.299 47.619 0.00 0.00 0.00 3.18
1248 1273 3.425525 CGTTAGTGTTATAGCTGCATCCG 59.574 47.826 1.02 0.00 0.00 4.18
1250 1275 3.819564 AGTGTTATAGCTGCATCCGAA 57.180 42.857 1.02 0.00 0.00 4.30
1279 1305 4.909696 TCATTGCCAACGAGAAAAGAAA 57.090 36.364 0.00 0.00 0.00 2.52
1280 1306 4.606961 TCATTGCCAACGAGAAAAGAAAC 58.393 39.130 0.00 0.00 0.00 2.78
1282 1308 2.011222 TGCCAACGAGAAAAGAAACGT 58.989 42.857 0.00 0.00 40.64 3.99
1290 1316 3.001330 CGAGAAAAGAAACGTGAACTGCT 59.999 43.478 0.00 0.00 0.00 4.24
1318 1344 5.924254 ACATTTTGTCTCAGCACATTGAATG 59.076 36.000 3.16 3.16 32.82 2.67
1345 1371 9.989394 GCGTTTTTCATTTCTAGAAACAATAAC 57.011 29.630 19.94 20.63 34.94 1.89
1403 1431 1.606189 TGCACTTGCGCTTATTTGTGA 59.394 42.857 9.73 0.00 45.83 3.58
1782 1810 7.649533 TGATATTGAGCCATTTTGTCAAGAT 57.350 32.000 0.00 0.00 35.40 2.40
1785 1813 5.381174 TTGAGCCATTTTGTCAAGATGAG 57.619 39.130 15.80 8.35 0.00 2.90
2404 3354 5.923204 AGAACATTAGCCTAGACTCAATGG 58.077 41.667 0.00 0.00 32.20 3.16
2410 3360 7.836183 ACATTAGCCTAGACTCAATGGAAAAAT 59.164 33.333 0.00 0.00 32.20 1.82
2442 3392 5.705902 TGTGCATCAAATGACATCTCTTTG 58.294 37.500 0.00 0.00 0.00 2.77
2449 3399 7.092137 TCAAATGACATCTCTTTGCTTATGG 57.908 36.000 0.00 0.00 31.50 2.74
2463 3413 7.503230 TCTTTGCTTATGGAATTGAGATGCATA 59.497 33.333 0.00 0.00 30.98 3.14
2742 3693 7.466746 AAGTACTGAACGGTGTAATAACCTA 57.533 36.000 0.00 0.00 38.14 3.08
2743 3694 7.651027 AGTACTGAACGGTGTAATAACCTAT 57.349 36.000 0.00 0.00 38.14 2.57
2744 3695 8.752005 AGTACTGAACGGTGTAATAACCTATA 57.248 34.615 0.00 0.00 38.14 1.31
2745 3696 8.624776 AGTACTGAACGGTGTAATAACCTATAC 58.375 37.037 0.00 0.00 38.14 1.47
2746 3697 7.651027 ACTGAACGGTGTAATAACCTATACT 57.349 36.000 0.00 0.00 38.14 2.12
2900 3882 2.288579 TGTTGTACCTACTGCTTGGTCG 60.289 50.000 0.00 0.00 37.74 4.79
2903 3885 1.542915 GTACCTACTGCTTGGTCGTGA 59.457 52.381 0.00 0.00 37.74 4.35
2956 3974 2.355132 CTCTGTAGTACCTGGTAGCGTG 59.645 54.545 6.84 0.00 0.00 5.34
3048 4073 2.751166 GCTAGAGCTTGGTGAGAACA 57.249 50.000 0.00 0.00 38.21 3.18
3087 4112 9.985730 TTTTCTATGAAAGTTCATGCAAAAGAT 57.014 25.926 15.30 0.00 46.68 2.40
3131 4156 8.818057 GTGCTCCCATATTATTTAGTTATAGCG 58.182 37.037 0.00 0.00 0.00 4.26
3165 4255 2.000447 GCAGTAGTTTGTTAGGCCTCG 59.000 52.381 9.68 0.00 0.00 4.63
3244 4335 1.822990 TCTGGATTACCTCGTGACCAC 59.177 52.381 0.00 0.00 37.04 4.16
3763 4868 3.696045 AGGTGCATGTTGGCTATAAACA 58.304 40.909 0.00 0.00 41.50 2.83
3807 4913 3.193267 TCATTTGCATTGTAGCCAAGGAC 59.807 43.478 0.00 0.00 34.33 3.85
3831 4937 8.115491 ACGAAAATTTTCTAGTTTTGCAGTTC 57.885 30.769 24.53 0.00 35.07 3.01
3841 4947 5.489792 AGTTTTGCAGTTCAGGAGATAGA 57.510 39.130 0.00 0.00 0.00 1.98
3988 5699 0.322975 TTCTGGCTTCCTCTGCTCAC 59.677 55.000 0.00 0.00 0.00 3.51
3994 5705 1.939255 GCTTCCTCTGCTCACTATTGC 59.061 52.381 0.00 0.00 0.00 3.56
4004 5717 0.830648 TCACTATTGCGAAGGGGAGG 59.169 55.000 0.00 0.00 0.00 4.30
4083 5796 8.753133 CCATAGTCTATATCTGCAGTGGAATTA 58.247 37.037 14.67 0.00 0.00 1.40
4156 5869 3.743269 GCAAGGGTAATGTAGCATACCGT 60.743 47.826 0.00 0.00 42.12 4.83
4157 5870 4.501915 GCAAGGGTAATGTAGCATACCGTA 60.502 45.833 0.00 0.00 42.12 4.02
4158 5871 5.227908 CAAGGGTAATGTAGCATACCGTAG 58.772 45.833 0.00 0.00 42.12 3.51
4522 6255 4.219288 GGCAATGTCATCCACTCTTTCTTT 59.781 41.667 0.00 0.00 0.00 2.52
4626 6362 5.914898 ATGGAAATACTTGGCCTGTAAAC 57.085 39.130 3.32 3.89 0.00 2.01
4630 6366 2.871096 TACTTGGCCTGTAAACCCTG 57.129 50.000 3.32 0.00 0.00 4.45
4706 6461 2.767505 ACGGACAGTCTGGATTGTTTC 58.232 47.619 14.20 0.00 31.12 2.78
4755 6532 3.449377 TGCACTCAATTCGGATAGTGGTA 59.551 43.478 8.39 0.00 39.75 3.25
4799 6576 2.036862 CGTAGGATAGGGTTTAGGGCAC 59.963 54.545 0.00 0.00 0.00 5.01
4825 6602 1.135575 CCTGCAAGTTTTCTCCGCATC 60.136 52.381 0.00 0.00 37.53 3.91
4829 6606 1.128692 CAAGTTTTCTCCGCATCCGTC 59.871 52.381 0.00 0.00 0.00 4.79
4862 6639 4.209866 GGGAGGCCGCCATCCAAT 62.210 66.667 28.06 0.00 37.33 3.16
4867 6644 1.181098 AGGCCGCCATCCAATATTGC 61.181 55.000 13.15 0.00 0.00 3.56
4868 6645 1.290009 GCCGCCATCCAATATTGCC 59.710 57.895 10.11 0.00 0.00 4.52
4869 6646 1.580942 CCGCCATCCAATATTGCCG 59.419 57.895 10.11 6.78 0.00 5.69
4870 6647 1.580942 CGCCATCCAATATTGCCGG 59.419 57.895 10.11 10.18 0.00 6.13
4871 6648 1.290009 GCCATCCAATATTGCCGGC 59.710 57.895 22.73 22.73 0.00 6.13
4872 6649 1.462731 GCCATCCAATATTGCCGGCA 61.463 55.000 29.03 29.03 36.12 5.69
4873 6650 1.259609 CCATCCAATATTGCCGGCAT 58.740 50.000 33.25 22.08 0.00 4.40
4874 6651 2.445427 CCATCCAATATTGCCGGCATA 58.555 47.619 33.25 23.50 0.00 3.14
4875 6652 2.164219 CCATCCAATATTGCCGGCATAC 59.836 50.000 33.25 0.00 0.00 2.39
4876 6653 2.647683 TCCAATATTGCCGGCATACA 57.352 45.000 33.25 17.27 0.00 2.29
4877 6654 3.153369 TCCAATATTGCCGGCATACAT 57.847 42.857 33.25 23.48 0.00 2.29
4878 6655 3.495331 TCCAATATTGCCGGCATACATT 58.505 40.909 33.25 24.70 0.00 2.71
4879 6656 3.894427 TCCAATATTGCCGGCATACATTT 59.106 39.130 33.25 16.60 0.00 2.32
4880 6657 3.989167 CCAATATTGCCGGCATACATTTG 59.011 43.478 33.25 25.62 0.00 2.32
4881 6658 3.940209 ATATTGCCGGCATACATTTGG 57.060 42.857 33.25 0.00 0.00 3.28
4882 6659 1.774110 ATTGCCGGCATACATTTGGA 58.226 45.000 33.25 12.77 0.00 3.53
4883 6660 0.814457 TTGCCGGCATACATTTGGAC 59.186 50.000 33.25 0.00 0.00 4.02
4884 6661 0.322906 TGCCGGCATACATTTGGACA 60.323 50.000 29.03 0.00 0.00 4.02
4885 6662 0.814457 GCCGGCATACATTTGGACAA 59.186 50.000 24.80 0.00 0.00 3.18
4886 6663 1.408702 GCCGGCATACATTTGGACAAT 59.591 47.619 24.80 0.00 0.00 2.71
4887 6664 2.621055 GCCGGCATACATTTGGACAATA 59.379 45.455 24.80 0.00 0.00 1.90
4888 6665 3.067461 GCCGGCATACATTTGGACAATAA 59.933 43.478 24.80 0.00 0.00 1.40
4889 6666 4.261994 GCCGGCATACATTTGGACAATAAT 60.262 41.667 24.80 0.00 0.00 1.28
4890 6667 5.221880 CCGGCATACATTTGGACAATAATG 58.778 41.667 0.00 0.00 37.67 1.90
4891 6668 5.221224 CCGGCATACATTTGGACAATAATGT 60.221 40.000 0.00 0.00 44.63 2.71
4892 6669 5.686841 CGGCATACATTTGGACAATAATGTG 59.313 40.000 10.91 0.32 42.98 3.21
4893 6670 6.459435 CGGCATACATTTGGACAATAATGTGA 60.459 38.462 10.91 0.15 42.98 3.58
4894 6671 7.264221 GGCATACATTTGGACAATAATGTGAA 58.736 34.615 10.91 0.00 42.98 3.18
4895 6672 7.222611 GGCATACATTTGGACAATAATGTGAAC 59.777 37.037 10.91 2.87 42.98 3.18
4896 6673 7.975616 GCATACATTTGGACAATAATGTGAACT 59.024 33.333 10.91 0.00 42.98 3.01
4900 6677 8.020819 ACATTTGGACAATAATGTGAACTAACG 58.979 33.333 0.00 0.00 41.90 3.18
4901 6678 6.489127 TTGGACAATAATGTGAACTAACGG 57.511 37.500 0.00 0.00 40.74 4.44
4902 6679 5.795972 TGGACAATAATGTGAACTAACGGA 58.204 37.500 0.00 0.00 40.74 4.69
4922 6699 3.005367 GGACGGAATTTGGTCAAACACAT 59.995 43.478 10.72 0.00 34.87 3.21
4923 6700 4.226761 GACGGAATTTGGTCAAACACATC 58.773 43.478 0.00 0.00 32.51 3.06
4924 6701 3.005367 ACGGAATTTGGTCAAACACATCC 59.995 43.478 0.00 4.44 32.51 3.51
4987 6764 3.187227 CACACATGAACTAAGTGGTGCTC 59.813 47.826 0.00 0.00 37.58 4.26
4992 6769 1.000506 GAACTAAGTGGTGCTCGTCCA 59.999 52.381 0.00 0.00 0.00 4.02
5017 6794 6.602009 AGCTTTGGAGGTATAATTAACACACC 59.398 38.462 0.00 0.00 0.00 4.16
5052 6829 4.192453 TGCCCGTTCCCCGTGTTT 62.192 61.111 0.00 0.00 33.66 2.83
5059 6836 0.609681 GTTCCCCGTGTTTGGCCATA 60.610 55.000 6.09 0.00 0.00 2.74
5077 6854 3.545703 CATAAGCCCCGAGAACTGAAAT 58.454 45.455 0.00 0.00 0.00 2.17
5087 6864 3.424962 CGAGAACTGAAATTTCGCCTTCC 60.425 47.826 13.34 7.02 0.00 3.46
5103 6880 1.550130 TTCCAATTCCTCCTCGGCGT 61.550 55.000 6.85 0.00 0.00 5.68
5108 6885 1.677637 ATTCCTCCTCGGCGTTCTCC 61.678 60.000 6.85 0.00 0.00 3.71
5119 6896 2.579738 GTTCTCCACCTCCGCCTC 59.420 66.667 0.00 0.00 0.00 4.70
5143 6920 0.108019 GACCCGGGAAGTGAAGTTGT 59.892 55.000 32.02 0.00 0.00 3.32
5148 6925 1.509703 GGGAAGTGAAGTTGTCCGAC 58.490 55.000 0.00 0.00 0.00 4.79
5157 6934 1.105167 AGTTGTCCGACTCGTGGTCA 61.105 55.000 0.00 0.00 44.70 4.02
5201 6978 1.608283 GGAACCGACTTTGTCCTCTGG 60.608 57.143 0.00 0.00 0.00 3.86
5225 7002 1.080298 CGTCGGTCTTACCCCACAC 60.080 63.158 0.00 0.00 33.75 3.82
5226 7003 1.294459 GTCGGTCTTACCCCACACC 59.706 63.158 0.00 0.00 33.75 4.16
5227 7004 1.156803 TCGGTCTTACCCCACACCT 59.843 57.895 0.00 0.00 33.75 4.00
5228 7005 0.901580 TCGGTCTTACCCCACACCTC 60.902 60.000 0.00 0.00 33.75 3.85
5229 7006 1.595357 GGTCTTACCCCACACCTCG 59.405 63.158 0.00 0.00 30.04 4.63
5230 7007 1.190178 GGTCTTACCCCACACCTCGT 61.190 60.000 0.00 0.00 30.04 4.18
5231 7008 0.245813 GTCTTACCCCACACCTCGTC 59.754 60.000 0.00 0.00 0.00 4.20
5232 7009 0.113776 TCTTACCCCACACCTCGTCT 59.886 55.000 0.00 0.00 0.00 4.18
5233 7010 0.246635 CTTACCCCACACCTCGTCTG 59.753 60.000 0.00 0.00 0.00 3.51
5234 7011 1.823169 TTACCCCACACCTCGTCTGC 61.823 60.000 0.00 0.00 0.00 4.26
5235 7012 4.394712 CCCCACACCTCGTCTGCC 62.395 72.222 0.00 0.00 0.00 4.85
5236 7013 4.742201 CCCACACCTCGTCTGCCG 62.742 72.222 0.00 0.00 38.13 5.69
5273 7050 0.536460 TTGGCGGTCTCCAGTTTTCC 60.536 55.000 0.00 0.00 37.44 3.13
5343 7120 1.467734 AGTTGTAGGACTCGTGTAGCG 59.532 52.381 0.00 0.00 43.01 4.26
5364 7141 2.730934 AGCCTACTGATACGTCTCCA 57.269 50.000 0.00 0.00 0.00 3.86
5365 7142 3.014304 AGCCTACTGATACGTCTCCAA 57.986 47.619 0.00 0.00 0.00 3.53
5366 7143 2.688958 AGCCTACTGATACGTCTCCAAC 59.311 50.000 0.00 0.00 0.00 3.77
5383 7160 9.836076 CGTCTCCAACGTATCTATAATTTATGA 57.164 33.333 0.00 0.00 46.42 2.15
5408 7185 9.669353 GAAGTATTCATGCCATGTTTACAATAG 57.331 33.333 16.43 0.00 46.62 1.73
5409 7186 8.752005 AGTATTCATGCCATGTTTACAATAGT 57.248 30.769 16.43 8.91 0.00 2.12
5410 7187 9.189156 AGTATTCATGCCATGTTTACAATAGTT 57.811 29.630 16.43 1.18 0.00 2.24
5411 7188 9.801873 GTATTCATGCCATGTTTACAATAGTTT 57.198 29.630 4.31 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 3.187842 CCGTCCGTCGATATGATCTTACA 59.812 47.826 0.00 0.00 42.86 2.41
207 208 1.079819 CACACGGACGGCTCAGATT 60.080 57.895 0.00 0.00 0.00 2.40
234 235 3.230245 CGGGAGCTAGGGCAGGAG 61.230 72.222 0.00 0.00 41.70 3.69
261 262 0.036010 AACTGAGATCAACGGCTGGG 60.036 55.000 0.00 0.00 0.00 4.45
288 289 3.117552 ACTTCTCTACTACCAAGGGGG 57.882 52.381 0.00 0.00 44.81 5.40
293 294 6.323225 GCCCATTACTACTTCTCTACTACCAA 59.677 42.308 0.00 0.00 0.00 3.67
299 300 6.043411 CACAAGCCCATTACTACTTCTCTAC 58.957 44.000 0.00 0.00 0.00 2.59
300 301 5.720041 ACACAAGCCCATTACTACTTCTCTA 59.280 40.000 0.00 0.00 0.00 2.43
301 302 4.532521 ACACAAGCCCATTACTACTTCTCT 59.467 41.667 0.00 0.00 0.00 3.10
302 303 4.631813 CACACAAGCCCATTACTACTTCTC 59.368 45.833 0.00 0.00 0.00 2.87
305 306 3.081804 GCACACAAGCCCATTACTACTT 58.918 45.455 0.00 0.00 0.00 2.24
364 367 5.547181 AACGACTCAAAAGCCTATAAAGC 57.453 39.130 0.00 0.00 0.00 3.51
369 372 6.338937 CCTAGTAAACGACTCAAAAGCCTAT 58.661 40.000 0.00 0.00 39.81 2.57
635 643 4.023622 CACGAACACACATGTCCCAAATTA 60.024 41.667 0.00 0.00 38.45 1.40
756 777 1.376553 GCCTCAAGCACCCTGACTC 60.377 63.158 0.00 0.00 42.97 3.36
757 778 2.753029 GCCTCAAGCACCCTGACT 59.247 61.111 0.00 0.00 42.97 3.41
758 779 2.743928 CGCCTCAAGCACCCTGAC 60.744 66.667 0.00 0.00 44.04 3.51
759 780 4.020617 CCGCCTCAAGCACCCTGA 62.021 66.667 0.00 0.00 44.04 3.86
760 781 4.020617 TCCGCCTCAAGCACCCTG 62.021 66.667 0.00 0.00 44.04 4.45
761 782 4.021925 GTCCGCCTCAAGCACCCT 62.022 66.667 0.00 0.00 44.04 4.34
880 901 1.125093 TTTCACTCTGCGGGGAAGGA 61.125 55.000 0.00 0.00 0.00 3.36
888 909 1.795768 TAGGCTTGTTTCACTCTGCG 58.204 50.000 0.00 0.00 0.00 5.18
910 931 3.243401 CCAACCAAGAGGAAAAAGGAACG 60.243 47.826 0.00 0.00 38.69 3.95
1061 1082 5.694910 CCACTAAAACTGACACGAGTTATGT 59.305 40.000 0.00 0.00 35.01 2.29
1178 1203 3.107402 AGATCAACTAGGCTGACCTCA 57.893 47.619 0.00 0.00 46.34 3.86
1184 1209 2.503356 ACCTCCAAGATCAACTAGGCTG 59.497 50.000 0.00 0.00 0.00 4.85
1230 1255 3.819564 TTCGGATGCAGCTATAACACT 57.180 42.857 0.22 0.00 0.00 3.55
1248 1273 4.671377 TCGTTGGCAATGAAGCATTATTC 58.329 39.130 19.35 0.00 32.35 1.75
1250 1275 3.947196 TCTCGTTGGCAATGAAGCATTAT 59.053 39.130 21.57 0.00 32.35 1.28
1279 1305 1.967319 AATGTGGAAGCAGTTCACGT 58.033 45.000 0.00 0.00 33.93 4.49
1280 1306 3.044986 CAAAATGTGGAAGCAGTTCACG 58.955 45.455 0.00 0.00 33.93 4.35
1282 1308 3.953612 AGACAAAATGTGGAAGCAGTTCA 59.046 39.130 0.00 0.00 33.93 3.18
1290 1316 3.286353 TGTGCTGAGACAAAATGTGGAA 58.714 40.909 0.00 0.00 0.00 3.53
1318 1344 7.637709 ATTGTTTCTAGAAATGAAAAACGCC 57.362 32.000 20.41 4.92 35.54 5.68
1345 1371 7.436118 TCACAGATTTTCAATCTTTCCCTTTG 58.564 34.615 0.00 0.00 0.00 2.77
1349 1375 6.581171 ACTCACAGATTTTCAATCTTTCCC 57.419 37.500 0.00 0.00 0.00 3.97
1782 1810 7.529158 CACATTGTTTGTATAGCACAATCTCA 58.471 34.615 0.00 0.00 46.38 3.27
1785 1813 6.252015 CAGCACATTGTTTGTATAGCACAATC 59.748 38.462 0.00 0.00 46.38 2.67
1850 1878 1.001378 CAGGAGCCTTTGGTTTTGTCG 60.001 52.381 0.00 0.00 0.00 4.35
1852 1880 2.159179 ACAGGAGCCTTTGGTTTTGT 57.841 45.000 0.00 0.00 0.00 2.83
1853 1881 3.541996 AAACAGGAGCCTTTGGTTTTG 57.458 42.857 0.00 0.00 0.00 2.44
2150 2213 7.446769 TGATGTATGTACAGTTTACCACAGTT 58.553 34.615 0.33 0.00 39.92 3.16
2381 3331 5.663106 TCCATTGAGTCTAGGCTAATGTTCT 59.337 40.000 17.62 0.00 0.00 3.01
2404 3354 6.455360 TGATGCACAGGATAGGAATTTTTC 57.545 37.500 0.00 0.00 0.00 2.29
2410 3360 4.883585 GTCATTTGATGCACAGGATAGGAA 59.116 41.667 0.00 0.00 0.00 3.36
2420 3370 4.561606 GCAAAGAGATGTCATTTGATGCAC 59.438 41.667 14.60 0.00 36.28 4.57
2442 3392 7.387119 TGATATGCATCTCAATTCCATAAGC 57.613 36.000 12.01 0.00 31.93 3.09
2463 3413 8.043429 AGGAAAATCATAGGAAGTGAGATGAT 57.957 34.615 0.00 0.00 40.03 2.45
2742 3693 6.371825 GCAAGCTTAGACAACCAAGTAAGTAT 59.628 38.462 0.00 0.00 0.00 2.12
2743 3694 5.699458 GCAAGCTTAGACAACCAAGTAAGTA 59.301 40.000 0.00 0.00 0.00 2.24
2744 3695 4.515567 GCAAGCTTAGACAACCAAGTAAGT 59.484 41.667 0.00 0.00 0.00 2.24
2745 3696 4.083271 GGCAAGCTTAGACAACCAAGTAAG 60.083 45.833 0.00 0.00 0.00 2.34
2746 3697 3.818773 GGCAAGCTTAGACAACCAAGTAA 59.181 43.478 0.00 0.00 0.00 2.24
2900 3882 2.627699 GTCCATCCCTCTCTCTCATCAC 59.372 54.545 0.00 0.00 0.00 3.06
2903 3885 2.517553 TCAGTCCATCCCTCTCTCTCAT 59.482 50.000 0.00 0.00 0.00 2.90
2956 3974 3.352648 TGACTGCTAAGCAATTAACCCC 58.647 45.455 0.00 0.00 38.41 4.95
3087 4112 5.048782 GGAGCACTGATGTGTACATTGAAAA 60.049 40.000 0.00 0.00 45.44 2.29
3131 4156 3.741476 CTGCCGGCAGAACCAAGC 61.741 66.667 46.72 8.45 46.30 4.01
3165 4255 2.941210 TGGAACACGAGAAATGGGC 58.059 52.632 0.00 0.00 0.00 5.36
3244 4335 5.606348 ATCTTTAGTACTGCCCTGAAGAG 57.394 43.478 5.39 0.00 37.78 2.85
3746 4851 6.475402 GGTATGTTTGTTTATAGCCAACATGC 59.525 38.462 13.91 12.83 34.13 4.06
3807 4913 8.114359 TGAACTGCAAAACTAGAAAATTTTCG 57.886 30.769 21.98 13.18 41.92 3.46
3988 5699 2.938956 AATCCTCCCCTTCGCAATAG 57.061 50.000 0.00 0.00 0.00 1.73
3994 5705 3.421844 ACTTTTGAAATCCTCCCCTTCG 58.578 45.455 0.00 0.00 0.00 3.79
4095 5808 4.331968 AGAGAAAACAAAGGTGACACACA 58.668 39.130 8.08 0.00 35.86 3.72
4096 5809 4.965119 AGAGAAAACAAAGGTGACACAC 57.035 40.909 8.08 0.00 0.00 3.82
4137 5850 3.830755 CCTACGGTATGCTACATTACCCT 59.169 47.826 0.00 0.00 35.45 4.34
4141 5854 3.503365 AGGCCTACGGTATGCTACATTA 58.497 45.455 1.29 0.00 0.00 1.90
4156 5869 3.609853 CTGCAATGTTACAAGAGGCCTA 58.390 45.455 4.42 0.00 0.00 3.93
4157 5870 2.440409 CTGCAATGTTACAAGAGGCCT 58.560 47.619 3.86 3.86 0.00 5.19
4158 5871 1.474077 CCTGCAATGTTACAAGAGGCC 59.526 52.381 0.00 0.00 0.00 5.19
4159 5872 2.162681 ACCTGCAATGTTACAAGAGGC 58.837 47.619 0.00 0.00 0.00 4.70
4626 6362 5.395546 CCATTTCAAATGGTATGTTCCAGGG 60.396 44.000 19.80 0.00 41.05 4.45
4658 6406 1.552792 CACAAGAGAGGGGAGGAGTTC 59.447 57.143 0.00 0.00 0.00 3.01
4706 6461 3.684788 CCAATTTACTCCACTGAGAACGG 59.315 47.826 0.00 0.00 41.42 4.44
4711 6488 2.009774 CGGCCAATTTACTCCACTGAG 58.990 52.381 2.24 0.00 44.62 3.35
4755 6532 4.142138 GGTACACATAGCAGCTTCTACAGT 60.142 45.833 0.00 0.00 0.00 3.55
4799 6576 1.082104 GAAAACTTGCAGGTCGCCG 60.082 57.895 0.32 0.00 41.33 6.46
4833 6610 3.461773 CCTCCCGCATCCGTGTCT 61.462 66.667 0.00 0.00 0.00 3.41
4856 6633 3.153369 TGTATGCCGGCAATATTGGAT 57.847 42.857 36.33 17.32 0.00 3.41
4862 6639 2.621055 GTCCAAATGTATGCCGGCAATA 59.379 45.455 36.33 22.68 0.00 1.90
4867 6644 4.909696 TTATTGTCCAAATGTATGCCGG 57.090 40.909 0.00 0.00 0.00 6.13
4868 6645 5.686841 CACATTATTGTCCAAATGTATGCCG 59.313 40.000 0.76 0.00 42.83 5.69
4869 6646 6.804677 TCACATTATTGTCCAAATGTATGCC 58.195 36.000 0.76 0.00 42.83 4.40
4870 6647 7.975616 AGTTCACATTATTGTCCAAATGTATGC 59.024 33.333 0.76 0.00 42.83 3.14
4874 6651 8.020819 CGTTAGTTCACATTATTGTCCAAATGT 58.979 33.333 0.00 0.00 44.94 2.71
4875 6652 7.484641 CCGTTAGTTCACATTATTGTCCAAATG 59.515 37.037 0.00 0.00 38.71 2.32
4876 6653 7.392113 TCCGTTAGTTCACATTATTGTCCAAAT 59.608 33.333 0.00 0.00 32.34 2.32
4877 6654 6.711194 TCCGTTAGTTCACATTATTGTCCAAA 59.289 34.615 0.00 0.00 32.34 3.28
4878 6655 6.148150 GTCCGTTAGTTCACATTATTGTCCAA 59.852 38.462 0.00 0.00 32.34 3.53
4879 6656 5.640357 GTCCGTTAGTTCACATTATTGTCCA 59.360 40.000 0.00 0.00 32.34 4.02
4880 6657 5.220340 CGTCCGTTAGTTCACATTATTGTCC 60.220 44.000 0.00 0.00 32.34 4.02
4881 6658 5.220340 CCGTCCGTTAGTTCACATTATTGTC 60.220 44.000 0.00 0.00 32.34 3.18
4882 6659 4.628333 CCGTCCGTTAGTTCACATTATTGT 59.372 41.667 0.00 0.00 36.15 2.71
4883 6660 4.865925 TCCGTCCGTTAGTTCACATTATTG 59.134 41.667 0.00 0.00 0.00 1.90
4884 6661 5.075858 TCCGTCCGTTAGTTCACATTATT 57.924 39.130 0.00 0.00 0.00 1.40
4885 6662 4.724074 TCCGTCCGTTAGTTCACATTAT 57.276 40.909 0.00 0.00 0.00 1.28
4886 6663 4.517952 TTCCGTCCGTTAGTTCACATTA 57.482 40.909 0.00 0.00 0.00 1.90
4887 6664 3.389925 TTCCGTCCGTTAGTTCACATT 57.610 42.857 0.00 0.00 0.00 2.71
4888 6665 3.604875 ATTCCGTCCGTTAGTTCACAT 57.395 42.857 0.00 0.00 0.00 3.21
4889 6666 3.389925 AATTCCGTCCGTTAGTTCACA 57.610 42.857 0.00 0.00 0.00 3.58
4890 6667 3.120442 CCAAATTCCGTCCGTTAGTTCAC 60.120 47.826 0.00 0.00 0.00 3.18
4891 6668 3.068560 CCAAATTCCGTCCGTTAGTTCA 58.931 45.455 0.00 0.00 0.00 3.18
4892 6669 3.069289 ACCAAATTCCGTCCGTTAGTTC 58.931 45.455 0.00 0.00 0.00 3.01
4893 6670 3.069289 GACCAAATTCCGTCCGTTAGTT 58.931 45.455 0.00 0.00 0.00 2.24
4894 6671 2.037511 TGACCAAATTCCGTCCGTTAGT 59.962 45.455 3.21 0.00 0.00 2.24
4895 6672 2.690786 TGACCAAATTCCGTCCGTTAG 58.309 47.619 3.21 0.00 0.00 2.34
4896 6673 2.835580 TGACCAAATTCCGTCCGTTA 57.164 45.000 3.21 0.00 0.00 3.18
4897 6674 1.970092 TTGACCAAATTCCGTCCGTT 58.030 45.000 3.21 0.00 0.00 4.44
4898 6675 1.605232 GTTTGACCAAATTCCGTCCGT 59.395 47.619 0.00 0.00 32.36 4.69
4899 6676 1.604755 TGTTTGACCAAATTCCGTCCG 59.395 47.619 0.00 0.00 32.36 4.79
4900 6677 2.359531 TGTGTTTGACCAAATTCCGTCC 59.640 45.455 0.00 0.00 32.36 4.79
4901 6678 3.701532 TGTGTTTGACCAAATTCCGTC 57.298 42.857 0.00 0.00 32.36 4.79
4902 6679 3.005367 GGATGTGTTTGACCAAATTCCGT 59.995 43.478 0.00 0.00 32.36 4.69
4922 6699 6.714810 CCCTTCATGTTTATATGAAATCCGGA 59.285 38.462 6.61 6.61 44.06 5.14
4923 6700 6.490040 ACCCTTCATGTTTATATGAAATCCGG 59.510 38.462 0.00 0.00 44.06 5.14
4924 6701 7.510549 ACCCTTCATGTTTATATGAAATCCG 57.489 36.000 0.00 0.00 44.06 4.18
4953 6730 6.707440 AGTTCATGTGTGTCCAAAATGTAA 57.293 33.333 0.00 0.00 0.00 2.41
4992 6769 6.602009 GGTGTGTTAATTATACCTCCAAAGCT 59.398 38.462 0.00 0.00 0.00 3.74
4999 6776 9.924650 ATAGATTCGGTGTGTTAATTATACCTC 57.075 33.333 6.91 0.48 0.00 3.85
5017 6794 1.979469 GCACCGACGATCATAGATTCG 59.021 52.381 0.00 0.00 41.04 3.34
5059 6836 2.586648 AATTTCAGTTCTCGGGGCTT 57.413 45.000 0.00 0.00 0.00 4.35
5077 6854 1.354368 AGGAGGAATTGGAAGGCGAAA 59.646 47.619 0.00 0.00 0.00 3.46
5087 6864 0.108138 AGAACGCCGAGGAGGAATTG 60.108 55.000 0.00 0.00 45.00 2.32
5103 6880 2.683933 GGAGGCGGAGGTGGAGAA 60.684 66.667 0.00 0.00 0.00 2.87
5122 6899 0.685660 AACTTCACTTCCCGGGTCTC 59.314 55.000 22.86 0.00 0.00 3.36
5128 6905 0.032952 TCGGACAACTTCACTTCCCG 59.967 55.000 0.00 0.00 37.08 5.14
5201 6978 1.226239 GGTAAGACCGACGACGAGC 60.226 63.158 9.28 0.00 42.66 5.03
5229 7006 4.415332 TTCGACGAGGCGGCAGAC 62.415 66.667 13.08 4.26 32.52 3.51
5230 7007 4.415332 GTTCGACGAGGCGGCAGA 62.415 66.667 13.08 0.00 32.52 4.26
5231 7008 4.421479 AGTTCGACGAGGCGGCAG 62.421 66.667 13.08 7.40 32.52 4.85
5232 7009 4.415332 GAGTTCGACGAGGCGGCA 62.415 66.667 13.08 0.00 32.52 5.69
5234 7011 2.991076 AAGGAGTTCGACGAGGCGG 61.991 63.158 0.00 0.00 0.00 6.13
5235 7012 1.801913 CAAGGAGTTCGACGAGGCG 60.802 63.158 0.00 0.00 0.00 5.52
5236 7013 0.319641 AACAAGGAGTTCGACGAGGC 60.320 55.000 0.00 0.00 34.74 4.70
5343 7120 1.001158 GGAGACGTATCAGTAGGCTGC 60.001 57.143 12.92 0.00 42.29 5.25
5381 7158 7.459795 TTGTAAACATGGCATGAATACTTCA 57.540 32.000 32.74 17.47 45.01 3.02
5382 7159 9.669353 CTATTGTAAACATGGCATGAATACTTC 57.331 33.333 32.74 15.44 0.00 3.01
5383 7160 9.189156 ACTATTGTAAACATGGCATGAATACTT 57.811 29.630 32.74 22.68 0.00 2.24
5384 7161 8.752005 ACTATTGTAAACATGGCATGAATACT 57.248 30.769 32.74 19.20 0.00 2.12
5385 7162 9.801873 AAACTATTGTAAACATGGCATGAATAC 57.198 29.630 32.74 28.55 0.00 1.89


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

AutoCloner maintained by Alex Coulton.