Multiple sequence alignment - TraesCS3A01G171000

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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 TraesCS3A01G171000 chr3A 100.000 3151 0 0 1 3151 181089769 181086619 0.000000e+00 5819.0
1 TraesCS3A01G171000 chr3A 96.043 278 10 1 2870 3147 638294384 638294660 4.790000e-123 451.0
2 TraesCS3A01G171000 chr3D 94.722 2501 120 9 1 2497 149771689 149774181 0.000000e+00 3877.0
3 TraesCS3A01G171000 chr3D 93.333 75 5 0 2423 2497 321866132 321866058 9.240000e-21 111.0
4 TraesCS3A01G171000 chr7D 79.336 1505 259 46 842 2310 19389029 19390517 0.000000e+00 1009.0
5 TraesCS3A01G171000 chr7D 91.076 381 33 1 2494 2873 432659234 432658854 6.030000e-142 514.0
6 TraesCS3A01G171000 chr2B 83.675 1072 130 18 1362 2407 785992289 785991237 0.000000e+00 968.0
7 TraesCS3A01G171000 chr2B 78.783 608 98 20 781 1368 785994117 785993521 2.290000e-101 379.0
8 TraesCS3A01G171000 chr1A 82.577 815 106 18 1578 2379 587771181 587771972 0.000000e+00 686.0
9 TraesCS3A01G171000 chr1A 81.692 792 111 16 1599 2379 587741461 587742229 2.060000e-176 628.0
10 TraesCS3A01G171000 chr1A 89.333 75 8 0 2423 2497 548640163 548640089 9.300000e-16 95.3
11 TraesCS3A01G171000 chr5A 84.731 668 76 15 2500 3147 200285194 200284533 0.000000e+00 645.0
12 TraesCS3A01G171000 chr5A 96.364 275 10 0 2873 3147 317904062 317904336 1.330000e-123 453.0
13 TraesCS3A01G171000 chr5A 77.716 718 135 18 831 1535 31314623 31315328 1.750000e-112 416.0
14 TraesCS3A01G171000 chrUn 81.579 798 113 16 1599 2385 2180426 2179652 2.060000e-176 628.0
15 TraesCS3A01G171000 chrUn 81.692 792 111 16 1599 2379 324048045 324048813 2.060000e-176 628.0
16 TraesCS3A01G171000 chrUn 87.143 70 9 0 2423 2492 65662119 65662188 2.610000e-11 80.5
17 TraesCS3A01G171000 chrUn 87.143 70 8 1 2423 2492 25048212 25048280 9.370000e-11 78.7
18 TraesCS3A01G171000 chrUn 85.714 70 10 0 2423 2492 197731041 197731110 1.210000e-09 75.0
19 TraesCS3A01G171000 chrUn 84.507 71 11 0 2423 2493 70367245 70367175 1.570000e-08 71.3
20 TraesCS3A01G171000 chrUn 83.333 72 8 4 2423 2492 16264125 16264056 2.620000e-06 63.9
21 TraesCS3A01G171000 chrUn 83.333 72 8 4 2423 2492 16295263 16295194 2.620000e-06 63.9
22 TraesCS3A01G171000 chrUn 82.857 70 12 0 2423 2492 121731043 121731112 2.620000e-06 63.9
23 TraesCS3A01G171000 chrUn 83.333 72 8 4 2423 2492 372763515 372763584 2.620000e-06 63.9
24 TraesCS3A01G171000 chrUn 83.333 72 8 4 2423 2492 384229587 384229656 2.620000e-06 63.9
25 TraesCS3A01G171000 chr7A 77.321 1120 219 27 766 1863 642894958 642893852 2.060000e-176 628.0
26 TraesCS3A01G171000 chr7A 96.364 275 10 0 2873 3147 197276386 197276112 1.330000e-123 453.0
27 TraesCS3A01G171000 chr7A 78.475 669 125 14 891 1548 19783219 19783879 1.350000e-113 420.0
28 TraesCS3A01G171000 chr7A 76.863 255 58 1 1603 1856 19783877 19784131 3.280000e-30 143.0
29 TraesCS3A01G171000 chr5B 93.421 380 22 1 2497 2873 23569595 23569974 7.630000e-156 560.0
30 TraesCS3A01G171000 chr5B 80.905 398 71 5 1246 1641 710500522 710500916 3.050000e-80 309.0
31 TraesCS3A01G171000 chr4D 92.553 376 24 3 2497 2871 358117531 358117903 1.290000e-148 536.0
32 TraesCS3A01G171000 chr4D 92.000 75 6 0 2423 2497 475656280 475656354 4.300000e-19 106.0
33 TraesCS3A01G171000 chr4D 89.189 74 8 0 2423 2496 443255542 443255615 3.350000e-15 93.5
34 TraesCS3A01G171000 chr4D 90.000 70 7 0 2423 2492 293878649 293878718 1.200000e-14 91.6
35 TraesCS3A01G171000 chr4D 88.000 75 9 0 2423 2497 147552317 147552391 4.330000e-14 89.8
36 TraesCS3A01G171000 chr2A 91.293 379 28 4 2498 2873 160218105 160218481 2.170000e-141 512.0
37 TraesCS3A01G171000 chr2A 90.765 379 32 3 2496 2873 636841892 636841516 1.300000e-138 503.0
38 TraesCS3A01G171000 chr2A 96.703 273 9 0 2875 3147 533388800 533389072 3.700000e-124 455.0
39 TraesCS3A01G171000 chr2D 91.029 379 32 2 2496 2873 564265579 564265202 7.800000e-141 510.0
40 TraesCS3A01G171000 chr2D 92.000 75 4 1 2423 2497 315975098 315975026 1.550000e-18 104.0
41 TraesCS3A01G171000 chr4A 90.765 379 32 3 2497 2873 687740298 687740675 1.300000e-138 503.0
42 TraesCS3A01G171000 chr3B 90.289 381 36 1 2493 2873 235814711 235814332 6.070000e-137 497.0
43 TraesCS3A01G171000 chr6A 96.727 275 9 0 2873 3147 458116430 458116704 2.860000e-125 459.0
44 TraesCS3A01G171000 chr6A 96.364 275 10 0 2873 3147 363054837 363054563 1.330000e-123 453.0
45 TraesCS3A01G171000 chr6A 90.667 75 7 0 2423 2497 63043919 63043845 2.000000e-17 100.0
46 TraesCS3A01G171000 chr6D 96.071 280 11 0 2872 3151 155655630 155655909 1.030000e-124 457.0
47 TraesCS3A01G171000 chr6D 96.364 275 10 0 2873 3147 75004019 75003745 1.330000e-123 453.0
48 TraesCS3A01G171000 chr6D 93.333 75 5 0 2423 2497 296153379 296153453 9.240000e-21 111.0
49 TraesCS3A01G171000 chr6D 89.041 73 8 0 2423 2495 122366983 122366911 1.200000e-14 91.6
50 TraesCS3A01G171000 chr6D 88.158 76 9 0 2423 2498 268362399 268362324 1.200000e-14 91.6
51 TraesCS3A01G171000 chr6D 88.158 76 8 1 2423 2497 276460081 276460006 4.330000e-14 89.8
52 TraesCS3A01G171000 chr6D 88.571 70 8 0 2423 2492 162184421 162184490 5.600000e-13 86.1
53 TraesCS3A01G171000 chr6D 87.838 74 8 1 2423 2495 255134355 255134428 5.600000e-13 86.1
54 TraesCS3A01G171000 chr6D 89.231 65 7 0 2423 2487 95445709 95445773 7.240000e-12 82.4
55 TraesCS3A01G171000 chr6D 87.143 70 9 0 2424 2493 43653832 43653901 2.610000e-11 80.5
56 TraesCS3A01G171000 chr6D 87.143 70 9 0 2423 2492 143619490 143619421 2.610000e-11 80.5
57 TraesCS3A01G171000 chr6D 86.486 74 9 1 2420 2492 211587542 211587469 2.610000e-11 80.5
58 TraesCS3A01G171000 chr5D 75.000 500 110 12 1657 2151 39763703 39764192 1.900000e-52 217.0
59 TraesCS3A01G171000 chr5D 92.000 75 6 0 2423 2497 221736429 221736503 4.300000e-19 106.0
60 TraesCS3A01G171000 chr5D 90.667 75 7 0 2423 2497 213166499 213166425 2.000000e-17 100.0
61 TraesCS3A01G171000 chr5D 82.000 100 16 2 2423 2522 12758507 12758604 2.010000e-12 84.2
62 TraesCS3A01G171000 chr5D 90.476 63 4 2 2269 2329 560189193 560189255 7.240000e-12 82.4
63 TraesCS3A01G171000 chr7B 92.000 75 6 0 2422 2496 236134949 236135023 4.300000e-19 106.0
64 TraesCS3A01G171000 chr4B 90.667 75 7 0 2423 2497 327786354 327786280 2.000000e-17 100.0
65 TraesCS3A01G171000 chr4B 90.667 75 7 0 2423 2497 373049769 373049695 2.000000e-17 100.0
66 TraesCS3A01G171000 chr4B 90.411 73 7 0 2423 2495 432321479 432321551 2.590000e-16 97.1
67 TraesCS3A01G171000 chr4B 89.333 75 8 0 2423 2497 595732995 595733069 9.300000e-16 95.3
68 TraesCS3A01G171000 chr1D 90.667 75 7 0 2423 2497 442518964 442519038 2.000000e-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 TraesCS3A01G171000 chr3A 181086619 181089769 3150 True 5819.0 5819 100.000 1 3151 1 chr3A.!!$R1 3150
1 TraesCS3A01G171000 chr3D 149771689 149774181 2492 False 3877.0 3877 94.722 1 2497 1 chr3D.!!$F1 2496
2 TraesCS3A01G171000 chr7D 19389029 19390517 1488 False 1009.0 1009 79.336 842 2310 1 chr7D.!!$F1 1468
3 TraesCS3A01G171000 chr2B 785991237 785994117 2880 True 673.5 968 81.229 781 2407 2 chr2B.!!$R1 1626
4 TraesCS3A01G171000 chr1A 587771181 587771972 791 False 686.0 686 82.577 1578 2379 1 chr1A.!!$F2 801
5 TraesCS3A01G171000 chr1A 587741461 587742229 768 False 628.0 628 81.692 1599 2379 1 chr1A.!!$F1 780
6 TraesCS3A01G171000 chr5A 200284533 200285194 661 True 645.0 645 84.731 2500 3147 1 chr5A.!!$R1 647
7 TraesCS3A01G171000 chr5A 31314623 31315328 705 False 416.0 416 77.716 831 1535 1 chr5A.!!$F1 704
8 TraesCS3A01G171000 chrUn 2179652 2180426 774 True 628.0 628 81.579 1599 2385 1 chrUn.!!$R1 786
9 TraesCS3A01G171000 chrUn 324048045 324048813 768 False 628.0 628 81.692 1599 2379 1 chrUn.!!$F5 780
10 TraesCS3A01G171000 chr7A 642893852 642894958 1106 True 628.0 628 77.321 766 1863 1 chr7A.!!$R2 1097
11 TraesCS3A01G171000 chr7A 19783219 19784131 912 False 281.5 420 77.669 891 1856 2 chr7A.!!$F1 965

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
119 120 0.034477 CCGCCCACTTTACCCTTGAT 60.034 55.0 0.00 0.0 0.0 2.57 F
1671 2937 0.882927 ACAGCGCGCTTACTTGGAAA 60.883 50.0 34.58 0.0 0.0 3.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1707 2973 0.456312 GAGTGTTCGTAGGCCACTCG 60.456 60.0 5.01 6.72 42.32 4.18 R
2704 4028 0.034186 ATGGATGCCACATGTCGGTT 60.034 50.0 13.59 4.65 35.80 4.44 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
24 25 2.516930 CGGCCGCATTTGATCCCT 60.517 61.111 14.67 0.00 0.00 4.20
38 39 1.214992 ATCCCTTTCCCCTCACCCAC 61.215 60.000 0.00 0.00 0.00 4.61
42 43 0.995024 CTTTCCCCTCACCCACATCT 59.005 55.000 0.00 0.00 0.00 2.90
48 49 1.489481 CCTCACCCACATCTCTAGCA 58.511 55.000 0.00 0.00 0.00 3.49
116 117 1.074248 CACCGCCCACTTTACCCTT 59.926 57.895 0.00 0.00 0.00 3.95
118 119 1.377229 CCGCCCACTTTACCCTTGA 59.623 57.895 0.00 0.00 0.00 3.02
119 120 0.034477 CCGCCCACTTTACCCTTGAT 60.034 55.000 0.00 0.00 0.00 2.57
123 124 2.508300 GCCCACTTTACCCTTGATCCTA 59.492 50.000 0.00 0.00 0.00 2.94
124 125 3.138468 GCCCACTTTACCCTTGATCCTAT 59.862 47.826 0.00 0.00 0.00 2.57
131 132 1.293498 CCTTGATCCTATCGGCCGG 59.707 63.158 27.83 9.38 0.00 6.13
159 160 2.035442 GTCCGCCTCAAGTCCTTGC 61.035 63.158 2.09 0.00 40.24 4.01
194 195 2.483889 GGTTTGCTTCTCCTCCTATCGG 60.484 54.545 0.00 0.00 0.00 4.18
208 209 3.396946 TCCTATCGGTAGCTTCCTTCCTA 59.603 47.826 7.87 0.00 0.00 2.94
213 214 4.766375 TCGGTAGCTTCCTTCCTAATTTG 58.234 43.478 7.87 0.00 0.00 2.32
221 222 7.586349 AGCTTCCTTCCTAATTTGATTATCCA 58.414 34.615 0.00 0.00 0.00 3.41
236 237 7.683437 TGATTATCCAATCTCGTAGTCGTAT 57.317 36.000 0.00 0.00 41.09 3.06
237 238 7.749808 TGATTATCCAATCTCGTAGTCGTATC 58.250 38.462 0.00 0.00 41.09 2.24
249 250 4.907010 CGTAGTCGTATCTCTCATTGCTTC 59.093 45.833 0.00 0.00 0.00 3.86
286 287 4.773149 TGTTTGGTAGGTTTGGTTGAGTTT 59.227 37.500 0.00 0.00 0.00 2.66
299 300 1.890876 TGAGTTTGTGTTCCCATCGG 58.109 50.000 0.00 0.00 0.00 4.18
355 356 6.545508 TGAATTGTGTCATTCGAATTGCTAG 58.454 36.000 8.21 0.00 0.00 3.42
361 362 4.635765 TGTCATTCGAATTGCTAGGAAAGG 59.364 41.667 8.21 0.00 0.00 3.11
368 369 5.710099 TCGAATTGCTAGGAAAGGTGAATTT 59.290 36.000 0.00 0.00 0.00 1.82
402 403 5.712917 TCTGGTTAGTTTGTTGTTTGGTTCT 59.287 36.000 0.00 0.00 0.00 3.01
406 407 7.171678 TGGTTAGTTTGTTGTTTGGTTCTTTTG 59.828 33.333 0.00 0.00 0.00 2.44
413 414 4.278975 TGTTTGGTTCTTTTGGCAAAGT 57.721 36.364 13.04 0.00 40.47 2.66
414 415 5.407407 TGTTTGGTTCTTTTGGCAAAGTA 57.593 34.783 13.04 2.55 40.47 2.24
415 416 5.415221 TGTTTGGTTCTTTTGGCAAAGTAG 58.585 37.500 13.04 8.93 40.47 2.57
416 417 5.046950 TGTTTGGTTCTTTTGGCAAAGTAGT 60.047 36.000 13.04 0.00 40.47 2.73
431 432 5.220172 GCAAAGTAGTTAGTTGCTACTACGC 60.220 44.000 7.56 4.55 45.78 4.42
456 457 8.492673 CAAGTAGTGCAGATAAGGTTGATAAA 57.507 34.615 0.00 0.00 0.00 1.40
482 483 6.873605 TGATTGAGTTACTTGGATATATGCCG 59.126 38.462 1.35 0.00 0.00 5.69
626 628 3.821600 TCTTCCCTAGATACGCTAGCTTG 59.178 47.826 13.93 0.00 44.35 4.01
644 646 3.435026 GCTTGGCAAGGGTCTTATATGGA 60.435 47.826 27.25 0.00 0.00 3.41
667 669 4.352658 AGGATTCCTTATTTGGCCCTTT 57.647 40.909 0.00 0.00 0.00 3.11
673 675 7.885922 GGATTCCTTATTTGGCCCTTTTAAAAA 59.114 33.333 0.00 0.00 0.00 1.94
702 704 2.024941 CCCTGTTTGGCCCTAGAGAAAT 60.025 50.000 0.00 0.00 0.00 2.17
744 746 6.832804 TCAATGATATTCTAGTAGTCGAGCG 58.167 40.000 0.00 0.00 0.00 5.03
745 747 4.665281 TGATATTCTAGTAGTCGAGCGC 57.335 45.455 0.00 0.00 0.00 5.92
776 778 9.807921 ATTCAGATTTCTTCCTTGTTTAACCTA 57.192 29.630 0.00 0.00 0.00 3.08
899 906 7.741652 GGCGAAAGTTGATTCATTTTCATTTTC 59.258 33.333 17.31 8.20 31.56 2.29
994 1007 8.489990 TGTCATTGTTTGTCAATTTTGAACAT 57.510 26.923 0.00 0.00 43.33 2.71
1010 1023 2.814805 ACATAGCAAATGGAGTGCCT 57.185 45.000 4.34 0.00 43.27 4.75
1052 1068 1.393603 TTGTGCGTTGGGAATGTTGA 58.606 45.000 0.00 0.00 0.00 3.18
1058 1074 2.930455 GCGTTGGGAATGTTGAATTGGG 60.930 50.000 0.00 0.00 0.00 4.12
1293 1314 2.747855 GCACCACTGCCTACCTGC 60.748 66.667 0.00 0.00 37.45 4.85
1360 1383 7.409343 CGAAAAAGAGCGAACATATTTTGGTTC 60.409 37.037 0.00 0.00 39.92 3.62
1637 2903 3.846588 ACCCAGGAGATAGTTGACAACAT 59.153 43.478 20.08 11.19 0.00 2.71
1669 2935 1.736645 GACAGCGCGCTTACTTGGA 60.737 57.895 34.58 0.00 0.00 3.53
1671 2937 0.882927 ACAGCGCGCTTACTTGGAAA 60.883 50.000 34.58 0.00 0.00 3.13
1699 2965 7.935210 AGAAGAATTACCTCGTTTCCTTTGTTA 59.065 33.333 0.00 0.00 0.00 2.41
1707 2973 6.373495 ACCTCGTTTCCTTTGTTAATGGTATC 59.627 38.462 0.00 0.00 0.00 2.24
1715 2981 3.188159 TGTTAATGGTATCGAGTGGCC 57.812 47.619 0.00 0.00 0.00 5.36
1741 3007 1.956477 ACACTCACAATGCTGGGAAAC 59.044 47.619 0.00 0.00 33.48 2.78
1916 3186 2.664402 AGCTCCCAAGATGTGTTGTT 57.336 45.000 0.00 0.00 0.00 2.83
1922 3192 3.074390 TCCCAAGATGTGTTGTTCCTGAT 59.926 43.478 0.00 0.00 0.00 2.90
1958 3228 6.933521 GCAATGGTGAGATGACACTTATCTAT 59.066 38.462 0.00 0.00 40.22 1.98
2173 3443 9.706691 CTAGTTAGAAGTTGTCAATGACCTTTA 57.293 33.333 11.24 1.92 0.00 1.85
2191 3461 6.923670 ACCTTTAGAGTCATAGTCCCTATCA 58.076 40.000 0.00 0.00 0.00 2.15
2313 3626 2.224079 GCATGCATGTAACGATGGGTAG 59.776 50.000 26.79 0.00 0.00 3.18
2320 3633 3.266636 TGTAACGATGGGTAGCAATGTG 58.733 45.455 0.00 0.00 0.00 3.21
2450 3763 0.540597 GGAGGCCTTTTCCAGCACTT 60.541 55.000 6.77 0.00 34.74 3.16
2453 3766 0.752658 GGCCTTTTCCAGCACTTTGT 59.247 50.000 0.00 0.00 0.00 2.83
2459 3772 0.250295 TTCCAGCACTTTGTCGGAGG 60.250 55.000 0.00 0.00 0.00 4.30
2479 3792 1.113517 GGGATTCGATCACGGAGGGA 61.114 60.000 0.00 0.00 40.21 4.20
2497 3810 2.027192 GGGACTCTACATGAACCTTGCA 60.027 50.000 0.00 0.00 0.00 4.08
2498 3811 3.003480 GGACTCTACATGAACCTTGCAC 58.997 50.000 0.00 0.00 0.00 4.57
2528 3841 1.921243 TGCACTTCCGTGATGATACG 58.079 50.000 0.00 0.00 43.97 3.06
2561 3874 4.150627 CAGTAGGTCACGTTTTCTGTCATG 59.849 45.833 0.00 0.00 0.00 3.07
2566 3879 1.980844 CACGTTTTCTGTCATGCATGC 59.019 47.619 22.25 11.82 0.00 4.06
2568 3881 2.229543 ACGTTTTCTGTCATGCATGCAT 59.770 40.909 27.46 27.46 37.08 3.96
2578 3891 2.745281 TCATGCATGCATATCCATGACG 59.255 45.455 31.73 16.46 44.12 4.35
2607 3931 5.859205 AGATAGTCATACATGTGCTGTCA 57.141 39.130 9.11 0.00 39.39 3.58
2652 3976 7.722949 ACCAAAATTATCATCATGGAAGTGT 57.277 32.000 0.00 0.00 0.00 3.55
2666 3990 3.914984 AGTGTCCACTTCCATGACG 57.085 52.632 0.00 0.00 38.83 4.35
2704 4028 2.367567 AGAAGTGCTTTCGTCAAGGGTA 59.632 45.455 0.00 0.00 40.86 3.69
2723 4047 0.034186 AACCGACATGTGGCATCCAT 60.034 50.000 1.15 0.00 35.28 3.41
2725 4049 1.501337 CCGACATGTGGCATCCATCG 61.501 60.000 1.15 0.00 35.28 3.84
2729 4053 3.141398 GACATGTGGCATCCATCGTAAT 58.859 45.455 1.15 0.00 35.28 1.89
2735 4059 1.148310 GCATCCATCGTAATGGGTCG 58.852 55.000 4.68 0.00 43.29 4.79
2749 4073 0.103572 GGGTCGCCGTTAAGCTATCA 59.896 55.000 0.00 0.00 0.00 2.15
2750 4074 1.472026 GGGTCGCCGTTAAGCTATCAA 60.472 52.381 0.00 0.00 0.00 2.57
2753 4077 2.928116 GTCGCCGTTAAGCTATCAAGTT 59.072 45.455 0.00 0.00 0.00 2.66
2754 4078 3.370061 GTCGCCGTTAAGCTATCAAGTTT 59.630 43.478 0.00 0.00 0.00 2.66
2755 4079 3.615496 TCGCCGTTAAGCTATCAAGTTTC 59.385 43.478 0.00 0.00 0.00 2.78
2757 4081 3.242316 GCCGTTAAGCTATCAAGTTTCGG 60.242 47.826 0.00 0.00 36.79 4.30
2786 4110 1.405797 CGATAACCCGTTAACAGCCCA 60.406 52.381 6.39 0.00 0.00 5.36
2794 4118 2.159382 CGTTAACAGCCCAGACCAATT 58.841 47.619 6.39 0.00 0.00 2.32
2795 4119 3.340034 CGTTAACAGCCCAGACCAATTA 58.660 45.455 6.39 0.00 0.00 1.40
2816 4140 9.418045 CAATTAGGATTTTCCACGTGTAAAATT 57.582 29.630 26.24 17.01 39.61 1.82
2817 4141 9.634163 AATTAGGATTTTCCACGTGTAAAATTC 57.366 29.630 26.24 24.70 39.61 2.17
2818 4142 5.695818 AGGATTTTCCACGTGTAAAATTCG 58.304 37.500 26.24 5.68 39.61 3.34
2819 4143 4.854839 GGATTTTCCACGTGTAAAATTCGG 59.145 41.667 26.24 5.00 35.87 4.30
2821 4145 5.496133 TTTTCCACGTGTAAAATTCGGAA 57.504 34.783 14.20 4.67 0.00 4.30
2826 4150 2.162809 ACGTGTAAAATTCGGAATGGCC 59.837 45.455 3.59 0.00 0.00 5.36
2827 4151 2.162608 CGTGTAAAATTCGGAATGGCCA 59.837 45.455 8.56 8.56 35.94 5.36
2834 4158 0.035439 TTCGGAATGGCCAGAGGAAC 60.035 55.000 13.05 0.00 35.94 3.62
2849 4173 2.279918 AACCACGTGTCGGCTCAC 60.280 61.111 15.65 0.68 35.28 3.51
2878 4202 4.322725 GGACAGATGTCATCCACTGTAACA 60.323 45.833 14.52 0.00 46.47 2.41
2882 4206 2.050918 TGTCATCCACTGTAACACCCA 58.949 47.619 0.00 0.00 0.00 4.51
2884 4208 2.050918 TCATCCACTGTAACACCCACA 58.949 47.619 0.00 0.00 0.00 4.17
2897 4221 1.806542 CACCCACAATGCGGCTATATC 59.193 52.381 0.00 0.00 0.00 1.63
2903 4227 2.289694 ACAATGCGGCTATATCTCCCAC 60.290 50.000 0.00 0.00 0.00 4.61
2909 4233 1.068472 GGCTATATCTCCCACGTGTCG 60.068 57.143 15.65 4.04 0.00 4.35
2911 4235 2.095668 GCTATATCTCCCACGTGTCGAG 60.096 54.545 15.65 17.66 0.00 4.04
2915 4239 2.994995 TCCCACGTGTCGAGGCAT 60.995 61.111 15.65 0.00 36.35 4.40
2927 4251 0.596083 CGAGGCATGACTTAGAGGCG 60.596 60.000 0.41 0.00 0.00 5.52
2933 4257 2.460918 CATGACTTAGAGGCGTAACCG 58.539 52.381 0.00 0.00 46.52 4.44
2968 4293 2.093658 TCGCAAGAGGGGTAATCTTCAC 60.094 50.000 0.00 0.00 45.01 3.18
2973 4298 5.256474 CAAGAGGGGTAATCTTCACACAAT 58.744 41.667 0.00 0.00 34.80 2.71
2976 4301 3.053619 AGGGGTAATCTTCACACAATCCC 60.054 47.826 0.00 0.00 0.00 3.85
2977 4302 3.308832 GGGGTAATCTTCACACAATCCCA 60.309 47.826 0.00 0.00 34.62 4.37
2978 4303 4.536765 GGGTAATCTTCACACAATCCCAT 58.463 43.478 0.00 0.00 33.33 4.00
2979 4304 4.339247 GGGTAATCTTCACACAATCCCATG 59.661 45.833 0.00 0.00 33.33 3.66
2980 4305 4.949856 GGTAATCTTCACACAATCCCATGT 59.050 41.667 0.00 0.00 0.00 3.21
2981 4306 6.119536 GGTAATCTTCACACAATCCCATGTA 58.880 40.000 0.00 0.00 30.84 2.29
2982 4307 6.038271 GGTAATCTTCACACAATCCCATGTAC 59.962 42.308 0.00 0.00 30.84 2.90
2983 4308 4.908601 TCTTCACACAATCCCATGTACT 57.091 40.909 0.00 0.00 30.84 2.73
2984 4309 4.578871 TCTTCACACAATCCCATGTACTG 58.421 43.478 0.00 0.00 30.84 2.74
2989 4314 6.716284 TCACACAATCCCATGTACTGAATAA 58.284 36.000 0.00 0.00 30.84 1.40
2990 4315 6.823182 TCACACAATCCCATGTACTGAATAAG 59.177 38.462 0.00 0.00 30.84 1.73
2991 4316 6.823182 CACACAATCCCATGTACTGAATAAGA 59.177 38.462 0.00 0.00 30.84 2.10
2998 4323 6.389869 TCCCATGTACTGAATAAGAAAGGGAT 59.610 38.462 0.00 0.00 35.62 3.85
3032 4363 3.724508 ACAATCGCCATTTCACACAAA 57.275 38.095 0.00 0.00 0.00 2.83
3035 4366 5.777802 ACAATCGCCATTTCACACAAATAA 58.222 33.333 0.00 0.00 0.00 1.40
3036 4367 5.633182 ACAATCGCCATTTCACACAAATAAC 59.367 36.000 0.00 0.00 0.00 1.89
3038 4369 5.188327 TCGCCATTTCACACAAATAACAA 57.812 34.783 0.00 0.00 0.00 2.83
3039 4370 5.218885 TCGCCATTTCACACAAATAACAAG 58.781 37.500 0.00 0.00 0.00 3.16
3040 4371 4.981674 CGCCATTTCACACAAATAACAAGT 59.018 37.500 0.00 0.00 0.00 3.16
3057 4388 8.780846 ATAACAAGTTAAACATACATCGTCCA 57.219 30.769 0.00 0.00 0.00 4.02
3061 4392 6.282199 AGTTAAACATACATCGTCCAGAGT 57.718 37.500 0.00 0.00 0.00 3.24
3062 4393 7.400599 AGTTAAACATACATCGTCCAGAGTA 57.599 36.000 0.00 0.00 0.00 2.59
3063 4394 7.256286 AGTTAAACATACATCGTCCAGAGTAC 58.744 38.462 0.00 0.00 0.00 2.73
3064 4395 5.654603 AAACATACATCGTCCAGAGTACA 57.345 39.130 0.00 0.00 0.00 2.90
3066 4397 5.854010 ACATACATCGTCCAGAGTACAAT 57.146 39.130 0.00 0.00 0.00 2.71
3067 4398 5.833082 ACATACATCGTCCAGAGTACAATC 58.167 41.667 0.00 0.00 0.00 2.67
3068 4399 5.359860 ACATACATCGTCCAGAGTACAATCA 59.640 40.000 0.00 0.00 0.00 2.57
3070 4401 4.748892 ACATCGTCCAGAGTACAATCAAG 58.251 43.478 0.00 0.00 0.00 3.02
3072 4403 3.162666 TCGTCCAGAGTACAATCAAGGT 58.837 45.455 0.00 0.00 0.00 3.50
3075 4406 3.260884 GTCCAGAGTACAATCAAGGTCCA 59.739 47.826 0.00 0.00 0.00 4.02
3102 4434 6.702716 ACGGAACCAAAATAAAAGAAGACA 57.297 33.333 0.00 0.00 0.00 3.41
3136 4470 0.105862 ATCCCCGATCGTCCCAACTA 60.106 55.000 15.09 0.00 0.00 2.24
3140 4474 1.672854 CCGATCGTCCCAACTAGGCA 61.673 60.000 15.09 0.00 35.39 4.75
3147 4481 1.207329 GTCCCAACTAGGCACCACTAG 59.793 57.143 0.00 0.00 44.71 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 2.034878 GAGGGGAAAGGGATCAAATGC 58.965 52.381 0.00 0.00 0.00 3.56
24 25 0.991920 GAGATGTGGGTGAGGGGAAA 59.008 55.000 0.00 0.00 0.00 3.13
38 39 2.659897 GCGGCGGTGCTAGAGATG 60.660 66.667 9.78 0.00 0.00 2.90
42 43 4.221422 GATGGCGGCGGTGCTAGA 62.221 66.667 9.78 0.00 34.52 2.43
61 62 2.672651 TGGTTGTGGCGATGGCAG 60.673 61.111 1.01 0.00 42.47 4.85
72 73 1.003355 CAGAGGCGATGGTGGTTGT 60.003 57.895 0.00 0.00 0.00 3.32
123 124 2.042843 AGAGAAGGACCGGCCGAT 60.043 61.111 30.73 10.80 43.43 4.18
124 125 3.068691 CAGAGAAGGACCGGCCGA 61.069 66.667 30.73 0.00 43.43 5.54
131 132 1.251527 TGAGGCGGACAGAGAAGGAC 61.252 60.000 0.00 0.00 0.00 3.85
169 170 0.962855 GGAGGAGAAGCAAACCTGGC 60.963 60.000 0.00 0.00 33.89 4.85
173 174 2.827652 CGATAGGAGGAGAAGCAAACC 58.172 52.381 0.00 0.00 0.00 3.27
194 195 9.004717 GGATAATCAAATTAGGAAGGAAGCTAC 57.995 37.037 0.00 0.00 0.00 3.58
208 209 7.926555 ACGACTACGAGATTGGATAATCAAATT 59.073 33.333 0.00 0.00 42.48 1.82
213 214 7.976826 AGATACGACTACGAGATTGGATAATC 58.023 38.462 0.00 0.00 41.53 1.75
221 222 6.566942 GCAATGAGAGATACGACTACGAGATT 60.567 42.308 0.00 0.00 42.66 2.40
299 300 6.398918 TCCAGAGCAAACATCTAGAAACTAC 58.601 40.000 0.00 0.00 0.00 2.73
341 342 4.635765 TCACCTTTCCTAGCAATTCGAATG 59.364 41.667 12.25 7.27 0.00 2.67
342 343 4.843728 TCACCTTTCCTAGCAATTCGAAT 58.156 39.130 4.39 4.39 0.00 3.34
355 356 7.332678 CAGATCCAATCAAAAATTCACCTTTCC 59.667 37.037 0.00 0.00 0.00 3.13
361 362 8.306761 ACTAACCAGATCCAATCAAAAATTCAC 58.693 33.333 0.00 0.00 0.00 3.18
368 369 7.069331 ACAACAAACTAACCAGATCCAATCAAA 59.931 33.333 0.00 0.00 0.00 2.69
402 403 5.845391 AGCAACTAACTACTTTGCCAAAA 57.155 34.783 2.03 0.00 45.58 2.44
406 407 5.287992 CGTAGTAGCAACTAACTACTTTGCC 59.712 44.000 8.59 0.00 46.36 4.52
431 432 8.492673 TTTATCAACCTTATCTGCACTACTTG 57.507 34.615 0.00 0.00 0.00 3.16
456 457 7.550551 CGGCATATATCCAAGTAACTCAATCAT 59.449 37.037 0.00 0.00 0.00 2.45
468 469 2.183478 TGTGGCGGCATATATCCAAG 57.817 50.000 17.19 0.00 0.00 3.61
482 483 8.947055 AATGGTAAATCTCATAAAATTGTGGC 57.053 30.769 0.00 0.00 0.00 5.01
514 516 3.181497 CCACTGATTTCTATTGGGCAACG 60.181 47.826 0.00 0.00 37.60 4.10
551 553 8.929260 AGCAATGTAGAATGATTCCATATTCA 57.071 30.769 0.75 0.00 36.11 2.57
626 628 4.783227 TCCTATCCATATAAGACCCTTGCC 59.217 45.833 0.00 0.00 0.00 4.52
644 646 5.686535 AAGGGCCAAATAAGGAATCCTAT 57.313 39.130 6.18 0.00 31.13 2.57
667 669 6.169800 GCCAAACAGGGAAGCATATTTTTAA 58.830 36.000 0.00 0.00 38.09 1.52
673 675 1.689258 GGGCCAAACAGGGAAGCATAT 60.689 52.381 4.39 0.00 38.09 1.78
702 704 6.009589 TCATTGAGCAAAATAGGGAAGACAA 58.990 36.000 0.00 0.00 0.00 3.18
744 746 5.649831 ACAAGGAAGAAATCTGAATACCTGC 59.350 40.000 0.00 0.00 0.00 4.85
745 747 7.693969 AACAAGGAAGAAATCTGAATACCTG 57.306 36.000 0.00 0.00 0.00 4.00
899 906 3.963665 TGTTGAGTGCCGAAAAATTGAG 58.036 40.909 0.00 0.00 0.00 3.02
1010 1023 4.715534 TCCCTAGTGTGGAAACAATTGA 57.284 40.909 13.59 0.00 46.06 2.57
1052 1068 0.966179 GAAGCAACCGTTCCCCAATT 59.034 50.000 0.00 0.00 0.00 2.32
1058 1074 2.479275 GTCAAGTAGAAGCAACCGTTCC 59.521 50.000 0.00 0.00 0.00 3.62
1293 1314 1.301677 GAGAAGCCCTCTTTGGTGCG 61.302 60.000 0.00 0.00 38.86 5.34
1443 2704 3.963374 TCTACCAAGATGTCAGGATCAGG 59.037 47.826 0.00 0.00 0.00 3.86
1583 2849 4.268884 GCGCTAGGAAGTAATCTGTCAAAG 59.731 45.833 0.00 0.00 0.00 2.77
1586 2852 2.100916 GGCGCTAGGAAGTAATCTGTCA 59.899 50.000 7.64 0.00 0.00 3.58
1592 2858 4.076394 TGTTTTTGGCGCTAGGAAGTAAT 58.924 39.130 7.64 0.00 0.00 1.89
1637 2903 3.444916 GCGCTGTCAGCAGTATAGTAAA 58.555 45.455 24.13 0.00 42.58 2.01
1669 2935 6.770542 AGGAAACGAGGTAATTCTTCTCTTT 58.229 36.000 0.00 0.00 0.00 2.52
1671 2937 6.361768 AAGGAAACGAGGTAATTCTTCTCT 57.638 37.500 0.00 0.00 0.00 3.10
1699 2965 1.340248 CGTAGGCCACTCGATACCATT 59.660 52.381 5.01 0.00 0.00 3.16
1707 2973 0.456312 GAGTGTTCGTAGGCCACTCG 60.456 60.000 5.01 6.72 42.32 4.18
1715 2981 2.413112 CCAGCATTGTGAGTGTTCGTAG 59.587 50.000 0.00 0.00 0.00 3.51
1741 3007 3.499537 AGTGGCACGTATGATGCATAATG 59.500 43.478 12.71 0.65 45.27 1.90
1916 3186 5.015497 ACCATTGCCATCCATAATATCAGGA 59.985 40.000 0.00 0.00 35.59 3.86
1922 3192 5.581350 TCTCACCATTGCCATCCATAATA 57.419 39.130 0.00 0.00 0.00 0.98
1958 3228 6.320926 TGTCTTTGAAATTGGTCTTGTCATCA 59.679 34.615 0.00 0.00 0.00 3.07
2105 3375 5.536538 GGATGTCAAGAATAGGAAAATCCCC 59.463 44.000 0.00 0.00 37.19 4.81
2408 3721 5.393027 CCAGATGGGATTAACTTTTTCACGG 60.393 44.000 0.00 0.00 40.01 4.94
2450 3763 0.689745 ATCGAATCCCCCTCCGACAA 60.690 55.000 0.00 0.00 33.69 3.18
2453 3766 1.113517 GTGATCGAATCCCCCTCCGA 61.114 60.000 0.00 0.00 35.43 4.55
2459 3772 1.367840 CCTCCGTGATCGAATCCCC 59.632 63.158 0.00 0.00 39.71 4.81
2479 3792 4.283467 TGTAGTGCAAGGTTCATGTAGAGT 59.717 41.667 0.00 0.00 0.00 3.24
2561 3874 3.902261 TTTCGTCATGGATATGCATGC 57.098 42.857 27.24 21.13 34.21 4.06
2566 3879 8.768957 ACTATCTTGATTTCGTCATGGATATG 57.231 34.615 0.00 0.00 36.54 1.78
2568 3881 7.951591 TGACTATCTTGATTTCGTCATGGATA 58.048 34.615 0.00 0.00 36.54 2.59
2578 3891 8.281194 CAGCACATGTATGACTATCTTGATTTC 58.719 37.037 0.00 0.00 0.00 2.17
2652 3976 4.368315 CGATTTATCGTCATGGAAGTGGA 58.632 43.478 4.03 0.00 44.74 4.02
2666 3990 5.610552 GCACTTCTATGACGCACGATTTATC 60.611 44.000 0.00 0.00 0.00 1.75
2674 3998 2.222596 CGAAAGCACTTCTATGACGCAC 60.223 50.000 0.00 0.00 31.20 5.34
2675 3999 1.992667 CGAAAGCACTTCTATGACGCA 59.007 47.619 0.00 0.00 31.20 5.24
2682 4006 2.367567 ACCCTTGACGAAAGCACTTCTA 59.632 45.455 0.00 0.00 34.24 2.10
2704 4028 0.034186 ATGGATGCCACATGTCGGTT 60.034 50.000 13.59 4.65 35.80 4.44
2723 4047 0.529833 TTAACGGCGACCCATTACGA 59.470 50.000 16.62 0.00 0.00 3.43
2725 4049 0.654160 GCTTAACGGCGACCCATTAC 59.346 55.000 16.62 0.00 0.00 1.89
2729 4053 0.103572 GATAGCTTAACGGCGACCCA 59.896 55.000 16.62 0.00 37.29 4.51
2732 4056 2.537401 ACTTGATAGCTTAACGGCGAC 58.463 47.619 16.62 0.00 37.29 5.19
2733 4057 2.953466 ACTTGATAGCTTAACGGCGA 57.047 45.000 16.62 0.00 37.29 5.54
2735 4059 3.242316 CCGAAACTTGATAGCTTAACGGC 60.242 47.826 0.00 0.00 0.00 5.68
2755 4079 2.137521 CGGGTTATCGGATCCAAACCG 61.138 57.143 21.41 21.41 45.14 4.44
2757 4081 2.320745 ACGGGTTATCGGATCCAAAC 57.679 50.000 13.41 12.21 0.00 2.93
2786 4110 4.700213 CACGTGGAAAATCCTAATTGGTCT 59.300 41.667 7.95 0.00 37.46 3.85
2794 4118 6.128227 CCGAATTTTACACGTGGAAAATCCTA 60.128 38.462 38.49 21.17 37.46 2.94
2795 4119 5.335348 CCGAATTTTACACGTGGAAAATCCT 60.335 40.000 38.49 28.88 37.46 3.24
2816 4140 1.602237 GTTCCTCTGGCCATTCCGA 59.398 57.895 5.51 0.00 37.80 4.55
2817 4141 1.452108 GGTTCCTCTGGCCATTCCG 60.452 63.158 5.51 0.00 37.80 4.30
2818 4142 0.681243 GTGGTTCCTCTGGCCATTCC 60.681 60.000 5.51 3.47 34.52 3.01
2819 4143 1.026718 CGTGGTTCCTCTGGCCATTC 61.027 60.000 5.51 0.00 34.52 2.67
2821 4145 2.224159 ACGTGGTTCCTCTGGCCAT 61.224 57.895 5.51 0.00 34.52 4.40
2826 4150 1.372997 CCGACACGTGGTTCCTCTG 60.373 63.158 21.57 0.14 0.00 3.35
2827 4151 3.048602 CCGACACGTGGTTCCTCT 58.951 61.111 21.57 0.00 0.00 3.69
2849 4173 1.656652 GATGACATCTGTCCCAACGG 58.343 55.000 8.25 0.00 44.15 4.44
2851 4175 2.026822 AGTGGATGACATCTGTCCCAAC 60.027 50.000 14.95 4.11 44.15 3.77
2878 4202 1.699634 AGATATAGCCGCATTGTGGGT 59.300 47.619 23.14 23.14 46.10 4.51
2882 4206 1.977854 TGGGAGATATAGCCGCATTGT 59.022 47.619 0.00 0.00 0.00 2.71
2884 4208 1.066858 CGTGGGAGATATAGCCGCATT 60.067 52.381 0.00 0.00 0.00 3.56
2897 4221 3.006756 ATGCCTCGACACGTGGGAG 62.007 63.158 24.04 24.04 43.10 4.30
2903 4227 1.132453 TCTAAGTCATGCCTCGACACG 59.868 52.381 0.00 0.00 35.77 4.49
2909 4233 0.461961 ACGCCTCTAAGTCATGCCTC 59.538 55.000 0.00 0.00 0.00 4.70
2911 4235 2.202566 GTTACGCCTCTAAGTCATGCC 58.797 52.381 0.00 0.00 0.00 4.40
2927 4251 1.338655 ACAAAACCACCATGCGGTTAC 59.661 47.619 15.78 0.00 46.31 2.50
2933 4257 0.249238 TTGCGACAAAACCACCATGC 60.249 50.000 0.00 0.00 0.00 4.06
2937 4261 0.310854 CCTCTTGCGACAAAACCACC 59.689 55.000 0.00 0.00 0.00 4.61
2939 4263 0.821711 CCCCTCTTGCGACAAAACCA 60.822 55.000 0.00 0.00 0.00 3.67
2940 4264 0.822121 ACCCCTCTTGCGACAAAACC 60.822 55.000 0.00 0.00 0.00 3.27
2941 4265 1.886886 TACCCCTCTTGCGACAAAAC 58.113 50.000 0.00 0.00 0.00 2.43
2942 4266 2.642154 TTACCCCTCTTGCGACAAAA 57.358 45.000 0.00 0.00 0.00 2.44
2943 4267 2.304761 AGATTACCCCTCTTGCGACAAA 59.695 45.455 0.00 0.00 0.00 2.83
2944 4268 1.906574 AGATTACCCCTCTTGCGACAA 59.093 47.619 0.00 0.00 0.00 3.18
2954 4279 3.053619 GGGATTGTGTGAAGATTACCCCT 60.054 47.826 0.00 0.00 0.00 4.79
2956 4281 3.963129 TGGGATTGTGTGAAGATTACCC 58.037 45.455 0.00 0.00 35.82 3.69
2964 4289 4.632327 TCAGTACATGGGATTGTGTGAA 57.368 40.909 0.00 0.00 0.00 3.18
2968 4293 7.864108 TTCTTATTCAGTACATGGGATTGTG 57.136 36.000 0.00 0.00 0.00 3.33
2973 4298 5.729229 TCCCTTTCTTATTCAGTACATGGGA 59.271 40.000 0.00 0.00 36.62 4.37
2981 4306 9.454859 CAACTCTTTATCCCTTTCTTATTCAGT 57.545 33.333 0.00 0.00 0.00 3.41
2982 4307 8.897752 CCAACTCTTTATCCCTTTCTTATTCAG 58.102 37.037 0.00 0.00 0.00 3.02
2983 4308 7.339466 GCCAACTCTTTATCCCTTTCTTATTCA 59.661 37.037 0.00 0.00 0.00 2.57
2984 4309 7.558081 AGCCAACTCTTTATCCCTTTCTTATTC 59.442 37.037 0.00 0.00 0.00 1.75
2989 4314 4.936685 AGCCAACTCTTTATCCCTTTCT 57.063 40.909 0.00 0.00 0.00 2.52
2990 4315 5.944007 TGTAAGCCAACTCTTTATCCCTTTC 59.056 40.000 0.00 0.00 0.00 2.62
2991 4316 5.887754 TGTAAGCCAACTCTTTATCCCTTT 58.112 37.500 0.00 0.00 0.00 3.11
2998 4323 4.939509 GCGATTGTAAGCCAACTCTTTA 57.060 40.909 0.00 0.00 35.44 1.85
3032 4363 8.780846 TGGACGATGTATGTTTAACTTGTTAT 57.219 30.769 0.00 0.00 0.00 1.89
3035 4366 6.460781 TCTGGACGATGTATGTTTAACTTGT 58.539 36.000 0.00 0.00 0.00 3.16
3036 4367 6.590292 ACTCTGGACGATGTATGTTTAACTTG 59.410 38.462 0.00 0.00 0.00 3.16
3038 4369 6.282199 ACTCTGGACGATGTATGTTTAACT 57.718 37.500 0.00 0.00 0.00 2.24
3039 4370 7.031372 TGTACTCTGGACGATGTATGTTTAAC 58.969 38.462 0.00 0.00 0.00 2.01
3040 4371 7.160547 TGTACTCTGGACGATGTATGTTTAA 57.839 36.000 0.00 0.00 0.00 1.52
3045 4376 5.831997 TGATTGTACTCTGGACGATGTATG 58.168 41.667 0.00 0.00 0.00 2.39
3046 4377 6.461648 CCTTGATTGTACTCTGGACGATGTAT 60.462 42.308 0.00 0.00 0.00 2.29
3047 4378 5.163550 CCTTGATTGTACTCTGGACGATGTA 60.164 44.000 0.00 0.00 0.00 2.29
3048 4379 4.382040 CCTTGATTGTACTCTGGACGATGT 60.382 45.833 0.00 0.00 0.00 3.06
3049 4380 4.115516 CCTTGATTGTACTCTGGACGATG 58.884 47.826 0.00 0.00 0.00 3.84
3051 4382 3.162666 ACCTTGATTGTACTCTGGACGA 58.837 45.455 0.00 0.00 0.00 4.20
3052 4383 3.512680 GACCTTGATTGTACTCTGGACG 58.487 50.000 0.00 0.00 0.00 4.79
3053 4384 3.260884 TGGACCTTGATTGTACTCTGGAC 59.739 47.826 0.00 0.00 0.00 4.02
3054 4385 3.516586 TGGACCTTGATTGTACTCTGGA 58.483 45.455 0.00 0.00 0.00 3.86
3055 4386 3.981071 TGGACCTTGATTGTACTCTGG 57.019 47.619 0.00 0.00 0.00 3.86
3056 4387 4.899502 AGTTGGACCTTGATTGTACTCTG 58.100 43.478 0.00 0.00 0.00 3.35
3057 4388 5.336531 CGTAGTTGGACCTTGATTGTACTCT 60.337 44.000 0.00 0.00 0.00 3.24
3061 4392 3.833650 TCCGTAGTTGGACCTTGATTGTA 59.166 43.478 0.00 0.00 31.53 2.41
3062 4393 2.635915 TCCGTAGTTGGACCTTGATTGT 59.364 45.455 0.00 0.00 31.53 2.71
3063 4394 3.328382 TCCGTAGTTGGACCTTGATTG 57.672 47.619 0.00 0.00 31.53 2.67
3064 4395 3.558533 GGTTCCGTAGTTGGACCTTGATT 60.559 47.826 0.00 0.00 37.89 2.57
3066 4397 1.345415 GGTTCCGTAGTTGGACCTTGA 59.655 52.381 0.00 0.00 37.89 3.02
3067 4398 1.071071 TGGTTCCGTAGTTGGACCTTG 59.929 52.381 0.00 0.00 37.89 3.61
3068 4399 1.426751 TGGTTCCGTAGTTGGACCTT 58.573 50.000 0.00 0.00 37.89 3.50
3070 4401 2.259266 TTTGGTTCCGTAGTTGGACC 57.741 50.000 0.00 0.00 37.89 4.46
3072 4403 6.771749 TCTTTTATTTTGGTTCCGTAGTTGGA 59.228 34.615 0.00 0.00 35.83 3.53
3075 4406 8.347771 GTCTTCTTTTATTTTGGTTCCGTAGTT 58.652 33.333 0.00 0.00 0.00 2.24
3102 4434 1.217942 GGGGATCTAGCATTTGGGGTT 59.782 52.381 0.00 0.00 0.00 4.11


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

AutoCloner maintained by Alex Coulton.