Multiple sequence alignment - TraesCS4A01G208500

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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 TraesCS4A01G208500 chr4A 100.000 4595 0 0 1 4595 501641621 501637027 0.000000e+00 8486.0
1 TraesCS4A01G208500 chr4D 92.174 4613 223 62 58 4595 88908012 88903463 0.000000e+00 6392.0
2 TraesCS4A01G208500 chr4D 94.366 71 4 0 3 73 323375566 323375636 4.860000e-20 110.0
3 TraesCS4A01G208500 chr4D 94.366 71 4 0 1 71 382791984 382792054 4.860000e-20 110.0
4 TraesCS4A01G208500 chr4B 92.399 3855 164 47 807 4595 125682515 125678724 0.000000e+00 5376.0
5 TraesCS4A01G208500 chr4B 85.581 430 35 14 71 479 125700315 125699892 4.250000e-115 425.0
6 TraesCS4A01G208500 chr4B 85.185 297 27 9 521 817 125690669 125690390 5.820000e-74 289.0
7 TraesCS4A01G208500 chr5A 82.728 1349 204 18 2018 3362 267005512 267006835 0.000000e+00 1173.0
8 TraesCS4A01G208500 chr5A 94.521 73 4 0 1 73 381651968 381652040 3.760000e-21 113.0
9 TraesCS4A01G208500 chr5A 94.366 71 4 0 1 71 381488936 381489006 4.860000e-20 110.0
10 TraesCS4A01G208500 chr5D 82.431 1349 208 19 2018 3362 207179053 207180376 0.000000e+00 1151.0
11 TraesCS4A01G208500 chr5D 93.151 73 5 0 1 73 251429093 251429165 1.750000e-19 108.0
12 TraesCS4A01G208500 chr5B 82.296 1350 208 21 2018 3362 220581760 220580437 0.000000e+00 1140.0
13 TraesCS4A01G208500 chr1A 97.183 71 2 0 3 73 397955492 397955562 2.250000e-23 121.0
14 TraesCS4A01G208500 chr2A 93.243 74 4 1 1 74 59388408 59388336 1.750000e-19 108.0
15 TraesCS4A01G208500 chr3D 91.139 79 6 1 1 78 350346412 350346334 6.290000e-19 106.0
16 TraesCS4A01G208500 chr3D 100.000 28 0 0 192 219 170776211 170776238 8.000000e-03 52.8
17 TraesCS4A01G208500 chr1D 85.567 97 9 5 1 93 291573774 291573869 3.780000e-16 97.1
18 TraesCS4A01G208500 chr7B 77.564 156 27 5 4336 4486 709895665 709895513 2.280000e-13 87.9
19 TraesCS4A01G208500 chr7B 100.000 28 0 0 4337 4364 637948180 637948207 8.000000e-03 52.8
20 TraesCS4A01G208500 chr6A 84.507 71 5 4 160 225 216431227 216431296 1.070000e-06 65.8
21 TraesCS4A01G208500 chr7A 88.636 44 5 0 4321 4364 666587610 666587653 2.000000e-03 54.7
22 TraesCS4A01G208500 chr3B 100.000 28 0 0 104 131 612108990 612108963 8.000000e-03 52.8


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 TraesCS4A01G208500 chr4A 501637027 501641621 4594 True 8486 8486 100.000 1 4595 1 chr4A.!!$R1 4594
1 TraesCS4A01G208500 chr4D 88903463 88908012 4549 True 6392 6392 92.174 58 4595 1 chr4D.!!$R1 4537
2 TraesCS4A01G208500 chr4B 125678724 125682515 3791 True 5376 5376 92.399 807 4595 1 chr4B.!!$R1 3788
3 TraesCS4A01G208500 chr5A 267005512 267006835 1323 False 1173 1173 82.728 2018 3362 1 chr5A.!!$F1 1344
4 TraesCS4A01G208500 chr5D 207179053 207180376 1323 False 1151 1151 82.431 2018 3362 1 chr5D.!!$F1 1344
5 TraesCS4A01G208500 chr5B 220580437 220581760 1323 True 1140 1140 82.296 2018 3362 1 chr5B.!!$R1 1344

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
310 331 0.026803 GAGCATTGTCGTCATTCGCC 59.973 55.0 0.00 0.0 39.67 5.54 F
402 423 0.251341 GCCACATCAGGACCCTTGTT 60.251 55.0 0.00 0.0 0.00 2.83 F
497 518 0.251832 TCCCCTTCTCGCTTCACTCT 60.252 55.0 0.00 0.0 0.00 3.24 F
669 690 0.252927 AAGAGAAGGAGGAGGTGGGG 60.253 60.0 0.00 0.0 0.00 4.96 F
693 714 0.385974 GTGCACATGGTTTCAGCGAC 60.386 55.0 13.17 0.0 0.00 5.19 F
819 840 0.463620 GAGGCCAAGTTGCAAAACCA 59.536 50.0 5.01 0.0 0.00 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1642 1689 0.340208 CCCACTTACCCTCCTCTCCT 59.660 60.000 0.00 0.00 0.00 3.69 R
1844 1891 2.504026 CTCGAGCAGCGCGTACAA 60.504 61.111 18.51 0.00 40.61 2.41 R
1874 1921 3.956317 GGCGTTCGGCGTTTTGGT 61.956 61.111 6.85 0.00 44.92 3.67 R
3541 3594 0.862490 CGGATACACACGCACAAACA 59.138 50.000 0.00 0.00 0.00 2.83 R
3544 3597 0.862490 CAACGGATACACACGCACAA 59.138 50.000 0.00 0.00 0.00 3.33 R
3665 3722 0.522705 CTGAGACATGCATGCAACGC 60.523 55.000 26.68 19.58 0.00 4.84 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
21 22 4.530857 CGGTCCATCAGTCCGGCC 62.531 72.222 0.00 0.00 40.49 6.13
22 23 4.176752 GGTCCATCAGTCCGGCCC 62.177 72.222 0.00 0.00 0.00 5.80
23 24 3.399181 GTCCATCAGTCCGGCCCA 61.399 66.667 0.00 0.00 0.00 5.36
24 25 2.366837 TCCATCAGTCCGGCCCAT 60.367 61.111 0.00 0.00 0.00 4.00
25 26 1.074850 TCCATCAGTCCGGCCCATA 60.075 57.895 0.00 0.00 0.00 2.74
26 27 0.473694 TCCATCAGTCCGGCCCATAT 60.474 55.000 0.00 0.00 0.00 1.78
27 28 0.036010 CCATCAGTCCGGCCCATATC 60.036 60.000 0.00 0.00 0.00 1.63
28 29 0.390340 CATCAGTCCGGCCCATATCG 60.390 60.000 0.00 0.00 0.00 2.92
29 30 0.541998 ATCAGTCCGGCCCATATCGA 60.542 55.000 0.00 0.00 0.00 3.59
30 31 0.757561 TCAGTCCGGCCCATATCGAA 60.758 55.000 0.00 0.00 0.00 3.71
31 32 0.321671 CAGTCCGGCCCATATCGAAT 59.678 55.000 0.00 0.00 0.00 3.34
32 33 1.548719 CAGTCCGGCCCATATCGAATA 59.451 52.381 0.00 0.00 0.00 1.75
33 34 2.028476 CAGTCCGGCCCATATCGAATAA 60.028 50.000 0.00 0.00 0.00 1.40
34 35 2.028385 AGTCCGGCCCATATCGAATAAC 60.028 50.000 0.00 0.00 0.00 1.89
35 36 1.276989 TCCGGCCCATATCGAATAACC 59.723 52.381 0.00 0.00 0.00 2.85
36 37 1.677820 CCGGCCCATATCGAATAACCC 60.678 57.143 0.00 0.00 0.00 4.11
37 38 1.734163 GGCCCATATCGAATAACCCG 58.266 55.000 0.00 0.00 0.00 5.28
38 39 1.677820 GGCCCATATCGAATAACCCGG 60.678 57.143 0.00 0.00 0.00 5.73
39 40 1.276989 GCCCATATCGAATAACCCGGA 59.723 52.381 0.73 0.00 0.00 5.14
40 41 2.933928 GCCCATATCGAATAACCCGGAC 60.934 54.545 0.73 0.00 0.00 4.79
41 42 2.300723 CCCATATCGAATAACCCGGACA 59.699 50.000 0.73 0.00 0.00 4.02
42 43 3.323243 CCATATCGAATAACCCGGACAC 58.677 50.000 0.73 0.00 0.00 3.67
43 44 3.323243 CATATCGAATAACCCGGACACC 58.677 50.000 0.73 0.00 0.00 4.16
62 63 2.622064 CGAAGGACCCCTTAATCCAG 57.378 55.000 0.00 0.00 44.82 3.86
63 64 1.141053 CGAAGGACCCCTTAATCCAGG 59.859 57.143 0.00 0.00 44.82 4.45
64 65 2.488836 GAAGGACCCCTTAATCCAGGA 58.511 52.381 0.00 0.00 44.82 3.86
65 66 1.894699 AGGACCCCTTAATCCAGGAC 58.105 55.000 0.00 0.00 37.47 3.85
66 67 1.369983 AGGACCCCTTAATCCAGGACT 59.630 52.381 0.00 0.00 37.47 3.85
67 68 1.769465 GGACCCCTTAATCCAGGACTC 59.231 57.143 0.00 0.00 35.71 3.36
68 69 1.769465 GACCCCTTAATCCAGGACTCC 59.231 57.143 0.00 0.00 35.71 3.85
69 70 1.141185 CCCCTTAATCCAGGACTCCC 58.859 60.000 0.00 0.00 35.71 4.30
115 116 7.197071 TGTTACGAAGAACTTTGCAACATAT 57.803 32.000 13.45 0.00 36.06 1.78
151 152 3.682858 AGCATTTGCAATGAAAGTGATGC 59.317 39.130 16.84 16.84 45.16 3.91
155 156 1.614413 TGCAATGAAAGTGATGCTGCA 59.386 42.857 4.13 4.13 39.49 4.41
174 175 3.503363 TGCAGAGAACTTTGCAACATAGG 59.497 43.478 15.69 0.00 46.42 2.57
188 189 1.745087 ACATAGGTGATGCCGCAAAAG 59.255 47.619 0.00 0.00 43.70 2.27
222 223 2.425312 AGGTGATGTTGCAAAAACGTCA 59.575 40.909 0.00 4.03 42.10 4.35
227 228 0.099082 GTTGCAAAAACGTCACCCGA 59.901 50.000 0.00 0.00 40.70 5.14
231 232 1.002251 GCAAAAACGTCACCCGATCAA 60.002 47.619 0.00 0.00 40.70 2.57
240 241 1.972075 TCACCCGATCAACACCACTTA 59.028 47.619 0.00 0.00 0.00 2.24
247 268 3.935203 CGATCAACACCACTTAGCAATCT 59.065 43.478 0.00 0.00 0.00 2.40
264 285 9.959721 TTAGCAATCTTTCTTTACAATAGAGGT 57.040 29.630 0.00 0.00 0.00 3.85
265 286 8.870075 AGCAATCTTTCTTTACAATAGAGGTT 57.130 30.769 0.00 0.00 0.00 3.50
266 287 9.959721 AGCAATCTTTCTTTACAATAGAGGTTA 57.040 29.630 0.00 0.00 0.00 2.85
271 292 9.383519 TCTTTCTTTACAATAGAGGTTATGCTG 57.616 33.333 0.00 0.00 0.00 4.41
272 293 7.553881 TTCTTTACAATAGAGGTTATGCTGC 57.446 36.000 0.00 0.00 0.00 5.25
273 294 6.889198 TCTTTACAATAGAGGTTATGCTGCT 58.111 36.000 0.00 0.00 0.00 4.24
274 295 8.018537 TCTTTACAATAGAGGTTATGCTGCTA 57.981 34.615 0.00 0.00 0.00 3.49
275 296 8.482943 TCTTTACAATAGAGGTTATGCTGCTAA 58.517 33.333 0.00 0.00 0.00 3.09
276 297 9.109393 CTTTACAATAGAGGTTATGCTGCTAAA 57.891 33.333 0.00 0.00 0.00 1.85
297 318 0.322816 AGTCACCGCCATTGAGCATT 60.323 50.000 0.00 0.00 0.00 3.56
300 321 0.179156 CACCGCCATTGAGCATTGTC 60.179 55.000 0.00 0.00 0.00 3.18
310 331 0.026803 GAGCATTGTCGTCATTCGCC 59.973 55.000 0.00 0.00 39.67 5.54
340 361 5.710513 TTGCAAAAGCTCATCTACATTGT 57.289 34.783 0.00 0.00 0.00 2.71
343 364 4.728882 GCAAAAGCTCATCTACATTGTCGG 60.729 45.833 0.00 0.00 0.00 4.79
346 367 1.802880 GCTCATCTACATTGTCGGCGT 60.803 52.381 6.85 0.00 0.00 5.68
362 383 1.585006 CGTCGAGCACCACCTTAGT 59.415 57.895 0.00 0.00 0.00 2.24
367 388 2.629137 TCGAGCACCACCTTAGTTTGTA 59.371 45.455 0.00 0.00 0.00 2.41
377 398 6.013639 ACCACCTTAGTTTGTATCTGCTACTT 60.014 38.462 0.00 0.00 0.00 2.24
392 413 3.503363 TGCTACTTCAAAAGCCACATCAG 59.497 43.478 0.00 0.00 37.97 2.90
401 422 1.136329 AGCCACATCAGGACCCTTGT 61.136 55.000 0.00 0.00 0.00 3.16
402 423 0.251341 GCCACATCAGGACCCTTGTT 60.251 55.000 0.00 0.00 0.00 2.83
405 426 0.478072 ACATCAGGACCCTTGTTGCA 59.522 50.000 0.00 0.00 0.00 4.08
406 427 1.133513 ACATCAGGACCCTTGTTGCAA 60.134 47.619 0.00 0.00 0.00 4.08
407 428 1.962807 CATCAGGACCCTTGTTGCAAA 59.037 47.619 0.00 0.00 0.00 3.68
408 429 2.151502 TCAGGACCCTTGTTGCAAAA 57.848 45.000 0.00 0.00 0.00 2.44
433 454 0.824595 AGCACTTGCACATCCAAGCA 60.825 50.000 3.62 0.00 44.66 3.91
437 458 1.667151 TTGCACATCCAAGCAAGGC 59.333 52.632 0.00 0.00 44.98 4.35
441 462 0.896940 CACATCCAAGCAAGGCCACT 60.897 55.000 5.01 0.00 0.00 4.00
442 463 0.896940 ACATCCAAGCAAGGCCACTG 60.897 55.000 5.01 2.32 0.00 3.66
470 491 0.807496 GACATGGACAAGCTCAAGGC 59.193 55.000 0.00 0.00 42.19 4.35
477 498 3.249189 AAGCTCAAGGCCGGGTCA 61.249 61.111 2.18 0.00 43.05 4.02
497 518 0.251832 TCCCCTTCTCGCTTCACTCT 60.252 55.000 0.00 0.00 0.00 3.24
504 525 1.287730 CTCGCTTCACTCTGCACCAC 61.288 60.000 0.00 0.00 0.00 4.16
559 580 3.242543 GCGCACTCCTTGAATTATGTCAG 60.243 47.826 0.30 0.00 0.00 3.51
562 583 4.697352 GCACTCCTTGAATTATGTCAGTGT 59.303 41.667 0.00 0.00 0.00 3.55
565 586 5.702670 ACTCCTTGAATTATGTCAGTGTGTG 59.297 40.000 0.00 0.00 0.00 3.82
567 588 4.216042 CCTTGAATTATGTCAGTGTGTGCA 59.784 41.667 0.00 0.00 0.00 4.57
627 648 6.263168 GCATGGCTAGTTTGTTTATGTAGGAT 59.737 38.462 0.00 0.00 0.00 3.24
629 650 6.953101 TGGCTAGTTTGTTTATGTAGGATCA 58.047 36.000 0.00 0.00 0.00 2.92
644 665 2.170187 AGGATCACACTGCTTCTCCATC 59.830 50.000 0.00 0.00 0.00 3.51
664 685 3.707316 TCAAGAGAAGAGAAGGAGGAGG 58.293 50.000 0.00 0.00 0.00 4.30
665 686 3.076785 TCAAGAGAAGAGAAGGAGGAGGT 59.923 47.826 0.00 0.00 0.00 3.85
669 690 0.252927 AAGAGAAGGAGGAGGTGGGG 60.253 60.000 0.00 0.00 0.00 4.96
686 707 3.302344 GGCGGGTGCACATGGTTT 61.302 61.111 20.43 0.00 45.35 3.27
688 709 2.560119 GCGGGTGCACATGGTTTCA 61.560 57.895 20.43 0.00 42.15 2.69
689 710 1.580942 CGGGTGCACATGGTTTCAG 59.419 57.895 20.43 0.00 0.00 3.02
690 711 1.290009 GGGTGCACATGGTTTCAGC 59.710 57.895 20.43 0.00 0.00 4.26
691 712 1.081242 GGTGCACATGGTTTCAGCG 60.081 57.895 20.43 0.00 0.00 5.18
692 713 1.514678 GGTGCACATGGTTTCAGCGA 61.515 55.000 20.43 0.00 0.00 4.93
693 714 0.385974 GTGCACATGGTTTCAGCGAC 60.386 55.000 13.17 0.00 0.00 5.19
694 715 0.817229 TGCACATGGTTTCAGCGACA 60.817 50.000 0.00 0.00 0.00 4.35
727 748 2.802667 CGGCGTTCAAGATCCAGCG 61.803 63.158 0.00 0.00 0.00 5.18
732 753 1.447838 TTCAAGATCCAGCGCGTCC 60.448 57.895 8.43 0.00 0.00 4.79
747 768 3.307906 TCCTGGACGAACGGGTGG 61.308 66.667 0.00 0.00 38.12 4.61
761 782 3.075005 GTGGCGCCTCAGGGTCTA 61.075 66.667 29.70 0.00 34.45 2.59
764 785 2.656069 GGCGCCTCAGGGTCTACAA 61.656 63.158 22.15 0.00 34.45 2.41
766 787 1.153823 CGCCTCAGGGTCTACAACG 60.154 63.158 0.00 0.00 34.45 4.10
769 790 1.614241 CCTCAGGGTCTACAACGGGG 61.614 65.000 0.00 0.00 0.00 5.73
783 804 2.551912 CGGGGCACTTGTTGTGGTC 61.552 63.158 0.00 0.00 46.27 4.02
784 805 2.551912 GGGGCACTTGTTGTGGTCG 61.552 63.158 0.00 0.00 46.27 4.79
795 816 5.048991 ACTTGTTGTGGTCGAATTGGATTAC 60.049 40.000 0.00 0.00 0.00 1.89
797 818 4.454161 TGTTGTGGTCGAATTGGATTACAG 59.546 41.667 8.79 0.00 0.00 2.74
819 840 0.463620 GAGGCCAAGTTGCAAAACCA 59.536 50.000 5.01 0.00 0.00 3.67
856 877 6.160664 GAACCGTTCGATCAAAAACAGATA 57.839 37.500 0.00 0.00 0.00 1.98
857 878 6.737254 AACCGTTCGATCAAAAACAGATAT 57.263 33.333 0.00 0.00 0.00 1.63
858 879 7.837202 AACCGTTCGATCAAAAACAGATATA 57.163 32.000 0.00 0.00 0.00 0.86
859 880 8.433421 AACCGTTCGATCAAAAACAGATATAT 57.567 30.769 0.00 0.00 0.00 0.86
860 881 9.537192 AACCGTTCGATCAAAAACAGATATATA 57.463 29.630 0.00 0.00 0.00 0.86
871 892 7.986085 AAAACAGATATATATGACTGCCACC 57.014 36.000 14.15 0.00 34.25 4.61
923 944 3.751175 CCATCATGTGAACACTACCGTTT 59.249 43.478 6.51 0.00 0.00 3.60
926 947 4.055360 TCATGTGAACACTACCGTTTCTG 58.945 43.478 6.51 0.00 0.00 3.02
929 950 2.040939 TGAACACTACCGTTTCTGGGA 58.959 47.619 0.00 0.00 0.00 4.37
1148 1176 4.225573 CATTCCCATCCTCTCTCTTCTCT 58.774 47.826 0.00 0.00 0.00 3.10
1152 1180 3.490348 CCATCCTCTCTCTTCTCTCTCC 58.510 54.545 0.00 0.00 0.00 3.71
1177 1224 2.430582 CCATTGCACGCCCAAACG 60.431 61.111 0.00 0.00 39.50 3.60
1642 1689 1.035385 TGGAGATAGCGCAGTCGGAA 61.035 55.000 11.47 0.00 35.95 4.30
1885 1932 4.383602 CGCCTCACCAAAACGCCG 62.384 66.667 0.00 0.00 0.00 6.46
1888 1935 1.281656 CCTCACCAAAACGCCGAAC 59.718 57.895 0.00 0.00 0.00 3.95
2491 2544 1.734465 GGCTTCATCTCCACGAACAAG 59.266 52.381 0.00 0.00 0.00 3.16
2554 2607 2.202676 CTCAAGTCCGAGCTCGCC 60.203 66.667 30.49 21.45 38.18 5.54
3541 3594 1.137086 GGCGGACAGATAGATGTGTGT 59.863 52.381 0.00 0.00 34.11 3.72
3542 3595 2.196749 GCGGACAGATAGATGTGTGTG 58.803 52.381 0.00 0.00 34.11 3.82
3543 3596 2.417379 GCGGACAGATAGATGTGTGTGT 60.417 50.000 0.00 0.00 34.11 3.72
3544 3597 3.849911 CGGACAGATAGATGTGTGTGTT 58.150 45.455 0.00 0.00 34.11 3.32
3665 3722 3.788434 AATCGCATTTTCTATACGCGG 57.212 42.857 12.47 0.00 45.66 6.46
3811 3868 3.435327 TGTACTGCATGATTCGTTTGACC 59.565 43.478 0.00 0.00 0.00 4.02
3847 3904 5.593679 AATTCATTTTCCTGGCATGAGAG 57.406 39.130 0.00 0.00 0.00 3.20
3934 3993 8.961634 CGATGGAGATGTTCCTTTCTATCTATA 58.038 37.037 0.00 0.00 46.92 1.31
3937 3996 9.261035 TGGAGATGTTCCTTTCTATCTATATCC 57.739 37.037 0.00 0.00 46.92 2.59
3985 4047 8.547967 AACAAATACAACCACTACTACTGATG 57.452 34.615 0.00 0.00 0.00 3.07
3986 4048 7.676947 ACAAATACAACCACTACTACTGATGT 58.323 34.615 0.00 0.00 0.00 3.06
3988 4050 8.999431 CAAATACAACCACTACTACTGATGTTT 58.001 33.333 0.00 0.00 0.00 2.83
3990 4052 9.569122 AATACAACCACTACTACTGATGTTTTT 57.431 29.630 0.00 0.00 0.00 1.94
4002 4064 9.832445 ACTACTGATGTTTTTAGAGAAAAGACA 57.168 29.630 0.00 0.00 35.96 3.41
4015 4077 4.652822 AGAAAAGACATTAGCCCGACTTT 58.347 39.130 0.00 0.00 0.00 2.66
4021 4083 7.549615 AAGACATTAGCCCGACTTTATAAAC 57.450 36.000 0.00 0.00 0.00 2.01
4031 4093 5.158494 CCGACTTTATAAACAAAGCCAACC 58.842 41.667 0.00 0.00 38.79 3.77
4038 4100 2.015227 AACAAAGCCAACCAGCACGG 62.015 55.000 0.00 0.00 42.50 4.94
4058 4120 5.588648 CACGGATAAGTTTACAACATCCCAT 59.411 40.000 0.00 0.00 32.89 4.00
4060 4122 5.008613 CGGATAAGTTTACAACATCCCATGG 59.991 44.000 4.14 4.14 32.89 3.66
4061 4123 5.301805 GGATAAGTTTACAACATCCCATGGG 59.698 44.000 26.30 26.30 31.22 4.00
4064 4126 1.034838 TTACAACATCCCATGGGCGC 61.035 55.000 27.41 0.00 34.68 6.53
4161 4223 2.485814 GCCAACAAACAACCAGCAAAAA 59.514 40.909 0.00 0.00 0.00 1.94
4191 4253 3.240134 GAGACGAAGGCAGCCACCA 62.240 63.158 15.80 0.00 0.00 4.17
4193 4255 1.896660 GACGAAGGCAGCCACCAAA 60.897 57.895 15.80 0.00 0.00 3.28
4243 4305 2.716398 CGCACGATCTTGACGAGATAA 58.284 47.619 5.11 0.00 45.17 1.75
4245 4307 3.435566 GCACGATCTTGACGAGATAACA 58.564 45.455 5.11 0.00 45.17 2.41
4266 4328 0.530744 AGATGTCGTGGTACGCACAT 59.469 50.000 14.49 14.49 42.21 3.21
4268 4330 0.037697 ATGTCGTGGTACGCACATGT 60.038 50.000 14.09 0.00 42.21 3.21
4274 4336 2.534349 CGTGGTACGCACATGTAAGATC 59.466 50.000 0.00 0.00 39.91 2.75
4289 4359 4.956075 TGTAAGATCAGTGCATCAGTAGGA 59.044 41.667 0.00 0.00 0.00 2.94
4310 4380 3.695830 TCCTTGTCGCACTCCTTAATT 57.304 42.857 0.00 0.00 0.00 1.40
4343 4436 8.220755 TCCTGCACATAATCTTACATTTAACC 57.779 34.615 0.00 0.00 0.00 2.85
4366 4459 6.715264 ACCAATCGGTATTTCTTCTTGTTCTT 59.285 34.615 0.00 0.00 46.71 2.52
4369 4462 4.387862 TCGGTATTTCTTCTTGTTCTTCGC 59.612 41.667 0.00 0.00 0.00 4.70
4502 4596 2.526873 AGACCCTGCCAACCGTCT 60.527 61.111 0.00 0.00 0.00 4.18
4536 4630 0.460311 CACCTAGGTGTGACCCGATC 59.540 60.000 30.57 0.00 39.75 3.69
4549 4643 1.276989 ACCCGATCGCCAACTTTTAGA 59.723 47.619 10.32 0.00 0.00 2.10
4551 4645 2.745281 CCCGATCGCCAACTTTTAGAAA 59.255 45.455 10.32 0.00 0.00 2.52
4553 4647 3.187637 CCGATCGCCAACTTTTAGAAACA 59.812 43.478 10.32 0.00 0.00 2.83
4562 4656 6.337356 CCAACTTTTAGAAACAAAGGAGCAA 58.663 36.000 0.00 0.00 35.82 3.91
4569 4663 9.691362 TTTTAGAAACAAAGGAGCAACATATTC 57.309 29.630 0.00 0.00 0.00 1.75
4578 4672 7.716799 AAGGAGCAACATATTCCATACAAAA 57.283 32.000 0.00 0.00 33.32 2.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.589630 CGGACTGATGGACCGTGAA 59.410 57.895 0.00 0.00 41.47 3.18
3 4 3.771160 GCCGGACTGATGGACCGT 61.771 66.667 5.05 0.00 44.34 4.83
4 5 4.530857 GGCCGGACTGATGGACCG 62.531 72.222 5.05 0.00 45.24 4.79
6 7 1.407656 TATGGGCCGGACTGATGGAC 61.408 60.000 7.57 0.00 0.00 4.02
7 8 0.473694 ATATGGGCCGGACTGATGGA 60.474 55.000 7.57 0.00 0.00 3.41
8 9 0.036010 GATATGGGCCGGACTGATGG 60.036 60.000 7.57 0.00 0.00 3.51
11 12 0.757561 TTCGATATGGGCCGGACTGA 60.758 55.000 7.57 0.00 0.00 3.41
13 14 1.933021 TATTCGATATGGGCCGGACT 58.067 50.000 7.57 0.00 0.00 3.85
14 15 2.344025 GTTATTCGATATGGGCCGGAC 58.656 52.381 5.05 0.00 0.00 4.79
15 16 1.276989 GGTTATTCGATATGGGCCGGA 59.723 52.381 5.05 0.00 0.00 5.14
16 17 1.677820 GGGTTATTCGATATGGGCCGG 60.678 57.143 0.00 0.00 0.00 6.13
17 18 1.734163 GGGTTATTCGATATGGGCCG 58.266 55.000 0.00 0.00 0.00 6.13
18 19 1.677820 CCGGGTTATTCGATATGGGCC 60.678 57.143 0.00 0.00 0.00 5.80
19 20 1.276989 TCCGGGTTATTCGATATGGGC 59.723 52.381 0.00 0.00 0.00 5.36
20 21 2.300723 TGTCCGGGTTATTCGATATGGG 59.699 50.000 0.00 0.00 0.00 4.00
21 22 3.323243 GTGTCCGGGTTATTCGATATGG 58.677 50.000 0.00 0.00 0.00 2.74
22 23 3.323243 GGTGTCCGGGTTATTCGATATG 58.677 50.000 0.00 0.00 0.00 1.78
23 24 2.029649 CGGTGTCCGGGTTATTCGATAT 60.030 50.000 0.00 0.00 44.15 1.63
24 25 1.337703 CGGTGTCCGGGTTATTCGATA 59.662 52.381 0.00 0.00 44.15 2.92
25 26 0.103572 CGGTGTCCGGGTTATTCGAT 59.896 55.000 0.00 0.00 44.15 3.59
26 27 1.512230 CGGTGTCCGGGTTATTCGA 59.488 57.895 0.00 0.00 44.15 3.71
27 28 4.097828 CGGTGTCCGGGTTATTCG 57.902 61.111 0.00 0.00 44.15 3.34
37 38 0.906282 TAAGGGGTCCTTCGGTGTCC 60.906 60.000 2.07 0.00 43.57 4.02
38 39 0.978907 TTAAGGGGTCCTTCGGTGTC 59.021 55.000 2.07 0.00 43.57 3.67
39 40 1.558294 GATTAAGGGGTCCTTCGGTGT 59.442 52.381 2.07 0.00 43.57 4.16
40 41 1.134189 GGATTAAGGGGTCCTTCGGTG 60.134 57.143 2.07 0.00 43.57 4.94
41 42 1.210538 GGATTAAGGGGTCCTTCGGT 58.789 55.000 2.07 0.00 43.57 4.69
42 43 1.141053 CTGGATTAAGGGGTCCTTCGG 59.859 57.143 2.07 0.00 43.57 4.30
43 44 1.141053 CCTGGATTAAGGGGTCCTTCG 59.859 57.143 2.07 0.00 43.57 3.79
44 45 2.172930 GTCCTGGATTAAGGGGTCCTTC 59.827 54.545 0.00 0.00 43.57 3.46
45 46 2.206223 GTCCTGGATTAAGGGGTCCTT 58.794 52.381 0.00 4.51 46.63 3.36
46 47 1.369983 AGTCCTGGATTAAGGGGTCCT 59.630 52.381 0.00 0.00 37.96 3.85
47 48 1.769465 GAGTCCTGGATTAAGGGGTCC 59.231 57.143 0.00 0.00 37.96 4.46
48 49 1.769465 GGAGTCCTGGATTAAGGGGTC 59.231 57.143 0.41 0.00 37.96 4.46
49 50 1.628327 GGGAGTCCTGGATTAAGGGGT 60.628 57.143 9.58 0.00 37.96 4.95
50 51 1.141185 GGGAGTCCTGGATTAAGGGG 58.859 60.000 9.58 0.00 37.96 4.79
51 52 2.050918 GAGGGAGTCCTGGATTAAGGG 58.949 57.143 9.58 0.00 45.05 3.95
52 53 2.436173 GTGAGGGAGTCCTGGATTAAGG 59.564 54.545 9.58 0.00 45.05 2.69
53 54 2.436173 GGTGAGGGAGTCCTGGATTAAG 59.564 54.545 9.58 0.00 45.05 1.85
54 55 2.225779 TGGTGAGGGAGTCCTGGATTAA 60.226 50.000 9.58 0.00 45.05 1.40
55 56 1.364678 TGGTGAGGGAGTCCTGGATTA 59.635 52.381 9.58 0.00 45.05 1.75
56 57 0.119155 TGGTGAGGGAGTCCTGGATT 59.881 55.000 9.58 0.00 45.05 3.01
57 58 0.344790 ATGGTGAGGGAGTCCTGGAT 59.655 55.000 9.58 0.00 45.05 3.41
58 59 0.325671 GATGGTGAGGGAGTCCTGGA 60.326 60.000 9.58 0.00 45.05 3.86
59 60 1.680522 CGATGGTGAGGGAGTCCTGG 61.681 65.000 9.58 0.00 45.05 4.45
60 61 1.819229 CGATGGTGAGGGAGTCCTG 59.181 63.158 9.58 0.00 45.05 3.86
62 63 1.899437 TTGCGATGGTGAGGGAGTCC 61.899 60.000 0.00 0.00 0.00 3.85
63 64 0.741221 GTTGCGATGGTGAGGGAGTC 60.741 60.000 0.00 0.00 0.00 3.36
64 65 1.296715 GTTGCGATGGTGAGGGAGT 59.703 57.895 0.00 0.00 0.00 3.85
65 66 0.321564 TTGTTGCGATGGTGAGGGAG 60.322 55.000 0.00 0.00 0.00 4.30
66 67 0.109532 TTTGTTGCGATGGTGAGGGA 59.890 50.000 0.00 0.00 0.00 4.20
67 68 0.523072 CTTTGTTGCGATGGTGAGGG 59.477 55.000 0.00 0.00 0.00 4.30
68 69 0.523072 CCTTTGTTGCGATGGTGAGG 59.477 55.000 0.00 0.00 0.00 3.86
69 70 1.238439 ACCTTTGTTGCGATGGTGAG 58.762 50.000 0.00 0.00 0.00 3.51
136 137 2.094906 TCTGCAGCATCACTTTCATTGC 60.095 45.455 9.47 0.00 35.34 3.56
140 141 2.810274 GTTCTCTGCAGCATCACTTTCA 59.190 45.455 9.47 0.00 0.00 2.69
142 143 3.137446 AGTTCTCTGCAGCATCACTTT 57.863 42.857 9.47 0.00 0.00 2.66
144 145 2.812591 CAAAGTTCTCTGCAGCATCACT 59.187 45.455 9.47 5.36 0.00 3.41
155 156 4.973168 TCACCTATGTTGCAAAGTTCTCT 58.027 39.130 0.00 0.00 0.00 3.10
188 189 2.029649 ACATCACCTCTGTTGCAAATGC 60.030 45.455 0.00 0.00 42.50 3.56
199 200 2.687935 ACGTTTTTGCAACATCACCTCT 59.312 40.909 0.00 0.00 0.00 3.69
200 201 3.042887 GACGTTTTTGCAACATCACCTC 58.957 45.455 0.00 0.00 0.00 3.85
222 223 1.338769 GCTAAGTGGTGTTGATCGGGT 60.339 52.381 0.00 0.00 0.00 5.28
227 228 6.006449 AGAAAGATTGCTAAGTGGTGTTGAT 58.994 36.000 0.00 0.00 0.00 2.57
231 232 6.770785 TGTAAAGAAAGATTGCTAAGTGGTGT 59.229 34.615 0.00 0.00 0.00 4.16
240 241 8.870075 AACCTCTATTGTAAAGAAAGATTGCT 57.130 30.769 0.00 0.00 0.00 3.91
247 268 7.829211 AGCAGCATAACCTCTATTGTAAAGAAA 59.171 33.333 0.00 0.00 0.00 2.52
264 285 3.119990 GCGGTGACTTTTTAGCAGCATAA 60.120 43.478 0.00 0.00 0.00 1.90
265 286 2.418628 GCGGTGACTTTTTAGCAGCATA 59.581 45.455 0.00 0.00 0.00 3.14
266 287 1.200020 GCGGTGACTTTTTAGCAGCAT 59.800 47.619 0.00 0.00 0.00 3.79
267 288 0.591170 GCGGTGACTTTTTAGCAGCA 59.409 50.000 0.00 0.00 0.00 4.41
268 289 0.109735 GGCGGTGACTTTTTAGCAGC 60.110 55.000 0.00 0.00 0.00 5.25
269 290 1.234821 TGGCGGTGACTTTTTAGCAG 58.765 50.000 0.00 0.00 0.00 4.24
270 291 1.904287 ATGGCGGTGACTTTTTAGCA 58.096 45.000 0.00 0.00 0.00 3.49
271 292 2.227865 TCAATGGCGGTGACTTTTTAGC 59.772 45.455 0.00 0.00 0.00 3.09
272 293 3.670627 GCTCAATGGCGGTGACTTTTTAG 60.671 47.826 0.00 0.00 0.00 1.85
273 294 2.227865 GCTCAATGGCGGTGACTTTTTA 59.772 45.455 0.00 0.00 0.00 1.52
274 295 1.000274 GCTCAATGGCGGTGACTTTTT 60.000 47.619 0.00 0.00 0.00 1.94
275 296 0.598065 GCTCAATGGCGGTGACTTTT 59.402 50.000 0.00 0.00 0.00 2.27
276 297 0.537143 TGCTCAATGGCGGTGACTTT 60.537 50.000 0.00 0.00 34.52 2.66
310 331 3.679262 GCTTTTGCAATAGCGGCG 58.321 55.556 23.14 0.51 46.23 6.46
343 364 1.805945 CTAAGGTGGTGCTCGACGC 60.806 63.158 0.00 0.58 39.77 5.19
346 367 1.414919 ACAAACTAAGGTGGTGCTCGA 59.585 47.619 0.00 0.00 0.00 4.04
362 383 5.767665 TGGCTTTTGAAGTAGCAGATACAAA 59.232 36.000 0.00 0.00 39.15 2.83
367 388 3.754965 TGTGGCTTTTGAAGTAGCAGAT 58.245 40.909 0.00 0.00 39.15 2.90
377 398 1.547675 GGGTCCTGATGTGGCTTTTGA 60.548 52.381 0.00 0.00 0.00 2.69
412 433 1.269936 GCTTGGATGTGCAAGTGCTTT 60.270 47.619 14.39 0.00 42.66 3.51
437 458 1.000521 ATGTCCATGGCCACAGTGG 60.001 57.895 16.16 16.16 41.55 4.00
477 498 0.827368 GAGTGAAGCGAGAAGGGGAT 59.173 55.000 0.00 0.00 0.00 3.85
487 508 2.661566 CGTGGTGCAGAGTGAAGCG 61.662 63.158 0.00 0.00 0.00 4.68
534 555 1.692148 TAATTCAAGGAGTGCGCGCG 61.692 55.000 28.44 28.44 0.00 6.86
535 556 0.657840 ATAATTCAAGGAGTGCGCGC 59.342 50.000 27.26 27.26 0.00 6.86
536 557 1.665679 ACATAATTCAAGGAGTGCGCG 59.334 47.619 0.00 0.00 0.00 6.86
539 560 4.697352 ACACTGACATAATTCAAGGAGTGC 59.303 41.667 0.00 0.00 0.00 4.40
549 570 3.189910 CAGCTGCACACACTGACATAATT 59.810 43.478 0.00 0.00 33.10 1.40
559 580 2.987547 ATGGCCAGCTGCACACAC 60.988 61.111 13.05 0.00 43.89 3.82
627 648 2.634453 TCTTGATGGAGAAGCAGTGTGA 59.366 45.455 0.00 0.00 0.00 3.58
629 650 2.902486 TCTCTTGATGGAGAAGCAGTGT 59.098 45.455 0.00 0.00 39.13 3.55
644 665 3.195396 CACCTCCTCCTTCTCTTCTCTTG 59.805 52.174 0.00 0.00 0.00 3.02
669 690 3.281359 GAAACCATGTGCACCCGCC 62.281 63.158 15.69 0.00 37.32 6.13
672 693 1.290009 GCTGAAACCATGTGCACCC 59.710 57.895 15.69 0.00 0.00 4.61
673 694 1.081242 CGCTGAAACCATGTGCACC 60.081 57.895 15.69 0.00 0.00 5.01
675 696 0.817229 TGTCGCTGAAACCATGTGCA 60.817 50.000 0.00 0.00 0.00 4.57
677 698 1.069703 CACTGTCGCTGAAACCATGTG 60.070 52.381 0.00 0.00 0.00 3.21
678 699 1.229428 CACTGTCGCTGAAACCATGT 58.771 50.000 0.00 0.00 0.00 3.21
681 702 2.243957 CGCACTGTCGCTGAAACCA 61.244 57.895 0.00 0.00 0.00 3.67
682 703 1.891060 CTCGCACTGTCGCTGAAACC 61.891 60.000 0.00 0.00 0.00 3.27
683 704 1.488957 CTCGCACTGTCGCTGAAAC 59.511 57.895 0.00 0.00 0.00 2.78
684 705 2.310233 GCTCGCACTGTCGCTGAAA 61.310 57.895 0.00 0.00 0.00 2.69
685 706 2.734723 GCTCGCACTGTCGCTGAA 60.735 61.111 0.00 0.00 0.00 3.02
686 707 3.977244 TGCTCGCACTGTCGCTGA 61.977 61.111 0.00 1.06 0.00 4.26
690 711 3.756677 CACGTGCTCGCACTGTCG 61.757 66.667 18.63 8.93 44.16 4.35
691 712 3.406361 CCACGTGCTCGCACTGTC 61.406 66.667 18.63 0.00 44.16 3.51
718 739 3.842923 CCAGGACGCGCTGGATCT 61.843 66.667 23.64 2.68 43.08 2.75
745 766 3.075005 GTAGACCCTGAGGCGCCA 61.075 66.667 31.54 7.98 36.11 5.69
747 768 1.448013 GTTGTAGACCCTGAGGCGC 60.448 63.158 0.00 0.00 36.11 6.53
754 775 2.203877 TGCCCCGTTGTAGACCCT 60.204 61.111 0.00 0.00 0.00 4.34
761 782 1.379309 ACAACAAGTGCCCCGTTGT 60.379 52.632 0.00 0.00 46.25 3.32
783 804 2.614057 GCCTCCACTGTAATCCAATTCG 59.386 50.000 0.00 0.00 0.00 3.34
784 805 2.952310 GGCCTCCACTGTAATCCAATTC 59.048 50.000 0.00 0.00 0.00 2.17
795 816 1.108727 TTGCAACTTGGCCTCCACTG 61.109 55.000 3.32 0.00 30.78 3.66
797 818 0.463620 TTTTGCAACTTGGCCTCCAC 59.536 50.000 3.32 0.00 30.78 4.02
871 892 3.703939 CTCGTCGTCGACTGCCTCG 62.704 68.421 22.18 8.90 44.44 4.63
888 909 1.674441 CATGATGGATGAAGTTGCGCT 59.326 47.619 9.73 0.00 33.31 5.92
997 1020 6.397480 GCGTTCGTTAATTGTTTGTCATTGAG 60.397 38.462 0.00 0.00 0.00 3.02
1045 1072 2.478894 TCCGTCTTCTTTTAGCTTTGCG 59.521 45.455 0.00 0.00 0.00 4.85
1078 1105 3.940209 TGAGGGATGCATGTTTTGAAC 57.060 42.857 2.46 0.00 0.00 3.18
1148 1176 2.735772 GCAATGGCGGAGAGGGAGA 61.736 63.158 0.00 0.00 0.00 3.71
1152 1180 3.197790 CGTGCAATGGCGGAGAGG 61.198 66.667 0.00 0.00 45.35 3.69
1389 1436 2.125147 CGGCGGCATCCTTCTTGA 60.125 61.111 10.53 0.00 0.00 3.02
1567 1614 4.166888 GAGATGCTCAGCGGGGCA 62.167 66.667 15.43 15.43 42.80 5.36
1642 1689 0.340208 CCCACTTACCCTCCTCTCCT 59.660 60.000 0.00 0.00 0.00 3.69
1844 1891 2.504026 CTCGAGCAGCGCGTACAA 60.504 61.111 18.51 0.00 40.61 2.41
1846 1893 4.175489 TCCTCGAGCAGCGCGTAC 62.175 66.667 18.51 0.00 40.61 3.67
1847 1894 4.175489 GTCCTCGAGCAGCGCGTA 62.175 66.667 18.51 4.61 40.61 4.42
1868 1915 4.383602 CGGCGTTTTGGTGAGGCG 62.384 66.667 0.00 0.00 45.35 5.52
1874 1921 3.956317 GGCGTTCGGCGTTTTGGT 61.956 61.111 6.85 0.00 44.92 3.67
3541 3594 0.862490 CGGATACACACGCACAAACA 59.138 50.000 0.00 0.00 0.00 2.83
3542 3595 0.863144 ACGGATACACACGCACAAAC 59.137 50.000 0.00 0.00 0.00 2.93
3543 3596 1.261885 CAACGGATACACACGCACAAA 59.738 47.619 0.00 0.00 0.00 2.83
3544 3597 0.862490 CAACGGATACACACGCACAA 59.138 50.000 0.00 0.00 0.00 3.33
3665 3722 0.522705 CTGAGACATGCATGCAACGC 60.523 55.000 26.68 19.58 0.00 4.84
3836 3893 1.101635 CATGCCACCTCTCATGCCAG 61.102 60.000 0.00 0.00 34.44 4.85
3949 4008 8.608317 AGTGGTTGTATTTGTTATTGTTTTTGC 58.392 29.630 0.00 0.00 0.00 3.68
3970 4032 8.418597 TCTCTAAAAACATCAGTAGTAGTGGT 57.581 34.615 5.14 0.00 0.00 4.16
3983 4045 8.523658 GGGCTAATGTCTTTTCTCTAAAAACAT 58.476 33.333 0.00 0.00 37.60 2.71
3985 4047 7.021790 CGGGCTAATGTCTTTTCTCTAAAAAC 58.978 38.462 0.00 0.00 34.26 2.43
3986 4048 6.938030 TCGGGCTAATGTCTTTTCTCTAAAAA 59.062 34.615 0.00 0.00 34.26 1.94
3988 4050 5.873164 GTCGGGCTAATGTCTTTTCTCTAAA 59.127 40.000 0.00 0.00 0.00 1.85
3990 4052 4.710375 AGTCGGGCTAATGTCTTTTCTCTA 59.290 41.667 0.00 0.00 0.00 2.43
3991 4053 3.515901 AGTCGGGCTAATGTCTTTTCTCT 59.484 43.478 0.00 0.00 0.00 3.10
4002 4064 6.183360 GGCTTTGTTTATAAAGTCGGGCTAAT 60.183 38.462 0.00 0.00 39.33 1.73
4015 4077 3.057876 CGTGCTGGTTGGCTTTGTTTATA 60.058 43.478 0.00 0.00 0.00 0.98
4021 4083 1.526575 ATCCGTGCTGGTTGGCTTTG 61.527 55.000 0.00 0.00 39.52 2.77
4038 4100 5.221244 GCCCATGGGATGTTGTAAACTTATC 60.221 44.000 36.00 6.13 42.50 1.75
4060 4122 1.823899 CCTCACTTTATGGGGCGCC 60.824 63.158 21.18 21.18 44.10 6.53
4061 4123 3.827634 CCTCACTTTATGGGGCGC 58.172 61.111 0.00 0.00 44.10 6.53
4069 4131 8.911918 TTACTTTGCTTTGTATCCTCACTTTA 57.088 30.769 0.00 0.00 0.00 1.85
4139 4201 0.107945 TTGCTGGTTGTTTGTTGGCC 60.108 50.000 0.00 0.00 0.00 5.36
4140 4202 1.731720 TTTGCTGGTTGTTTGTTGGC 58.268 45.000 0.00 0.00 0.00 4.52
4144 4206 5.529060 TGTTTTCTTTTTGCTGGTTGTTTGT 59.471 32.000 0.00 0.00 0.00 2.83
4145 4207 5.995055 TGTTTTCTTTTTGCTGGTTGTTTG 58.005 33.333 0.00 0.00 0.00 2.93
4161 4223 3.748568 GCCTTCGTCTCATTCTGTTTTCT 59.251 43.478 0.00 0.00 0.00 2.52
4191 4253 0.402121 GGAGGGTTGTGGCTCTCTTT 59.598 55.000 0.00 0.00 36.29 2.52
4193 4255 1.920835 GGGAGGGTTGTGGCTCTCT 60.921 63.158 0.00 0.00 36.29 3.10
4243 4305 1.269883 TGCGTACCACGACATCTTTGT 60.270 47.619 2.35 0.00 46.05 2.83
4245 4307 1.269883 TGTGCGTACCACGACATCTTT 60.270 47.619 0.00 0.00 46.05 2.52
4266 4328 4.956075 TCCTACTGATGCACTGATCTTACA 59.044 41.667 0.00 0.00 0.00 2.41
4268 4330 5.244851 GGATCCTACTGATGCACTGATCTTA 59.755 44.000 3.84 0.00 41.20 2.10
4274 4336 3.118482 ACAAGGATCCTACTGATGCACTG 60.118 47.826 16.55 7.96 43.79 3.66
4289 4359 3.914426 ATTAAGGAGTGCGACAAGGAT 57.086 42.857 0.00 0.00 0.00 3.24
4310 4380 8.650490 TGTAAGATTATGTGCAGGAGATCATTA 58.350 33.333 0.00 0.00 0.00 1.90
4343 4436 6.955963 CGAAGAACAAGAAGAAATACCGATTG 59.044 38.462 0.00 0.00 0.00 2.67
4366 4459 1.091537 GTTTCCATTGGAATCCGCGA 58.908 50.000 18.62 0.01 41.71 5.87
4391 4485 2.236146 ACGCTGGGTATGACAAGAATCA 59.764 45.455 0.00 0.00 0.00 2.57
4496 4590 3.132646 TGTGGGCGTTATAATTAGACGGT 59.867 43.478 19.51 0.00 37.28 4.83
4502 4596 4.655186 ACCTAGGTGTGGGCGTTATAATTA 59.345 41.667 15.42 0.00 0.00 1.40
4536 4630 4.927422 TCCTTTGTTTCTAAAAGTTGGCG 58.073 39.130 0.00 0.00 33.61 5.69
4549 4643 6.610075 ATGGAATATGTTGCTCCTTTGTTT 57.390 33.333 0.00 0.00 0.00 2.83
4551 4645 6.186957 TGTATGGAATATGTTGCTCCTTTGT 58.813 36.000 0.00 0.00 0.00 2.83
4553 4647 7.716799 TTTGTATGGAATATGTTGCTCCTTT 57.283 32.000 0.00 0.00 0.00 3.11


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

AutoCloner maintained by Alex Coulton.